Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 23 of 196
Found at i:6562891 original size:22 final size:21
Alignment explanation
Indices: 6562866--6562908 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6562856 TTGAAAAAAA
* *
6562866 ATTTAATTTTCCTATTATTATT
1 ATTTAATTCTACTATT-TTATT
6562888 ATTTAATTCTACTATTTTATT
1 ATTTAATTCTACTATTTTATT
6562909 TTATTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTAATTCTACTATTTTATT
Found at i:6562935 original size:6 final size:6
Alignment explanation
Indices: 6562902--6562935 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
6562892 AATTCTACTA
6562902 TTTTA- TTTTAT TTTTCAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTT-AT TTTTAT TTTTAT TTTT
6562936 GCAGGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:6562935 original size:12 final size:12
Alignment explanation
Indices: 6562902--6562935 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
6562892 AATTCTACTA
6562902 TTTTA-TTTTAT
1 TTTTATTTTTAT
6562913 TTTTCATTTTTAT
1 TTTT-ATTTTTAT
6562926 TTTTATTTTT
1 TTTTATTTTT
6562936 GCAGGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 7 0.33
13 10 0.48
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:6569583 original size:48 final size:48
Alignment explanation
Indices: 6569527--6569621 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
6569517 CAACTTCAGT
6569527 AAGTCCTAAAAATTATACATTCTTTACTGGGTAAATTATAAAAAAAAG
1 AAGTCCTAAAAATTATACATTCTTTACTGGGTAAATTATAAAAAAAAG
6569575 AAGTCCTAAAAATTATACATTCTTTACTGGGTAAATTATAAAAAAAA
1 AAGTCCTAAAAATTATACATTCTTTACTGGGTAAATTATAAAAAAAA
6569622 AGTCACTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (48 bp):
AAGTCCTAAAAATTATACATTCTTTACTGGGTAAATTATAAAAAAAAG
Found at i:6574570 original size:14 final size:13
Alignment explanation
Indices: 6574535--6574572 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
6574525 AGTTTTTCTT
6574535 AAATA-TTAAAAA
1 AAATATTTAAAAA
6574547 AAATATTTTATAAAA
1 AAATA-TTTA-AAAA
6574562 AAATATTTAAA
1 AAATATTTAAA
6574573 GCAAAATCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.22
13 2 0.09
14 7 0.30
15 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATATTTAAAAA
Found at i:6594559 original size:7 final size:7
Alignment explanation
Indices: 6594493--6594569 Score: 55
Period size: 7 Copynumber: 11.0 Consensus size: 7
6594483 TCATTTTCAA
*
6594493 CTCAATA
1 CTCAATT
**
6594500 CTCAACC
1 CTCAATT
*
6594507 CTCAGTT
1 CTCAATT
*
6594514 CTAAATT
1 CTCAATT
* *
6594521 CTCACTC
1 CTCAATT
6594528 CTCAATT
1 CTCAATT
* *
6594535 TTCAATC
1 CTCAATT
* *
6594542 CTGAATC
1 CTCAATT
6594549 CTCAATT
1 CTCAATT
6594556 CTCAATT
1 CTCAATT
6594563 CTCAATT
1 CTCAATT
6594570 ATTATTTTTA
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.36
Consensus pattern (7 bp):
CTCAATT
Found at i:6596155 original size:42 final size:42
Alignment explanation
Indices: 6596090--6596196 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
6596080 GAAGCCCGAA
*
6596090 GGTTGAACAGAAGCTCATGAGAGCTAAAAAAAAACCCATAAG
1 GGTTGAACAGAAGCTCATAAGAGCTAAAAAAAAACCCATAAG
* * * *
6596132 GGTTGAACAGAAGCTCGTAAGAGCTGAACAGAAACCCATAAG
1 GGTTGAACAGAAGCTCATAAGAGCTAAAAAAAAACCCATAAG
* *
6596174 GGTTAAACAGAAGCTCAAAAGAG
1 GGTTGAACAGAAGCTCATAAGAG
6596197 ATGAACGATA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (42 bp):
GGTTGAACAGAAGCTCATAAGAGCTAAAAAAAAACCCATAAG
Found at i:6596173 original size:21 final size:21
Alignment explanation
Indices: 6596093--6596173 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 21
6596083 GCCCGAAGGT
* * *
6596093 TGAACAGAAGCTCATGAGAGC
1 TGAACAGAAACCCATAAGAGC
* * * * *
6596114 TAAAAAAAAACCCATAAGGGT
1 TGAACAGAAACCCATAAGAGC
* * *
6596135 TGAACAGAAGCTCGTAAGAGC
1 TGAACAGAAACCCATAAGAGC
6596156 TGAACAGAAACCCATAAG
1 TGAACAGAAACCCATAAG
6596174 GGTTAAACAG
Statistics
Matches: 41, Mismatches: 19, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (21 bp):
TGAACAGAAACCCATAAGAGC
Found at i:6596182 original size:21 final size:21
Alignment explanation
Indices: 6596121--6596185 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
6596111 AGCTAAAAAA
6596121 AAACCCATAAGGGTTGAACAG
1 AAACCCATAAGGGTTGAACAG
* * * * *
6596142 AAGCTCGTAAGAGCTGAACAG
1 AAACCCATAAGGGTTGAACAG
*
6596163 AAACCCATAAGGGTTAAACAG
1 AAACCCATAAGGGTTGAACAG
6596184 AA
1 AA
6596186 GCTCAAAAGA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (21 bp):
AAACCCATAAGGGTTGAACAG
Found at i:6599639 original size:12 final size:12
Alignment explanation
Indices: 6599622--6599651 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
6599612 ACAACATAAA
6599622 TAAATTGGAAAT
1 TAAATTGGAAAT
6599634 TAAATTGGAAAT
1 TAAATTGGAAAT
6599646 TAAATT
1 TAAATT
6599652 CGAATTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (12 bp):
TAAATTGGAAAT
Found at i:6601821 original size:22 final size:22
Alignment explanation
Indices: 6601796--6601857 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 22
6601786 ATTTGCACTG
*
6601796 TTGAGTGGTTTATCCACACCGT
1 TTGAGTGGTTTATCCACACCAT
*** * **
6601818 TTGAGCAATTTATCTACATTAT
1 TTGAGTGGTTTATCCACACCAT
6601840 TT-AGTGGTTTATCCACAC
1 TTGAGTGGTTTATCCACAC
6601858 TGTATTAGCA
Statistics
Matches: 28, Mismatches: 12, Indels: 1
0.68 0.29 0.02
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (22 bp):
TTGAGTGGTTTATCCACACCAT
Found at i:6601871 original size:22 final size:22
Alignment explanation
Indices: 6601803--6601871 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
6601793 CTGTTGAGTG
*
6601803 GTTTATCCACACCGT-TTGAGCA
1 GTTTATCCACACTGTATT-AGCA
* * **
6601825 ATTTATCTACA-T-TATTTAGTG
1 GTTTATCCACACTGTA-TTAGCA
6601846 GTTTATCCACACTGTATTAGCA
1 GTTTATCCACACTGTATTAGCA
6601868 GTTT
1 GTTT
6601872 TAATCTGCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 20 0.59
23 2 0.06
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (22 bp):
GTTTATCCACACTGTATTAGCA
Found at i:6606896 original size:13 final size:14
Alignment explanation
Indices: 6606878--6606906 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6606868 TAAAGACTTG
6606878 ATATG-ATTAACCA
1 ATATGAATTAACCA
6606891 ATATGAATTAACCA
1 ATATGAATTAACCA
6606905 AT
1 AT
6606907 GTCACCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (14 bp):
ATATGAATTAACCA
Found at i:6621094 original size:18 final size:18
Alignment explanation
Indices: 6621058--6621102 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
6621048 ACAAATGCCT
6621058 TTAA-AATAGTAACAAAA
1 TTAACAATAGTAACAAAA
6621075 TTAACAATAG-AACAATAA
1 TTAACAATAGTAACAA-AA
6621093 TTATACAATA
1 TTA-ACAATA
6621103 TCCAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.36
18 10 0.40
19 6 0.24
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (18 bp):
TTAACAATAGTAACAAAA
Found at i:6621219 original size:20 final size:21
Alignment explanation
Indices: 6621167--6621222 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
6621157 AGTGAAAAAA
*
6621167 AAAACAACAATAAAATAGCAAG
1 AAAACAATAA-AAAATAGCAAG
*
6621189 AAAATAATAAAAAATAGCAAG
1 AAAACAATAAAAAATAGCAAG
*
6621210 -AAACAGTAAAAAA
1 AAAACAATAAAAAA
6621223 AAGTAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 11 0.37
21 11 0.37
22 8 0.27
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (21 bp):
AAAACAATAAAAAATAGCAAG
Found at i:6621626 original size:31 final size:31
Alignment explanation
Indices: 6621568--6621626 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
6621558 CGTGTAATTA
* **
6621568 TATACATGAAACTTTAATTGTGGTTCAAATG
1 TATACATGAAACATTAATTGTAATTCAAATG
* *
6621599 TATATATGAAACATTAATTTTAATTCAA
1 TATACATGAAACATTAATTGTAATTCAA
6621627 TTATTCACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (31 bp):
TATACATGAAACATTAATTGTAATTCAAATG
Found at i:6627395 original size:13 final size:13
Alignment explanation
Indices: 6627379--6627431 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
6627369 TTTAAACCAA
*
6627379 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
* *
6627392 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* * *
6627405 ATTTTTCCACAGC
1 ACTTTTCAAAAGC
6627418 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
6627431 A
1 A
6627432 AAGAAGAACT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:6628598 original size:14 final size:12
Alignment explanation
Indices: 6628570--6628611 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
6628560 TAAGAAATGC
6628570 TTTTAAAAAGTA
1 TTTTAAAAAGTA
6628582 TTTTGAAAAAGTGA
1 TTTT-AAAAAGT-A
6628596 TTTTAATAAA-TA
1 TTTTAA-AAAGTA
6628608 TTTT
1 TTTT
6628612 TGAAAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.33
13 10 0.37
14 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
TTTTAAAAAGTA
Found at i:6630414 original size:10 final size:11
Alignment explanation
Indices: 6630391--6630415 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6630381 TGCGGAGGTA
6630391 TTTTATTTATT
1 TTTTATTTATT
6630402 TTTTATTTATT
1 TTTTATTTATT
6630413 TTT
1 TTT
6630416 CAATCATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:6630950 original size:10 final size:11
Alignment explanation
Indices: 6630927--6630951 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6630917 TGCGGAGGTA
6630927 TTTTATTTATT
1 TTTTATTTATT
6630938 TTTTATTTATT
1 TTTTATTTATT
6630949 TTT
1 TTT
6630952 CAATCATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:6630959 original size:536 final size:536
Alignment explanation
Indices: 6629948--6631564 Score: 2995
Period size: 536 Copynumber: 3.0 Consensus size: 536
6629938 TACTAATCAC
*
6629948 AACTTTTCTATTTTCAAGACACCATAACTTATACCCTTCTACACCGGCTTTATAACCAAGAAAAA
1 AACTTTTCTATTTTCAAGACACCATAACTTATACCCTTCTATACCGGCTTTATAACCAAGAAAAA
*
6630013 CACATTTAATAGATCTC-ATTCCAATTTTCCATTATCAACATGAGCATACGCAGGACACCCAAAG
66 CACATTTAATAGATCTCGGTTCCAATTTTCCATTATCAACATGAGCATACGCAGGACACCCAAAG
6630077 ATCTTTAAATCAGAATAGTCAACAGAATTACTAGACTATACCTTTTGTGGAGTCTTTTTCTCAAT
131 ATCTTTAAATCAGAATAGTCAACAGAATTACTAGACTATACCTTTTGTGGAGTCTTTTTCTCAAT
6630142 GGTAACGAAAT-GAGATCGGTTGATTAAAAAATATGCAGTAGGGGCTGCTTCGGCCCAAAATGAC
196 GGTAACG-AATGGAGATCGGTTGATTAAAAAATATGCAGTAGGGGCTGCTTCGGCCCAAAATGAC
6630206 TTTGGTAAGTTGGCATTTGACAACACATATCAAACCTTCTCCATGATCGTTCTGTTCATTCGTTC
260 TTTGGTAAGTTGGCATTTGACAACACATATCAAACCTTCTCCATGATCGTTCTGTTCATTCGTTC
6630271 TGCAACGCCGTTTTATTGTAGAGTATGACGAACTGTCAAGTGTCTCACGATCCTTTCTGACTTAC
325 TGCAACGCCGTTTTATTGTAGAGTATGACGAACTGTCAAGTGTCTCACGATCCTTTCTGACTTAC
6630336 ACAGTTTATTAAACTCATCAGAATATAACTCTAAACCATTGTCTATGCGGAGGTATTTTATTTAT
390 ACAGTTTATTAAACTCATCAGAATATAACTCTAAACCATTGTCTATGCGGAGGTATTTTATTTAT
6630401 TTTTTATTTATTTTTCAATCATAGTTTTCCAAGACTTAAATACGGAAAACATATCGCTTTTCTGC
455 TTTTTATTTATTTTTCAATCATAGTTTTCCAAGACTTAAATACGGAAAACATATCGCTTTTCTGC
*
6630466 TTTAGGAAGAACGCCCA
520 TTTAGGAAGAATGCCCA
*
6630483 AACTTTTCTATTTTCAAGACACCATAACTTATACCCTTCTATACCGACTTTATAACCAAGAAAAA
1 AACTTTTCTATTTTCAAGACACCATAACTTATACCCTTCTATACCGGCTTTATAACCAAGAAAAA
6630548 CACATTTAATAGATCTCGGTTCCAATTTTCCATTATCAACATGAGCATACGCAGGACACCCAAAG
66 CACATTTAATAGATCTCGGTTCCAATTTTCCATTATCAACATGAGCATACGCAGGACACCCAAAG
* *
6630613 ATCTTTAAATCAGAATAGTTAACAGAATTACTAGACTATACCTTTTGTGGAGTCTTTTTCTTAAT
131 ATCTTTAAATCAGAATAGTCAACAGAATTACTAGACTATACCTTTTGTGGAGTCTTTTTCTCAAT
6630678 GGTAACGAATGGAGATCGGTTGATTAAAAAATATGCAGTAGGGGCTGCTTCGGCCCAAAATGACT
196 GGTAACGAATGGAGATCGGTTGATTAAAAAATATGCAGTAGGGGCTGCTTCGGCCCAAAATGACT
*
6630743 TTGGTAAGTTGGCATTTGACAACACATATCAAACTTTCTCCATGATCGTTCTGTTCATTCGTTCT
261 TTGGTAAGTTGGCATTTGACAACACATATCAAACCTTCTCCATGATCGTTCTGTTCATTCGTTCT
6630808 GCAACGCCGTTTTATTGTAGAGTATGACGAACTGTCAAGTGTCTCACGATCCTTTCTGACTTACA
326 GCAACGCCGTTTTATTGTAGAGTATGACGAACTGTCAAGTGTCTCACGATCCTTTCTGACTTACA
*
6630873 CAGTTTATCAAACTCATCAGAATATAACTCTAAACCATTGTCTATGCGGAGGTATTTTATTTATT
391 CAGTTTATTAAACTCATCAGAATATAACTCTAAACCATTGTCTATGCGGAGGTATTTTATTTATT
6630938 TTTTATTTATTTTTCAATCATAGTTTTCCAAGACTTAAATACGGAAAACATATCGCTTTTCTGCT
456 TTTTATTTATTTTTCAATCATAGTTTTCCAAGACTTAAATACGGAAAACATATCGCTTTTCTGCT
*
6631003 TTAGGAAGAATGCTCA
521 TTAGGAAGAATGCCCA
*
6631019 AACTTTTCTATTTTCAAGGCACCATAACTTATACCCTTCTATACCGGCTTTATAACCAAGAAAAA
1 AACTTTTCTATTTTCAAGACACCATAACTTATACCCTTCTATACCGGCTTTATAACCAAGAAAAA
6631084 CACATTTAATAGATCTCGGTTCCAATTTTCCATTATCAACATGAGCATACGCAGGACACCCAAAG
66 CACATTTAATAGATCTCGGTTCCAATTTTCCATTATCAACATGAGCATACGCAGGACACCCAAAG
6631149 ATCTTTAAATCAGAATAGTCAACAGAATTACTAGACTATACCTTTTGTGGAGTCTTTTTCTCAAT
131 ATCTTTAAATCAGAATAGTCAACAGAATTACTAGACTATACCTTTTGTGGAGTCTTTTTCTCAAT
* * *
6631214 GGCAACGGATGGAGATCGGTTGATTAAAAAATATGCAGTAGAGGCTGCTTCGGCCCAAAATGACT
196 GGTAACGAATGGAGATCGGTTGATTAAAAAATATGCAGTAGGGGCTGCTTCGGCCCAAAATGACT
* * *
6631279 TTGGTAAGTTGGCATTTGACAACACACATCGAACCTTCTCCATGATCGTTCTGTTCATTCATTCT
261 TTGGTAAGTTGGCATTTGACAACACATATCAAACCTTCTCCATGATCGTTCTGTTCATTCGTTCT
* *
6631344 ACAACGCCGTTTTATTGTAGAGTATGACGAACTGTCAAGTGTCTCACGATCCCTTCTGACTTACA
326 GCAACGCCGTTTTATTGTAGAGTATGACGAACTGTCAAGTGTCTCACGATCCTTTCTGACTTACA
* *
6631409 CAGTTTATTAAACTTATCAAAATATAACTCTAAACCATTGTCTATGCGGAGGTATTTTATTTATT
391 CAGTTTATTAAACTCATCAGAATATAACTCTAAACCATTGTCTATGCGGAGGTATTTTATTTATT
*
6631474 TTTTCATTTATTTTTCAATCATAGTTTTCCAAGACTTAAATACGGAAAACACATCGCTTTTCTGC
456 TTTT-ATTTATTTTTCAATCATAGTTTTCCAAGACTTAAATACGGAAAACATATCGCTTTTCTGC
*
6631539 TTTAGGAAGAATACCCA
520 TTTAGGAAGAATGCCCA
*
6631556 AAATTTTCT
1 AACTTTTCT
6631565 GGAAAAATCA
Statistics
Matches: 1050, Mismatches: 29, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
535 83 0.08
536 885 0.84
537 82 0.08
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (536 bp):
AACTTTTCTATTTTCAAGACACCATAACTTATACCCTTCTATACCGGCTTTATAACCAAGAAAAA
CACATTTAATAGATCTCGGTTCCAATTTTCCATTATCAACATGAGCATACGCAGGACACCCAAAG
ATCTTTAAATCAGAATAGTCAACAGAATTACTAGACTATACCTTTTGTGGAGTCTTTTTCTCAAT
GGTAACGAATGGAGATCGGTTGATTAAAAAATATGCAGTAGGGGCTGCTTCGGCCCAAAATGACT
TTGGTAAGTTGGCATTTGACAACACATATCAAACCTTCTCCATGATCGTTCTGTTCATTCGTTCT
GCAACGCCGTTTTATTGTAGAGTATGACGAACTGTCAAGTGTCTCACGATCCTTTCTGACTTACA
CAGTTTATTAAACTCATCAGAATATAACTCTAAACCATTGTCTATGCGGAGGTATTTTATTTATT
TTTTATTTATTTTTCAATCATAGTTTTCCAAGACTTAAATACGGAAAACATATCGCTTTTCTGCT
TTAGGAAGAATGCCCA
Found at i:6637734 original size:22 final size:23
Alignment explanation
Indices: 6637699--6637743 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
6637689 ATGTATTATA
*
6637699 ATTATAATATTAATTAATAAAAT
1 ATTATAATATTAATTAAAAAAAT
*
6637722 ATTATTAT-TTAATTAAAAAAAT
1 ATTATAATATTAATTAAAAAAAT
6637744 CATTTAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTATAATATTAATTAAAAAAAT
Found at i:6643176 original size:40 final size:42
Alignment explanation
Indices: 6643086--6643177 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 42
6643076 GCGTTTGGAC
*
6643086 AAAAAACGCCGTTAAAAATTGAGCATTAGCGGCGATTTCAGG
1 AAAAAACGCCGCTAAAAATTGAGCATTAGCGGCGATTTCAGG
* * **
6643128 --GAAGCGCCGCTAAAAA-TGAGCATTAGCGGCG-TTTGTGG
1 AAAAAACGCCGCTAAAAATTGAGCATTAGCGGCGATTTCAGG
6643166 AAAAAACGCCGC
1 AAAAAACGCCGC
6643178 AAATGTTAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
38 5 0.12
39 15 0.37
40 21 0.51
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAATTGAGCATTAGCGGCGATTTCAGG
Found at i:6645090 original size:145 final size:141
Alignment explanation
Indices: 6644917--6645235 Score: 407
Period size: 146 Copynumber: 2.2 Consensus size: 141
6644907 GGTCGAATTT
** * **
6644917 TATTTTTATTTACAAAATC-AAAGTTT-TCTTTAAAAAAATTACTACTTTTCTTAAAAATCGAAA
1 TATTTTTATTTTTAAAATCTAAACTTTCTC-TTAAAAAAAACACTACTTTTCTT-AAAATC-AAA
*
6644980 -C-TTTATTTTCAAAATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAAATTTAAACTTTTCCT
63 GCTTTTATTTT-AAAATAGTTG-AAAAAAATCAAAACTTTATTTT-AAAAATTTAAAC--TT-CT
6645043 TTAAAATGACT-AAAAAACA
122 TTAAAATGACTAAAAAAACA
* *
6645062 TATTTTTA-TTTTAGAAATCTAAACTTTCTCTTAAAAAAAACACTATTTTTCTTAAATTCAAAGC
1 TATTTTTATTTTTA-AAATCTAAACTTTCTCTTAAAAAAAACACTACTTTTCTTAAAATCAAAGC
* *
6645126 TTTTATTTTGAAATAGTTGAAAAAAATCAAAATTTTATTTTAAAAATTTAAACTTCTTTAAAATG
65 TTTTATTTTAAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAAATTTAAACTTCTTTAAAATG
6645191 ACTAAAAAAACA
130 ACTAAAAAAACA
6645203 TATTTTTATTTTTTAAAATCTAAACTTTCTCTT
1 TATTTTTA-TTTTTAAAATCTAAACTTTCTCTT
6645236 TTTTTTTTAA
Statistics
Matches: 156, Mismatches: 10, Indels: 19
0.84 0.05 0.10
Matches are distributed among these distances:
140 13 0.08
141 18 0.12
142 18 0.12
143 17 0.11
144 26 0.17
145 28 0.18
146 34 0.22
147 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (141 bp):
TATTTTTATTTTTAAAATCTAAACTTTCTCTTAAAAAAAACACTACTTTTCTTAAAATCAAAGCT
TTTATTTTAAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAAATTTAAACTTCTTTAAAATGA
CTAAAAAAACA
Found at i:6645458 original size:17 final size:17
Alignment explanation
Indices: 6645436--6645468 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
6645426 GTTTATGACC
6645436 AAAAAAAAAG--ATAGA
1 AAAAAAAAAGAAATAGA
6645451 AAAAAAAAAGAAATAGA
1 AAAAAAAAAGAAATAGA
6645468 A
1 A
6645469 TGCTTGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.62
17 6 0.38
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAGAAATAGA
Found at i:6650664 original size:23 final size:23
Alignment explanation
Indices: 6650606--6650664 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
6650596 AATTAATAAT
* *
6650606 AAAATTATATATTTTAACTTCTA
1 AAAATTATAAAATTTAACTTCTA
* * * *
6650629 AAAATAATTAAATTTAATTTTTA
1 AAAATTATAAAATTTAACTTCTA
6650652 AAAATTATAAAAT
1 AAAATTATAAAAT
6650665 AATATAAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATTATAAAATTTAACTTCTA
Found at i:6662227 original size:2 final size:2
Alignment explanation
Indices: 6662220--6662247 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6662210 TTGATAAGAA
6662220 AT AT 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
6662248 GAAGAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6663180 original size:17 final size:17
Alignment explanation
Indices: 6663160--6663193 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6663150 TAGAATTGGG
*
6663160 TTGAGAAAGTAATTTAA
1 TTGAAAAAGTAATTTAA
*
6663177 TTGAAAAATTAATTTAA
1 TTGAAAAAGTAATTTAA
6663194 ATAAAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
TTGAAAAAGTAATTTAA
Found at i:6666357 original size:2 final size:2
Alignment explanation
Indices: 6666350--6666375 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6666340 AGGAGGAGGA
6666350 AT 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
6666376 GAATATTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6668519 original size:105 final size:101
Alignment explanation
Indices: 6668343--6668559 Score: 283
Period size: 105 Copynumber: 2.1 Consensus size: 101
6668333 AATTGATGGA
* * * * *
6668343 TAAGACCATGGTTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGGCTGTGGTATTCTGA
1 TAAGACCATGGTTGGACCATGACAGTATGTATATGTAAGACCATAGCTGGGCTATGGCATCCTGA
* *
6668408 TGATAAGATCATAACTGAGTTATGGCACAT-TGAATG
66 TAATAAGACCATAACTGAGTTATGGCA-ATATGAATG
*
6668444 TAAGACCATGGTTGGACCATGGCAGTAAATGTATACGTGTAAGACCATAGCTGGGCTATGGCATC
1 TAAGACCATGGTTGGACCATGACAGT--ATGTATA--TGTAAGACCATAGCTGGGCTATGGCATC
* * *
6668509 CTGATAATAAGACCATAACTGGGTTATGGCATTATGAGTG
62 CTGATAATAAGACCATAACTGAGTTATGGCAATATGAATG
6668549 TAAGACCATGG
1 TAAGACCATGG
6668560 CAGGGCCATG
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
101 25 0.25
103 5 0.05
104 1 0.01
105 69 0.69
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTATGTATATGTAAGACCATAGCTGGGCTATGGCATCCTGA
TAATAAGACCATAACTGAGTTATGGCAATATGAATG
Found at i:6668553 original size:33 final size:33
Alignment explanation
Indices: 6668480--6668557 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
6668470 AAATGTATAC
* *
6668480 GTGTAAGACCATAGCTGGGCTATGGCATCCTGA
1 GTGTAAGACCATAACTGGGCTATGGCATCATGA
* * *
6668513 -TAATAAGACCATAACTGGGTTATGGCATTATGA
1 GT-GTAAGACCATAACTGGGCTATGGCATCATGA
6668546 GTGTAAGACCAT
1 GTGTAAGACCAT
6668558 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 1 0.03
33 35 0.95
34 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (33 bp):
GTGTAAGACCATAACTGGGCTATGGCATCATGA
Found at i:6670002 original size:5 final size:5
Alignment explanation
Indices: 6669994--6670027 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
6669984 TTTAAATTAA
6669994 AAAAT AAAAT AAAAT AAAAT -AAAT AAAACT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAA
6670028 GTAATTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6679989 original size:21 final size:21
Alignment explanation
Indices: 6679933--6680010 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
6679923 ACTTGGATTT
* *
6679933 AAATTAAATAATTTTAATATA
1 AAATTATATAAATTTAATATA
* * * *
6679954 TATTTATTTATATTTAATTATA
1 AAATTATATAAATTTAA-TATA
6679976 AAA-TATATAAATTTAATATA
1 AAATTATATAAATTTAATATA
*
6679996 AAATTATATATATTT
1 AAATTATATAAATTT
6680011 TTTATTATTT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
20 7 0.16
21 32 0.73
22 5 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATTATATAAATTTAATATA
Found at i:6685678 original size:40 final size:40
Alignment explanation
Indices: 6685585--6685701 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 40
6685575 AGTTTGGATA
* * * *
6685585 AAAAACGCCGTTAAAAATC-AATCATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAAATCGAGT-ATTAGCGGCGCTTTCTG
* * * *
6685625 TAAAGCGCTGCTAAAGATCGAGTATTAGCGGCGCTTTCTG
1 AAAAACGCCGCTAAAAATCGAGTATTAGCGGCGCTTTCTG
* * *
6685665 AAAAACGCCGCTAAAAAT-GAGCATTAGCCGCGTTTTC
1 AAAAACGCCGCTAAAAATCGAGTATTAGCGGCGCTTTC
6685702 CAATAAGCGC
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
39 16 0.26
40 43 0.70
41 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGTATTAGCGGCGCTTTCTG
Found at i:6685860 original size:38 final size:41
Alignment explanation
Indices: 6685771--6685864 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 41
6685761 TAGTAGCATT
* * *
6685771 TTTTTTAAAAAGCGCCGCTAATGCTTGTGTCTTTAGCGGCG
1 TTTTTAAAAAAGCGCCGCTAATGCTTCTATCTTTAGCGGCG
*
6685812 TTTTTAAAAAAGCGCCGCTAATGC-TCTAT-TTTA-TGGCG
1 TTTTTAAAAAAGCGCCGCTAATGCTTCTATCTTTAGCGGCG
*
6685850 TTTTTGAAAAAGCGC
1 TTTTTAAAAAAGCGC
6685865 TGCAAATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 18 0.38
39 4 0.08
40 3 0.06
41 23 0.48
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTTAAAAAAGCGCCGCTAATGCTTCTATCTTTAGCGGCG
Found at i:6686256 original size:22 final size:21
Alignment explanation
Indices: 6686185--6686284 Score: 58
Period size: 22 Copynumber: 4.7 Consensus size: 21
6686175 TTAAGGTTTT
* * *
6686185 TGGTTTAGGGTATATGGTTTA
1 TGGTTTAAGGTTTATGATTTA
** * *
6686206 AAGTTTAAGGTTTAGGAGTTA
1 TGGTTTAAGGTTTATGATTTA
**
6686227 CTATTTTAAGGTTTATGGA-TTA
1 -TGGTTTAAGGTTTAT-GATTTA
* *
6686249 TGGGTTTAGGGGTTATGATTTA
1 T-GGTTTAAGGTTTATGATTTA
*
6686271 TGGTTTATGGTTTA
1 TGGTTTAAGGTTTA
6686285 AAGGCCGGGG
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
21 28 0.47
22 29 0.49
23 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (21 bp):
TGGTTTAAGGTTTATGATTTA
Found at i:6686277 original size:7 final size:7
Alignment explanation
Indices: 6686168--6686284 Score: 58
Period size: 7 Copynumber: 16.4 Consensus size: 7
6686158 TTAATTATCA
*
6686168 TTATAGT
1 TTATGGT
*
6686175 TTAAGGT
1 TTATGGT
*
6686182 TTTTGGT
1 TTATGGT
*
6686189 TTAGGGT
1 TTATGGT
*
6686196 ATATGGT
1 TTATGGT
**
6686203 TTAAAGT
1 TTATGGT
*
6686210 TTAAGGT
1 TTATGGT
*
6686217 TTAGGAGT
1 TTATG-GT
6686225 TACTAT--T
1 T--TATGGT
*
6686232 TTAAGGT
1 TTATGGT
*
6686239 TTATGGA
1 TTATGGT
6686246 TTATGGGT
1 TTAT-GGT
* *
6686254 TTAGGGG
1 TTATGGT
*
6686261 TTATGAT
1 TTATGGT
6686268 TTATGGT
1 TTATGGT
6686275 TTATGGT
1 TTATGGT
6686282 TTA
1 TTA
6686285 AAGGCCGGGG
Statistics
Matches: 80, Mismatches: 24, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
5 2 0.03
7 68 0.85
8 8 0.10
10 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:6687047 original size:13 final size:15
Alignment explanation
Indices: 6687019--6687050 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
6687009 CTCGTATTAT
6687019 TATTAATTTAATATA
1 TATTAATTTAATATA
6687034 TATTAA-TT-ATATA
1 TATTAATTTAATATA
6687047 TATT
1 TATT
6687051 TTTCATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATTTAATATA
Found at i:6690525 original size:43 final size:43
Alignment explanation
Indices: 6690458--6690544 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
6690448 CAATGATGTA
* * *
6690458 CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
* * *
6690501 CAAGATTTACTTGATTAGGAAAATGCATTGTATGTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
6690544 C
1 C
6690545 TTGCATATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
Found at i:6690975 original size:43 final size:44
Alignment explanation
Indices: 6690806--6691240 Score: 425
Period size: 43 Copynumber: 10.2 Consensus size: 44
6690796 GATATGTTTT
* * *
6690806 TAGCGGCGTTTGTGTGAAAAGCGCTGCT-AAAGGT-TTGATCT-
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
* * * *
6690847 TAGCGGCGTTTGTGGGAAAAGTGTCG-TTAAAGGT-TTGATCT-
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
* * *
6690888 TAGCGGCGTTTGTGGGAAAAGTGTCG-TTAAAGGT-TTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
** *
6690930 TAATGGCGTTTGTGGGAAAAGCGTCGCTAAAAGGT-TTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
* ** *
6690973 TAACGGCGTTTGTGGGAAAAGCGCCGCTAAAA-GTGATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
* * * ** *
6691016 TAGCGGCATTTGTGGGAAAAGCGCCGTTAAAA-GTCATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
* ** * *
6691059 TAGCAGCGTTTGT-GGAAAAATGCCGCTAAAA-GTCGTGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
* * *
6691101 TAGCAGCGTTTGTGTGAAAAGCGCCGCT-AAAGGTCGTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
* **
6691144 TAGCGGCGTTTGTGTGAAAAGCGCCGCT-AAAGGTAGTGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
* * *
6691187 TAGCGGCGTTTGTGTGAAAAGCGCCGCT-AAAGGTCCTGTTTTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
6691230 TAGCGGCGTTT
1 TAGCGGCGTTT
6691241 ATTTCTAAAA
Statistics
Matches: 352, Mismatches: 36, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.00
41 75 0.21
42 64 0.18
43 212 0.60
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.30
Consensus pattern (44 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTTGTTCTA
Found at i:6691123 original size:171 final size:168
Alignment explanation
Indices: 6690809--6691217 Score: 500
Period size: 171 Copynumber: 2.4 Consensus size: 168
6690799 ATGTTTTTAG
* * * *
6690809 CGGCGTTTGTGTGAAAAGCGCTGCTAAAGGTTTGATCT-TAGCGGCGTTTGTGGGAAAAGTGTCG
1 CGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
* * * * * * * * * **
6690873 TTAAAGGTTTGATCTTAGCGGCGTTTGTGGGAAAAGTGTCGTTAAAGGTTTGTTCTATAATGGCG
66 TTAAAAGTATGACCTTAGCAGCGTTTGTGGGAAAAATGCCGCTAAAAGTGTGTTCTATAACAGCG
* *
6690938 TTTGTGGGAAAAGCGTCGCTAAAAGGT-TTGTTCTATAA
131 TTTGTGGGAAAAGCGCCGCT-AAAGGTCGTGTTCTATAA
* * *
6690976 CGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTGATGATCTATAGCGGCATTTGTGGGAAAAGCGCC
1 CGGCGTTTGTGTGAAAAGCGCCGCTAAAGGT-ATGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
* *
6691041 GTTAAAAGTCATGACCTTTAGCAGCGTTTGT-GGAAAAATGCCGCTAAAAGTCGTGTTCTTTAGC
65 GTTAAAAGT-ATGACC-TTAGCAGCGTTTGTGGGAAAAATGCCGCTAAAAGT-GTGTTCTATAAC
* *
6691105 AGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCGTGTTCTATAG
127 AGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGTTCTATAA
* *
6691147 CGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTAGTGTTCTATAGCGGCGTTTGTGTGAAAAGCGCC
1 CGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTA-TGATCTATAGCGGCGTTTGTGGGAAAAGCGCC
*
6691212 GCTAAA
65 GTTAAA
6691218 GGTCCTGTTT
Statistics
Matches: 205, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
167 28 0.14
168 6 0.03
169 30 0.15
170 27 0.13
171 114 0.56
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (168 bp):
CGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCG
TTAAAAGTATGACCTTAGCAGCGTTTGTGGGAAAAATGCCGCTAAAAGTGTGTTCTATAACAGCG
TTTGTGGGAAAAGCGCCGCTAAAGGTCGTGTTCTATAA
Found at i:6693677 original size:12 final size:12
Alignment explanation
Indices: 6693647--6693671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6693637 AAATACAGAA
6693647 AAGAAAAGAAAC
1 AAGAAAAGAAAC
6693659 AAGAAAAGAAAC
1 AAGAAAAGAAAC
6693671 A
1 A
6693672 TAAAAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (12 bp):
AAGAAAAGAAAC
Found at i:6696127 original size:15 final size:15
Alignment explanation
Indices: 6696107--6696137 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6696097 ACATCTACCG
6696107 AAATAGACGAATTAC
1 AAATAGACGAATTAC
6696122 AAATAGACGAATTAC
1 AAATAGACGAATTAC
6696137 A
1 A
6696138 TACAACACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:6705290 original size:24 final size:22
Alignment explanation
Indices: 6705251--6705298 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
6705241 TTATTTATAT
*
6705251 AATTTTAAAAATACACATTAAA
1 AATTTTAAAAAAACACATTAAA
6705273 AATTATTAAAAAGAACACATTAAA
1 AATT-TTAAAAA-AACACATTAAA
6705297 AA
1 AA
6705299 ACTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 7 0.30
24 12 0.52
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (22 bp):
AATTTTAAAAAAACACATTAAA
Found at i:6705304 original size:25 final size:23
Alignment explanation
Indices: 6705255--6705309 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
6705245 TTATATAATT
* *
6705255 TTAAAAATACACATTAAAAATTA
1 TTAAAAAAACACATTAAAAACTA
6705278 TTAAAAAGAACACATTAAAAAACTA
1 TTAAAAA-AACACATT-AAAAACTA
*
6705303 TTTAAAA
1 TTAAAAA
6705310 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 13 0.48
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (23 bp):
TTAAAAAAACACATTAAAAACTA
Found at i:6705307 original size:26 final size:24
Alignment explanation
Indices: 6705254--6705309 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
6705244 TTTATATAAT
* *
6705254 TTTAAAAATACACATTAAAAATTA
1 TTTAAAAAAACACATTAAAAACTA
6705278 -TTAAAAAGAACACATTAAAAAACTA
1 TTTAAAAA-AACACATT-AAAAACTA
6705303 TTTAAAA
1 TTTAAAA
6705310 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 7 0.26
26 6 0.22
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.29
Consensus pattern (24 bp):
TTTAAAAAAACACATTAAAAACTA
Found at i:6705779 original size:25 final size:28
Alignment explanation
Indices: 6705726--6705812 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 28
6705716 CAAATATCTT
* *
6705726 TAAAATTTTAAAAATCAAAATATAAATA
1 TAAAATATAAAAAATCAAAATATAAATA
**
6705754 T-AAAT-TAAAAAATCAAAAT-TTTATA
1 TAAAATATAAAAAATCAAAATATAAATA
*
6705779 TAAAATATAAAAAAATC-ATATATAATATA
1 TAAAATAT-AAAAAATCAAAATATAA-ATA
6705808 TAAAA
1 TAAAA
6705813 ATTCAAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
25 5 0.10
26 17 0.35
27 8 0.17
28 10 0.21
29 8 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (28 bp):
TAAAATATAAAAAATCAAAATATAAATA
Found at i:6705791 original size:20 final size:21
Alignment explanation
Indices: 6705768--6705813 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
6705758 TTAAAAAATC
*
6705768 AAAATTTTATATAAAATATAAA
1 AAAATTATATATAAAATAT-AA
* *
6705790 AAAATCATATATAATATATAA
1 AAAATTATATATAAAATATAA
6705811 AAA
1 AAA
6705814 TTCAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTATATATAAAATATAA
Found at i:6705814 original size:20 final size:20
Alignment explanation
Indices: 6705776--6705814 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6705766 TCAAAATTTT
6705776 ATATAAAATATAAAAAAATC
1 ATATAAAATATAAAAAAATC
* *
6705796 ATATATAATATATAAAAAT
1 ATATAAAATATAAAAAAAT
6705815 TCAAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATAAAATATAAAAAAATC
Found at i:6714797 original size:64 final size:64
Alignment explanation
Indices: 6714729--6714856 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
6714719 ATTAATGGAC
* *
6714729 TCTTCTTCTGAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
1 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
6714793 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
1 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
6714857 CAAAAGCACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (64 bp):
TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
Found at i:6726169 original size:17 final size:17
Alignment explanation
Indices: 6726149--6726187 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
6726139 TTCATTTAAT
6726149 TTTTTTTTAA-ATTTTTA
1 TTTTTTTTAATA-TTTTA
6726166 TTTTTTTTAATATTTTA
1 TTTTTTTTAATATTTTA
6726183 TTTTT
1 TTTTT
6726188 GAATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTAATATTTTA
Found at i:6726170 original size:18 final size:18
Alignment explanation
Indices: 6726142--6726187 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
6726132 TGAGTACTTC
*
6726142 ATTTAATTTTTTTTTAA-
1 ATTTTATTTTTTTTTAAT
6726159 ATTTT-TATTTTTTTTAAT
1 ATTTTAT-TTTTTTTTAAT
6726177 ATTTTATTTTT
1 ATTTTATTTTT
6726188 GAATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.04
17 14 0.56
18 9 0.36
19 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTATTTTTTTTTAAT
Found at i:6726196 original size:33 final size:30
Alignment explanation
Indices: 6726147--6726208 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
6726137 ACTTCATTTA
**
6726147 ATTTTTTTTTAAATTTTTATTTTTTTTAAT
1 ATTTTTTTTTAAATTTTTATAATTTTTAAT
6726177 ATTTTATTTTTGAATATTTTTATAATTTTTAA
1 ATTTT-TTTTT-AA-ATTTTTATAATTTTTAA
6726209 ATTATTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 5 0.19
31 5 0.19
32 2 0.07
33 15 0.56
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (30 bp):
ATTTTTTTTTAAATTTTTATAATTTTTAAT
Found at i:6728292 original size:44 final size:44
Alignment explanation
Indices: 6728244--6728336 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
6728234 GAACATAAAA
* * *
6728244 GAATGAAAATGATGAAGTTATAGATATGAGTTGTACTAACAAAT
1 GAATGAAAATGATGAAGTTAGAGAAATGAGTCGTACTAACAAAT
* * *
6728288 GAATGGAAATGATGAAGTTAGAGAAATGAGTCGTATTCACAAAT
1 GAATGAAAATGATGAAGTTAGAGAAATGAGTCGTACTAACAAAT
6728332 GAATG
1 GAATG
6728337 CATTTTCTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (44 bp):
GAATGAAAATGATGAAGTTAGAGAAATGAGTCGTACTAACAAAT
Found at i:6734912 original size:4 final size:4
Alignment explanation
Indices: 6734903--6734931 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
6734893 ATCATTGGCA
6734903 TGTT TGTT TGTT TGTT TGTT TGTT T-TT TG
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TG
6734932 CAGTCTGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:6735398 original size:16 final size:16
Alignment explanation
Indices: 6735377--6735429 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
6735367 TGGGTTCGCT
6735377 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
6735393 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
6735409 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
6735425 GTAAT
1 GTAAT
6735430 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.04, G:0.36, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:6735680 original size:16 final size:16
Alignment explanation
Indices: 6735643--6735684 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6735633 TTAATCATAT
*
6735643 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
6735659 TT-AAATATATTATAA
1 TTAAAATATATTATAA
6735674 TTAAAATATAT
1 TTAAAATATAT
6735685 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:6735691 original size:14 final size:15
Alignment explanation
Indices: 6735652--6735693 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6735642 TTTAAACATA
*
6735652 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6735667 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6735681 A-TATAATTTAATA
1 ATTATAATTAAATA
6735694 AAATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:6735802 original size:16 final size:16
Alignment explanation
Indices: 6735758--6735804 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6735748 TACTATAAAA
*
6735758 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
6735774 TATTATT-AAATATAT
1 TATAATTAAAATATAT
6735789 TATAATTAAAATATAT
1 TATAATTAAAATATAT
6735805 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:6735922 original size:16 final size:16
Alignment explanation
Indices: 6735878--6735924 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6735868 TACTATAAAA
*
6735878 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
6735894 TATTATT-AAATATAT
1 TATAATTAAAATATAT
6735909 TATAATTAAAATATAT
1 TATAATTAAAATATAT
6735925 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:6736042 original size:16 final size:16
Alignment explanation
Indices: 6735998--6736044 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6735988 TACTATAAAA
*
6735998 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
6736014 TATTATT-AAATATAT
1 TATAATTAAAATATAT
6736029 TATAATTAAAATATAT
1 TATAATTAAAATATAT
6736045 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:6736292 original size:120 final size:120
Alignment explanation
Indices: 6735641--6736277 Score: 1141
Period size: 120 Copynumber: 5.3 Consensus size: 120
6735631 ATTTAATCAT
6735641 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
*
6735706 ATCAATATTCTTATATGAATTTACTCAAATCAAAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
6735762 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
6735827 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
**
6735882 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCCTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
*
6735947 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
6736002 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
* *
6736067 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
6736122 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATAAAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
*
6736187 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
6736242 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAA
6736278 TATTAAATAA
Statistics
Matches: 501, Mismatches: 14, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
120 495 0.99
121 6 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:6736676 original size:39 final size:39
Alignment explanation
Indices: 6736612--6736786 Score: 193
Period size: 39 Copynumber: 4.5 Consensus size: 39
6736602 GGCCCATTTT
*
6736612 TATTTTAAAAATTTTAAAAAATTAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAGTATTTTAAAAA
*
6736653 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAT
1 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
*
6736692 TATTTTAAAATT-----AA--AAAAAATTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
* **
6736724 TATTTAAAAATTTAAAAAAAAATTAAAAAAGTATGTAAAAAAA
1 TATTTTAAAA-TT--AAAAAAATTAAAAAAGTAT-TTTAAAAA
6736767 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
6736787 AAATATATTT
Statistics
Matches: 114, Mismatches: 9, Indels: 23
0.78 0.06 0.16
Matches are distributed among these distances:
32 25 0.22
33 2 0.02
34 2 0.02
39 39 0.34
40 14 0.12
41 6 0.05
42 11 0.10
43 15 0.13
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:6736703 original size:11 final size:11
Alignment explanation
Indices: 6736611--6736735 Score: 61
Period size: 11 Copynumber: 12.2 Consensus size: 11
6736601 CGGCCCATTT
6736611 TTATTTTAAAA
1 TTATTTTAAAA
6736622 --ATTTTAAAA
1 TTATTTTAAAA
* **
6736631 -AATTAAAAAA
1 TTATTTTAAAA
*
6736641 GTATTTTAAAA
1 TTATTTTAAAA
*
6736652 ATATTTTAAAA
1 TTATTTTAAAA
6736663 TTA----AAAA
1 TTATTTTAAAA
* **
6736670 -AATTAAAAAA
1 TTATTTTAAAA
*
6736680 GTATTTTAAAA
1 TTATTTTAAAA
6736691 TTATTTTAAAA
1 TTATTTTAAAA
***
6736702 TTA-AAAAAAA
1 TTATTTTAAAA
6736712 TTATTTTAAAA
1 TTATTTTAAAA
* *
6736723 ATATTTAAAAA
1 TTATTTTAAAA
6736734 TT
1 TT
6736736 TAAAAAAAAA
Statistics
Matches: 85, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
6 1 0.01
7 4 0.05
9 9 0.11
10 18 0.21
11 53 0.62
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:6736717 original size:32 final size:33
Alignment explanation
Indices: 6736674--6736744 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 33
6736664 TAAAAAAATT
* *
6736674 AAAAAAGTATTTTAAAATTATTTTAAAA-TTAA
1 AAAAAAGTATTTTAAAAATATTTAAAAATTTAA
*
6736706 AAAAAATTATTTTAAAAATATTTAAAAATTTAA
1 AAAAAAGTATTTTAAAAATATTTAAAAATTTAA
6736739 AAAAAA
1 AAAAAA
6736745 ATTAAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 25 0.71
33 10 0.29
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (33 bp):
AAAAAAGTATTTTAAAAATATTTAAAAATTTAA
Found at i:6737934 original size:25 final size:25
Alignment explanation
Indices: 6737900--6737951 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
6737890 AAGAATCAGT
* *
6737900 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAAACAGGACTGGTGA
6737925 AAACTTAAACAAACAGGACTGGTGA
1 AAACTTAAACAAACAGGACTGGTGA
6737950 AA
1 AA
6737952 TATAAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (25 bp):
AAACTTAAACAAACAGGACTGGTGA
Found at i:6738301 original size:137 final size:138
Alignment explanation
Indices: 6738052--6738322 Score: 438
Period size: 137 Copynumber: 2.0 Consensus size: 138
6738042 AACTTAAAAT
* * *
6738052 TGAAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAG
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
* * *
6738117 CTACAAAAGTAATTTAACAATATCATGTGGCAACAAGTTCACCTGAAAGTG-AGATATGAAAGAT
66 CTACAAAAGTAATTTAACAATATCATGTAGCAACAAGTTCACATGAAAGTGCA-ATATGAAAGAC
6738181 ATGCCCAAA
130 ATGCCCAAA
* *
6738190 TGAAATCATTTATGGCATGAGTTACATTCAAAATAACAATAAA-AAAAGATGGATATAACACTAA
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
*
6738254 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
66 CTACAAAAGTAATTTAACAATATCATGTAGCAACAAGTTCACATGAAAGTGCAATATGAAAGACA
6738319 TGCC
131 TGCC
6738323 ATTTTCTGAA
Statistics
Matches: 123, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 82 0.67
138 41 0.33
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (138 bp):
TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
CTACAAAAGTAATTTAACAATATCATGTAGCAACAAGTTCACATGAAAGTGCAATATGAAAGACA
TGCCCAAA
Found at i:6777402 original size:79 final size:79
Alignment explanation
Indices: 6777284--6777429 Score: 233
Period size: 79 Copynumber: 1.8 Consensus size: 79
6777274 CTCAACATGA
* *
6777284 TTTTTTTACTAATTTTTCTCTTTTGAAATATAATATACATTATAAAAAAAA-ATTAACACATAAA
1 TTTTTTTACTAATTTTTCTCTTTTAAAACATAATATACATTATAAAAAAAATATTAACACATAAA
6777348 ATTCAACATTGTTT
66 ATTCAACATTGTTT
*
6777362 TTTTTATTACT-ATTTTTACTCTTTTAAAACATAATATACATTGTAAAAAAAATATTAACACATA
1 TTTTT-TTACTAATTTTT-CTCTTTTAAAACATAATATACATTATAAAAAAAATATTAACACATA
6777426 AAAT
64 AAAT
6777430 AAAGACAACT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
78 11 0.18
79 36 0.58
80 15 0.24
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (79 bp):
TTTTTTTACTAATTTTTCTCTTTTAAAACATAATATACATTATAAAAAAAATATTAACACATAAA
ATTCAACATTGTTT
Found at i:6785068 original size:32 final size:32
Alignment explanation
Indices: 6785026--6785086 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
6785016 TTTTTTGAAA
6785026 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
6785058 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
6785087 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:6785079 original size:20 final size:20
Alignment explanation
Indices: 6785045--6785086 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6785035 AACTATTTAA
** *
6785045 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
6785065 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
6785085 AT
1 AT
6785087 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:6796486 original size:18 final size:18
Alignment explanation
Indices: 6796440--6796497 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
6796430 TGCAAACCTG
*
6796440 TATGCATGTGCGAACCCA
1 TATGTATGTGCGAACCCA
**
6796458 TAAACTATGTGCGAACCCA
1 T-ATGTATGTGCGAACCCA
*
6796477 TATGTATGTGTGAACCC-
1 TATGTATGTGCGAACCCA
6796494 TATG
1 TATG
6796498 ATAAGCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 4 0.12
18 14 0.42
19 15 0.45
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (18 bp):
TATGTATGTGCGAACCCA
Found at i:6796588 original size:18 final size:18
Alignment explanation
Indices: 6796533--6796589 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
6796523 ATGTGAGCTT
*
6796533 ATATAGATGTGCAAACCC
1 ATATACATGTGCAAACCC
* * * * *
6796551 CTGTAC-TATGCGAGCCC
1 ATATACATGTGCAAACCC
6796568 ATATACATGTGCAAACCC
1 ATATACATGTGCAAACCC
6796586 ATAT
1 ATAT
6796590 GTTATTGTGA
Statistics
Matches: 27, Mismatches: 11, Indels: 2
0.68 0.28 0.05
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATACATGTGCAAACCC
Found at i:6799083 original size:84 final size:84
Alignment explanation
Indices: 6798984--6799149 Score: 305
Period size: 84 Copynumber: 2.0 Consensus size: 84
6798974 GTGATAAGAG
* * *
6798984 AATGATTAAGTCTTATAATTGTATGAGATGTTGAGGGTGTTGGAACATTATTAAAATAAGTTGAT
1 AATGATTAAGTCTTATAATTGCATGAGATGTTGAGGATGTTGGAACACTATTAAAATAAGTTGAT
6799049 AATATAAAAGAAGATAAAT
66 AATATAAAAGAAGATAAAT
6799068 AATGATTAAGTCTTATAATTGCATGAGATGTTGAGGATGTTGGAACACTATTAAAATAAGTTGAT
1 AATGATTAAGTCTTATAATTGCATGAGATGTTGAGGATGTTGGAACACTATTAAAATAAGTTGAT
6799133 AATATAAAAGAAGATAA
66 AATATAAAAGAAGATAA
6799150 GTAGATTTAA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (84 bp):
AATGATTAAGTCTTATAATTGCATGAGATGTTGAGGATGTTGGAACACTATTAAAATAAGTTGAT
AATATAAAAGAAGATAAAT
Found at i:6800134 original size:164 final size:164
Alignment explanation
Indices: 6799838--6800168 Score: 396
Period size: 164 Copynumber: 2.0 Consensus size: 164
6799828 TTTATTATTC
* * **
6799838 AATAGAGGCCCAACGTAAACTTAATAAAACATATTGGGTATATGAAAACAGTACAGCAATGCACC
1 AATAGAGGCCCAACGTAAACTTAACAAAACATATAGGGTATACAAAAACAGTACAGCAATGCACC
* * *
6799903 GAAGTGCAAGTACAGAATAAGATGGCACCAAAGTGCGTATCCAAAACAGGACAACATTAAAATGC
66 AAAGTGCAAATACAGAACAAGATGGCACCAAAGTGCGTATCCAAAACAGGACAACATTAAAATGC
6799968 GTATTCAGAACAGAAAGCGCAAT-AAATTTTCCTT
131 GTATTCAGAACAGAAAGCGCAATAAAATTTT-CTT
* * * * * *
6800002 AATATAGGCCCAACTTAGACTTAACAAAACGTATAGGGTATACAAAAATAGTACAGTAATGCACC
1 AATAGAGGCCCAACGTAAACTTAACAAAACATATAGGGTATACAAAAACAGTACAGCAATGCACC
* * * * * * * * *
6800067 AAAGTGCAAATATAGAACAGGATGGCACCGAAA-TGCGTGTTCAGAATAGGACAGCATTGATATG
66 AAAGTGCAAATACAGAACAAGATGGCACC-AAAGTGCGTATCCAAAACAGGACAACATTAAAATG
* * **
6800131 CGTATTTAGAACAGAGAGCGCGCTAAAATTTTCTT
130 CGTATTCAGAACAGAAAGCGCAATAAAATTTTCTT
6800166 AAT
1 AAT
6800169 GGCATGCCAT
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
164 129 0.93
165 10 0.07
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (164 bp):
AATAGAGGCCCAACGTAAACTTAACAAAACATATAGGGTATACAAAAACAGTACAGCAATGCACC
AAAGTGCAAATACAGAACAAGATGGCACCAAAGTGCGTATCCAAAACAGGACAACATTAAAATGC
GTATTCAGAACAGAAAGCGCAATAAAATTTTCTT
Found at i:6806960 original size:14 final size:15
Alignment explanation
Indices: 6806943--6806972 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6806933 AAAATCGACT
6806943 ATTAAAAATA-TTAA
1 ATTAAAAATACTTAA
6806957 ATTAAAAATACTTAA
1 ATTAAAAATACTTAA
6806972 A
1 A
6806973 ATTTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTAAAAATACTTAA
Found at i:6807750 original size:18 final size:18
Alignment explanation
Indices: 6807714--6807751 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6807704 TTTTCAGTTA
*
6807714 TTTTTAATTTAATTATTT
1 TTTTTAATTTAAATATTT
6807732 TTTTTAATTTGAAAT-TTT
1 TTTTTAATTT-AAATATTT
6807750 TT
1 TT
6807752 GTGTAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTAAATATTT
Found at i:6814440 original size:18 final size:18
Alignment explanation
Indices: 6814417--6814452 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6814407 ATAATTTATT
6814417 TTTTTATTATACTTTTTA
1 TTTTTATTATACTTTTTA
6814435 TTTTTATTATACTTTTTA
1 TTTTTATTATACTTTTTA
6814453 GTAACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATTATACTTTTTA
Found at i:6815395 original size:34 final size:34
Alignment explanation
Indices: 6815349--6815432 Score: 132
Period size: 34 Copynumber: 2.5 Consensus size: 34
6815339 ATCATTAGAA
6815349 AACTTTACCTTCAAGGTGAGCTTCACTCTATTAC
1 AACTTTACCTTCAAGGTGAGCTTCACTCTATTAC
* * *
6815383 AATTTTGCCTTCAAGGTGAGCTTCGCTCTATTAC
1 AACTTTACCTTCAAGGTGAGCTTCACTCTATTAC
*
6815417 AACTTTACTTTCAAGG
1 AACTTTACCTTCAAGG
6815433 CAAGTTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (34 bp):
AACTTTACCTTCAAGGTGAGCTTCACTCTATTAC
Found at i:6816142 original size:29 final size:29
Alignment explanation
Indices: 6816109--6816173 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
6816099 AGACTCCACC
*
6816109 TCCACCAAATAAG-CAACCTTTGCCAAGAT
1 TCCACCAAATAAGAAAACC-TTGCCAAGAT
*
6816138 TCCACC-TATAAGAAAACCTTGCCAAGAT
1 TCCACCAAATAAGAAAACCTTGCCAAGAT
6816166 TCCACCAA
1 TCCACCAA
6816174 TCTTCATGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.20
Consensus pattern (29 bp):
TCCACCAAATAAGAAAACCTTGCCAAGAT
Found at i:6819589 original size:18 final size:18
Alignment explanation
Indices: 6819566--6819602 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6819556 ATTAAGTGGA
6819566 TTTAATATT-GTAATATTT
1 TTTAATATTAGT-ATATTT
6819584 TTTAATATTAGTATATTT
1 TTTAATATTAGTATATTT
6819602 T
1 T
6819603 ATATTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTAATATTAGTATATTT
Found at i:6819607 original size:7 final size:7
Alignment explanation
Indices: 6819595--6819619 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6819585 TTAATATTAG
6819595 TATATTT
1 TATATTT
6819602 TATATTT
1 TATATTT
6819609 TATATTT
1 TATATTT
6819616 TATA
1 TATA
6819620 AATATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TATATTT
Found at i:6824507 original size:15 final size:15
Alignment explanation
Indices: 6824483--6824525 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6824473 CATTTCAAAG
* *
6824483 ATAAATCCTAATTCC
1 ATAAACCCTAATTAC
*
6824498 CTAAACCCTAATTAC
1 ATAAACCCTAATTAC
6824513 ATAAACCCATAAT
1 ATAAACCC-TAAT
6824526 CTTATGCGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAACCCTAATTAC
Found at i:6824790 original size:108 final size:108
Alignment explanation
Indices: 6824601--6824816 Score: 432
Period size: 108 Copynumber: 2.0 Consensus size: 108
6824591 CATTCGAAAA
6824601 CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
1 CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
6824666 GATTACTCGTAATCAGCTAGGAAGTTCTTTTTGCACCATCTTT
66 GATTACTCGTAATCAGCTAGGAAGTTCTTTTTGCACCATCTTT
6824709 CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
1 CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
6824774 GATTACTCGTAATCAGCTAGGAAGTTCTTTTTGCACCATCTTT
66 GATTACTCGTAATCAGCTAGGAAGTTCTTTTTGCACCATCTTT
6824817 TACAATGCCC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (108 bp):
CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
GATTACTCGTAATCAGCTAGGAAGTTCTTTTTGCACCATCTTT
Found at i:6827428 original size:22 final size:21
Alignment explanation
Indices: 6827367--6827429 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
6827357 TTTTTGACCC
6827367 TTTAAAATTT-TGACTCTAATTTT
1 TTTAAAATTTAT--CTC-AATTTT
*
6827390 TTTAAAATTTCTCTCAATTTT
1 TTTAAAATTTATCTCAATTTT
* *
6827411 TTTTAACTTTATCGTCAAT
1 TTTAAAATTTATC-TCAAT
6827430 ATGCTTTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 16 0.46
22 8 0.23
23 10 0.29
24 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTAAAATTTATCTCAATTTT
Found at i:6829645 original size:14 final size:14
Alignment explanation
Indices: 6829623--6829659 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6829613 ATTTCACTGG
6829623 AAATGATTTCTAGA
1 AAATGATTTCTAGA
*
6829637 AAATAATTTCTAGA
1 AAATGATTTCTAGA
6829651 AAATGATTT
1 AAATGATTT
6829660 ACTTTCTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (14 bp):
AAATGATTTCTAGA
Found at i:6830263 original size:18 final size:18
Alignment explanation
Indices: 6830208--6830268 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
6830198 AATATGCATG
*
6830208 TTTAATAATATTGAAA-AA
1 TTTAATAAT-TTTAAATAA
*
6830226 TATAATAATTTATATTAATAA
1 TTTAATAATTT-TA--AATAA
6830247 TTTAATAATTTTAAAT-A
1 TTTAATAATTTTAAATAA
6830264 TTTAA
1 TTTAA
6830269 AAAATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.22
18 12 0.33
20 4 0.11
21 12 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTAATAATTTTAAATAA
Found at i:6830295 original size:42 final size:46
Alignment explanation
Indices: 6830214--6830302 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 46
6830204 CATGTTTAAT
* *
6830214 AATATTGAAAAATATAATAATTTATATTAATAATTTAATAATTTTA
1 AATATTGAAAAATATAATAATTTATATTAATAATATAATAATATTA
*
6830260 AATATTTAAAAA-ATAA-AA-TT-TATT-ATCAATATAATAATATTA
1 AATATTGAAAAATATAATAATTTATATTAAT-AATATAATAATATTA
6830302 A
1 A
6830303 GCTTGGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
41 2 0.05
42 18 0.46
43 2 0.05
44 2 0.05
45 4 0.10
46 11 0.28
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (46 bp):
AATATTGAAAAATATAATAATTTATATTAATAATATAATAATATTA
Found at i:6833960 original size:20 final size:20
Alignment explanation
Indices: 6833935--6833986 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
6833925 GAAAAAGTTG
6833935 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
6833955 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
6833973 TTTTTACATATATT
1 TTTTTACATATATT
6833987 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:6837847 original size:37 final size:39
Alignment explanation
Indices: 6837804--6838097 Score: 135
Period size: 38 Copynumber: 7.4 Consensus size: 39
6837794 TGCTTAATTG
6837804 TTTTATTAAATTATATAAGAATAT-TAAT-TATTAATAA
1 TTTTATTAAATTATATAAGAATATATAATATATTAATAA
**
6837841 TTTTATTAAATTATATATTTTAAT-TATAATATATTTAATAA
1 TTTTATTAAATTATATA--AGAATATATAATATA-TTAATAA
* *** * *
6837882 TAATTATGTTAAATTATAT-TTTATAGTATCATATATT-ATGA
1 T--TT-TATTAAATTATATAAGAATA-TATAATATATTAATAA
* * * *
6837923 TTTGAGTAAATTCATATAAGAATAT-TGAT-TATTAAGAA
1 TTTTATTAAATT-ATATAAGAATATATAATATATTAATAA
**
6837961 TTTTATTAAATTATATATTTTAAT-TATAATATATTTAATAA
1 TTTTATTAAATTATATA--AGAATATATAATATA-TTAATAA
* * *** * *
6838002 TAATTATGTTAAATTATCT-TTTATAGTATCATATATT-ATGA
1 T--TT-TATTAAATTATATAAGAATA-TATAATATATTAATAA
* * *
6838043 TTTGAGTAAATTCATATAAGAATAT-TAAT-TATTAAGAA
1 TTTTATTAAATT-ATATAAGAATATATAATATATTAATAA
*
6838081 TTTTTTTAAATTATATA
1 TTTTATTAAATTATATA
6838098 TTTTAATTAT
Statistics
Matches: 192, Mismatches: 39, Indels: 52
0.68 0.14 0.18
Matches are distributed among these distances:
37 35 0.18
38 43 0.22
39 26 0.14
40 10 0.05
41 31 0.16
42 4 0.02
43 20 0.10
44 23 0.12
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (39 bp):
TTTTATTAAATTATATAAGAATATATAATATATTAATAA
Found at i:6837873 original size:18 final size:18
Alignment explanation
Indices: 6837827--6837874 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
6837817 TATAAGAATA
*
6837827 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
6837843 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
6837860 TTAATTATAATATAT
1 TTAATTATAATATAT
6837875 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:6837874 original size:16 final size:16
Alignment explanation
Indices: 6837827--6837899 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
6837817 TATAAGAATA
6837827 TTAATTATTAATA-ATT
1 TTAATTA-TAATATATT
*
6837843 TT-ATTAAATTATATATT
1 TTAATT--ATAATATATT
6837860 TTAATTATAATATA-T
1 TTAATTATAATATATT
*
6837875 TTAATAATAAT-TATGT
1 TTAATTATAATATAT-T
*
6837891 TAAATTATA
1 TTAATTATA
6837900 TTTTATAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 2 0.04
15 14 0.30
16 21 0.46
17 6 0.13
18 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:6837993 original size:120 final size:120
Alignment explanation
Indices: 6837810--6838136 Score: 602
Period size: 120 Copynumber: 2.7 Consensus size: 120
6837800 ATTGTTTTAT
*
6837810 TAAATT-ATATAAGAATATTAATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
6837874 TTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
*
6837929 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
*
6837994 TTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
*
6838049 TAAATTCATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
6838114 TTTAATAATAATTATGTTTAAAT
66 TTTAATAATAATTATG-TTAAAT
6838137 ATGATTAAAT
Statistics
Matches: 201, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
119 6 0.03
120 189 0.94
121 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
TTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:6837994 original size:16 final size:16
Alignment explanation
Indices: 6837973--6838018 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6837963 TTATTAAATT
6837973 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
6837989 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
6838004 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
6838019 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:6838112 original size:16 final size:16
Alignment explanation
Indices: 6838093--6838134 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6838083 TTTTTAAATT
*
6838093 ATATATTTTAATTATA
1 ATATATTTTAATAATA
6838109 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
6838124 AT-TATGTTTAA
1 ATATAT-TTTAA
6838135 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:6838117 original size:15 final size:14
Alignment explanation
Indices: 6838084--6838125 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
6838074 TTAAGAATTT
6838084 TTTTAAATTAT-ATA
1 TTTT-AATTATAATA
6838098 TTTTAATTATAATA
1 TTTTAATTATAATA
*
6838112 TATTTAATAATAAT
1 T-TTTAATTATAAT
6838126 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAATTATAATA
Found at i:6838833 original size:24 final size:23
Alignment explanation
Indices: 6838800--6838851 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
6838790 TCAAATACTA
*
6838800 AAATTTATCCCTGAATTTTATTT
1 AAATTTATCCCTAAATTTTATTT
6838823 ACAATTTATCCCTAAATTTTATTT
1 A-AATTTATCCCTAAATTTTATTT
6838847 AAATT
1 AAATT
6838852 ACGACTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (23 bp):
AAATTTATCCCTAAATTTTATTT
Found at i:6839034 original size:19 final size:19
Alignment explanation
Indices: 6839003--6839051 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
6838993 TTGTTGCTCG
6839003 TATTATT-TTTATTATTA-
1 TATTATTATTTATTATTAC
*
6839020 TCATTATTATTTATTTTTAC
1 T-ATTATTATTTATTATTAC
6839040 TATTATTATTTA
1 TATTATTATTTA
6839052 ATTAGTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 6 0.21
19 20 0.71
20 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTATTTATTATTAC
Found at i:6840623 original size:21 final size:20
Alignment explanation
Indices: 6840586--6840624 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6840576 TGTCAATAAC
*
6840586 CAAAAGTTCTTACAAACAAA
1 CAAAAGTTCTGACAAACAAA
*
6840606 CAAAATGTTCTGAGAAACA
1 CAAAA-GTTCTGACAAACA
6840625 GACGTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (20 bp):
CAAAAGTTCTGACAAACAAA
Found at i:6841978 original size:15 final size:16
Alignment explanation
Indices: 6841958--6841987 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6841948 CCTTTTTAAA
6841958 AAATAAA-ATAAAAAC
1 AAATAAATATAAAAAC
6841973 AAATAAATATAAAAA
1 AAATAAATATAAAAA
6841988 ACTCACAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAATATAAAAAC
Found at i:6845033 original size:24 final size:24
Alignment explanation
Indices: 6845001--6845055 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
6844991 AGATTAAACT
6845001 TGCAGGATCAGTTGCAAGCGCAGC
1 TGCAGGATCAGTTGCAAGCGCAGC
6845025 TGCAGGATCAGTTGCAAGCGCAGC
1 TGCAGGATCAGTTGCAAGCGCAGC
6845049 TGCAGGA
1 TGCAGGA
6845056 ATAATTAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.35, T:0.16
Consensus pattern (24 bp):
TGCAGGATCAGTTGCAAGCGCAGC
Found at i:6848044 original size:41 final size:41
Alignment explanation
Indices: 6847999--6848354 Score: 480
Period size: 41 Copynumber: 8.7 Consensus size: 41
6847989 GGTTTTAAAA
* *
6847999 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
* *
6848040 CCTAGCAGGCTAAGTGCCGGTGATCTAAATTAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
* *
6848081 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
* * *
6848122 CCTAGCAGGTTAAATGCCGGTGAACTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
* *
6848163 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
* * *
6848204 CCTAGGAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
* * * *
6848245 CCTAGCAGGCTAAGTGCCGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
* *
6848286 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGACTT-TAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAG-GTTATAAG
* * *
6848327 CCTAACAAGCTAAGTGCCAGTGAATCTG
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTG
6848355 TTTAAATTAA
Statistics
Matches: 283, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
41 278 0.98
42 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
Found at i:6856591 original size:44 final size:44
Alignment explanation
Indices: 6856459--6856914 Score: 360
Period size: 44 Copynumber: 10.1 Consensus size: 44
6856449 GTCACCATAG
* * * * *
6856459 CAAATCTTATCTCCCTGAAGTTGCAATAGAGTAGATTGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * *
6856503 CCATGGCGAATCTTATCTCCCTAAAGTTGCAATGGAGCATATTAAAGCTA
1 -CA-----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * *
6856553 CAAATTTTATCTCCCTGAAATTGCAGTGAAGCAAATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * *
6856597 TAAATCTTATCTCCCTAAAGATGCAGTGGAGTGAGATGAAA-CAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTAAAGCTA
** *
6856641 TGAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA
* * **
6856685 TAAATCTTATCTTCCTGAAGTTATAGTGGAGCAGATTGAAA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA
* * * * * *
6856729 TAAATCTTATTTCCCCGAAATTGCAGTGGAACAGATTATAGCTAGAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG---AT---TA-AAGCTA
* *** *
6856780 CAAATCTTATCTCTCTGAAGTTATGGTGGAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
6856824 CAAATCTTATCTCCCTGACGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
6856868 CTAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGCGA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
6856912 CAA
1 CAA
6856915 TTCATATACC
Statistics
Matches: 332, Mismatches: 64, Indels: 31
0.78 0.15 0.07
Matches are distributed among these distances:
43 4 0.01
44 246 0.74
45 9 0.03
47 2 0.01
48 2 0.01
49 3 0.01
50 39 0.12
51 27 0.08
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:6856813 original size:95 final size:95
Alignment explanation
Indices: 6856686--6856907 Score: 262
Period size: 95 Copynumber: 2.4 Consensus size: 95
6856676 TTGAAACTAT
* *
6856686 AAATCTTATCTTCCTGAAGTTATAGTGGAGCAGATTGAAACTATAAATCTTATTTCCCCGAAATT
1 AAATCTTATCTTCCTGAAGTTATAGTGGAGCAGATTGAAACTACAAATCTTATCTCCCCGAAATT
6856751 GCAGTGGAACAGATTATAGCTAGAAGTTAC
66 GCAGTGGAACAGATTATAGCTAGAAGTTAC
* * * **
6856781 AAATCTTATC-TCTCTGAAGTTATGGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGACGT
1 AAATCTTATCTTC-CTGAAGTTATAGTGGAGCAGATTGAAACTACAAATCTTATCTCCCCGAAAT
* *
6856845 TGCAGTGGAGCAG---AT---T-GAAGCTAC
65 TGCAGTGGAACAGATTATAGCTAGAAGTTAC
* * * *
6856869 TAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAA
1 AAATCTTATCTTCCTGAAGTTATAGTGGAGCAGATTGAA
6856908 GCGACAATTC
Statistics
Matches: 111, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
88 39 0.35
89 2 0.02
92 2 0.02
94 2 0.02
95 66 0.59
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (95 bp):
AAATCTTATCTTCCTGAAGTTATAGTGGAGCAGATTGAAACTACAAATCTTATCTCCCCGAAATT
GCAGTGGAACAGATTATAGCTAGAAGTTAC
Found at i:6856829 original size:139 final size:139
Alignment explanation
Indices: 6856643--6856904 Score: 350
Period size: 139 Copynumber: 1.9 Consensus size: 139
6856633 TGAAACAATG
* * *
6856643 AATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAACTATAAATCTTATCTTCCTGAAGTTA
1 AATCTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAACTACAAATCTTATCTCCCTGAAGTTA
* *
6856708 TAGTGGAGCAGATTGAAACTA-TAAATCTTATTTCCCCGAAATTGCAGTGGAA-CAGATTATAGC
66 CAGTGGAGCAGATTGAAACTACT-AATCTTATCTCCCCGAAATTGCAGT-GAAGCAGATTATAGC
6856771 TAGAAGTTACA
129 TAGAAGTTACA
** * *
6856782 AATCTTATCTCTC-TGAAGTTATGGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGACGTT
1 AATCTTATCTC-CATGAAGTTACAGTGGAGCAGATTGAAACTACAAATCTTATCTCCCTGAAGTT
* * * * *
6856846 GCAGTGGAGCAGATTGAAGCTACTAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATT
65 ACAGTGGAGCAGATTGAAACTACTAATCTTATCTCCCCGAAATTGCAGTGAAGCAGATT
6856905 GAAGCGACAA
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
138 3 0.03
139 101 0.95
140 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (139 bp):
AATCTTATCTCCATGAAGTTACAGTGGAGCAGATTGAAACTACAAATCTTATCTCCCTGAAGTTA
CAGTGGAGCAGATTGAAACTACTAATCTTATCTCCCCGAAATTGCAGTGAAGCAGATTATAGCTA
GAAGTTACA
Found at i:6856933 original size:44 final size:43
Alignment explanation
Indices: 6856773--6856938 Score: 181
Period size: 44 Copynumber: 3.8 Consensus size: 43
6856763 ATTATAGCTA
* * * * *
6856773 GAAGTTACAAATCTTATCTCTCTGAAGTTATGGTGGAGCAGATT
1 GAAGCTAC-AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATT
* * *
6856817 GAAGCTACAAATCTTATCTCCCTGACGTTGCAGTGGAGCAGATT
1 GAAGCTAC-AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATT
6856861 GAAGCTACTAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATT
1 GAAGCTAC-AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATT
* * *
6856905 GAAGCGACAATTCATATAC-CCCTAAAGTTGTAGT
1 GAAGCTACAA-TCTTAT-CTCCCTGAAGTTGTAGT
6856939 AGGTTAGGAT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
43 2 0.02
44 104 0.97
45 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (43 bp):
GAAGCTACAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATT
Found at i:6857430 original size:21 final size:21
Alignment explanation
Indices: 6857401--6857440 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6857391 AGAAACAATG
**
6857401 ACAGAAGAAATGGAAGCAAAA
1 ACAGAAGAAACAGAAGCAAAA
*
6857422 ACAGTAGAAACAGAAGCAA
1 ACAGAAGAAACAGAAGCAA
6857441 GAGCAGCGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.23, T:0.05
Consensus pattern (21 bp):
ACAGAAGAAACAGAAGCAAAA
Found at i:6858419 original size:4 final size:4
Alignment explanation
Indices: 6858398--6858442 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
6858388 CCCTTTATAG
* *
6858398 ATTT -TTT ATAT A-TT ATTT ATTT ATTT ATTT ATTT ATCT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
6858443 ATCTCTTACC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 5 0.14
4 30 0.86
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:6862226 original size:18 final size:19
Alignment explanation
Indices: 6862199--6862240 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
6862189 TTATGCCAAC
*
6862199 ATTTTTTTAT-ACAATTTA
1 ATTTTATTATCACAATTTA
*
6862217 ATTTTATTATCCACACTTTA
1 ATTTTATTAT-CACAATTTA
6862237 ATTT
1 ATTT
6862241 CTCCATCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTATTATCACAATTTA
Found at i:6862258 original size:2 final size:2
Alignment explanation
Indices: 6862251--6862277 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6862241 CTCCATCAAT
6862251 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6862278 CAATAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6866718 original size:45 final size:45
Alignment explanation
Indices: 6866607--6866719 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 45
6866597 ATTTGCTTTA
* * * * * *
6866607 TTTTGTTGTGTACCCATAGCTATTGGCAGATTCCATGTGTAGTGT
1 TTTTATTGTGTATCCATAGCCATAGGCAGATTCCATCTGCAGTGT
* * * * *
6866652 TTTTGTTGTGTATCTACAGCCATAGGTAGATTCCATCTGCGGTGT
1 TTTTATTGTGTATCCATAGCCATAGGCAGATTCCATCTGCAGTGT
*
6866697 TTTTATTGTGTGTCCATAGCCAT
1 TTTTATTGTGTATCCATAGCCAT
6866720 TGACAGTTTA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (45 bp):
TTTTATTGTGTATCCATAGCCATAGGCAGATTCCATCTGCAGTGT
Found at i:6869203 original size:13 final size:14
Alignment explanation
Indices: 6869187--6869228 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
6869177 TTTCAATTTT
6869187 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
6869200 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
6869215 ATTTTAAATAATAT
1 ATTTT-AATAATAT
6869229 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:6869213 original size:16 final size:16
Alignment explanation
Indices: 6869191--6869227 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
6869181 AATTTTATTT
6869191 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
6869208 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
6869223 TAATA
1 TAATA
6869228 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:6869279 original size:21 final size:23
Alignment explanation
Indices: 6869255--6869305 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
6869245 AAAATATTTA
* *
6869255 ATATTAATATTTCAA-TA-ACAT
1 ATATTAATATTACAATTATAAAT
6869276 ATATT--TATTACAATTATAAAT
1 ATATTAATATTACAATTATAAAT
6869297 ATATTAATA
1 ATATTAATA
6869306 ATAAATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 7 0.29
20 2 0.08
21 13 0.54
23 2 0.08
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTAATATTACAATTATAAAT
Found at i:6876968 original size:24 final size:25
Alignment explanation
Indices: 6876871--6876968 Score: 67
Period size: 25 Copynumber: 4.0 Consensus size: 25
6876861 GTCATTAGGG
* **
6876871 TTACCGAT-TTCAGCTTTTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* * * * *
6876895 ATATCGATATTCAACTTGTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* * *
6876920 TTACTGTTATTCAGCTCGGAGGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
6876945 TTACCGTT-TATC-GCTCGTATGAGC
1 TTACCGTTAT-TCAGCTCGTATGAGC
6876969 ATACATGTAC
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
24 17 0.30
25 40 0.70
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGTATGAGC
Found at i:6890347 original size:27 final size:27
Alignment explanation
Indices: 6890310--6890374 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
6890300 AGGGCTTTTG
6890310 AAAAATTAAAAGGAAAATTAATTAATA
1 AAAAATTAAAAGGAAAATTAATTAATA
*
6890337 AAAAATTAAAAGGAAAATTAATTAATT
1 AAAAATTAAAAGGAAAATTAATTAATA
*
6890364 AAAAGTTAAAA
1 AAAAATTAAAA
6890375 TGATAGGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAAATTAAAAGGAAAATTAATTAATA
Found at i:6890900 original size:5 final size:5
Alignment explanation
Indices: 6890890--6890932 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
6890880 ATGAAATAAT
6890890 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
6890933 CAAGGTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:6891265 original size:37 final size:37
Alignment explanation
Indices: 6891215--6891290 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
6891205 TTTTTTTGTA
*
6891215 AATGATCTGATTTTGTTTGGCCAAGCAGAAGAGGATC
1 AATGATCTGATTTTGTTTGGCCAAGAAGAAGAGGATC
6891252 AATGATCTGATTTTGTTTGGCCAAGAAGAAGAGGATC
1 AATGATCTGATTTTGTTTGGCCAAGAAGAAGAGGATC
6891289 AA
1 AA
6891291 GCTACAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (37 bp):
AATGATCTGATTTTGTTTGGCCAAGAAGAAGAGGATC
Found at i:6893180 original size:9 final size:9
Alignment explanation
Indices: 6893166--6893196 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6893156 GTTAAACGAA
6893166 TCGAGTTAT
1 TCGAGTTAT
*
6893175 TCGAGTTAA
1 TCGAGTTAT
6893184 TCGAGTTAT
1 TCGAGTTAT
6893193 TCGA
1 TCGA
6893197 ATCAAGTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:6893269 original size:9 final size:9
Alignment explanation
Indices: 6893250--6893286 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
6893240 TGAGTTTTCA
6893250 AATTCGAAT
1 AATTCGAAT
6893259 AACTT-GAAT
1 AA-TTCGAAT
6893268 AATTCGAAT
1 AATTCGAAT
6893277 AATTCGAAT
1 AATTCGAAT
6893286 A
1 A
6893287 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6893534 original size:30 final size:30
Alignment explanation
Indices: 6893481--6893539 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6893471 AACCTTTTAT
*
6893481 TTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
6893510 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
6893540 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Done.