Tandem Repeats Finder Program written by:
Gary Benson
Department of Biomathematical Sciences
Mount Sinai School of Medicine
Version 3.01
Sequence: Yeast Chromosome 1 - chri_230209
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, MAXDISTANCE
Length: 230209
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Found at i:10 original size:5 final size:5
Alignment explanation
Indices: 1--61 Score: 58
Period size: 5 Copynumber: 12.2 Consensus size: 5
1 CCACA CCACA CC-CA -CACA CC-CA -CACA CCACA CCACACA CCACA CCACA
1 CCACA CCACA CCACA CCACA CCACA CCACA CCACA -C-CACA CCACA CCACA
49 CCCACA CACACA C
1 -CCACA C-CACA C
62 ATCCTAACAC
Statistics
Matches: 48, Mismatches: 0, Indels: 15
0.76 0.00 0.24
Matches are distributed among these distances:
3 2 0.04
4 8 0.17
5 22 0.46
6 12 0.25
7 4 0.08
ACGTcount: A:0.39, C:0.61, G:0.00, T:0.00
Consensus pattern (5 bp):
CCACA
Found at i:19 original size:2 final size:2
Alignment explanation
Indices: 2--62 Score: 60
Period size: 2 Copynumber: 33.0 Consensus size: 2
1 C
* *
2 CA CA C- CA CA CC CA CA CA CC CA CA CA C- CA CA C- CA CA CA C-
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
40 CA CA C- CA CA CC CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA
63 TCCTAACACT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
1 5 0.10
2 43 0.90
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11914 original size:27 final size:27
Alignment explanation
Indices: 11876--11935 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
11866 TACTGTTTTC
11876 GTCTCAGCAGCTCCAGTACTGGTAGTT
1 GTCTCAGCAGCTCCAGTACTGGTAGTT
* *
11903 GTCTCAGCAGCTCCAGTATTGGTTGTT
1 GTCTCAGCAGCTCCAGTACTGGTAGTT
11930 GTCTCA
1 GTCTCA
11936 CTGGTAGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (27 bp):
GTCTCAGCAGCTCCAGTACTGGTAGTT
Found at i:12545 original size:48 final size:48
Alignment explanation
Indices: 12474--12839 Score: 561
Period size: 48 Copynumber: 7.6 Consensus size: 48
12464 TCGCTCGTTT
* * * * * *
12474 TTGTAGTGGTAGCAGGTGGTAATGAAGAAGCAGTTTCCTGGCTTGTTG
1 TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
* *
12522 TTGTACTGATAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGCTG
1 TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
* * *
12570 TCGCACTGGTAACAGGTGGTAATGAAGAAGTAATTTCCTGACTTGTTG
1 TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
12618 TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
1 TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
*
12666 TTGTACTGGTAACAGGTGGTAATGAAGAAGTAATTTCCTGACTTGTTG
1 TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
*
12714 TTGCACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
1 TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
* * *
12762 TTGTACTGGTAACAGGTGGTAATGATGAAGCAGTTTCCTGGCTTGTTG
1 TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
* * *
12810 TTGCAGTGGTAATAGGTGGTAATGATGAAG
1 TTGTACTGGTAACAGGTGGTAATGATGAAG
12840 ACGAATATGT
Statistics
Matches: 292, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 292 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.34
Consensus pattern (48 bp):
TTGTACTGGTAACAGGTGGTAATGATGAAGTAATTTCCTGACTTGTTG
Found at i:13065 original size:45 final size:45
Alignment explanation
Indices: 13000--13113 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 45
12990 AGGTTGTTGT
* * * *
13000 AGAAGAAATGACAGGGGAAGAAATGAATGAAGAAGAAATGACTGG
1 AGAAGAAGTGACTGAGGAAGAAATGAATGAAGAAGAAATGACTAG
* * *
13045 AGAAGAAGTGACT-AGAGAAGAAGTGACTGAGGAAGAAATGACTAG
1 AGAAGAAGTGACTGAG-GAAGAAATGAATGAAGAAGAAATGACTAG
*
13090 AGAAGAAGTGTCTGAGGAAGAAAT
1 AGAAGAAGTGACTGAGGAAGAAAT
13114 TACTGAGGAG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
44 1 0.02
45 55 0.95
46 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.33, T:0.13
Consensus pattern (45 bp):
AGAAGAAGTGACTGAGGAAGAAATGAATGAAGAAGAAATGACTAG
Found at i:13119 original size:15 final size:15
Alignment explanation
Indices: 13001--13128 Score: 118
Period size: 15 Copynumber: 8.5 Consensus size: 15
12991 GGTTGTTGTA
* *
13001 GAAGAAATGACAGGG
1 GAAGAAATGACTGAG
* *
13016 GAAGAAATGAATGAA
1 GAAGAAATGACTGAG
13031 GAAGAAATGACTG-G
1 GAAGAAATGACTGAG
*
13045 AGAAGAAGTGACT-AG
1 -GAAGAAATGACTGAG
*
13060 AGAAGAAGTGACTGAG
1 -GAAGAAATGACTGAG
13076 GAAGAAATGACT-AG
1 GAAGAAATGACTGAG
* *
13090 AGAAGAAGTGTCTGAG
1 -GAAGAAATGACTGAG
*
13106 GAAGAAATTACTGAG
1 GAAGAAATGACTGAG
*
13121 GAGGAAAT
1 GAAGAAAT
13129 CACAGAAGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
14 2 0.02
15 88 0.94
16 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.34, T:0.14
Consensus pattern (15 bp):
GAAGAAATGACTGAG
Found at i:14809 original size:13 final size:13
Alignment explanation
Indices: 14791--14821 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14781 AAAAGGAAGG
14791 AAAAATAGATGTC
1 AAAAATAGATGTC
*
14804 AAAAATCGATGTC
1 AAAAATAGATGTC
14817 AAAAA
1 AAAAA
14822 ATCTCGTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.10, G:0.13, T:0.19
Consensus pattern (13 bp):
AAAAATAGATGTC
Found at i:24346 original size:27 final size:27
Alignment explanation
Indices: 24308--24367 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
24298 TACTGTTTTC
24308 GTCTCAGCAGCTCCAGTACTGGTAGTT
1 GTCTCAGCAGCTCCAGTACTGGTAGTT
* *
24335 GTCTCAGCAGCTCCAGTATTGGTTGTT
1 GTCTCAGCAGCTCCAGTACTGGTAGTT
24362 GTCTCA
1 GTCTCA
24368 CTGGTAGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (27 bp):
GTCTCAGCAGCTCCAGTACTGGTAGTT
Found at i:24714 original size:21 final size:21
Alignment explanation
Indices: 24690--24780 Score: 103
Period size: 21 Copynumber: 4.3 Consensus size: 21
24680 ATTGTAACTA
* *
24690 CTGTGGTTTGTTTTGTTGTTT
1 CTGTGGTTTGCTTTGTTGTCT
* *
24711 CTGTGGTTTGCTCTGTTGTCCC
1 CTGTGGTTTGCTTTGTTGT-CT
24733 CT-TGGTTTGCTTTGTTGTCT
1 CTGTGGTTTGCTTTGTTGTCT
* * *
24753 CCGTAGTTTGCTTTGTTATCT
1 CTGTGGTTTGCTTTGTTGTCT
24774 CTGTGGT
1 CTGTGGT
24781 AGAAATAGGG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.04
21 53 0.93
22 2 0.04
ACGTcount: A:0.02, C:0.16, G:0.26, T:0.55
Consensus pattern (21 bp):
CTGTGGTTTGCTTTGTTGTCT
Found at i:25230 original size:45 final size:45
Alignment explanation
Indices: 25165--25278 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 45
25155 AGGTTGTTGT
* * * *
25165 AGAAGAAATGACAGGGGAAGAAATGAATGAAGAAGAAATGACTGG
1 AGAAGAAGTGACTGAGGAAGAAATGAATGAAGAAGAAATGACTAG
* * *
25210 AGAAGAAGTGACT-AGAGAAGAAGTGACTGAGGAAGAAATGACTAG
1 AGAAGAAGTGACTGAG-GAAGAAATGAATGAAGAAGAAATGACTAG
*
25255 AGAAGAAGTGTCTGAGGAAGAAAT
1 AGAAGAAGTGACTGAGGAAGAAAT
25279 TACTGAGGAG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
44 1 0.02
45 55 0.95
46 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.33, T:0.13
Consensus pattern (45 bp):
AGAAGAAGTGACTGAGGAAGAAATGAATGAAGAAGAAATGACTAG
Found at i:25284 original size:15 final size:15
Alignment explanation
Indices: 25166--25293 Score: 118
Period size: 15 Copynumber: 8.5 Consensus size: 15
25156 GGTTGTTGTA
* *
25166 GAAGAAATGACAGGG
1 GAAGAAATGACTGAG
* *
25181 GAAGAAATGAATGAA
1 GAAGAAATGACTGAG
25196 GAAGAAATGACTG-G
1 GAAGAAATGACTGAG
*
25210 AGAAGAAGTGACT-AG
1 -GAAGAAATGACTGAG
*
25225 AGAAGAAGTGACTGAG
1 -GAAGAAATGACTGAG
25241 GAAGAAATGACT-AG
1 GAAGAAATGACTGAG
* *
25255 AGAAGAAGTGTCTGAG
1 -GAAGAAATGACTGAG
*
25271 GAAGAAATTACTGAG
1 GAAGAAATGACTGAG
*
25286 GAGGAAAT
1 GAAGAAAT
25294 CACAGAAGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
14 2 0.02
15 88 0.94
16 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.34, T:0.14
Consensus pattern (15 bp):
GAAGAAATGACTGAG
Found at i:25667 original size:135 final size:135
Alignment explanation
Indices: 25401--26304 Score: 503
Period size: 135 Copynumber: 6.7 Consensus size: 135
25391 GAGATGGCAG
* * * * * * * *
25401 TAGTTGGAGTTTTGACAATAATGACAGTTTCATCAGTTGGTTGACCGTTGGTTCCAGTGATGGTG
1 TAGTTGGAGTTCTGATAACAATGACGGTTTCGTCAGTTGGTTGACCGTTGGTACCGGTGACGGTG
* * * * *
25466 GTCATCTCAGTAGATGTAGAGGTGAAAGTACCGGTCCATGGCTCGGTTGTAGTTGTAACCAAACC
66 GTCATCTCAGTGGATGTAGAGGTGAAAGTACCAGTCCATGGCTCAGTGGTAGGTGTAACCAAACC
25531 TTCAC
131 TTCAC
* * *
25536 TGGTTGGAGTTCTGATAACAATCACGGTTTCGTCAGTTGGTTGACCGTTAGTACCGGTGACGGTG
1 TAGTTGGAGTTCTGATAACAATGACGGTTTCGTCAGTTGGTTGACCGTTGGTACCGGTGACGGTG
* * ** *
25601 GTCATCTCAGTGGATGTAGAGGTGAAAGTACCAGTCCATGGTTCAGTGGT-GGTGCTGATTAGAC
66 GTCATCTCAGTGGATGTAGAGGTGAAAGTACCAGTCCATGGCTCAGTGGTAGGTG-TAACCAAAC
25665 CTTCAC
130 CTTCAC
* **
25671 TAGTTGGAGTTCTGATGACAATGACGGTTTCGTCAGTTGGAACG-CCGTTGGTACCGGTGACGGT
1 TAGTTGGAGTTCTGATAACAATGACGGTTTCGTCAGTTGG-TTGACCGTTGGTACCGGTGACGGT
* * ** * * * **
25735 GGTCATTTCAGTGGATGTAGAGGTAAAAGTGTC-GTTCCATGGCTGAGTTGTA-GT-CATGGCAG
65 GGTCATCTCAGTGGATGTAGAGGTGAAAGTACCAG-TCCATGGCTCAGTGGTAGGTGTA-ACCA-
* * * **
25797 TA-GTGGCTG
127 AACCT-TCAC
* * * * * * ***
25806 TTGTTGGTGTTCTGATGACAATGATGGTCTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTG
1 TAGTTGGAGTTCTGATAACAATGACGGTTTCGTCAGTTGGTTGACCGTTGGTACCGGTGACGGTG
* * * ** * * * ** *
25871 GTGATTTCAGTGGATGTAGAGGTAAAAGTGTC-GTTCCATGGCTGAGTTGTA-GT-CATGGCAGT
66 GTCATCTCAGTGGATGTAGAGGTGAAAGTACCAG-TCCATGGCTCAGTGGTAGGTGTA-ACCA-A
* * **
25933 A-GTGGCTG
128 ACCT-TCAC
* * * * * ***
25941 TTGTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTG
1 TAGTTGGAGTTCTGATAACAATGACGGTTTCGTCAGTTGGTTGACCGTTGGTACCGGTGACGGTG
* * ** * * ** *
26006 GTCATTTCAGTGGATGTAGAGGTAAAAGTGTC-GTTCCATGGCTGAGTTGTA-GT-TATGGCAGT
66 GTCATCTCAGTGGATGTAGAGGTGAAAGTACCAG-TCCATGGCTCAGTGGTAGGTGTA-ACCA-A
* * **
26068 A-GTGGCTG
128 ACCT-TCAC
* * * * * ***
26076 TTGTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTG
1 TAGTTGGAGTTCTGATAACAATGACGGTTTCGTCAGTTGGTTGACCGTTGGTACCGGTGACGGTG
* * * * * ** *
26141 GTCATTTCAGTGGATGTAGAGGTAAAAGT-GCTGTTCCATGGCTCAGTTGTA-GT-TATGGCAGT
66 GTCATCTCAGTGGATGTAGAGGTGAAAGTACCAG-TCCATGGCTCAGTGGTAGGTGTA-ACCA-A
* * **
26203 A-GTGGCTG
128 ACCT-TCAC
* * * * * ***
26211 TTGTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTG
1 TAGTTGGAGTTCTGATAACAATGACGGTTTCGTCAGTTGGTTGACCGTTGGTACCGGTGACGGTG
* *
26276 GTCATTTCAGTGGATGTAGAGGTAAAAGT
66 GTCATCTCAGTGGATGTAGAGGTGAAAGT
26305 GTCGTTCCAT
Statistics
Matches: 702, Mismatches: 58, Indels: 18
0.90 0.07 0.02
Matches are distributed among these distances:
134 7 0.01
135 694 0.99
136 1 0.00
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.32
Consensus pattern (135 bp):
TAGTTGGAGTTCTGATAACAATGACGGTTTCGTCAGTTGGTTGACCGTTGGTACCGGTGACGGTG
GTCATCTCAGTGGATGTAGAGGTGAAAGTACCAGTCCATGGCTCAGTGGTAGGTGTAACCAAACC
TTCAC
Found at i:26334 original size:135 final size:135
Alignment explanation
Indices: 25673--27105 Score: 2230
Period size: 135 Copynumber: 10.6 Consensus size: 135
25663 ACCTTCACTA
* * * *
25673 GTTGGAGTTCTGATGACAATGACGGTTTCGTCAGTTGG-AACGCCGTTGGTACCGGTGACGGTGG
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAA-ACCGTTGGTACCGGTGACGGTGG
25737 TCATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTG
65 TCATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTG
25802 GCTGTT
130 GCTGTT
*
25808 GTTGGTGTTCTGATGACAATGATGGTCTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
*
25873 GATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
25938 CTGTT
131 CTGTT
25943 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
*
26008 CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTTATGGCAGTAGTGG
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
26073 CTGTT
131 CTGTT
26078 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
* *
26143 CATTTCAGTGGATGTAGAGGTAAAAGTG-CTGTTCCATGGCTCAGTTGTAGTTATGGCAGTAGTG
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTC-GTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTG
26207 GCTGTT
130 GCTGTT
26213 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
26278 CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
26343 CTGTT
131 CTGTT
* *
26348 GTTGGTGTTCTGATGACAATGATGGTCTCATCAGTTGGCAAACCATTGGTACCGGTGACGGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
*
26413 GATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
26478 CTGTT
131 CTGTT
* * *
26483 GTTGGTGTTCTGATGACAATGATGGTCTCATCAGTTGGCAAACCATTGGTACCGGTGACTGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
* * * *
26548 CAATTCGGTAGAAGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
26613 CTGTT
131 CTGTT
* * *
26618 GTTGGTGTTCTGATGACAATGATGGTCTCATCAGTTGGCAAACCATTGGTACCGGTGACTGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
* * * *
26683 CAATTCGGTAGAAGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
26748 CTGTT
131 CTGTT
* * *
26753 GTTGGTGTTCTGATGACAATGATGGTCTCATCAGTTGGCAAACCATTGGTACCGGTGACTGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
* * * * * *
26818 CAATTCGGTAGAAGTAGAGGTAAAAGTG-CTGTTCCATGGCTCAGTTGTAGTTATGGCAGTAGTG
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTC-GTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTG
26882 GCTGTT
130 GCTGTT
* * * * * * * * *
26888 GTTGGTGTTCTGATTACAATGATGGTTTCGTCAGTTCGTACACCATTGGTGCCAGTGACTGTGGT
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
* * * * * * ***
26953 CAATTCGGTAGAAGTAGAGGTAAAAGTG-CTGTTCCATGGCTCAGTTGTAGTTATGATGGT-GCT
66 CATTTCAGTGGATGTAGAGGTAAAAGTGTC-GTTCCATGGCTGAGTTGTAGTCATGGCAGTAG-T
* *
27016 AGCAGTT
129 GGCTGTT
* * * *
27023 GTTGGAGTTCTGATGACAATGACGGTTTCGTCAGTTGG-AACGCCGTTGGTACCGGTGACGGTGG
1 GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAA-ACCGTTGGTACCGGTGACGGTGG
*
27087 TCATTTCAGTAGATGTAGA
65 TCATTTCAGTGGATGTAGA
27106 AGTGAAAGTA
Statistics
Matches: 1243, Mismatches: 49, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
134 4 0.00
135 1236 0.99
136 3 0.00
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.32
Consensus pattern (135 bp):
GTTGGTGTTCTGATGACAATGATGGTTTCATCAGTTGGCAAACCGTTGGTACCGGTGACGGTGGT
CATTTCAGTGGATGTAGAGGTAAAAGTGTCGTTCCATGGCTGAGTTGTAGTCATGGCAGTAGTGG
CTGTT
Found at i:31136 original size:2 final size:2
Alignment explanation
Indices: 31123--31152 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
31113 CATAGGAGGC
*
31123 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31153 GGCTGCTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:76856 original size:15 final size:15
Alignment explanation
Indices: 76836--76864 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
76826 TGTTGAAAAA
76836 GCTGCTGCTGAGAAG
1 GCTGCTGCTGAGAAG
76851 GCTGCTGCTGAGAA
1 GCTGCTGCTGAGAA
76865 ATCCCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (15 bp):
GCTGCTGCTGAGAAG
Found at i:77025 original size:24 final size:24
Alignment explanation
Indices: 76983--77049 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
76973 GAAACAACTT
*
76983 GAAGAACAAGAAA-AGTTGGA-AAGA
1 GAAGAAGAAGAAAGA-TTGGAGAA-A
*
77007 GAGGAAGAAGAAAGATTGGAGAAA
1 GAAGAAGAAGAAAGATTGGAGAAA
* *
77031 GAAGAGGAGGAAAGATTGG
1 GAAGAAGAAGAAAGATTGG
77050 CCAACGAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 33 0.92
25 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.37, T:0.09
Consensus pattern (24 bp):
GAAGAAGAAGAAAGATTGGAGAAA
Found at i:77510 original size:3 final size:3
Alignment explanation
Indices: 77502--77546 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
77492 AAATCAAGGC
*
77502 GAA GAA GAA GAA GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
77547 AGAGCACATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:77594 original size:12 final size:12
Alignment explanation
Indices: 77577--77602 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77567 TGCCAAAAGC
77577 ACACCAGCAGCT
1 ACACCAGCAGCT
77589 ACACCAGCAGCT
1 ACACCAGCAGCT
77601 AC
1 AC
77603 TCCAACTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.42, G:0.15, T:0.08
Consensus pattern (12 bp):
ACACCAGCAGCT
Found at i:99964 original size:14 final size:14
Alignment explanation
Indices: 99945--99976 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
99935 AATAATCCCG
99945 TAATAGTAAGCTTC
1 TAATAGTAAGCTTC
99959 TAATAGTAAGCTTC
1 TAATAGTAAGCTTC
99973 TAAT
1 TAAT
99977 TTGCAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.38
Consensus pattern (14 bp):
TAATAGTAAGCTTC
Found at i:100394 original size:18 final size:18
Alignment explanation
Indices: 100371--100414 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
100361 ATCACTATCG
100371 CTGTCGCTCTCGCTTTCA
1 CTGTCGCTCTCGCTTTCA
* *
100389 CTGTCGCTTTCGCTTTGA
1 CTGTCGCTCTCGCTTTCA
*
100407 CTGGCGCT
1 CTGTCGCT
100415 GGAAGCTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.05, C:0.34, G:0.23, T:0.39
Consensus pattern (18 bp):
CTGTCGCTCTCGCTTTCA
Found at i:100495 original size:27 final size:27
Alignment explanation
Indices: 100465--100516 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
100455 TCATCCACGT
* *
100465 CAACGTATTCACCTTCGCCATCATCTG
1 CAACGTATTCAACTTCCCCATCATCTG
100492 CAACGTATTCAACTTCCCCATCATC
1 CAACGTATTCAACTTCCCCATCATC
100517 ACTTTCCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.38, G:0.08, T:0.29
Consensus pattern (27 bp):
CAACGTATTCAACTTCCCCATCATCTG
Found at i:101499 original size:15 final size:15
Alignment explanation
Indices: 101479--101511 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
101469 AACATGTATG
101479 TATGCTCCATCTATA
1 TATGCTCCATCTATA
*
101494 TATGCTCCATCTGTA
1 TATGCTCCATCTATA
101509 TAT
1 TAT
101512 TTTATATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (15 bp):
TATGCTCCATCTATA
Found at i:113063 original size:3 final size:3
Alignment explanation
Indices: 113055--113099 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
113045 TTCCACCGCC
* *
113055 GTT GTT GTT GTT GTT GTT GTT GTT GTT ATT GTT GTT ATT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
113100 ATCCATGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.04, C:0.00, G:0.29, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:116506 original size:9 final size:9
Alignment explanation
Indices: 116484--116520 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
116474 GATGTGGAAT
*
116484 ATGATGATG
1 ATGACGATG
*
116493 GTGACGATG
1 ATGACGATG
116502 ATGACGATG
1 ATGACGATG
116511 ATGACGATG
1 ATGACGATG
116520 A
1 A
116521 ATTTGTCGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.35, T:0.24
Consensus pattern (9 bp):
ATGACGATG
Found at i:120173 original size:5 final size:5
Alignment explanation
Indices: 120163--120189 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
120153 TTTCTTCTAT
120163 TTTTG TTTTG TTTTG TTTTG TTTTG TT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TT
120190 CTCTCCCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:124943 original size:9 final size:9
Alignment explanation
Indices: 124929--124958 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
124919 CCCTCGGCAG
124929 CAACAACAT
1 CAACAACAT
124938 CAACAACAT
1 CAACAACAT
*
124947 CAACAACGT
1 CAACAACAT
124956 CAA
1 CAA
124959 ACTCTAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (9 bp):
CAACAACAT
Found at i:139588 original size:12 final size:12
Alignment explanation
Indices: 139552--139610 Score: 66
Period size: 12 Copynumber: 4.9 Consensus size: 12
139542 TGGAGCTGGA
139552 GGAGCACCACCT
1 GGAGCACCACCT
* *
139564 GG-GAAACCGCCT
1 GGAG-CACCACCT
139576 GGAGCACCACCT
1 GGAGCACCACCT
* *
139588 GCAGCGCCACCT
1 GGAGCACCACCT
139600 GGAGCACCACC
1 GGAGCACCACC
139611 AGCTTGGTAC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 1 0.03
12 35 0.95
13 1 0.03
ACGTcount: A:0.24, C:0.42, G:0.27, T:0.07
Consensus pattern (12 bp):
GGAGCACCACCT
Found at i:190150 original size:14 final size:14
Alignment explanation
Indices: 190131--190161 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
190121 GAAGCACACC
190131 CACGACAATAACCA
1 CACGACAATAACCA
190145 CACGACAATAACCA
1 CACGACAATAACCA
190159 CAC
1 CAC
190162 CCGCCCACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.39, G:0.06, T:0.06
Consensus pattern (14 bp):
CACGACAATAACCA
Found at i:192293 original size:3 final size:3
Alignment explanation
Indices: 192287--192322 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
192277 ATATTATTTT
192287 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC ATAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC -TAC TA
192323 TTAAATATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:198849 original size:11 final size:11
Alignment explanation
Indices: 198835--198864 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
198825 CTCTTCACTT
198835 TTTCTTCGTGG
1 TTTCTTCGTGG
198846 TTTCTTCGTGG
1 TTTCTTCGTGG
*
198857 TTTTTTCG
1 TTTCTTCG
198865 AGAGTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.23, T:0.60
Consensus pattern (11 bp):
TTTCTTCGTGG
Found at i:204466 original size:135 final size:135
Alignment explanation
Indices: 204258--205690 Score: 2212
Period size: 135 Copynumber: 10.6 Consensus size: 135
204248 TACTTTCACT
* * * *
204258 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTT-CCAACTGACGAAACCGTCA
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGG-TTTGCCAACTGATGAAACCATCA
* * * *** * *
204322 TTGTCATCAGAACTCCAACAACTGCTAGC-ACCATCATAACTACAACTGAGCCATGGAAC-AGCA
65 TTGTCATCAGAACACCAACAACAGCCA-CTACTGCCATGACTACAACTCAGCCATGGAACGA-CA
204385 CTTTTACC
128 CTTTTACC
* * * * * * * * * * * *
204393 TCTACTTCTACCGAATTGACCACAGTCACTGGCACCAATGGTGTACGAACTGACGAAACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
* * *
204458 TGTAATCAGAACACCAACAACAGCCACTACTGCCATAACTACAACTGAGCCATGGAAC-AGCACT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGA-CACT
204522 TTTACC
130 TTTACC
* * * * * * *
204528 TCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGGTTTGCCAACTGATGAGACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
204593 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
204658 TTACC
131 TTACC
* * * * * * *
204663 TCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGGTTTGCCAACTGATGAGACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
204728 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
204793 TTACC
131 TTACC
* * * * * * *
204798 TCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGGTTTGCCAACTGATGAGACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
204863 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
204928 TTACC
131 TTACC
* * *
204933 TCTACATCCACTGAAATCACCACCGTCACCGGTACCAATGGTTTGCCAACTGATGAGACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
*
204998 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACACCTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
205063 TTACC
131 TTACC
205068 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
* *
205133 TGTCATCAGAACACCAACAACAGCCACTACTGCCATAACTACAACTGAGCCATGGAAC-AGCACT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGA-CACT
205197 TTTACC
130 TTTACC
205203 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
*
205268 TGTCATCAGAACACCAACAACAGCCACTACTGCCATAACTACAACTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
205333 TTACC
131 TTACC
205338 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
205403 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
205468 TTACC
131 TTACC
* * *
205473 TCTACATCCACTGAAATCACCACCGTCACCGGTACCACCGGTTTGCCAACTGATGAGACCATCAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
205538 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
205603 TTACC
131 TTACC
* * *
205608 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGCGTT-CCAACTGACGAAACCGTCA
1 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGG-TTTGCCAACTGATGAAACCATCA
*
205672 TTGTCATCAGAACTCCAAC
65 TTGTCATCAGAACACCAAC
205691 TAGTGAAGGT
Statistics
Matches: 1239, Mismatches: 53, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
134 3 0.00
135 1232 0.99
136 4 0.00
ACGTcount: A:0.32, C:0.33, G:0.14, T:0.21
Consensus pattern (135 bp):
TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
TTACC
Found at i:205726 original size:135 final size:135
Alignment explanation
Indices: 204225--206230 Score: 1956
Period size: 135 Copynumber: 14.9 Consensus size: 135
204215 TACCACTACA
* * * ** * * *
204225 ACTACAACGGAACCATGGACCGGTACTTTCACTTCTACATCTACTGAAATGACCACCGTCACCGG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
* * * * *
204290 TACCAACGGCGTT-CCAACTGACGAAACCGTCATTGTCATCAGAACTCCAACAACTGCTAGC-AC
66 TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCA-CTAC
**
204353 -CATCATA
130 TC--CAGC
* * * * * *
204360 ACTACAACTGAGCCATGGAAC-AGCACTTTTACCTCTACTTCTACCGAATTGACCACAGTCACTG
1 ACTACAACTGAGCCATGGAACGA-CACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCG
* * * * * *
204424 GCACCAATGG-TGTACGAACTGACGAAACCATCATTGTAATCAGAACACCAACAACAGCCACTAC
65 GTACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTAC
**
204488 TGCCATA
130 T-CCAGC
* * * * *
204495 ACTACAACTGAGCCATGGAAC-AGCACTTTTACCTCTACTTCTACCGAATTGACCACAGTCACCG
1 ACTACAACTGAGCCATGGAACGA-CACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCG
* * *
204559 GTACCAATGG-TTTGCCAACTGATGAGACCATCATTGTCATCAGAACACCAACAACAGCCACTAC
65 GTACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTAC
204623 TGCCATG-
130 T-CCA-GC
* * * * * *
204630 ACTACAACTCAGCCATGGAACGACACTTTTACCTCTACTTCTACCGAATTGACCACAGTCACCGG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
* * *
204695 TACCAATGG-TTTGCCAACTGATGAGACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
66 TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
204759 GCCATG-
131 -CCA-GC
* * * * * *
204765 ACTACAACTCAGCCATGGAACGACACTTTTACCTCTACTTCTACCGAATTGACCACAGTCACCGG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
* * *
204830 TACCAATGG-TTTGCCAACTGATGAGACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
66 TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
204894 GCCATG-
131 -CCA-GC
* *
204900 ACTACAACTCAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATCACCACCGTCACCGG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
* * *
204965 TACCAATGG-TTTGCCAACTGATGAGACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
66 TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
205029 GCCATG-
131 -CCA-GC
* *
205035 ACTACACCTCAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
*
205100 TACCAACGG-TTTGCCAACTGATGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
66 TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
**
205164 GCCATA
131 -CCAGC
205170 ACTACAACTGAGCCATGGAAC-AGCACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCG
1 ACTACAACTGAGCCATGGAACGA-CACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCG
*
205234 GTACCAACGG-TTTGCCAACTGATGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTAC
65 GTACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTAC
**
205298 TGCCATA
130 T-CCAGC
*
205305 ACTACAACTCAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
*
205370 TACCAACGG-TTTGCCAACTGATGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
66 TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
205434 GCCATG-
131 -CCA-GC
* *
205440 ACTACAACTCAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATCACCACCGTCACCGG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
* * *
205505 TACCACCGG-TTTGCCAACTGATGAGACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
66 TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
205569 GCCATG-
131 -CCA-GC
*
205575 ACTACAACTCAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
* * * **
205640 TACCAACGGCGTT-CCAACTGACGAAACCGTCATTGTCATCAGAACTCCAACTAGTGA-AG-GTC
66 TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAAC-A---ACAGCCAC
*
205702 TAAT-CAGC
127 TACTCCAGC
* * * ** * *
205710 ACCACCACTGAACCATGG-ACTGGTACTTTCACCTCTACATCCACTGAGATGACCACCGTCACCG
1 ACTACAACTGAGCCATGGAAC-GACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCG
* *** * * * * **
205774 GTACTAACGG-TCAACCAACTGACGAAACCGTGATTGTTATCAGAACTCCAAC--CAGTGA--AG
65 GTACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTA-
* ***
205834 GTTTGGTTAC
129 CTCCAG---C
* * * ** * * * * *
205844 AACCACCACTGAACCATGG-ACTGGTACTTTTACTTCTACATCTACTGAAATGACCACCATTACT
1 -ACTACAACTGAGCCATGGAAC-GACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACC
* * * * *
205908 GGAACCAACGGCGTT-CCAACTGACGAAACCGTCATTGTCATCAGAACTCCAACCAGTGA-AG-G
64 GGTACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAA-CA---ACAGCC
* *
205970 TCTAAT-CAGC
125 ACTACTCCAGC
* * * ** * * * * *
205980 ACCACCACTGAACCATGG-ACTGGTACTTTTACTTCTACATCTACTGAAATGACCACCATTACTG
1 ACTACAACTGAGCCATGGAAC-GACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCG
* * *** * * * * **
206044 GAACCAATGG-TCAACCAACTGACGAAACCGTTATTGTTATCAGAACTCCAACTAGTGA-AG-GT
65 GTACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAAC-A---ACAGCCA
*
206106 CTAAT-CAGC
126 CTACTCCAGC
* * * ** * * *
206115 ACTACAACGGAACCATGGACCGGTACTTTCACTTCTACATCTACTGAAATGACGCA-CGTCACCG
1 ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGAC-CACCGTCACCG
* * *
206179 GTACCAACGGCGTT-CCAACTGACGAAACCGTCATTGTCATCAGAACTCCAAC
65 GTACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAAC
206231 CAGTGAAGGT
Statistics
Matches: 1713, Mismatches: 117, Indels: 82
0.90 0.06 0.04
Matches are distributed among these distances:
129 1 0.00
130 3 0.00
131 2 0.00
134 8 0.00
135 1675 0.98
136 10 0.01
137 5 0.00
138 2 0.00
139 3 0.00
140 3 0.00
141 1 0.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (135 bp):
ACTACAACTGAGCCATGGAACGACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGG
TACCAACGGCTTTGCCAACTGACGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACT
CCAGC
Found at i:205728 original size:270 final size:268
Alignment explanation
Indices: 204258--206500 Score: 2053
Period size: 270 Copynumber: 8.3 Consensus size: 268
204248 TACTTTCACT
204258 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
* * **
204323 TGTCATCAGAACTCCAACAACTGCTAGCAC-CATCATAACTACAACTGAGCCATGGAAC-AGCAC
66 TGTCATCAGAACTCCAAC-A-TG-AAGCACTAATCAGCACTACAACTGAGCCATGGAACGA-CAC
* * * * * * * * * *
204386 TTTTACCTCTACTTCTACCGAATTGACCACAGTCACTGGCACCAATGGTGTACGAACTGACGAAA
127 TTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGAAA
* * *
204451 CCATCATTGTAATCAGAACACCAACAACAGCCACTACTGCCATAACTACAACTGAGCCATGGAAC
192 CCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAAC
204516 -AGCACTTTTACC
257 GA-CACTTTTACC
* * * * * * * * *
204528 TCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGG-TTTGCCAACTGATGAGACCATCA
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTT-CCAACTGACGAAACCGTCA
* * *
204592 TTGTCATCAGAACACCAACA--ACAGCCACTACTGCCATG-ACTACAACTCAGCCATGGAACGAC
65 TTGTCATCAGAACTCCAACATGA-AG-CACTAAT--CA-GCACTACAACTGAGCCATGGAACGAC
* * * * * * * *
204654 ACTTTTACCTCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGGTTTGCCAACTGATGA
125 ACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGA
*
204719 GACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGA
190 AACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGA
204784 ACGACACTTTTACC
255 ACGACACTTTTACC
* * * * * * * * *
204798 TCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGG-TTTGCCAACTGATGAGACCATCA
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTT-CCAACTGACGAAACCGTCA
* * *
204862 TTGTCATCAGAACACCAACA--ACAGCCACTACTGCCATG-ACTACAACTCAGCCATGGAACGAC
65 TTGTCATCAGAACTCCAACATGA-AG-CACTAAT--CA-GCACTACAACTGAGCCATGGAACGAC
* * * *
204924 ACTTTTACCTCTACATCCACTGAAATCACCACCGTCACCGGTACCAATGGTTTGCCAACTGATGA
125 ACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGA
* *
204989 GACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACACCTCAGCCATGGA
190 AACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGA
205054 ACGACACTTTTACC
255 ACGACACTTTTACC
* * * *
205068 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGG-TTTGCCAACTGATGAAACCATCA
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTT-CCAACTGACGAAACCGTCA
* * **
205132 TTGTCATCAGAACACCAACA--ACAGCCACTACTGCCATAACTACAACTGAGCCATGGAAC-AGC
65 TTGTCATCAGAACTCCAACATGA-AG-CACTAAT--CAGCACTACAACTGAGCCATGGAACGA-C
* *
205194 ACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGA
125 ACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGA
*
205259 AACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATAACTACAACTCAGCCATGGA
190 AACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGA
205324 ACGACACTTTTACC
255 ACGACACTTTTACC
* * * *
205338 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGG-TTTGCCAACTGATGAAACCATCA
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTT-CCAACTGACGAAACCGTCA
* * *
205402 TTGTCATCAGAACACCAACA--ACAGCCACTACTGCCATG-ACTACAACTCAGCCATGGAACGAC
65 TTGTCATCAGAACTCCAACATGA-AG-CACTAAT--CA-GCACTACAACTGAGCCATGGAACGAC
* * * *
205464 ACTTTTACCTCTACATCCACTGAAATCACCACCGTCACCGGTACCACCGGTTTGCCAACTGATGA
125 ACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGA
*
205529 GACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGA
190 AACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGA
205594 ACGACACTTTTACC
255 ACGACACTTTTACC
*
205608 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
** * * * **
205673 TGTCATCAGAACTCCAACTAGTGAAGGTCTAATCAGCACCACCACTGAACCATGG-ACTGGTACT
66 TGTCATCAGAACTCCAAC-A-TGAAGCACTAATCAGCACTACAACTGAGCCATGGAAC-GACACT
* * * **
205737 TTCACCTCTACATCCACTGAGATGACCACCGTCACCGGTACTAACGGTCAACCAACTGACGAAAC
128 TTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGAAAC
* * * * ** * * ** ** * * * *
205802 CGTGATTGTTATCAGAACTCCAAC--CAGTGAAGGT-TTGGTTACAACCACCACTGAACCATGG-
193 CATCATTGTCATCAGAACACCAACAACAG-CCA-CTACT-GCCATGACTACAACTCAGCCATGGA
** *
205863 ACTGGTACTTTTACT
255 AC-GACACTTTTACC
* * * *
205878 TCTACATCTACTGAAATGACCACCATTACTGGAACCAACGGCGTTCCAACTGACGAAACCGTCAT
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
** * * * **
205943 TGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGG-ACTGGTACT
66 TGTCATCAGAACTCCAA-CA-TGAAGCACTAATCAGCACTACAACTGAGCCATGGAAC-GACACT
* * * * * * * **
206007 TTTACTTCTACATCTACTGAAATGACCACCATTACTGGAACCAATGGTCAACCAACTGACGAAAC
128 TTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGAAAC
* * * * ** * ** *
206072 CGTTATTGTTATCAGAACTCCAACTAGTGA-AG-GTCTAAT--CA-GCACTACAACGGAACCATG
193 CATCATTGTCATCAGAACACCAAC-A---ACAGCCACTACTGCCATG-ACTACAACTCAGCCATG
* ** * *
206132 GACCGGTACTTTCACT
253 GAACGACACTTTTACC
206148 TCTACATCTACTGAAATGACGCA-CGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCA
1 TCTACATCTACTGAAATGAC-CACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCA
** * * * *
206212 TTGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGG-ACTGGCAC
65 TTGTCATCAGAACTCCAA-CA-TGAAGCACTAATCAGCACTACAACTGAGCCATGGAAC-GACAC
* * * * ** * * * * **
206276 TTTCACTTCGACTTCCACTGAGGTTACCACCATCACTGGAACCAACGGTCAACCAACTGACGAAA
127 TTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGAAA
** * * * ** * * * * *
206341 CTGTGATTGTTATCAGAACTCCAACCAGTGA-AG-GTCTAAT--CA-GCACCACCACTGAACCAT
192 CCATCATTGTCATCAGAACACCAA-CA---ACAGCCACTACTGCCATG-ACTACAACTCAGCCAT
** * *
206401 GG-ACTGGTACTTTCACT
252 GGAAC-GACACTTTTACC
* ** *
206418 TCTACATCTACTGAAATGACCACCGTCACCGGTACTAACGGTC-AACCAACTGACGAAACCGTGA
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGG-CGTTCCAACTGACGAAACCGTCA
*
206482 TTGTTATCAGAACTCCAAC
65 TTGTCATCAGAACTCCAAC
206501 CAGTGAAGGT
Statistics
Matches: 1788, Mismatches: 146, Indels: 79
0.89 0.07 0.04
Matches are distributed among these distances:
266 2 0.00
267 3 0.00
268 4 0.00
269 15 0.01
270 1741 0.97
271 12 0.01
272 5 0.00
273 3 0.00
274 1 0.00
275 2 0.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (268 bp):
TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
TGTCATCAGAACTCCAACATGAAGCACTAATCAGCACTACAACTGAGCCATGGAACGACACTTTT
ACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTACCAACTGACGAAACCAT
CATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACA
CTTTTACC
Found at i:205728 original size:405 final size:403
Alignment explanation
Indices: 204258--206230 Score: 2164
Period size: 405 Copynumber: 4.9 Consensus size: 403
204248 TACTTTCACT
* * *
204258 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTT-CCAACTGACGAAACCGTCA
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGG-TTTGCCAACTGATGAAACCATCA
* * * *** *
204322 TTGTCATCAGAACTCCAACAACTGCTAGC-ACCATCATAACTACAACTGAGCCATGGAAC-AGCA
65 TTGTCATCAGAACACCAACAACAGCCA-CTACTGCCATGACTACAACTGAGCCATGGAACGA-CA
* * * * * * * *
204385 CTTTTACCTCTACTTCTACCGAATTGACCACAGTCACTGGCACCAATGGTGTACGAACTGACGAA
128 CTTTTACCTCTACATCTACTGAAATGACCACCGTCACCGGTACCAATGG-GTTCCAACTGACGAA
* *
204450 ACCATCATTGTAATCAGAACACCAACAACAGCCACTACTGCCATAACTACAACTGAGCCATGGAA
192 ACCATCATTGTCATCAGAACACCAACAACAGCCACTACT-CCAGAACTACAACTGAGCCATGGAA
* * * * * *
204515 C-AGCACTTTTACCTCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGGTTTGCCAACT
256 CGA-CACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACT
*
204579 GATGAGACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCC
320 GATGAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCC
204644 ATGGAACGACACTTTTACC
385 ATGGAACGACACTTTTACC
* * * * * *
204663 TCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGGTTTGCCAACTGATGAGACCATCAT
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
*
204728 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTGAGCCATGGAACGACACTT
* * * * * * *
204793 TTACCTCTACTTCTACCGAATTGACCACAGTCACCGGTACCAATGGTTTGCCAACTGATGAGACC
131 TTACCTCTACATCTACTGAAATGACCACCGTCACCGGTACCAATGGGTT-CCAACTGACGAAACC
*
204858 ATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATG-ACTACAACTCAGCCATGGAACG
195 ATCATTGTCATCAGAACACCAACAACAGCCACTACT-CCA-GAACTACAACTGAGCCATGGAACG
* *
204922 ACACTTTTACCTCTACATCCACTGAAATCACCACCGTCACCGGTACCAATGGTTTGCCAACTGAT
258 ACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGAT
* *
204987 GAGACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACACCTCAGCCATG
323 GAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATG
205052 GAACGACACTTTTACC
388 GAACGACACTTTTACC
*
205068 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
*
205133 TGTCATCAGAACACCAACAACAGCCACTACTGCCATAACTACAACTGAGCCATGGAAC-AGCACT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTGAGCCATGGAACGA-CACT
* * * *
205197 TTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAAC
130 TTTACCTCTACATCTACTGAAATGACCACCGTCACCGGTACCAATGGGTT-CCAACTGACGAAAC
* *
205262 CATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATAACTACAACTCAGCCATGGAACG
194 CATCATTGTCATCAGAACACCAACAACAGCCACTACT-CCAGAACTACAACTGAGCCATGGAACG
205327 ACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGAT
258 ACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGAT
205392 GAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATG
323 GAAACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATG
205457 GAACGACACTTTTACC
388 GAACGACACTTTTACC
* * * *
205473 TCTACATCCACTGAAATCACCACCGTCACCGGTACCACCGGTTTGCCAACTGATGAGACCATCAT
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
*
205538 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAACGACACTT
66 TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTGAGCCATGGAACGACACTT
* *
205603 TTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACC
131 TTACCTCTACATCTACTGAAATGACCACCGTCACCGGTACCAATGG-GTTCCAACTGACGAAACC
* * ** * * * * *
205668 GTCATTGTCATCAGAACTCCAACTAGTGA-AG-GTCTAAT-CAGCACCACCACTGAACCATGG-A
195 ATCATTGTCATCAGAACACCAAC-A---ACAGCCACTACTCCAGAACTACAACTGAGCCATGGAA
** * * * ***
205729 CTGGTACTTTCACCTCTACATCCACTGAGATGACCACCGTCACCGGTACTAACGGTCAACCAACT
256 C-GACACTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACT
* * * * * ** * * ** ** * * *
205794 GACGAAACCGTGATTGTTATCAGAACTCCAAC--CAGTGAAGGT-TTGGTTACAACCACCACTGA
320 GATGAAACCATCATTGTCATCAGAACACCAACAACAG-CCA-CTACT-GCCATGACTACAACTCA
* ** *
205856 ACCATGG-ACTGGTACTTTTACT
382 GCCATGGAAC-GACACTTTTACC
* * * * * * *
205878 TCTACATCTACTGAAATGACCACCATTACTGGAACCAACGGCGTT-CCAACTGACGAAACCGTCA
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGG-TTTGCCAACTGATGAAACCATCA
* ** * * * *
205942 TTGTCATCAGAACTCCAACCAGTGA-AG-GTCTAAT--CA-GCACCACCACTGAACCATGG-ACT
65 TTGTCATCAGAACACCAA-CA---ACAGCCACTACTGCCATG-ACTACAACTGAGCCATGGAAC-
** * * * * * *
206001 GGTACTTTTACTTCTACATCTACTGAAATGACCACCATTACTGGAACCAAT-GGTCAACCAACTG
124 GACACTTTTACCTCTACATCTACTGAAATGACCACCGTCACCGGTACCAATGGGT--TCCAACTG
* * * * ** * * * *
206065 ACGAAACCGTTATTGTTATCAGAACTCCAACTAGTGA-AG-GTCTAAT-CAGCACTACAACGGAA
187 ACGAAACCATCATTGTCATCAGAACACCAAC-A---ACAGCCACTACTCCAGAACTACAACTGAG
* ** * * * *
206127 CCATGGACCGGTACTTTCACTTCTACATCTACTGAAATGACGCA-CGTCACCGGTACCAACGGCG
248 CCATGGAACGACACTTTTACCTCTACATCCACTGAAATGAC-CACCGTCACCGGTACCAACGG-T
* * *
206191 TT-CCAACTGACGAAACCGTCATTGTCATCAGAACTCCAAC
311 TTGCCAACTGATGAAACCATCATTGTCATCAGAACACCAAC
206231 CAGTGAAGGT
Statistics
Matches: 1392, Mismatches: 145, Indels: 62
0.87 0.09 0.04
Matches are distributed among these distances:
403 5 0.00
404 15 0.01
405 1345 0.97
406 13 0.01
407 8 0.01
408 4 0.00
409 2 0.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (403 bp):
TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAAACCATCAT
TGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTGAGCCATGGAACGACACTT
TTACCTCTACATCTACTGAAATGACCACCGTCACCGGTACCAATGGGTTCCAACTGACGAAACCA
TCATTGTCATCAGAACACCAACAACAGCCACTACTCCAGAACTACAACTGAGCCATGGAACGACA
CTTTTACCTCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGTTTGCCAACTGATGAA
ACCATCATTGTCATCAGAACACCAACAACAGCCACTACTGCCATGACTACAACTCAGCCATGGAA
CGACACTTTTACC
Found at i:206263 original size:135 final size:135
Alignment explanation
Indices: 205608--206635 Score: 1305
Period size: 135 Copynumber: 7.6 Consensus size: 135
205598 CACTTTTACC
* **
205608 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGG-CGTTCCAACTGACGAAACCGTCA
1 TCTACATCCACTGAAATGACCACCGTCACCGGAACCAACGGTC-AACCAACTGACGAAACCGTCA
* *
205672 TTGTCATCAGAACTCCAACTAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACT
65 TTGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACT
*
205737 TTCACC
130 TTCACT
* * * *
205743 TCTACATCCACTGAGATGACCACCGTCACCGGTACTAACGGTCAACCAACTGACGAAACCGTGAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGAACCAACGGTCAACCAACTGACGAAACCGTCAT
* ** *
205808 TGTTATCAGAACTCCAACCAGTGAAGGTTTGGTTA-CAACCACCACTGAACCATGGACTGGTACT
66 TGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGC-ACCACCACTGAACCATGGACTGGTACT
*
205872 TTTACT
130 TTCACT
* * * * **
205878 TCTACATCTACTGAAATGACCACCATTACTGGAACCAACGG-CGTTCCAACTGACGAAACCGTCA
1 TCTACATCCACTGAAATGACCACCGTCACCGGAACCAACGGTC-AACCAACTGACGAAACCGTCA
*
205942 TTGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACT
65 TTGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACT
*
206007 TTTACT
130 TTCACT
* * * * * *
206013 TCTACATCTACTGAAATGACCACCATTACTGGAACCAATGGTCAACCAACTGACGAAACCGTTAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGAACCAACGGTCAACCAACTGACGAAACCGTCAT
* * * * *
206078 TGTTATCAGAACTCCAACTAGTGAAGGTCTAATCAGCACTACAACGGAACCATGGACCGGTACTT
66 TGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
206143 TCACT
131 TCACT
* * **
206148 TCTACATCTACTGAAATGACGCA-CGTCACCGGTACCAACGG-CGTTCCAACTGACGAAACCGTC
1 TCTACATCCACTGAAATGAC-CACCGTCACCGGAACCAACGGTC-AACCAACTGACGAAACCGTC
* *
206211 ATTGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGCAC
64 ATTGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTAC
206276 TTTCACT
129 TTTCACT
* * ** * * * * *
206283 TCGACTTCCACTGAGGTTACCACCATCACTGGAACCAACGGTCAACCAACTGACGAAACTGTGAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGAACCAACGGTCAACCAACTGACGAAACCGTCAT
206348 TGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
66 TGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
206413 TCACT
131 TCACT
* * * *
206418 TCTACATCTACTGAAATGACCACCGTCACCGGTACTAACGGTCAACCAACTGACGAAACCGTGAT
1 TCTACATCCACTGAAATGACCACCGTCACCGGAACCAACGGTCAACCAACTGACGAAACCGTCAT
* ** *
206483 TGTTATCAGAACTCCAACCAGTGAAGGTTTGGTTA-CAACCACCACTGAACCATGGACTGGTACT
66 TGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGC-ACCACCACTGAACCATGGACTGGTACT
*
206547 TTTACT
130 TTCACT
* * * * * * * ** * *
206553 TCGACTTCCACTGAAATGTCTACTGTCACTGGAACCAATGG-CTTGCCAACTGATGAAACTGTCA
1 TCTACATCCACTGAAATGACCACCGTCACCGGAACCAACGGTC-AACCAACTGACGAAACCGTCA
* *
206617 TTGTTGTCAAAACTCCAAC
65 TTGTTATCAGAACTCCAAC
206636 TACTGCCATC
Statistics
Matches: 780, Mismatches: 102, Indels: 22
0.86 0.11 0.02
Matches are distributed among these distances:
134 7 0.01
135 767 0.98
136 6 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (135 bp):
TCTACATCCACTGAAATGACCACCGTCACCGGAACCAACGGTCAACCAACTGACGAAACCGTCAT
TGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
TCACT
Found at i:206604 original size:270 final size:270
Alignment explanation
Indices: 205608--206635 Score: 1454
Period size: 270 Copynumber: 3.8 Consensus size: 270
205598 CACTTTTACC
*
205608 TCTACATCCACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
*
205673 TGTCATCAGAACTCCAACTAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
66 TGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
* * * * * * *
205738 TCACCTCTACATCCACTGAGATGACCACCGTCACCGGTACTAACGGTCAACCAACTGACGAAACC
131 TCACTTCGACATCCACTGAAATGACCACCATCACTGGAACCAACGGTCAACCAACTGACGAAACC
* ** *
205803 GTGATTGTTATCAGAACTCCAACCAGTGAAGGTTTGGTTA-CAACCACCACTGAACCATGGACTG
196 GTGATTGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGC-ACCACCACTGAACCATGGACTG
*
205867 GTACTTTTACT
260 GTACTTTCACT
* * * *
205878 TCTACATCTACTGAAATGACCACCATTACTGGAACCAACGGCGTTCCAACTGACGAAACCGTCAT
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
205943 TGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
66 TGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
* * * * *
206008 TTACTTCTACATCTACTGAAATGACCACCATTACTGGAACCAATGGTCAACCAACTGACGAAACC
131 TCACTTCGACATCCACTGAAATGACCACCATCACTGGAACCAACGGTCAACCAACTGACGAAACC
* * * * * *
206073 GTTATTGTTATCAGAACTCCAACTAGTGAAGGTCTAATCAGCACTACAACGGAACCATGGACCGG
196 GTGATTGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGG
206138 TACTTTCACT
261 TACTTTCACT
206148 TCTACATCTACTGAAATGACGCA-CGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCA
1 TCTACATCTACTGAAATGAC-CACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCA
*
206212 TTGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGCACT
65 TTGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACT
* ** *
206277 TTCACTTCGACTTCCACTGAGGTTACCACCATCACTGGAACCAACGGTCAACCAACTGACGAAAC
130 TTCACTTCGACATCCACTGAAATGACCACCATCACTGGAACCAACGGTCAACCAACTGACGAAAC
*
206342 TGTGATTGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTG
195 CGTGATTGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTG
206407 GTACTTTCACT
260 GTACTTTCACT
* ** *
206418 TCTACATCTACTGAAATGACCACCGTCACCGGTACTAACGGTC-AACCAACTGACGAAACCGTGA
1 TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGG-CGTTCCAACTGACGAAACCGTCA
* * ** *
206482 TTGTTATCAGAACTCCAACCAGTGAAGGTTTGGTTA-CAACCACCACTGAACCATGGACTGGTAC
65 TTGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGC-ACCACCACTGAACCATGGACTGGTAC
* * * * ** * ** *
206546 TTTTACTTCGACTTCCACTGAAATGTCTACTGTCACTGGAACCAATGG-CTTGCCAACTGATGAA
129 TTTCACTTCGACATCCACTGAAATGACCACCATCACTGGAACCAACGGTC-AACCAACTGACGAA
* * * *
206610 ACTGTCATTGTTGTCAAAACTCCAAC
193 ACCGTGATTGTTATCAGAACTCCAAC
206636 TACTGCCATC
Statistics
Matches: 679, Mismatches: 73, Indels: 12
0.89 0.10 0.02
Matches are distributed among these distances:
269 4 0.01
270 671 0.99
271 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (270 bp):
TCTACATCTACTGAAATGACCACCGTCACCGGTACCAACGGCGTTCCAACTGACGAAACCGTCAT
TGTCATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGGTACTT
TCACTTCGACATCCACTGAAATGACCACCATCACTGGAACCAACGGTCAACCAACTGACGAAACC
GTGATTGTTATCAGAACTCCAACCAGTGAAGGTCTAATCAGCACCACCACTGAACCATGGACTGG
TACTTTCACT
Found at i:206768 original size:15 final size:15
Alignment explanation
Indices: 206748--206830 Score: 98
Period size: 15 Copynumber: 5.5 Consensus size: 15
206738 AACTTCTGTG
*
206748 ATTTCTTCCTCAGTA
1 ATTTCTTCCTCAGTC
206763 ATTTCTTCCTCAGTC
1 ATTTCTTCCTCAGTC
* *
206778 ACTTCTT-CTCTATTC
1 ATTTCTTCCTC-AGTC
*
206793 ACTTCTT-CTCCAGTC
1 ATTTCTTCCT-CAGTC
206808 ATTTCTTCCTCAGTC
1 ATTTCTTCCTCAGTC
206823 ATTTCTTC
1 ATTTCTTC
206831 TTCTACAACA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
14 3 0.05
15 54 0.90
16 3 0.05
ACGTcount: A:0.14, C:0.33, G:0.05, T:0.48
Consensus pattern (15 bp):
ATTTCTTCCTCAGTC
Found at i:207256 original size:21 final size:21
Alignment explanation
Indices: 207227--207288 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
207217 TTTCTACTAC
207227 AGAGACAACAAAGCAAACCAA
1 AGAGACAACAAAGCAAACCAA
* * *
207248 AGGGACAACAGAGCAAACCAC
1 AGAGACAACAAAGCAAACCAA
* *
207269 AGAAACAACAAAACAAACCA
1 AGAGACAACAAAGCAAACCA
207289 CGGTAGTTAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.60, C:0.26, G:0.15, T:0.00
Consensus pattern (21 bp):
AGAGACAACAAAGCAAACCAA
Found at i:207664 original size:27 final size:27
Alignment explanation
Indices: 207614--207702 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
207604 GTGCTACCGG
* * *
207614 TGAGACAACAACCAATACTTTAGCTGC
1 TGAGACGACTACCAATACTGTAGCTGC
*
207641 TGAAACGACTACCAATACTGTAGCTGC
1 TGAGACGACTACCAATACTGTAGCTGC
* *
207668 TGAGACGATTACCAATACTGGAGCTGC
1 TGAGACGACTACCAATACTGTAGCTGC
207695 TGAGACGA
1 TGAGACGA
207703 AAACAGTAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (27 bp):
TGAGACGACTACCAATACTGTAGCTGC
Found at i:219206 original size:15 final size:15
Alignment explanation
Indices: 219186--219220 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
219176 TTCTGTAGTT
219186 TCTTCCTCAGTCATG
1 TCTTCCTCAGTCATG
* *
219201 TCTTCCTCGGTCATT
1 TCTTCCTCAGTCATG
219216 TCTTC
1 TCTTC
219221 TTCTGCAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.34, G:0.11, T:0.46
Consensus pattern (15 bp):
TCTTCCTCAGTCATG
Found at i:223126 original size:1 final size:1
Alignment explanation
Indices: 223120--223155 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
223110 CACATTCTTC
223120 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
223156 CATTTACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:229772 original size:15 final size:15
Alignment explanation
Indices: 229752--229807 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
229742 AGATGATGTA
* *
229752 TTGTTTACGTTATAT
1 TTGTTTACATTAGAT
* *
229767 TTGTTTAAATTGGAT
1 TTGTTTACATTAGAT
229782 TTGTTTACATTAGAT
1 TTGTTTACATTAGAT
229797 TTGTTTACATT
1 TTGTTTACATT
229808 TCAATATATC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.57
Consensus pattern (15 bp):
TTGTTTACATTAGAT
Found at i:229967 original size:11 final size:11
Alignment explanation
Indices: 229947--229977 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
229937 TTGGGGTGTG
229947 GTGA-TGGATA
1 GTGAGTGGATA
229957 GTGAGTGGATA
1 GTGAGTGGATA
229968 GTGAGTGGAT
1 GTGAGTGGAT
229978 GGATGGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.45, T:0.29
Consensus pattern (11 bp):
GTGAGTGGATA
Found at i:230129 original size:6 final size:6
Alignment explanation
Indices: 230109--230205 Score: 146
Period size: 6 Copynumber: 16.2 Consensus size: 6
230099 GTTAGTATTA
230109 GGGTGT GGTGTGT GGGTGT -GGTGT GGGTGT GGGTGT GGGTGT GGGTGT
1 GGGTGT GG-GTGT GGGTGT GGGTGT GGGTGT GGGTGT GGGTGT GGGTGT
230157 GGGTGT GGGTGT -GGTGT GGTGTGT GGGTGT -GGTGT GGGTGT GGTGTGT
1 GGGTGT GGGTGT GGGTGT GG-GTGT GGGTGT GGGTGT GGGTGT GG-GTGT
230205 G
1 G
230206 TGGG
Statistics
Matches: 85, Mismatches: 0, Indels: 11
0.89 0.00 0.11
Matches are distributed among these distances:
5 15 0.18
6 53 0.62
7 17 0.20
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (6 bp):
GGGTGT
Found at i:230206 original size:2 final size:2
Alignment explanation
Indices: 230111--230207 Score: 71
Period size: 2 Copynumber: 51.5 Consensus size: 2
230101 TAGTATTAGG
* * * *
230111 GT GT G- GT GT GT GG GT GT G- GT GT GG GT GT GG GT GT GG GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
* * * *
230151 GG GT GT GG GT GT GG GT GT G- GT GT G- GT GT GT GG GT GT G- GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
*
230190 GT GG GT GT G- GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT G
230208 GG
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
1 6 0.08
2 65 0.92
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (2 bp):
GT
Done.