Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 261 of 292
Found at i:75081391 original size:21 final size:23
Alignment explanation
Indices: 75081367--75081420 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
75081357 TGTCTAAAAC
75081367 TTTTTATAACTAT-AAA-TATTT
1 TTTTTATAACTATAAAAGTATTT
* * *
75081388 TTTTCATATCTTTAAAAGTTATTT
1 TTTTTATAACTATAAAAG-TATTT
75081412 TTTTTATAA
1 TTTTTATAA
75081421 ATAAACTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 10 0.40
22 3 0.12
24 12 0.48
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTTATAACTATAAAAGTATTT
Found at i:75082298 original size:2 final size:2
Alignment explanation
Indices: 75082293--75082321 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
75082283 AAAGAAAAAA
75082293 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75082322 TTGTTGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:75082612 original size:33 final size:33
Alignment explanation
Indices: 75082570--75082635 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
75082560 AAAAAAGCAA
75082570 GTGCAGAAGCAACCACCACTGCACTATGAATTT
1 GTGCAGAAGCAACCACCACTGCACTATGAATTT
75082603 GTGCAGAAGCAACCACCACTGCACTATGAATTT
1 GTGCAGAAGCAACCACCACTGCACTATGAATTT
75082636 ACTCTACAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (33 bp):
GTGCAGAAGCAACCACCACTGCACTATGAATTT
Found at i:75084350 original size:92 final size:90
Alignment explanation
Indices: 75084240--75084411 Score: 238
Period size: 90 Copynumber: 1.9 Consensus size: 90
75084230 TTATAAAATT
*** * *
75084240 GAATATTTAATTCATTTTAAAAG-TTTTTAATTACTTATTATTGCCTTAAAAATTAAATTGTTAC
1 GAATATTTAATTCATTTTAAAAGATTACAAATTACTTA-T-TTACC-GAAAAATTAAATTGTTAC
*
75084304 CATCGAATTTTATATTATGGTTACAATC
63 AATCGAATTTTATATTATGGTTACAATC
* *
75084332 GAATATTTAATTCATTTTAAGAGATTACAAATTATTTATTTACCGAAAAATTAAATTGTTACAAT
1 GAATATTTAATTCATTTTAAAAGATTACAAATTACTTATTTACCGAAAAATTAAATTGTTACAAT
75084397 CGAATTTTATATTAT
66 CGAATTTTATATTAT
75084412 TGTCTTAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
90 34 0.48
91 4 0.06
92 23 0.32
93 10 0.14
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (90 bp):
GAATATTTAATTCATTTTAAAAGATTACAAATTACTTATTTACCGAAAAATTAAATTGTTACAAT
CGAATTTTATATTATGGTTACAATC
Found at i:75087147 original size:23 final size:22
Alignment explanation
Indices: 75087121--75087164 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
75087111 ATAAATTTAA
75087121 CTTTATACT-TTTTAATTCTTTGT
1 CTTTATA-TATTTTAATT-TTTGT
75087144 CTTTATATATTTTAATTTTTG
1 CTTTATATATTTTAATTTTTG
75087165 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (22 bp):
CTTTATATATTTTAATTTTTGT
Found at i:75088051 original size:21 final size:23
Alignment explanation
Indices: 75088004--75088052 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
75087994 AGTCATAATA
*
75088004 ATTAAATTAAATTAACAATTTAC
1 ATTAAATTAAATTAACAATTAAC
* *
75088027 ATTAAA-T-AATTAATAATTAAG
1 ATTAAATTAAATTAACAATTAAC
75088048 ATTAA
1 ATTAA
75088053 GTTAGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
22 1 0.04
23 6 0.26
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAAATTAAATTAACAATTAAC
Found at i:75088149 original size:11 final size:11
Alignment explanation
Indices: 75088129--75088159 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
75088119 TCAAAATATT
75088129 ATTT-ATTTAA
1 ATTTAATTTAA
75088139 ATTTAATTTAA
1 ATTTAATTTAA
75088150 ATTTAATTTA
1 ATTTAATTTA
75088160 TTATATTTTT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTAATTTAA
Found at i:75090035 original size:20 final size:20
Alignment explanation
Indices: 75089995--75090037 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
75089985 TTACTACTTT
*
75089995 ATAATTTTTTTATTGTGTTA
1 ATAATTTTTTTATTGTATTA
75090015 ATAA-TTTTTTATTGTAATTA
1 ATAATTTTTTTATTGT-ATTA
75090035 ATA
1 ATA
75090038 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
ATAATTTTTTTATTGTATTA
Found at i:75106587 original size:21 final size:21
Alignment explanation
Indices: 75106544--75106587 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
75106534 CTTTTTTAAC
*
75106544 AAAAGAAAAACAAAAAGATGA
1 AAAAGAAAAACAAAAAGACGA
*
75106565 AAAAGAAAAA-AAGAAATACGA
1 AAAAGAAAAACAA-AAAGACGA
75106586 AA
1 AA
75106588 GTAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAACAAAAAGACGA
Found at i:75106831 original size:37 final size:37
Alignment explanation
Indices: 75106781--75106862 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
75106771 GAGAAGGCTA
75106781 CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
1 CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
75106818 CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
1 CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
75106855 CGTGGAGG
1 CGTGGAGG
75106863 GGCTGTGGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.18, C:0.11, G:0.52, T:0.18
Consensus pattern (37 bp):
CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
Found at i:75106978 original size:16 final size:17
Alignment explanation
Indices: 75106956--75106997 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
75106946 CCTGGGGTTA
75106956 ATTTGGGTTAGTTTT-GG
1 ATTTGGGTT-GTTTTGGG
75106973 -TTTGGGTTGTTTTGGG
1 ATTTGGGTTGTTTTGGG
75106989 ATTTGGGTT
1 ATTTGGGTT
75106998 TTAAATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
17 8 0.35
ACGTcount: A:0.07, C:0.00, G:0.38, T:0.55
Consensus pattern (17 bp):
ATTTGGGTTGTTTTGGG
Found at i:75107332 original size:109 final size:110
Alignment explanation
Indices: 75107138--75107359 Score: 349
Period size: 109 Copynumber: 2.0 Consensus size: 110
75107128 TTAATGGAAA
*
75107138 ACGAGTATAATCGGCGTGGTTTGGTGGTAAAACTTAACGAGTATAATAAAACTCAAATTTTCAAA
1 ACGAGTATAATCGGCGTGGTTTGGTGGTAAAACTT-A-GAGTATAATAAAACCCAAATTTTCAAA
* * *
75107203 TTCAAAATCAAATTCTACCAAATGAGATTATTCCATATATAGAACAC
64 TTCAAAATCAAACTCTACCAAATGAGATTACTCCAGATATAGAACAC
* *
75107250 ACGAGTATAAAT-GGTGTGGTTTGGTGGTAAAACTT-GAGTATAATAAAACCCAAATTTTCAATT
1 ACGAGTAT-AATCGGCGTGGTTTGGTGGTAAAACTTAGAGTATAATAAAACCCAAATTTTCAAAT
75107313 TCAAAATCAAACTCTACCAAATGAGATTACTCCAGATATAGAACAC
65 TCAAAATCAAACTCTACCAAATGAGATTACTCCAGATATAGAACAC
75107359 A
1 A
75107360 AAAACAGAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
109 70 0.68
112 30 0.29
113 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (110 bp):
ACGAGTATAATCGGCGTGGTTTGGTGGTAAAACTTAGAGTATAATAAAACCCAAATTTTCAAATT
CAAAATCAAACTCTACCAAATGAGATTACTCCAGATATAGAACAC
Found at i:75112642 original size:14 final size:14
Alignment explanation
Indices: 75112623--75112651 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
75112613 CCACCAATTT
75112623 GACATTTCCAGTCA
1 GACATTTCCAGTCA
75112637 GACATTTCCAGTCA
1 GACATTTCCAGTCA
75112651 G
1 G
75112652 GCTGAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (14 bp):
GACATTTCCAGTCA
Found at i:75114041 original size:40 final size:39
Alignment explanation
Indices: 75113930--75114081 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
75113920 TATAACATGT
* ** *
75113930 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
75113970 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
75114010 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
75114050 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
75114082 CATTCAATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 93 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:75114064 original size:80 final size:80
Alignment explanation
Indices: 75113930--75114081 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
75113920 TATAACATGT
* *
75113930 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
75113995 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
75114010 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
75114073 CCCGGATAT
64 CCCGGATAT
75114082 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:75122038 original size:40 final size:39
Alignment explanation
Indices: 75121927--75122077 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
75121917 TATAACATGT
* ** *
75121927 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
75121967 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
75122007 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
75122047 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
75122078 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:75122061 original size:80 final size:79
Alignment explanation
Indices: 75121927--75122077 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
75121917 TATAACATGT
*
75121927 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
75121992 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
75122007 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
75122070 CCGGATAT
64 CCGGATAT
75122078 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:75127141 original size:2 final size:2
Alignment explanation
Indices: 75127136--75127168 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
75127126 TATGTAAAAA
75127136 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75127169 AATAGCGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75127688 original size:2 final size:2
Alignment explanation
Indices: 75127681--75127709 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
75127671 TATGATCATA
75127681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75127710 AAAAGAACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75127771 original size:16 final size:19
Alignment explanation
Indices: 75127737--75127775 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
75127727 TATACACTAA
75127737 AATATGCATCATTATTAAT
1 AATATGCATCATTATTAAT
75127756 AATATG-AT-ATTA-TAAT
1 AATATGCATCATTATTAAT
75127772 AATA
1 AATA
75127776 ATAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 2 0.10
19 6 0.30
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AATATGCATCATTATTAAT
Found at i:75128897 original size:17 final size:16
Alignment explanation
Indices: 75128875--75128910 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
75128865 GGAGAGGCAG
75128875 GGGGTTGGTGCGCAAGT
1 GGGGTTGG-GCGCAAGT
*
75128892 GGGGTTTGGCGCAAGT
1 GGGGTTGGGCGCAAGT
75128908 GGG
1 GGG
75128911 CAAGTGGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.11, C:0.11, G:0.56, T:0.22
Consensus pattern (16 bp):
GGGGTTGGGCGCAAGT
Found at i:75133293 original size:20 final size:20
Alignment explanation
Indices: 75133260--75133299 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
75133250 TATATATTAC
*
75133260 TTTAATTTTAAATAGTAATT
1 TTTAATTTTAAATAATAATT
75133280 TTTAATATTT-AATAATAATT
1 TTTAAT-TTTAAATAATAATT
75133300 AATTCTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTAATTTTAAATAATAATT
Found at i:75133482 original size:17 final size:18
Alignment explanation
Indices: 75133460--75133494 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
75133450 AAGAGTTTAA
*
75133460 TTTATAATTTATA-AATT
1 TTTATAATCTATATAATT
75133477 TTTATAATCTATATAATT
1 TTTATAATCTATATAATT
75133495 GGTTTGATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATAATCTATATAATT
Found at i:75134653 original size:133 final size:133
Alignment explanation
Indices: 75134412--75134653 Score: 349
Period size: 133 Copynumber: 1.8 Consensus size: 133
75134402 TGCCTTGCCT
* * * * *
75134412 TAGAAACCACGAATGAAATTCCAAAGGGATATTCGATTATTTTGCGCAAAGGAGAAATTGCAACC
1 TAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAACC
* *
75134477 CAGCACGATAGGGCACAATTCCCCGAATTACCAATTATTGAACACTTCCTTCGTTTTAAAAAAGT
66 CAGCACGATAGGGCACAATTCCCCGAATTACCAAATATCGAACACTTCCTTCGTTTTAAAAAAGT
75134542 TTC
131 TTC
* * *
75134545 TAGAAAACATGAACGAAATTCTAAAGAGACATTCGATTATTTTGGGCAAACGAGAAATTGCAACC
1 TAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAACC
* * * * *
75134610 TAGGACGATAGGGCACGATTCCCCGAATTGCTAAATATCGAACA
66 CAGCACGATAGGGCACAATTCCCCGAATTACCAAATATCGAACA
75134654 TCGTTCCGTT
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
133 94 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (133 bp):
TAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAACC
CAGCACGATAGGGCACAATTCCCCGAATTACCAAATATCGAACACTTCCTTCGTTTTAAAAAAGT
TTC
Found at i:75135305 original size:33 final size:34
Alignment explanation
Indices: 75135268--75135334 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 34
75135258 TAAATGATAT
*
75135268 AATATT-AAGGTATATACA-TAACAATAAAAATAC
1 AATATTAAAGATATATACACTAAC-ATAAAAATAC
75135301 AATATTAAAAGATATATACACGTAACATAAAAAT
1 AATATT-AAAGATATATACAC-TAACATAAAAAT
75135335 GTATCCGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 6 0.21
35 11 0.38
36 8 0.28
37 4 0.14
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (34 bp):
AATATTAAAGATATATACACTAACATAAAAATAC
Found at i:75135558 original size:24 final size:23
Alignment explanation
Indices: 75135497--75135546 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
75135487 ATGTACACAG
*
75135497 TATATAATA-TATTAAAGATATA
1 TATATAATATTAATAAAGATATA
75135519 TATATAATATTAATAAA-ATATA
1 TATATAATATTAATAAAGATATA
75135541 TATATA
1 TATATA
75135547 TATGTAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TATATAATATTAATAAAGATATA
Found at i:75137188 original size:51 final size:48
Alignment explanation
Indices: 75137110--75137694 Score: 337
Period size: 51 Copynumber: 12.7 Consensus size: 48
75137100 GTTTGTTTCG
* * * *
75137110 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTATAGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCT-TG-TTTAT-GCTTCA
* *
75137161 ATCTGTTCCAATGCAACTTCAGGGAGATAAGATC-TG-CTAT-CTT-A
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
* * * *
75137205 GTCTGTTCCACTGCAACTTTAGGAAGATAAGA-CTTG----TG--TCG
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
** * * *
75137246 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCT-T-GTTTAT-GCTTCA
* * *
75137297 ATCTGTTCCACTACAACTTCAGGGAAATAAGAT-TTG-TTAT-CTTTA
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
* * * *
75137342 GTCTGCTCCACTGCAACTTCAGGAAGATAAGA-CTTG----TG--TCG
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
** * * *
75137383 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCT-T-GTTTAT-GCTTCA
* * *
75137434 ATCTGTTCCACTGCAACTTCAGGGAAATAAGAT-TT-TCTAT-CTTTA
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
* * * *
75137479 GTCTGCTCTACTGCAACTTCAGGGAGATAAGA-CTTG----TG-TT-G
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
** * * * *
75137520 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCGGTGGTTTATAGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATC--TTGTTTAT-GCTTCA
* **
75137571 ATCTGTTCCACTGCAACTTCAGGGAAATAAGAT-TTG-CGAT-CTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
* * * *
75137616 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTG--TA-ACTTCG
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
* * * *
75137660 ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
1 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCT
75137695 GTAATTTTCA
Statistics
Matches: 414, Mismatches: 79, Indels: 88
0.71 0.14 0.15
Matches are distributed among these distances:
40 1 0.00
41 80 0.19
42 9 0.02
43 3 0.01
44 68 0.16
45 110 0.27
47 13 0.03
48 6 0.01
49 7 0.02
50 4 0.01
51 113 0.27
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (48 bp):
ATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTTGTTTATGCTTCA
Found at i:75137372 original size:45 final size:45
Alignment explanation
Indices: 75137111--75137692 Score: 267
Period size: 45 Copynumber: 12.7 Consensus size: 45
75137101 TTTGTTTCGA
* * *
75137111 TCTGCTCTACTGCAACTTCA-GAGAGATGAGATCTGTGATTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGA-AGATAAGAT-T-TG--TTAT--CTTCAG
* * * * *
75137162 TCTGTTCCAATGCAACTTCAGGGAGATAAGATCTGCTATCTT-AG
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAG
* * * * *
75137206 TCTGTTCCACTGCAACTTTAGGAAGATAAGACTTG-TGTC--GA-
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAG
* * * *
75137247 TCTACTCTACTGCAACTTCA-GAGAGATGAGATCTGTGGTTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGA-AGATAAGAT-T-T-G-TTAT--CTTCAG
* * *
75137298 TCTGTTCCACTACAACTTCAGGGAA-ATAAGATTTGTTATCTTTAG
1 TCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGTTATCTTCAG
* * *
75137343 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTTG-TGTC--GA-
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAG
* * * *
75137384 TCTACTCTACTGCAACTTCA-GAGAGATGAGATCTGTGGTTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGA-AGATAAGAT-T-T-G-TTAT--CTTCAG
* *
75137435 TCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTT-TCTATCTTTAG
1 TCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGT-TATCTTCAG
* * * * *
75137480 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTG---TGTTGA-
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAG
* * * * *
75137521 TCTACTCTACTGCAACTTCA-GAGAGATGAGATCGGTGGTTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGA-AGATAAGAT---TTG-TTAT--CTTCAG
* **
75137572 TCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTTGCGATCTTCAG
1 TCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGTTATCTTCAG
* * *
75137617 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTC-G
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAG
* *
75137660 ACCTGCTCTACTGCAACTTCA-GAGAGATAAGAT
1 -TCTGCTCCACTGCAACTTCAGGA-AGATAAGAT
75137693 CTGTAATTTT
Statistics
Matches: 407, Mismatches: 76, Indels: 103
0.69 0.13 0.18
Matches are distributed among these distances:
40 5 0.01
41 74 0.18
42 8 0.02
43 7 0.02
44 79 0.19
45 97 0.24
46 5 0.01
47 12 0.03
48 6 0.01
49 4 0.01
50 7 0.02
51 93 0.23
52 4 0.01
53 6 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAG
Found at i:75137419 original size:137 final size:137
Alignment explanation
Indices: 75137102--75137696 Score: 958
Period size: 137 Copynumber: 4.3 Consensus size: 137
75137092 GGGATAGGGT
* * *
75137102 TTGTTTCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTATAGCTTCAATCTGT
1 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
* * * * *
75137167 TCCAATGCAACTTCAGGGAGATAAGATCTGCTATC-TTAGTCTGTTCCACTGCAACTTTAGGAAG
66 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
75137231 ATAAGAC
131 ATAAGAC
75137238 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
1 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
* *
75137303 TCCACTACAACTTCAGGGAAATAAGATTTGTTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
66 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
75137368 ATAAGAC
131 ATAAGAC
75137375 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
1 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
* * *
75137440 TCCACTGCAACTTCAGGGAAATAAGATTTTCTATCTTTAGTCTGCTCTACTGCAACTTCAGGGAG
66 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
75137505 ATAAGAC
131 ATAAGAC
* *
75137512 TTGTGTTGATCTACTCTACTGCAACTTCAGAGAGATGAGATCGGTGGTTTATAGCTTCAATCTGT
1 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
* * *
75137577 TCCACTGCAACTTCAGGGAAATAAGATTTGCGATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
66 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
75137642 ATAAGAC
131 ATAAGAC
* * * *
75137649 TTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
1 TTGT---GTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGT
75137697 AATTTTCAGA
Statistics
Matches: 428, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
136 92 0.21
137 301 0.70
140 35 0.08
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (137 bp):
TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
ATAAGAC
Found at i:75149514 original size:47 final size:47
Alignment explanation
Indices: 75149405--75149515 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
75149395 CCGGGATAAG
* *
75149405 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
* * *
75149452 CACAAAGTACTTCATCGGAACAAATCCAGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTA-TAGTA
75149499 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
75149516 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:75151955 original size:132 final size:132
Alignment explanation
Indices: 75151718--75151984 Score: 376
Period size: 132 Copynumber: 2.0 Consensus size: 132
75151708 TTGCCTTGCC
* * * * * *
75151718 TTAGAAACCACGAATGAAATTCCAAAGGGATATTCGATTATTTTGCGCAAAGGAGAAATTGCAAC
1 TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTACAAC
* * * *
75151783 CCAGCACGATAGGGCACAATTCCCTGAATTGCTAATTATCGAACA-CTTCCTTCGTTTTAAA-AA
66 CCAGCACGATAGGGCACAATTCCCCGAATTGCTAAATATCGAACATCGT-CTCCGTTTTAAAGAA
75151846 GTTT
130 -TTT
* * *
75151850 TTAGAAAACATGAACGAAATTCTAAAGAGACATTCGATTATTTTGGGCAAACGAGAAATTACAAC
1 TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTACAAC
*
75151915 CCAGCACGATAGGGCACGATTCCCCGAATTGCTAAATATCGAACATCGTCTCCGTTTTAAAGAAT
66 CCAGCACGATAGGGCACAATTCCCCGAATTGCTAAATATCGAACATCGTCTCCGTTTTAAAGAAT
75151980 TT
131 TT
75151982 TTA
1 TTA
75151985 AACAAATGAT
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
132 115 0.97
133 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (132 bp):
TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTACAAC
CCAGCACGATAGGGCACAATTCCCCGAATTGCTAAATATCGAACATCGTCTCCGTTTTAAAGAAT
TT
Found at i:75152846 original size:26 final size:26
Alignment explanation
Indices: 75152814--75152867 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
75152804 TATGTACACA
*
75152814 ATATATAATA-TATTAAAGATATATAT
1 ATATATAATATTAATAAA-ATATATAT
75152840 ATATATAATATTAATAAAATATATAT
1 ATATATAATATTAATAAAATATATAT
75152866 AT
1 AT
75152868 GTAGCATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
ATATATAATATTAATAAAATATATAT
Found at i:75157650 original size:21 final size:21
Alignment explanation
Indices: 75157613--75157692 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 21
75157603 ATACGCCAGA
75157613 AAAAGCTCG-AA-AGCTGAAC
1 AAAAGCTCGTAAGAGCTGAAC
*
75157632 AAAAGCTCATAAGAGCTGAAC
1 AAAAGCTCGTAAGAGCTGAAC
*
75157653 AGAAA-CTCGTAAGAGCTTAAC
1 A-AAAGCTCGTAAGAGCTGAAC
* *
75157674 AGAAGCTCGTAACAGCTGA
1 AAAAGCTCGTAAGAGCTGA
75157693 TCCATCCAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
19 8 0.16
20 4 0.08
21 36 0.71
22 3 0.06
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAAGCTCGTAAGAGCTGAAC
Found at i:75164087 original size:21 final size:21
Alignment explanation
Indices: 75164061--75164115 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
75164051 TTCTTTCTCC
75164061 TTACTGCTAGACATTTGTGTT
1 TTACTGCTAGACATTTGTGTT
75164082 TTACTGCTAGACATTTGTGTT
1 TTACTGCTAGACATTTGTGTT
*
75164103 TT-CAGCTAGACAT
1 TTACTGCTAGACAT
75164116 AGTTTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (21 bp):
TTACTGCTAGACATTTGTGTT
Found at i:75168807 original size:23 final size:23
Alignment explanation
Indices: 75168781--75168829 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
75168771 ATCTTTGGAT
*
75168781 TGTCTATTTCGACTTCTATTTTG
1 TGTCTATTTCGACTACTATTTTG
75168804 TGTCTATTTCGACTACTATTTTG
1 TGTCTATTTCGACTACTATTTTG
75168827 TGT
1 TGT
75168830 TTTTATTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.55
Consensus pattern (23 bp):
TGTCTATTTCGACTACTATTTTG
Found at i:75171569 original size:14 final size:14
Alignment explanation
Indices: 75171541--75171573 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
75171531 AAGGAATGTT
75171541 ATTAGTAGATTAAA
1 ATTAGTAGATTAAA
75171555 ATTAG-AGATTAAA
1 ATTAGTAGATTAAA
*
75171568 AATAGT
1 ATTAGT
75171574 TTTTCTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
ATTAGTAGATTAAA
Found at i:75190257 original size:137 final size:138
Alignment explanation
Indices: 75190005--75190281 Score: 502
Period size: 137 Copynumber: 2.0 Consensus size: 138
75189995 TAGCCGTTGC
*
75190005 CTCTCTTGCTCATCTACAATGGTTAATATTTTCTAACATAAAACATCTTAAAAAAAATAAGAACA
1 CTCTCTTGCTCATCTACAATGGTCAATATTTTCTAACATAAAACATCTTAAAAAAAATAAGAACA
*
75190070 GAACAAAGAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
66 GAACAAACAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
75190135 TCAAATCA
131 TCAAATCA
* *
75190143 CTCTTTTGCTCATCTACAATGGTCAATATTTTCTAACATATAACATCTT-AAAAAAATAAGAACA
1 CTCTCTTGCTCATCTACAATGGTCAATATTTTCTAACATAAAACATCTTAAAAAAAATAAGAACA
*
75190207 GAGCAAACAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
66 GAACAAACAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
75190272 TCAAATCA
131 TCAAATCA
75190280 CT
1 CT
75190282 AAAAATAAAA
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
137 88 0.66
138 46 0.34
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (138 bp):
CTCTCTTGCTCATCTACAATGGTCAATATTTTCTAACATAAAACATCTTAAAAAAAATAAGAACA
GAACAAACAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
TCAAATCA
Found at i:75194376 original size:30 final size:30
Alignment explanation
Indices: 75194329--75194425 Score: 117
Period size: 30 Copynumber: 3.2 Consensus size: 30
75194319 AATCCTAAGA
* *
75194329 TCTTGAACGACATATTGAGTCTTCCCAAGT
1 TCTTGAAAGAGATATTGAGTCTTCCCAAGT
* *
75194359 TCCTGAATA-AGATATTGAGTCTTCCCAAGC
1 TCTTGAA-AGAGATATTGAGTCTTCCCAAGT
*
75194389 TCTTGAAAGAGATATT-AGGTCTTCTCAAGT
1 TCTTGAAAGAGATATTGA-GTCTTCCCAAGT
75194419 TCTTGAA
1 TCTTGAA
75194426 CGTCCTCGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
29 2 0.04
30 55 0.96
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (30 bp):
TCTTGAAAGAGATATTGAGTCTTCCCAAGT
Found at i:75195226 original size:20 final size:19
Alignment explanation
Indices: 75195203--75195251 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
75195193 TTGCTATTTA
75195203 TTTTAA-AAACTTTTTATTAT
1 TTTTAATAAA-TTTTTA-TAT
75195223 TTTTAATAAATTTTTATAT
1 TTTTAATAAATTTTTATAT
75195242 TGTTTAATAA
1 T-TTTAATAA
75195252 TTATTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAATAAATTTTTATAT
Found at i:75197842 original size:6 final size:7
Alignment explanation
Indices: 75197810--75197841 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
75197800 AATTCTTTTA
75197810 TTTTTCT
1 TTTTTCT
75197817 TTTTTCT
1 TTTTTCT
75197824 TTTTTCT
1 TTTTTCT
75197831 TTTTTCT
1 TTTTTCT
75197838 TTTT
1 TTTT
75197842 CCATTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:75198945 original size:10 final size:10
Alignment explanation
Indices: 75198932--75198970 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
75198922 TTATTTTCAT
75198932 TTATCTTTAA
1 TTATCTTTAA
75198942 TTATCTTTAA
1 TTATCTTTAA
* *
75198952 TTATTTATTAT
1 TTATCT-TTAA
75198963 TTATCTTT
1 TTATCTTT
75198971 TAGAATTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:75201420 original size:31 final size:31
Alignment explanation
Indices: 75201383--75201451 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
75201373 AACTTAAAAA
* **
75201383 AAAATAGCTCATTGACTTAAATAAAAATTTT
1 AAAATAGCTCAGTGAAATAAATAAAAATTTT
* *
75201414 AAAATAGTTTAGTGAAATAAATAAAAATTTT
1 AAAATAGCTCAGTGAAATAAATAAAAATTTT
*
75201445 TAAATAG
1 AAAATAG
75201452 TCTAATAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (31 bp):
AAAATAGCTCAGTGAAATAAATAAAAATTTT
Found at i:75202646 original size:18 final size:19
Alignment explanation
Indices: 75202625--75202673 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
75202615 AAGGAAAAGC
*
75202625 ATTTTATTTTTTA-AATTT
1 ATTTTATTTTTTAGAATTA
75202643 ATTTTATTTTTTAGAATTA
1 ATTTTATTTTTTAGAATTA
75202662 ATTTTAATTTTT
1 ATTTT-ATTTTT
75202674 CTATAGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 13 0.46
19 9 0.32
20 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTATTTTTTAGAATTA
Found at i:75206417 original size:26 final size:25
Alignment explanation
Indices: 75206345--75206424 Score: 64
Period size: 26 Copynumber: 3.3 Consensus size: 25
75206335 TATCAAATTA
*
75206345 TTTAAATATAATGTATTAT--TTA-T
1 TTTAAA-ATAATTTATTATAATTAGT
*
75206368 ATTTAAAATAATTTATTATCATTAGT
1 -TTTAAAATAATTTATTATAATTAGT
75206394 TTTATAAATAATTTA-TATTAATTA--
1 TTTA-AAATAATTTATTA-TAATTAGT
75206418 TTTAAAA
1 TTTAAAA
75206425 GATATTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
23 14 0.29
24 10 0.20
25 9 0.18
26 16 0.33
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTAAAATAATTTATTATAATTAGT
Found at i:75209824 original size:52 final size:52
Alignment explanation
Indices: 75209715--75209915 Score: 166
Period size: 52 Copynumber: 4.0 Consensus size: 52
75209705 TGACGGAAAA
* ** * * *
75209715 GATGTGATATGTGCTTCCGTATAAGACTGTAGCAGGGCTATGGCATTGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * *
75209767 AATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTGGGCTATGACATCGGTGT
1 GATGTGATAT-GTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * *
75209819 GATGTGATAATGTGATTCCGTATAAGATCATATCTAGGATATGGCATCGG--T
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * *
75209870 -A--TGATATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
75209916 GTGTGATGTG
Statistics
Matches: 121, Mismatches: 22, Indels: 17
0.76 0.14 0.11
Matches are distributed among these distances:
46 26 0.21
47 6 0.05
48 4 0.03
50 1 0.01
51 4 0.03
52 46 0.38
53 31 0.26
54 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:75211230 original size:20 final size:20
Alignment explanation
Indices: 75211207--75211254 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
75211197 GAAATCAGCA
75211207 GAAAAATTGATAAATTAAGG
1 GAAAAATTGATAAATTAAGG
*
75211227 GAAAAATTGATAAATTAATG
1 GAAAAATTGATAAATTAAGG
*
75211247 GTAAAATT
1 GAAAAATT
75211255 AGAATATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (20 bp):
GAAAAATTGATAAATTAAGG
Found at i:75215024 original size:25 final size:25
Alignment explanation
Indices: 75214994--75215053 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
75214984 TTATATTATT
* * *
75214994 ATAAAAATAATAAAATAAATAAAAC
1 ATAAAAAGAATAAAACAAACAAAAC
* *
75215019 ATAAAAGGAATAAAACAAACAAAGC
1 ATAAAAAGAATAAAACAAACAAAAC
75215044 ATAAAAAGAA
1 ATAAAAAGAA
75215054 ACAGAGAGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (25 bp):
ATAAAAAGAATAAAACAAACAAAAC
Found at i:75215647 original size:25 final size:25
Alignment explanation
Indices: 75215603--75215650 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
75215593 CTCTGTTTCT
* *
75215603 TTTTATGCTTTGTTTGTTTTATTCC
1 TTTTATGCTTTATTTATTTTATTCC
*
75215628 TTTTATGTTTTATTTATTTTATT
1 TTTTATGCTTTATTTATTTTATT
75215651 AGTTTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.73
Consensus pattern (25 bp):
TTTTATGCTTTATTTATTTTATTCC
Found at i:75215656 original size:25 final size:25
Alignment explanation
Indices: 75215603--75215658 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
75215593 CTCTGTTTCT
* * *
75215603 TTTTATGCTTTGTTTGTTTTATTCC
1 TTTTATGCTTTATTTATTTTATTAC
* *
75215628 TTTTATGTTTTATTTATTTTATTAG
1 TTTTATGCTTTATTTATTTTATTAC
75215653 TTTTAT
1 TTTTAT
75215659 AATAATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.71
Consensus pattern (25 bp):
TTTTATGCTTTATTTATTTTATTAC
Found at i:75216012 original size:20 final size:21
Alignment explanation
Indices: 75215979--75216021 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
75215969 TATAATAACT
*
75215979 TAATTTAATAATATATT-TTA
1 TAATTAAATAATATATTATTA
*
75215999 TAATTAAATCATATATTATTA
1 TAATTAAATAATATATTATTA
75216020 TA
1 TA
75216022 TAATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATTAAATAATATATTATTA
Found at i:75221985 original size:20 final size:20
Alignment explanation
Indices: 75221960--75221998 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
75221950 CACCCATGGC
75221960 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGCCACACGGG
*
75221980 CATGTCCCAGGCCACACGG
1 CATGTCCCAAGCCACACGG
75221999 ACGTGTGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.41, G:0.26, T:0.10
Consensus pattern (20 bp):
CATGTCCCAAGCCACACGGG
Found at i:75226852 original size:13 final size:13
Alignment explanation
Indices: 75226805--75226846 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
75226795 TAAAGTAATT
* *
75226805 AAATAAAATAAATA
1 AAATAAAAGAAA-G
75226819 AAATAAAAGAAAG
1 AAATAAAAGAAAG
75226832 AAATAAAAGAAAG
1 AAATAAAAGAAAG
75226845 AA
1 AA
75226847 TGAAAACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (13 bp):
AAATAAAAGAAAG
Found at i:75226892 original size:16 final size:16
Alignment explanation
Indices: 75226871--75226906 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
75226861 AGCAGGGAAA
* *
75226871 GAAAGAAAGAAAAAGG
1 GAAAGAAAAAAAAAAG
75226887 GAAAGAAAAAAAAAAG
1 GAAAGAAAAAAAAAAG
75226903 GAAA
1 GAAA
75226907 ATTTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAAAAAAAG
Found at i:75229742 original size:47 final size:47
Alignment explanation
Indices: 75229670--75229839 Score: 295
Period size: 47 Copynumber: 3.6 Consensus size: 47
75229660 ATGGTTGAGT
* *
75229670 TCCGAACTCATTGAGTTGAGGCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
75229717 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
75229764 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
75229811 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
75229840 ACTTATGGAT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:75234506 original size:4 final size:4
Alignment explanation
Indices: 75234497--75234535 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
75234487 TGGTTTGACC
75234497 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
75234536 GAAGAAACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:75236761 original size:33 final size:33
Alignment explanation
Indices: 75236724--75236792 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
75236714 GGAGTTCATA
75236724 ATAAAAGAAG-GACCTTCAAGTCTGAGATTTATG
1 ATAAAAGAAGTGA-CTTCAAGTCTGAGATTTATG
* * *
75236757 ATAAAAGAAGTGATTTCAAGTCTGAGGTTTTTG
1 ATAAAAGAAGTGACTTCAAGTCTGAGATTTATG
75236790 ATA
1 ATA
75236793 TGAGCTTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.32
Consensus pattern (33 bp):
ATAAAAGAAGTGACTTCAAGTCTGAGATTTATG
Found at i:75252019 original size:2 final size:2
Alignment explanation
Indices: 75252012--75252037 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75252002 CTATAGTAAA
75252012 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
75252038 TAAATTTGAA
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:75254382 original size:2 final size:2
Alignment explanation
Indices: 75254375--75254402 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75254365 CGAATTCATT
75254375 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
75254403 TATATATATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:75254407 original size:2 final size:2
Alignment explanation
Indices: 75254402--75254435 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
75254392 ACACACACAC
75254402 AT AT AT 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 AT AT AT
75254436 CATGCTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75254685 original size:39 final size:39
Alignment explanation
Indices: 75254642--75254772 Score: 172
Period size: 39 Copynumber: 3.3 Consensus size: 39
75254632 GGTTTTTAAC
** *
75254642 CCGGATATTTTTCCAGCACGTAGCCTGCAGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
* * *
75254681 CCGGATATATTTCTAGCATATAGCCTGCAGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
* * *
75254720 CAGGATATTTTTCCAGCATATAGCCTGCGGACTTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
75254759 CCGGATATATTTTC
1 CCGGATAT-TTTTC
75254773 AATCTCATAC
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 73 0.94
40 5 0.06
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
Found at i:75255816 original size:9 final size:9
Alignment explanation
Indices: 75255802--75255834 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
75255792 GTTAAGCGAA
75255802 TCGAGTTAT
1 TCGAGTTAT
*
75255811 TCGAGTTAA
1 TCGAGTTAT
75255820 TCGAGTTAT
1 TCGAGTTAT
75255829 TCGAGT
1 TCGAGT
75255835 CAACTTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:75255823 original size:18 final size:18
Alignment explanation
Indices: 75255800--75255834 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
75255790 GAGTTAAGCG
75255800 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
75255818 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
75255835 CAACTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:75255903 original size:9 final size:9
Alignment explanation
Indices: 75255886--75255922 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
75255876 TGAGTTTTCA
75255886 AATTCGAAT
1 AATTCGAAT
*
75255895 AACTCGAAT
1 AATTCGAAT
75255904 AATTCGAAT
1 AATTCGAAT
75255913 AATTCGAAT
1 AATTCGAAT
75255922 A
1 A
75255923 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:75271634 original size:17 final size:17
Alignment explanation
Indices: 75271600--75271655 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
75271590 AAATAAAATG
*
75271600 AAAAAAGTAGAAACATAT
1 AAAAAAGTA-AAAAATAT
75271618 AAAAAAGTAAAAAATAT
1 AAAAAAGTAAAAAATAT
*
75271635 AAAAAAGTAAATATATAT
1 AAAAAAGTAAA-AAATAT
75271653 AAA
1 AAA
75271656 TTAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 18 0.51
18 17 0.49
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (17 bp):
AAAAAAGTAAAAAATAT
Found at i:75271665 original size:35 final size:35
Alignment explanation
Indices: 75271571--75271665 Score: 81
Period size: 35 Copynumber: 2.6 Consensus size: 35
75271561 ATTTATTTTT
75271571 AATATATATAATAATCTAAAAATAAAATGAAAAAAGTAG
1 AATATATAT-A-AAT-TAAAAA-AAAATGAAAAAAGTAG
* *
75271610 AA-ACATATAAA--AAAGTAAAAAATATAAAAAAGTA-
1 AATATATATAAATTAAA--AAAAAAT-GAAAAAAGTAG
75271644 AATATATATAAATTAAAAAAAA
1 AATATATATAAATTAAAAAAAA
75271666 TCTAAACTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
33 3 0.06
34 7 0.15
35 24 0.51
36 2 0.04
37 4 0.09
38 5 0.11
39 2 0.04
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.23
Consensus pattern (35 bp):
AATATATATAAATTAAAAAAAAATGAAAAAAGTAG
Found at i:75272152 original size:22 final size:22
Alignment explanation
Indices: 75272127--75272170 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
75272117 TAATCATATA
75272127 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
75272149 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
75272171 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:75272217 original size:16 final size:16
Alignment explanation
Indices: 75272196--75272230 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
75272186 TTTTATTTTG
75272196 ATAATAAATTTTAAA-A
1 ATAAT-AATTTTAAATA
75272212 ATAATAATTTTAAATA
1 ATAATAATTTTAAATA
75272228 ATA
1 ATA
75272231 TTATTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATAATTTTAAATA
Found at i:75272283 original size:15 final size:15
Alignment explanation
Indices: 75272263--75272319 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
75272253 ATTCAATATT
75272263 AATATTTTAATAATA
1 AATATTTTAATAATA
*
75272278 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
75272297 AATATATTAATAATA
1 AATATTTTAATAATA
*
75272312 AATGTTTT
1 AATATTTT
75272320 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:75274198 original size:18 final size:18
Alignment explanation
Indices: 75274165--75274225 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
75274155 AAGTCTCTAA
75274165 AATAATAACAAA-ATTAAC
1 AATAA-AACAAATATTAAC
75274183 AATAAAACAAATATTATAC
1 AATAAAACAAATATTA-AC
* *
75274202 AAT-ATACAAATAATAAC
1 AATAAAACAAATATTAAC
75274219 AATAAAA
1 AATAAAA
75274226 TAGTAGTAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.30
18 21 0.57
19 5 0.14
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAACAAATATTAAC
Found at i:75278531 original size:33 final size:33
Alignment explanation
Indices: 75278492--75278580 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
75278482 GAGGTGTACA
*
75278492 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTTCAAGTGGTACACACAAAGTATACCT
*
75278525 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTTCA-AGTGGTACACACAAAGTATACCT
** *
75278558 AACCTTTTCAAGT-GTACATACAA
1 TTCCTTTTCAAGTGGTACACACAA
75278581 GGTGTACATA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
32 9 0.19
33 38 0.79
34 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.34
Consensus pattern (33 bp):
TTCCTTTTCAAGTGGTACACACAAAGTATACCT
Found at i:75288311 original size:61 final size:60
Alignment explanation
Indices: 75288182--75288313 Score: 151
Period size: 61 Copynumber: 2.2 Consensus size: 60
75288172 AAGAATCGAT
* * ** * * *
75288182 TAGTTGGGTGATCAATTTAAAAAAATTCATAATTGGGTGACCAAAGAAGACACAAATCCA
1 TAGTTGGGTGATCAATTTAAAAAAAATAATAATTGAATGACCAAAAAAAAAACAAATCCA
*
75288242 TAGTTGGGTGATCAATTTTAAAAAAACATAATAATTGAATGACCAAAAAAAAAAC-GA-CCTA
1 TAGTTGGGTGATCAA-TTTAAAAAAA-ATAATAATTGAATGACCAAAAAAAAAACAAATCC-A
75288303 TAGTTGGGTGA
1 TAGTTGGGTGA
75288314 CCTATAGTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
60 17 0.28
61 23 0.38
62 21 0.34
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (60 bp):
TAGTTGGGTGATCAATTTAAAAAAAATAATAATTGAATGACCAAAAAAAAAACAAATCCA
Found at i:75288456 original size:30 final size:29
Alignment explanation
Indices: 75288403--75288461 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
75288393 AATTAGATTA
*
75288403 TTTTTGAAAATTGATGGTTAAATTCAATT
1 TTTTTGAAAATTGATGATTAAATTCAATT
*
75288432 TTTTTGAAAATGTAGAT-ATTAAATTTAATT
1 TTTTTGAAAAT-T-GATGATTAAATTCAATT
75288462 AGAAAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 11 0.42
30 12 0.46
31 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTTTGAAAATTGATGATTAAATTCAATT
Found at i:75289170 original size:17 final size:17
Alignment explanation
Indices: 75289148--75289180 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
75289138 TGCACAAGTA
75289148 TATATAAAAAAAAAAAC
1 TATATAAAAAAAAAAAC
75289165 TATATAAAAAAAAAAA
1 TATATAAAAAAAAAAA
75289181 AACTAACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
TATATAAAAAAAAAAAC
Found at i:75289170 original size:19 final size:19
Alignment explanation
Indices: 75289146--75289185 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
75289136 CCTGCACAAG
*
75289146 TATATATAAAAAAAAAAAC
1 TATATAAAAAAAAAAAAAC
75289165 TATATAAAAAAAAAAAAAC
1 TATATAAAAAAAAAAAAAC
75289184 TA
1 TA
75289186 ACATGGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (19 bp):
TATATAAAAAAAAAAAAAC
Found at i:75289173 original size:15 final size:15
Alignment explanation
Indices: 75289150--75289179 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
75289140 CACAAGTATA
75289150 TATAAAAAAAAAAAC
1 TATAAAAAAAAAAAC
75289165 TATATAAAAAAAAAA
1 TATA-AAAAAAAAAA
75289180 AAACTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
TATAAAAAAAAAAAC
Found at i:75295210 original size:25 final size:23
Alignment explanation
Indices: 75295166--75295212 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
75295156 CAAAGTAAGA
*
75295166 AATTCTAAAATAAAATATAAAAC
1 AATTCTAAAATAAAACATAAAAC
*
75295189 AATTCTAACAAATAATACATAAAA
1 AATTCT-A-AAATAAAACATAAAA
75295213 AGGATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 1 0.05
25 13 0.65
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTCTAAAATAAAACATAAAAC
Found at i:75295338 original size:21 final size:23
Alignment explanation
Indices: 75295291--75295344 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
75295281 CATTGAAGAT
**
75295291 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
75295314 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
75295335 AAAAT-ATATA
1 AAAATAATATA
75295345 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:75295388 original size:25 final size:25
Alignment explanation
Indices: 75295292--75295408 Score: 78
Period size: 25 Copynumber: 4.7 Consensus size: 25
75295282 ATTGAAGATA
* * *
75295292 AAATAATATATAAAACTCTT-TAA-
1 AAATAATATATAAAAATATTAAAAT
*
75295315 AAATAATATATAAACAAT-TCAAAAT
1 AAATAATATATAAA-AATATTAAAAT
* * * *
75295340 ATATAATGTGTAAAAAAAGGTTAAAAT
1 AAATAATATATAAAAATA--TTAAAAT
* * *
75295367 ACATAATATATGAAAATATTAAAGT
1 AAATAATATATAAAAATATTAAAAT
*
75295392 AAATAATGTATAAAAAT
1 AAATAATATATAAAAAT
75295409 TTGAAATGAG
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
23 15 0.21
24 6 0.08
25 31 0.44
27 19 0.27
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (25 bp):
AAATAATATATAAAAATATTAAAAT
Found at i:75295576 original size:29 final size:29
Alignment explanation
Indices: 75295544--75295600 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
75295534 ATTAGTATAT
75295544 AAATAGAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAA-ATAATAATAGTAG
*
75295573 AAATATAAATAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAATAATAGTA
75295601 TTAGAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (29 bp):
AAATAGAAATAGATAAATAATAATAGTAG
Found at i:75295580 original size:14 final size:15
Alignment explanation
Indices: 75295560--75295600 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
75295550 AAATAGAAAT
75295560 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
75295575 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
75295589 ATAATAATAGTA
1 ATAATAATAGTA
75295601 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:75295598 original size:43 final size:43
Alignment explanation
Indices: 75295542--75295640 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
75295532 ATATTAGTAT
* * * *
75295542 ATAAATAGA-AATAGAAATATAATAATAGTAGAAATATAAATAG
1 ATAAATA-ATAATAGAAATAGAATAACAGAAGAAATACAAATAG
* * *
75295585 ATAAATAATAATAGTATTAGAATAACAGAATAAATACAAATAG
1 ATAAATAATAATAGAAATAGAATAACAGAAGAAATACAAATAG
75295628 A-AACATAATAATA
1 ATAA-ATAATAATA
75295641 ATAGCAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.06
43 44 0.94
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (43 bp):
ATAAATAATAATAGAAATAGAATAACAGAAGAAATACAAATAG
Found at i:75295609 original size:29 final size:27
Alignment explanation
Indices: 75295526--75295609 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 27
75295516 AAATAATAAT
*
75295526 AAAATAATATTAGTATATAAATAGAAATAG
1 AAAATAATAATAGTAT-TAAAT--AAATAG
**
75295556 AAATATAATAATAGTAGAAATATAAATAG
1 AAA-ATAATAATAGTATTAA-ATAAATAG
75295585 ATAAATAATAATAGTATTAGAATAA
1 A-AAATAATAATAGTATTA-AATAA
75295610 CAGAATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
29 24 0.53
30 8 0.18
31 13 0.29
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATAATAATAGTATTAAATAAATAG
Found at i:75296152 original size:5 final size:5
Alignment explanation
Indices: 75296144--75296170 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
75296134 CTAATTTAAT
75296144 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
75296171 ATAATATCTT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:75296569 original size:17 final size:17
Alignment explanation
Indices: 75296547--75296584 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
75296537 AAATCAAATT
75296547 ATGATAAATTAAAATAA
1 ATGATAAATTAAAATAA
75296564 ATGATAAATTAAAATAA
1 ATGATAAATTAAAATAA
75296581 ATGA
1 ATGA
75296585 ACTAACTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (17 bp):
ATGATAAATTAAAATAA
Found at i:75299335 original size:8 final size:8
Alignment explanation
Indices: 75299322--75299366 Score: 56
Period size: 8 Copynumber: 5.4 Consensus size: 8
75299312 TTAACATAGT
75299322 TTATTTTA
1 TTATTTTA
75299330 TTATTTTA
1 TTATTTTA
75299338 TTAAATTTGT-
1 TT--ATTT-TA
75299348 TTATTTTA
1 TTATTTTA
75299356 TTATTTTA
1 TTATTTTA
75299364 TTA
1 TTA
75299367 AATTTGTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 1 0.03
8 25 0.76
10 6 0.18
11 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (8 bp):
TTATTTTA
Found at i:75299339 original size:13 final size:13
Alignment explanation
Indices: 75299321--75299365 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
75299311 GTTAACATAG
75299321 TTTATTTTATTAT
1 TTTATTTTATTAT
**
75299334 TTTATTAAATT-T
1 TTTATTTTATTAT
75299346 GTTTATTTTATTAT
1 -TTTATTTTATTAT
75299360 TTTATT
1 TTTATT
75299366 AAATTTGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:75299349 original size:26 final size:26
Alignment explanation
Indices: 75299320--75299374 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
75299310 GGTTAACATA
75299320 GTTTATTTTATTATTTTATTAAATTT
1 GTTTATTTTATTATTTTATTAAATTT
75299346 GTTTATTTTATTATTTTATTAAATTT
1 GTTTATTTTATTATTTTATTAAATTT
75299372 GTT
1 GTT
75299375 GGTGTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (26 bp):
GTTTATTTTATTATTTTATTAAATTT
Found at i:75299500 original size:23 final size:24
Alignment explanation
Indices: 75299472--75299528 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
75299462 ATTGAATCTT
*
75299472 AATTTTAAATTTTGAAAAA-AATA
1 AATTTTAAATTTTGAAAAATAAAA
*
75299495 AATTTTAAA--ATGAAAAATAAAA
1 AATTTTAAATTTTGAAAAATAAAA
*
75299517 AAATTTAAATTT
1 AATTTTAAATTT
75299529 AAATATGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 7 0.26
22 11 0.41
23 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
AATTTTAAATTTTGAAAAATAAAA
Found at i:75300561 original size:28 final size:28
Alignment explanation
Indices: 75300521--75300577 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
75300511 TAAGAAAACA
75300521 AATAGTTTTTGAGTTCATTCAAATTGTT
1 AATAGTTTTTGAGTTCATTCAAATTGTT
75300549 AATAGTTTTTGAGTTCATTCAAATTGTT
1 AATAGTTTTTGAGTTCATTCAAATTGTT
75300577 A
1 A
75300578 GGTTTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (28 bp):
AATAGTTTTTGAGTTCATTCAAATTGTT
Found at i:75302207 original size:2 final size:2
Alignment explanation
Indices: 75302200--75302229 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
75302190 CATCATAAAT
75302200 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75302230 ACGTATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75302442 original size:16 final size:15
Alignment explanation
Indices: 75302404--75302446 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
75302394 AATGAAACAT
75302404 ACAAATTGAAATAAA
1 ACAAATTGAAATAAA
* *
75302419 ACTTAATTGAGATAAA
1 AC-AAATTGAAATAAA
75302435 ATCAAATTGAAA
1 A-CAAATTGAAA
75302447 GGGGGCGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 2 0.09
16 19 0.86
17 1 0.05
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (15 bp):
ACAAATTGAAATAAA
Found at i:75304598 original size:180 final size:179
Alignment explanation
Indices: 75303972--75304750 Score: 845
Period size: 180 Copynumber: 4.4 Consensus size: 179
75303962 GATAAGACTG
* * * *
75303972 CTCTCTTGCTACCTCAGGGAGATAAAGC---TGG-TAAAATCTGCTCCATTGCCAATACATGGAG
1 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAG
* * * * *
75304033 ATAAGATTCACCATCTTC--GATCTGCTCTGCTGCAACTTCAGGGAGATAAGATATTCAATTTTC
66 ATAAGATTCACCATCTGCAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCTC
* * * * *
75304096 AGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTATTCAACCTA
131 AATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCACTCTTCAACCTA
* * *
75304145 CTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGTTTAAATCTGCTCCATTGCCGATACATAGAG
1 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAG
* ** * * * **** ** *
75304210 ATAAAATTCACCATCT--TTGATCTACTTCACTTTTGCTT-AGGGAGATAAGGTCTTTAA-TCTT
66 ATAAGATTCACCATCTGCAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTC-T
* * *
75304271 CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-ATCATCTTCAAACTTG
130 CAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCA-C-TCTTC-AACCTA
* * * * *
75304323 CTCTTTTGCTACCTCAGAGAGATAAGGTTTGG-GGC-TCAATCTACTCCATTGCTGATACATGGA
1 CTCTCTTGCTACCTCAGAGAGATAAGG-CTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGA
* *
75304386 GATAAGATT-AGCCATCTGCGAAGATCTGCTCCGCAGCAACTTCAAGGAGATAAAATCTTCAATT
65 GATAAGATTCA-CCATCTGC-AAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATT
* * *
75304450 CACAATTTGCTTCCTTGCTACCTTAGGAAGATAAGACTCACTCTTCAACCTA
128 CTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCACTCTTCAACCTA
* *
75304502 CTCTCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTTAAATCTGC-CCTATTGCCGATACATGAA
1 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCC-ATTGCCGATACATGGA
*
75304566 GATAAGATT-AGCCATCTGCAAAGATTTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATT
65 GATAAGATTCA-CCATCTGC-AAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATT
* * *
75304630 CTCAATCTGCTTCCTTGCTACCTCAGGGAGATAAGA-TGCATTCTTCAACCTG
128 CTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CACTCTTCAACCTA
* * * * * *
75304682 TTCTATTGCTACTTCAGAGAGATAAAGCTTGAGGCTTAAATCTGCTCCATTGCCGATACATGGAG
1 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAG
75304747 ATAA
66 ATAA
75304751 AATTTGCCTC
Statistics
Matches: 507, Mismatches: 76, Indels: 39
0.82 0.12 0.06
Matches are distributed among these distances:
173 26 0.05
175 2 0.00
176 55 0.11
177 96 0.19
178 35 0.07
179 37 0.07
180 202 0.40
181 51 0.10
182 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (179 bp):
CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAG
ATAAGATTCACCATCTGCAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCTC
AATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCACTCTTCAACCTA
Found at i:75305202 original size:64 final size:64
Alignment explanation
Indices: 75305104--75305345 Score: 367
Period size: 64 Copynumber: 3.8 Consensus size: 64
75305094 TTATACCAAC
* *
75305104 TAATTAGGATACTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTGATGCTTATGTTAAA
1 TAATTAGGATACTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTTATGTCAAA
* * * * *
75305168 TAATTAGGATGCTATGATCAAAATGAATCCAATGCTCCTAACCAGATGTAATGCTGATGTCAAA
1 TAATTAGGATACTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTTATGTCAAA
* *
75305232 TAATTAGGATATTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGATGCTTATGTCAAA
1 TAATTAGGATACTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTTATGTCAAA
** * *
75305296 TAATTAGGATGTTATGATCGAAATGAATCAAATGCTCCTAATTAGATGTG
1 TAATTAGGATACTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
75305346 TTATGAATGA
Statistics
Matches: 162, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 162 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (64 bp):
TAATTAGGATACTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTTATGTCAAA
Found at i:75305395 original size:14 final size:14
Alignment explanation
Indices: 75305376--75305408 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
75305366 CAAAAAATGG
75305376 AAATGATCTTTTTT
1 AAATGATCTTTTTT
75305390 AAATGATCTTTTTT
1 AAATGATCTTTTTT
75305404 AAATG
1 AAATG
75305409 CTCAAGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (14 bp):
AAATGATCTTTTTT
Found at i:75312143 original size:16 final size:15
Alignment explanation
Indices: 75312105--75312147 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
75312095 AATGAAACAT
75312105 ACAAATTGAAATAAA
1 ACAAATTGAAATAAA
* *
75312120 ACTTAATTGAGATAAA
1 AC-AAATTGAAATAAA
75312136 ATCAAATTGAAA
1 A-CAAATTGAAA
75312148 GGGGGCAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 2 0.09
16 19 0.86
17 1 0.05
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (15 bp):
ACAAATTGAAATAAA
Found at i:75314262 original size:180 final size:179
Alignment explanation
Indices: 75313668--75314449 Score: 849
Period size: 180 Copynumber: 4.4 Consensus size: 179
75313658 AAGATAAGAA
* * * * *
75313668 TGCTCTCTTACTACCTCAGGGAGATAAAGC---TGG-TAAAATCTGCTCCATTGCCAATACATGG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
* * * * *
75313729 AGATAAGATTCACCATCTTC--GATCTGCTCTGCTGCAACTTCAGGGAGATAAGATATTCAATTT
66 AGATAAGATTCACCATCTGCAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTC
* * * * *
75313792 TCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTATTTAACC
131 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCACTCTTCAACC
* * * *
75313841 TACTCTCTTGCTACCTCAGAGAGATAAGGCTGATGGTTTAAATCTGCTCCATTGCCGATACATAG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
* ** * * * **** ** *
75313906 AGATAAAATTCACCATCT--TTGATCTACTTCACTTTTGCTT-AGGGAGATAAGGTCTTTAA-TC
66 AGATAAGATTCACCATCTGCAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTC
*
75313967 TTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-ATCATCTTCAAACT
131 -TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCA-C-TCTTC-AACC
* * * **
75314019 TGCTCTTTTGCTACCTCAGAGAGATAAGGTTTGG-GGCTTAAATCTACTCCATTGCTAATACATG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGG-CTGGTGGCTTAAATCTGCTCCATTGCCGATACATG
* *
75314083 GAGATAAGATT-AGCCATCTGCGAAGATCTGCTCCGCAGCAACTTCAAGGAGATAAAATCTTCAA
65 GAGATAAGATTCA-CCATCTGC-AAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAA
* * * *
75314147 TTCACAATTTGCTTCCTTGCTACCTTAGGAAGATAAGACTCACTCTTCAACC
128 TTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCACTCTTCAACC
* *
75314199 TGCTCTCTTGCTACCTCAGAAAGATAAGGCTGGTGGCTTAAATCTGC-CCTAGTGCCGATACATG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCC-ATTGCCGATACATG
*
75314263 GAGATAAGATT-AGCCATCTGCAAAGATTTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAA
65 GAGATAAGATTCA-CCATCTGC-AAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAA
* * * *
75314327 TT-TCCAGTCTGCTTCCTTTCTACCTCAGGGAGATAAGACGCATTCTTCAACC
128 TTCT-CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCACTCTTCAACC
* * * * *
75314379 TGTTCTATTGCTACTTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTGCCGATACATGG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
75314444 AGATAA
66 AGATAA
75314450 AATTTGCCTC
Statistics
Matches: 506, Mismatches: 81, Indels: 37
0.81 0.13 0.06
Matches are distributed among these distances:
173 26 0.05
175 2 0.00
176 54 0.11
177 58 0.11
178 71 0.14
179 7 0.01
180 217 0.43
181 19 0.04
182 49 0.10
183 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (179 bp):
TGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
AGATAAGATTCACCATCTGCAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTC
TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCACTCTTCAACC
Found at i:75314890 original size:64 final size:64
Alignment explanation
Indices: 75314789--75315041 Score: 362
Period size: 64 Copynumber: 4.0 Consensus size: 64
75314779 TTTATGTATC
** * *
75314789 ATGCTTATACCAACTAATTAGGATGCTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * * * * *
75314853 ATGCTTATGTTAAATAATTAGGATGCTACGATCAAAATGAATCCAATACTCCTAACCAGATGTA
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* *
75314917 ATGCTAATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * * *
75314981 ATGCTTATGTCAAATAATTCGGATGCTATAATCGAAATGAATCAAATGCTCCTAATTAGAT
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGAT
75315042 ATGTTATGAA
Statistics
Matches: 167, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 167 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:75315094 original size:14 final size:14
Alignment explanation
Indices: 75315075--75315107 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
75315065 CAAAAAATAG
75315075 AAATGATCTTTTTT
1 AAATGATCTTTTTT
75315089 AAATGATCTTTTTT
1 AAATGATCTTTTTT
75315103 AAATG
1 AAATG
75315108 CTCAAGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (14 bp):
AAATGATCTTTTTT
Found at i:75317193 original size:44 final size:45
Alignment explanation
Indices: 75317098--75317212 Score: 146
Period size: 44 Copynumber: 2.6 Consensus size: 45
75317088 ACAGGACAGA
*
75317098 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGATTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGATTTGGAG
* *
75317144 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCA-TTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGG-ATTTGGAG
*
75317188 ACAGGAAT-AACTCATGTAAGTCCAT
1 ACAGGAATGAGC-CATGTAAGTCCAT
75317213 GTCAAAGACA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 2 0.03
44 33 0.53
45 1 0.02
46 26 0.42
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGATTTGGAG
Found at i:75324503 original size:46 final size:44
Alignment explanation
Indices: 75324444--75324558 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
75324434 ACAGGACAGA
* *
75324444 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
75324490 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
75324534 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
75324559 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:75324539 original size:44 final size:45
Alignment explanation
Indices: 75324444--75324577 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
75324434 ACAGGACAGA
* *
75324444 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
75324490 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
75324534 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
75324578 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:75326119 original size:22 final size:22
Alignment explanation
Indices: 75326086--75326128 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
75326076 TGATTCCATC
*
75326086 TTTCTTTCTTTTTTTCTTTTTA
1 TTTCTTTCTTTTTTTATTTTTA
75326108 TTTCTCTT-TTTTTTTATTTTT
1 TTTCT-TTCTTTTTTTATTTTT
75326129 TTAAAGTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTCTTTCTTTTTTTATTTTTA
Found at i:75331463 original size:13 final size:13
Alignment explanation
Indices: 75331445--75331478 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
75331435 TTTCCTTTAA
75331445 ATAATAAAAATAT
1 ATAATAAAAATAT
75331458 ATAAT-AAAATAT
1 ATAATAAAAATAT
75331470 ATGAATAAA
1 AT-AATAAA
75331479 TCTAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.47
13 8 0.42
14 2 0.11
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
ATAATAAAAATAT
Found at i:75331479 original size:12 final size:12
Alignment explanation
Indices: 75331445--75331478 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
75331435 TTTCCTTTAA
75331445 ATAATAAAAATAT
1 ATAAT-AAAATAT
75331458 ATAATAAAATAT
1 ATAATAAAATAT
75331470 ATGAATAAA
1 AT-AATAAA
75331479 TCTAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (12 bp):
ATAATAAAATAT
Found at i:75333004 original size:46 final size:44
Alignment explanation
Indices: 75332945--75333059 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
75332935 ACAGGACAGA
* *
75332945 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
75332991 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
75333035 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
75333060 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:75333040 original size:44 final size:45
Alignment explanation
Indices: 75332945--75333078 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
75332935 ACAGGACAGA
* *
75332945 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
75332991 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
75333035 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
75333079 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:75339145 original size:46 final size:44
Alignment explanation
Indices: 75339086--75339200 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
75339076 ACAGGACAGA
* *
75339086 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
75339132 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
75339176 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
75339201 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:75339181 original size:44 final size:45
Alignment explanation
Indices: 75339086--75339219 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
75339076 ACAGGACAGA
* *
75339086 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
75339132 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
75339176 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
75339220 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:75340698 original size:16 final size:15
Alignment explanation
Indices: 75340660--75340702 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
75340650 AATGAAACAT
75340660 ACAAATTGAAATAAA
1 ACAAATTGAAATAAA
* *
75340675 ACTTAATTGAGATAAA
1 AC-AAATTGAAATAAA
75340691 ATCAAATTGAAA
1 A-CAAATTGAAA
75340703 GGGGGCAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 2 0.09
16 19 0.86
17 1 0.05
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (15 bp):
ACAAATTGAAATAAA
Found at i:75352938 original size:33 final size:33
Alignment explanation
Indices: 75352899--75352964 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
75352889 CAAAATTATT
*
75352899 CCAAACCCAA-CTCGAATTAACCAAAACCAAAA
1 CCAAAACCAATCTCGAATTAACCAAAACCAAAA
75352931 CCAAAACCAATCTCGAATTAACCAAAACCAAAA
1 CCAAAACCAATCTCGAATTAACCAAAACCAAAA
75352964 C
1 C
75352965 TAACCCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.11
Consensus pattern (33 bp):
CCAAAACCAATCTCGAATTAACCAAAACCAAAA
Found at i:75356537 original size:20 final size:20
Alignment explanation
Indices: 75356514--75356590 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
75356504 TTAATATTTT
75356514 TAAATCTTTAGATATTTTGA
1 TAAATCTTTAGATATTTTGA
75356534 TAAAGTCTTATA-ATA--TTGA
1 TAAA-TCTT-TAGATATTTTGA
* * *
75356553 TAAATCTTTAAAAATATT-A
1 TAAATCTTTAGATATTTTGA
*
75356572 GTAAATTTTTAGATATTTT
1 -TAAATCTTTAGATATTTT
75356591 AGTAAAAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 2 0.04
18 6 0.13
19 9 0.20
20 20 0.43
21 7 0.15
22 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (20 bp):
TAAATCTTTAGATATTTTGA
Found at i:75356549 original size:21 final size:17
Alignment explanation
Indices: 75356504--75356563 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
75356494 TAAGAATTTA
75356504 TTAATATTTTTAAATCT
1 TTAATATTTTTAAATCT
75356521 TTAGATATTTTGATAAAGTCT
1 TTA-ATATTTT--TAAA-TCT
**
75356542 TATAATATTGATAAATCT
1 T-TAATATTTTTAAATCT
75356560 TTAA
1 TTAA
75356564 AAATATTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 6 0.17
18 11 0.31
19 4 0.11
20 4 0.11
21 9 0.25
22 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (17 bp):
TTAATATTTTTAAATCT
Found at i:75357095 original size:18 final size:18
Alignment explanation
Indices: 75357069--75357104 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
75357059 TGTTTTTGGA
*
75357069 GCCTTGTTCACGTGATCG
1 GCCTGGTTCACGTGATCG
75357087 GCCTGGTTCACGTGATCG
1 GCCTGGTTCACGTGATCG
75357105 AGCTCATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.28, G:0.31, T:0.31
Consensus pattern (18 bp):
GCCTGGTTCACGTGATCG
Found at i:75374418 original size:29 final size:29
Alignment explanation
Indices: 75374384--75374440 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
75374374 TTCAGAACCA
75374384 TAATTT-AAATTTCATATAT-ATAATTACAC
1 TAATTTAAAATTT-ATATATCA-AATTACAC
75374413 TAATTTAAAATTTATATATCAAATTACA
1 TAATTTAAAATTTATATATCAAATTACA
75374441 TATTAAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (29 bp):
TAATTTAAAATTTATATATCAAATTACAC
Found at i:75374463 original size:2 final size:2
Alignment explanation
Indices: 75374450--75374486 Score: 56
Period size: 2 Copynumber: 17.5 Consensus size: 2
75374440 ATATTAAACC
75374450 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
75374487 TTCTCCCCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 29 0.88
3 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:75380508 original size:3 final size:3
Alignment explanation
Indices: 75380500--75380536 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
75380490 AAAACTTTTA
75380500 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
75380537 AAATGAAGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:75397184 original size:30 final size:30
Alignment explanation
Indices: 75397144--75397200 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
75397134 ATAACTCATA
75397144 TTTAACAGAGATGGCAACGAGAAATTGACT
1 TTTAACAGAGATGGCAACGAGAAATTGACT
* *
75397174 TTTAATAGAGATGGCAACGAGAGATTG
1 TTTAACAGAGATGGCAACGAGAAATTG
75397201 GTCAGCGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.25
Consensus pattern (30 bp):
TTTAACAGAGATGGCAACGAGAAATTGACT
Found at i:75403223 original size:32 final size:32
Alignment explanation
Indices: 75403187--75403252 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
75403177 TTTTTTTAAC
75403187 AATTTTCTAAATTATTTTAACATATTACCTTA
1 AATTTTCTAAATTATTTTAACATATTACCTTA
75403219 AATTTTCTAAATTATTTTAACATATTACCTTA
1 AATTTTCTAAATTATTTTAACATATTACCTTA
75403251 AA
1 AA
75403253 CACTTTGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTTTCTAAATTATTTTAACATATTACCTTA
Found at i:75407688 original size:42 final size:41
Alignment explanation
Indices: 75407639--75407751 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 41
75407629 TTCATTTTCT
** * *
75407639 TGATGCCATAGTTCAACTATGGTCCTACACATCTTCACATAA
1 TGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
*
75407681 TGATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
75407722 TCGATGCCATAGCCCAGCTATGGTCTTACA
1 T-GATGCCATAGCCCAACTATGGTCTTACA
75407752 TGAATCACAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 2 0.03
42 62 0.97
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (41 bp):
TGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:75407859 original size:31 final size:31
Alignment explanation
Indices: 75407824--75407970 Score: 208
Period size: 31 Copynumber: 4.7 Consensus size: 31
75407814 CTTGTTACTT
*
75407824 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
*
75407855 GTAGCCAGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**
75407886 GTAGTCGGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CCAAAGCTACCACTTTTCACTGATCAG
75407917 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCA-AAGCTACCACTTTTCACTGATCAG
**
75407948 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCAAAGCTACCACTTTTCA
75407971 TTTGTCATTG
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
30 2 0.02
31 99 0.96
32 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Done.