Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 191 of 226
Found at i:57651453 original size:42 final size:43
Alignment explanation
Indices: 57651405--57651521 Score: 182
Period size: 42 Copynumber: 2.7 Consensus size: 43
57651395 TTTTTTATAT
*
57651405 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCATTTGT-AA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGTAAA
*
57651447 AAAAACGCCGCTACAGAACATGTTCTTTAGCGGCATTTGTAAAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGT-AAA
* *
57651491 AAAAATGCCGCTAAAGAAAATGTTCTTTAGC
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGC
57651522 TTTAGCGGCG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
42 38 0.56
44 30 0.44
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTGTAAA
Found at i:57653747 original size:29 final size:30
Alignment explanation
Indices: 57653715--57653809 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
57653705 GCAATCTGAT
* *
57653715 ACAT-AAACTTTTATTTGGTGCAATTATAC
1 ACATGAAACTTTCATTTGGTTCAATTATAC
* * *
57653744 ACATGAAACTTTGATTGTGGTTCAAATATAT
1 ACATGAAACTTTCATT-TGGTTCAATTATAC
* * *
57653775 TCATGAAACTTTCATTTTGATTCAGTTATAC
1 ACATGAAACTTTCA-TTTGGTTCAATTATAC
57653806 ACAT
1 ACAT
57653810 TTAAAGAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 4 0.08
30 10 0.19
31 36 0.69
32 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (30 bp):
ACATGAAACTTTCATTTGGTTCAATTATAC
Found at i:57658612 original size:34 final size:34
Alignment explanation
Indices: 57658574--57658646 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
57658564 TATAAAAAAC
* *
57658574 CCCTAAACCCTACTTTAAATAAACAAAACTCTAA
1 CCCTAAACCCTAATTTAAATAAACAAAACCCTAA
*
57658608 CCCTAAACCCTAATTTTAATAAACAAAACCCTAA
1 CCCTAAACCCTAATTTAAATAAACAAAACCCTAA
57658642 CCCTA
1 CCCTA
57658647 TTAAAAACGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (34 bp):
CCCTAAACCCTAATTTAAATAAACAAAACCCTAA
Found at i:57661266 original size:31 final size:31
Alignment explanation
Indices: 57661231--57661294 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
57661221 TTTGTCGGGG
57661231 CTAAATTATTGCAAAAGGACCCCCCCGCCCA
1 CTAAATTATTGCAAAAGGACCCCCCCGCCCA
57661262 CTAAATTATTGCAAAAGGACCCCCCCGCCCA
1 CTAAATTATTGCAAAAGGACCCCCCCGCCCA
57661293 CT
1 CT
57661295 GACACATCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.39, G:0.12, T:0.17
Consensus pattern (31 bp):
CTAAATTATTGCAAAAGGACCCCCCCGCCCA
Found at i:57665155 original size:31 final size:31
Alignment explanation
Indices: 57665117--57665175 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
57665107 CTCACTTCAC
**
57665117 TCCCTAATATTATCAAGCATTCTCAATTTAG
1 TCCCTAATATTATCAAAAATTCTCAATTTAG
57665148 TCCCTAATATTATCAAAAATTCTCAATT
1 TCCCTAATATTATCAAAAATTCTCAATT
57665176 CAATTCTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (31 bp):
TCCCTAATATTATCAAAAATTCTCAATTTAG
Found at i:57665350 original size:22 final size:22
Alignment explanation
Indices: 57665325--57665405 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
57665315 TTGATGTAAA
57665325 AATTA-AAAACAGAAAATTATAT
1 AATTACAAAA-AGAAAATTATAT
*
57665347 AATTACAAAAAGAACATTATA-
1 AATTACAAAAAGAAAATTATAT
* *
57665368 AATATATAAAAA-AAACTTA-A-
1 AAT-TACAAAAAGAAAATTATAT
*
57665388 ATTTACAAAAA-AAAATTA
1 AATTACAAAAAGAAAATTA
57665406 AAAAATAGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.26
20 3 0.06
21 8 0.16
22 22 0.44
23 4 0.08
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.26
Consensus pattern (22 bp):
AATTACAAAAAGAAAATTATAT
Found at i:57672434 original size:13 final size:13
Alignment explanation
Indices: 57672416--57672455 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
57672406 ATGTAGTATA
57672416 TTTATAAAAAAAT
1 TTTATAAAAAAAT
57672429 TTTATAAAAAAAT
1 TTTATAAAAAAAT
** *
57672442 AATATTAAAAAAT
1 TTTATAAAAAAAT
57672455 T
1 T
57672456 AATTTAGGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTATAAAAAAAT
Found at i:57673334 original size:8 final size:8
Alignment explanation
Indices: 57673308--57673399 Score: 51
Period size: 8 Copynumber: 11.0 Consensus size: 8
57673298 TAATATCTTG
57673308 AAAATATAT
1 AAAA-ATAT
*
57673317 AAAAAAAT
1 AAAAATAT
*
57673325 AAACATAT
1 AAAAATAT
***
57673333 AACTTTAT
1 AAAAATAT
57673341 AAAAA-AT
1 AAAAATAT
*
57673348 AAAAAATAA
1 -AAAAATAT
57673357 AAAAATAT
1 AAAAATAT
57673365 ATATAAACTAT
1 A-A-AAA-TAT
**
57673376 AAATTTAT
1 AAAAATAT
57673384 AAAAATAT
1 AAAAATAT
*
57673392 ATAAATAT
1 AAAAATAT
57673400 GTAAAATTAC
Statistics
Matches: 62, Mismatches: 16, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
7 2 0.03
8 45 0.73
9 7 0.11
10 4 0.06
11 4 0.06
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAAATAT
Found at i:57675728 original size:7 final size:7
Alignment explanation
Indices: 57675716--57675744 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
57675706 AACTTTCAAT
57675716 AAATAAA
1 AAATAAA
57675723 AAATAAA
1 AAATAAA
57675730 AAATAAA
1 AAATAAA
57675737 AAATAAA
1 AAATAAA
57675744 A
1 A
57675745 TTATTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:57687256 original size:27 final size:27
Alignment explanation
Indices: 57687202--57687257 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
57687192 ATACTGTTCC
* *
57687202 TTCAGAATGCGCCACAGAGGCATTTCA
1 TTCAGAATGCGCCACAAAGGCATATCA
*
57687229 TTCAGATTGTCGCCACAAAGGC-TATCA
1 TTCAGAATG-CGCCACAAAGGCATATCA
57687256 TT
1 TT
57687258 TTAGAGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (27 bp):
TTCAGAATGCGCCACAAAGGCATATCA
Found at i:57697694 original size:318 final size:318
Alignment explanation
Indices: 57697117--57697737 Score: 1233
Period size: 318 Copynumber: 2.0 Consensus size: 318
57697107 CTCAAATGAA
57697117 AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
1 AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
*
57697182 GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAGA
66 GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
57697247 TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
131 TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
57697312 AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
196 AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
57697377 TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAGATAAAACTTTTGGTC
261 TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAGATAAAACTTTTGGTC
57697435 AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
1 AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
57697500 GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
66 GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
57697565 TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
131 TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
57697630 AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
196 AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
57697695 TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAG
261 TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAG
57697738 TTATATCATT
Statistics
Matches: 302, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
318 302 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (318 bp):
AGGTACACTAGATGACAATTGTTCTAAATTGATACACTGTTCTAAACATAGTTATTCAAGACATA
GTTATTCTCAAACAACGGTCGTTATGAACAACTATTTTAAATAATTATTATTCTTCTGAAAGAAA
TAATAAGTGAACAACGTTGCAACTTCTTCCAGGCTTGGTAACTCAATTTCTTGAAACAATAGCCA
AAACCAGATATCTGTTGGAATATTTTCAAATATTTATAGTATCCCAATAACTATAAATGAATGGG
TGTAATTAATCAAAAGATAAAACTTTTGGTCATTGGTCAAAAGATAAAACTTTTGGTC
Found at i:57706012 original size:17 final size:16
Alignment explanation
Indices: 57705967--57706014 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
57705957 TTTATTTATT
57705967 TTTTATGTAGTTATTTTA
1 TTTTAT-TA-TTATTTTA
* *
57705985 TTTTTTTATTATTTTG
1 TTTTATTATTATTTTA
57706001 TTCTTATTATTATT
1 TT-TTATTATTATT
57706015 CTAACCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 9 0.35
17 12 0.46
18 5 0.19
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTTATTATTATTTTA
Found at i:57711459 original size:18 final size:18
Alignment explanation
Indices: 57711436--57711476 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
57711426 AAGTACTAAT
57711436 GCCACCTAGCCTAGATAA
1 GCCACCTAGCCTAGATAA
57711454 GCCACCTAGCCTAGATAA
1 GCCACCTAGCCTAGATAA
57711472 GCCAC
1 GCCAC
57711477 TGATACTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.37, G:0.17, T:0.15
Consensus pattern (18 bp):
GCCACCTAGCCTAGATAA
Found at i:57714741 original size:94 final size:93
Alignment explanation
Indices: 57714550--57715013 Score: 285
Period size: 94 Copynumber: 5.1 Consensus size: 93
57714540 TACAGTGGGT
* * * *
57714550 CAGATTGAAATCACCATAGCAAATCTTATCTCCCTAAAGTTGCAGTAGAG-AAGATTTAAGCTAT
1 CAGATTG-AATCACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTAAAGCTAC
** * * * * *
57714614 GGATCCTA-CACCCCTGAAGTCGCAGTGGGA
64 AAATCTTATC-TCCCTGAAATTGCAGTGGAA
* * *
57714644 CAGATTGAATCTACCATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAGTAAATTAAAGCTACA
1 CAGATTGAATC-ACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTACA
* *
57714709 AATCTTATCTCCTTGAAATTGTAGTGGAA
65 AATCTTATCTCCCTGAAATTGCAGTGGAA
* * * * * * *
57714738 CAGATT-AA--A-GATA-CAAATTTTATCTCCTTGAAGTTGTAGTGGAACAGATTACAGCTACAA
1 CAGATTGAATCACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTACAA
* * ** *
57714798 ACCTTATCTCCCT-AAAGTTACAGAAGAG
66 ATCTTATCTCCCTGAAA-TTGCAGTGGAA
* ** * * * * * * *
57714826 CAGATTGAAGCTATAACAACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAATCTACA
1 CAGATTGAATC-ACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTACA
* * *
57714891 AATCTTATCTCCTTGAAGTTGCAGTGGAG
65 AATCTTATCTCCCTGAAATTGCAGTGGAA
* * * * *** *
57714920 TAGATT--A--A--A-A-CAAACCTTATCTCCTTGAAGTTGCAGTGGAACGGTTTGAAGCTACAA
1 CAGATTGAATCACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTACAA
* * *
57714977 ATCTTATCTCCTTGAAGTTGCAGTGGAG
66 ATCTTATCTCCCTGAAATTGCAGTGGAA
*
57715005 CATATTGAA
1 CAGATTGAA
57715014 GCTACAAATC
Statistics
Matches: 297, Mismatches: 60, Indels: 33
0.76 0.15 0.08
Matches are distributed among these distances:
85 71 0.24
86 1 0.00
87 5 0.02
88 61 0.21
89 6 0.02
90 1 0.00
92 2 0.01
93 8 0.03
94 137 0.46
95 5 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (93 bp):
CAGATTGAATCACCATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTACAA
ATCTTATCTCCCTGAAATTGCAGTGGAA
Found at i:57714986 original size:85 final size:85
Alignment explanation
Indices: 57714843--57715004 Score: 252
Period size: 85 Copynumber: 1.9 Consensus size: 85
57714833 AAGCTATAAC
* * *
57714843 AACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAATCTACAAATCTTATCTCCTTGAA
1 AACAAACCTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAGCTACAAATCTTATCTCCTTGAA
57714908 GTTGCAGTGGAGTAGATTAA
66 GTTGCAGTGGAGTAGATTAA
* * * **
57714928 AACAAACCTTATCTCCTTGAAGTTGCAGTGGAACGGTTTGAAGCTACAAATCTTATCTCCTTGAA
1 AACAAACCTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAGCTACAAATCTTATCTCCTTGAA
57714993 GTTGCAGTGGAG
66 GTTGCAGTGGAG
57715005 CATATTGAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (85 bp):
AACAAACCTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAGCTACAAATCTTATCTCCTTGAA
GTTGCAGTGGAGTAGATTAA
Found at i:57715039 original size:44 final size:44
Alignment explanation
Indices: 57714665--57715029 Score: 369
Period size: 44 Copynumber: 8.2 Consensus size: 44
57714655 TACCATAGCG
* * * * *
57714665 AATCTTATTTCCCTGAAGTTGCAGTGGAGTAAATTAAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
57714709 AATCTTATCTCCTTGAAATTGTAGTGGAACAGATTAAAGATACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
57714753 AATTTTATCTCCTTGAAGTTGTAGTGGAACAGATT-ACAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGA-AGCTACA
* * * * **
57714797 AACCTTATCTCCCTAAAGTTACAGAAGAGCAGATTGAAGCTATAACAACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGC--T----ACA
* * * *
57714847 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAATCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
57714891 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATT-AA--AACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
57714932 AACCTTATCTCCTTGAAGTTGCAGTGGAACGGTTTGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
*
57714976 AATCTTATCTCCTTGAAGTTGCAGTGGAGCATATTGAAGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
57715020 AATCTTATCT
1 AATCTTATCT
57715030 TGCTAAAGTT
Statistics
Matches: 268, Mismatches: 42, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
41 33 0.12
42 2 0.01
43 3 0.01
44 190 0.71
45 1 0.00
46 1 0.00
48 1 0.00
50 37 0.14
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:57717183 original size:10 final size:9
Alignment explanation
Indices: 57717167--57717191 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57717157 CCCCTTTTTC
57717167 TAAAAAAAA
1 TAAAAAAAA
57717176 TAAAAAAAA
1 TAAAAAAAA
57717185 TAAAAAA
1 TAAAAAA
57717192 TATTGTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:57721367 original size:5 final size:5
Alignment explanation
Indices: 57721359--57721394 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
57721349 GAGATGGAAT
57721359 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
57721395 ATATTTGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
TCGAA
Found at i:57721779 original size:9 final size:9
Alignment explanation
Indices: 57721765--57721793 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
57721755 TGAACAATTC
57721765 AATAATATA
1 AATAATATA
57721774 AATAATATA
1 AATAATATA
57721783 AATAATATA
1 AATAATATA
57721792 AA
1 AA
57721794 ATGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAATATA
Found at i:57722087 original size:30 final size:31
Alignment explanation
Indices: 57722048--57722107 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
57722038 GGAGGTGGGA
*
57722048 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
57722079 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
57722108 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:57722335 original size:9 final size:9
Alignment explanation
Indices: 57722321--57722357 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
57722311 TATAGTTTGA
57722321 TATTCGAAT
1 TATTCGAAT
57722330 TATTCGAAT
1 TATTCGAAT
*
57722339 TATTCGAGT
1 TATTCGAAT
57722348 TATTCGAAT
1 TATTCGAAT
57722357 T
1 T
57722358 TGAAAACGCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:57722434 original size:9 final size:9
Alignment explanation
Indices: 57722411--57722452 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
57722401 TCAAGTTGAT
*
57722411 TCGAATAAC
1 TCGATTAAC
*
57722420 TTGATTAAC
1 TCGATTAAC
57722429 TCGATTAAC
1 TCGATTAAC
*
57722438 TCGAATAAC
1 TCGATTAAC
57722447 TCGATT
1 TCGATT
57722453 CGTTTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:57723663 original size:31 final size:30
Alignment explanation
Indices: 57723628--57723698 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
57723618 AGAGAAGAAG
* * * *
57723628 AAGTATAAACATATTGGGCCATTTATATAAA
1 AAGTAAAAAAATATTGGACCATATAT-TAAA
57723659 AAGTAAAAAAATATTGGACCATATATTAAA
1 AAGTAAAAAAATATTGGACCATATATTAAA
*
57723689 AA-CAAAAAAA
1 AAGTAAAAAAA
57723699 GAAGGACGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 7 0.20
30 6 0.17
31 22 0.63
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.25
Consensus pattern (30 bp):
AAGTAAAAAAATATTGGACCATATATTAAA
Found at i:57724930 original size:18 final size:17
Alignment explanation
Indices: 57724895--57724942 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
57724885 TTAATATATC
*
57724895 ATTTGATACTTAAATTAA
1 ATTTGATATTTAAATT-A
**
57724913 ATTTGATATTTATCTTA
1 ATTTGATATTTAAATTA
*
57724930 ATTTGGTATTTAA
1 ATTTGATATTTAA
57724943 TTTTTTTGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (17 bp):
ATTTGATATTTAAATTA
Found at i:57732785 original size:5 final size:5
Alignment explanation
Indices: 57732775--57732806 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
57732765 AGAGGTGAAT
57732775 TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TA
57732807 GAGTTAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:57733247 original size:37 final size:37
Alignment explanation
Indices: 57733206--57733278 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
57733196 ATATTTTTAT
57733206 ATTTCCATATGGATTTACTACAAATTTCAATTGATTC
1 ATTTCCATATGGATTTACTACAAATTTCAATTGATTC
* * *
57733243 ATTTCCCTATGGGTTTACTCCAAATTTCAATTGATT
1 ATTTCCATATGGATTTACTACAAATTTCAATTGATT
57733279 GATTAGAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.44
Consensus pattern (37 bp):
ATTTCCATATGGATTTACTACAAATTTCAATTGATTC
Found at i:57746535 original size:11 final size:11
Alignment explanation
Indices: 57746519--57746543 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57746509 AATTTAAAAT
57746519 AAAAAAAACTA
1 AAAAAAAACTA
57746530 AAAAAAAACTA
1 AAAAAAAACTA
57746541 AAA
1 AAA
57746544 CTAAATATTT
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:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAACTA
Found at i:57746898 original size:19 final size:20
Alignment explanation
Indices: 57746874--57746919 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
57746864 CGATAGTGTC
57746874 ATATTTTAT-TTTTAAACAT
1 ATATTTTATATTTTAAACAT
*
57746893 ATA-TTTATATTTTAAATAT
1 ATATTTTATATTTTAAACAT
57746912 ATAATTTT
1 AT-ATTTT
57746920 TACATGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 5 0.22
19 14 0.61
20 1 0.04
21 3 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTTTATATTTTAAACAT
Found at i:57748531 original size:20 final size:21
Alignment explanation
Indices: 57748486--57748532 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
57748476 CAAAAGATAA
* *
57748486 ATAATAAAATTATATTATTTT
1 ATAATAAAATTATATTATGTG
57748507 A-AATAAAATTA-ATTATGTG
1 ATAATAAAATTATATTATGTG
57748526 ATAATAA
1 ATAATAA
57748533 GTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 7 0.30
20 15 0.65
21 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATAATAAAATTATATTATGTG
Found at i:57750871 original size:22 final size:22
Alignment explanation
Indices: 57750844--57750892 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
57750834 CACACTAGTA
* *
57750844 TATGAAAGCCCTTTATAGGTAG
1 TATGAAAACCCTTTACAGGTAG
57750866 TATGAAAACCCTTTACAGGTAG
1 TATGAAAACCCTTTACAGGTAG
57750888 TATGA
1 TATGA
57750893 GACTCTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (22 bp):
TATGAAAACCCTTTACAGGTAG
Found at i:57755718 original size:82 final size:82
Alignment explanation
Indices: 57755581--57755744 Score: 247
Period size: 82 Copynumber: 2.0 Consensus size: 82
57755571 ACCGGGTTAT
* * * *
57755581 ATTTAACCTAAAGGGACCATGAATATCCTATGAGGGTAACACACATATAATAAGTTCATTGGATA
1 ATTTAACCTAAACGGACCATGAATATCCTATGAAGATAACACACATATAACAAGTTCATTGGATA
57755646 AAAGTTTAATTAAGTAG
66 AAAGTTTAATTAAGTAG
* * * * *
57755663 ATTTAACCTAAACGGATCATGAATATCCTATGAAGATAATACATATATGACAAGTTTATTGGATA
1 ATTTAACCTAAACGGACCATGAATATCCTATGAAGATAACACACATATAACAAGTTCATTGGATA
57755728 AAAGTTTAATTAAGTAG
66 AAAGTTTAATTAAGTAG
57755745 CTTTTGTCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (82 bp):
ATTTAACCTAAACGGACCATGAATATCCTATGAAGATAACACACATATAACAAGTTCATTGGATA
AAAGTTTAATTAAGTAG
Found at i:57756563 original size:19 final size:18
Alignment explanation
Indices: 57756539--57756599 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 18
57756529 AAAGGGTGAG
57756539 AAGTAAAAGTTTAGGGGGA
1 AAGTAAAAGTTT-GGGGGA
*
57756558 AAGTAAAAAGTTTTGGGG-
1 AAGT-AAAAGTTTGGGGGA
* *
57756576 AA-TAAAAGTTTGAGAGA
1 AAGTAAAAGTTTGGGGGA
57756593 AAGTAAA
1 AAGTAAA
57756600 TAGGGGGGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 10 0.29
17 3 0.09
18 6 0.17
19 8 0.23
20 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.23
Consensus pattern (18 bp):
AAGTAAAAGTTTGGGGGA
Found at i:57756964 original size:9 final size:9
Alignment explanation
Indices: 57756950--57756986 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
57756940 TATAGTTTGA
57756950 TATTCGAAT
1 TATTCGAAT
57756959 TATTCGAAT
1 TATTCGAAT
*
57756968 TATTCGAGT
1 TATTCGAAT
*
57756977 TATTTGAAT
1 TATTCGAAT
57756986 T
1 T
57756987 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:57764361 original size:3 final size:3
Alignment explanation
Indices: 57764320--57764344 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57764310 CTTGATTTGC
57764320 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
57764345 GATGAAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57767729 original size:81 final size:81
Alignment explanation
Indices: 57767625--57767859 Score: 371
Period size: 81 Copynumber: 2.9 Consensus size: 81
57767615 CACCTGCCCT
* *
57767625 GTTTGCTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTTGGAGGAGATAAAT
1 GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAAT
*
57767690 CAGTACCATCTGTTCG
66 CAGTACCATCTGCTCG
*
57767706 GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTACGTTTCCTAGGAGGAGATAAAT
1 GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAAT
*
57767771 CAGTACCATCTGCTCT
66 CAGTACCATCTGCTCG
* * * * *
57767787 GTTTACTAAAGCTTCTGGTGAGGGTGTGTCATTCCTAACCCTCCGCTTCCGAGGAGGAGATAAAT
1 GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAAT
*
57767852 CAGAACCA
66 CAGTACCA
57767860 CCTCTAGAAG
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 142 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (81 bp):
GTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAAT
CAGTACCATCTGCTCG
Found at i:57774213 original size:65 final size:65
Alignment explanation
Indices: 57774109--57774234 Score: 207
Period size: 65 Copynumber: 1.9 Consensus size: 65
57774099 TAAACAGTAT
* * * *
57774109 GAATATCATGTTGTAGTAGCTATGGAACTTTTATAATACGATTTGGATAGGATATATATATACAC
1 GAATATAATGTCGTAGTAGCTACGGAACTTTTATAATACGATTTGGATAGGATATACATATACAC
*
57774174 GAATATAATGTCGTAGTAGCTACGGAACTTTTATAATACGATTTGGATTGGATATACATAT
1 GAATATAATGTCGTAGTAGCTACGGAACTTTTATAATACGATTTGGATAGGATATACATAT
57774235 TGATATCTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (65 bp):
GAATATAATGTCGTAGTAGCTACGGAACTTTTATAATACGATTTGGATAGGATATACATATACAC
Found at i:57777871 original size:6 final size:6
Alignment explanation
Indices: 57777862--57777895 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
57777852 AAAAATAATG
*
57777862 TTTAGC TTTAGT TTTAGT TTTAGT TTTAGT TTTA
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTA
57777896 TTAGCAGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.65
Consensus pattern (6 bp):
TTTAGT
Found at i:57782621 original size:105 final size:105
Alignment explanation
Indices: 57782374--57782743 Score: 567
Period size: 103 Copynumber: 3.6 Consensus size: 105
57782364 AACCGTTATT
* * * *
57782374 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAACACTTAGCAACCCCTCGGGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
57782439 ATCAGCACATAGCAACCCCCTTTT--CATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
57782477 GGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATCA-CGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
57782541 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
*
57782582 GGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGGA
1 GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
57782646 ATCAGCACATAGCAACCCCC-TTTCACATTT-AAAAATAC
66 ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
**
57782684 GGTGGACTCA-GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCTC
1 GGTGGA-TCACGCACTTAGC-ACCACCAATGAA-CCGGGGAATCAGCACTTAGCAACCCCTC
57782744 TATATGTAAT
Statistics
Matches: 249, Mismatches: 11, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
102 22 0.09
103 132 0.53
104 25 0.10
105 69 0.28
106 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (105 bp):
GGTGGATCACGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATAC
Found at i:57782644 original size:26 final size:26
Alignment explanation
Indices: 57782614--57782664 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
57782604 ACCAATGAAC
*
57782614 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
57782640 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
57782665 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:57783106 original size:31 final size:30
Alignment explanation
Indices: 57783071--57783132 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
57783061 TTCACCACTC
57783071 AACTTTTTGAAAAATTACAATTTTGCCCCCA
1 AACTTTTT-AAAAATTACAATTTTGCCCCCA
* * * *
57783102 AACTTTTTCATAATTACATTTTTGTCCCCA
1 AACTTTTTAAAAATTACAATTTTGCCCCCA
57783132 A
1 A
57783133 GCTCGGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTTAAAAATTACAATTTTGCCCCCA
Found at i:57785557 original size:147 final size:147
Alignment explanation
Indices: 57785285--57785575 Score: 485
Period size: 147 Copynumber: 2.0 Consensus size: 147
57785275 TCCTTTAGCT
* *
57785285 ACCCATTTCAGACTTTCATCTGCTTTGTCTCTATAATCAGATGATGAGATTGAGTACATGTCACA
1 ACCCATTTCAGACTTTCATCTGCTTTGTCTCCACAATCAGATGATGAGATTGAGTACATGTCACA
** * *
57785350 TGTTCCATGCTTTAGTGCAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTCCAGATTTAT
66 TGTTCCACACTCTAGTACAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTCCAGATTTAT
57785415 CATATGCAATCAGTACA
131 CATATGCAATCAGTACA
*
57785432 ACCCATTTTAGACTTTCAT-TGACTTTGTCTCCACAATCAGATGATGAGATTGAGTACATGTCAC
1 ACCCATTTCAGACTTTCATCTG-CTTTGTCTCCACAATCAGATGATGAGATTGAGTACATGTCAC
*
57785496 ATGTTCCACACTCTAGTACAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTTCAGATTTA
65 ATGTTCCACACTCTAGTACAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTCCAGATTTA
*
57785561 TCATATGCAGTCAGT
130 TCATATGCAATCAGT
57785576 GCAGTTAGCA
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
146 2 0.01
147 132 0.99
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (147 bp):
ACCCATTTCAGACTTTCATCTGCTTTGTCTCCACAATCAGATGATGAGATTGAGTACATGTCACA
TGTTCCACACTCTAGTACAGTGGGATCTCTCATGTATGCTATGGTTTGTTCACGTCCAGATTTAT
CATATGCAATCAGTACA
Found at i:57786638 original size:19 final size:19
Alignment explanation
Indices: 57786614--57786653 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
57786604 TTTTACATAG
57786614 TTATT-ATTTTGAATATTTA
1 TTATTAATTTTGAA-ATTTA
*
57786633 TTATTAATTTTTAAATTTA
1 TTATTAATTTTGAAATTTA
57786652 TT
1 TT
57786654 TATTTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATTAATTTTGAAATTTA
Found at i:57791181 original size:26 final size:26
Alignment explanation
Indices: 57791146--57791334 Score: 83
Period size: 24 Copynumber: 7.6 Consensus size: 26
57791136 ACAGCTCTTA
*
57791146 TGAGCGTCCCGATATATGGCTCTTCG
1 TGAGCTTCCCGATATATGGCTCTTCG
** *
57791172 TGAGCTTCCCGAT-TAAAAGCTCTTTG
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
* * *
57791198 TGAGCTTCCCGATA-CTGGCTC-ACT
1 TGAGCTTCCCGATATATGGCTCTTCG
* * * * * *
57791222 TAAACTTCCTGATATATGGTTATCCG
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
57791248 -GAGCTTCCCGTTA-ATGGCTCTTTG
1 TGAGCTTCCCGATATATGGCTCTTCG
* * * * *
57791272 -GAGCTACTCGTTAT-TGGCT-TGCA
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
57791295 TGAGCTTCCTGAT-TATGGCTCTT-A
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
57791319 TGAGCTTTCCGTTATA
1 TGAGCTTCCCGATATA
57791335 CGGCCCGGAT
Statistics
Matches: 115, Mismatches: 39, Indels: 19
0.66 0.23 0.11
Matches are distributed among these distances:
23 2 0.02
24 58 0.50
25 21 0.18
26 34 0.30
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
TGAGCTTCCCGATATATGGCTCTTCG
Found at i:57794816 original size:6 final size:6
Alignment explanation
Indices: 57794805--57794837 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
57794795 ATTATATTAT
57794805 CCCGCA CCCGCA CCCGCA CCCGCA CCCGCA CCC
1 CCCGCA CCCGCA CCCGCA CCCGCA CCCGCA CCC
57794838 AAACCCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.70, G:0.15, T:0.00
Consensus pattern (6 bp):
CCCGCA
Found at i:57794843 original size:18 final size:18
Alignment explanation
Indices: 57794805--57794843 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
57794795 ATTATATTAT
**
57794805 CCCGCACCCGCACCCGCA
1 CCCGCACCCGCACCCAAA
57794823 CCCGCACCCGCACCCAAA
1 CCCGCACCCGCACCCAAA
57794841 CCC
1 CCC
57794844 AAACCCGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.67, G:0.13, T:0.00
Consensus pattern (18 bp):
CCCGCACCCGCACCCAAA
Found at i:57805763 original size:19 final size:20
Alignment explanation
Indices: 57805730--57805774 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
57805720 TTCCCTGTAT
*
57805730 TTTTTTGTACTTTCTT-ATAA
1 TTTTTTATACTTTCTTCAT-A
57805750 TTTTTTATAC-TTCTTCATA
1 TTTTTTATACTTTCTTCATA
57805769 TTTTTT
1 TTTTTT
57805775 TTTGGGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTTATACTTTCTTCATA
Found at i:57805775 original size:20 final size:20
Alignment explanation
Indices: 57805727--57805775 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
57805717 ATATTCCCTG
*
57805727 TATTTTTTTGTACTTTCTTA
1 TATTTTTTTATACTTTCTTA
*
57805747 TAATTTTTTATAC-TTCTTCA
1 TATTTTTTTATACTTTCTT-A
57805767 TATTTTTTT
1 TATTTTTTT
57805776 TTGGGTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTTTTTATACTTTCTTA
Found at i:57806396 original size:60 final size:59
Alignment explanation
Indices: 57806322--57806435 Score: 219
Period size: 60 Copynumber: 1.9 Consensus size: 59
57806312 AGGTTAATTG
57806322 GTAATCTAATAATTAAATGATAAGTTAAATAAAACAAAAGGTTAAAAAAATGATAATTTA
1 GTAATCTAATAATTAAATGATAAGTTAAATAAAACAAAAGGTT-AAAAAATGATAATTTA
57806382 GTAATCTAATAATTAAATGATAAGTTAAATAAAACAAAAGGTTAAAAAATGATA
1 GTAATCTAATAATTAAATGATAAGTTAAATAAAACAAAAGGTTAAAAAATGATA
57806436 TCTTCTTCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 11 0.20
60 43 0.80
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.29
Consensus pattern (59 bp):
GTAATCTAATAATTAAATGATAAGTTAAATAAAACAAAAGGTTAAAAAATGATAATTTA
Found at i:57806862 original size:39 final size:41
Alignment explanation
Indices: 57806808--57806895 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 41
57806798 TTCGAATCCT
57806808 TGAAAAGGTTGAAAAGGATG-TATCCG-AAAGGAT-ATCAAA
1 TGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATGA-CAAA
*
57806847 TGAAAAGGTTGAAAAGGATGTTATTCGAAAAGGATGACAAA
1 TGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATGACAAA
*
57806888 AGAAAAGG
1 TGAAAAGG
57806896 ATGTGTTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 20 0.45
40 5 0.11
41 18 0.41
42 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.27, T:0.19
Consensus pattern (41 bp):
TGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATGACAAA
Found at i:57811896 original size:71 final size:72
Alignment explanation
Indices: 57811809--57811947 Score: 178
Period size: 71 Copynumber: 1.9 Consensus size: 72
57811799 GCCACAACTG
*
57811809 GGTTGGTACCAATACAAGTCCCCAAAGAAGT-TTAAGGG-GTAAATTGTCT-AGGTTGTT-GCGA
1 GGTTGGTACCAATACAAGTCCCCAAAGAAGTCTT-AGGGAGTAAACTG-CTGAGGTTGTTAG-GA
57811870 TACAACTCCT
63 TACAACTCCT
** * *
57811880 GGTTGGTACCGGTACAAGTCCTCAAAGGAGTCTTAGGGAGTAAACTGCTGAGGTTGTTAGGATAC
1 GGTTGGTACCAATACAAGTCCCCAAAGAAGTCTTAGGGAGTAAACTGCTGAGGTTGTTAGGATAC
57811945 AAC
66 AAC
57811948 CCCAGGCTGG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
71 33 0.56
72 25 0.42
73 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (72 bp):
GGTTGGTACCAATACAAGTCCCCAAAGAAGTCTTAGGGAGTAAACTGCTGAGGTTGTTAGGATAC
AACTCCT
Found at i:57811968 original size:72 final size:71
Alignment explanation
Indices: 57811812--57811972 Score: 177
Period size: 72 Copynumber: 2.3 Consensus size: 71
57811802 ACAACTGGGT
* * *
57811812 TGGTACCAATACAAGTCCCCAAAGAAGTTTAAGGGGTAAATTGTCTAGGTTGTTGCGATACAACT
1 TGGTACCGATACAAGTCCCCAAAGAAGTTTAAGGGGTAAACTGTCTAGGTTGTTGCGATACAACC
* *
57811877 CCTGGT
66 CCAGGC
* * *
57811883 TGGTACCGGTACAAGTCCTCAAAGGAGTCTT-AGGGAGTAAACTG-CTGAGGTTGTTAG-GATAC
1 TGGTACCGATACAAGTCCCCAAAGAAGT-TTAAGGG-GTAAACTGTCT-AGGTTGTT-GCGATAC
57811945 AACCCCAGGC
62 AACCCCAGGC
*
57811955 TGGTACTGATACAA-TCCC
1 TGGTACCGATACAAGTCCC
57811973 AGATTGGTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
71 33 0.44
72 41 0.55
73 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (71 bp):
TGGTACCGATACAAGTCCCCAAAGAAGTTTAAGGGGTAAACTGTCTAGGTTGTTGCGATACAACC
CCAGGC
Found at i:57811980 original size:22 final size:22
Alignment explanation
Indices: 57811940--57811982 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
57811930 AGGTTGTTAG
*
57811940 GATACAACCCCAGGCTGGTACT
1 GATACAACCCCAGACTGGTACT
* *
57811962 GATACAATCCCAGATTGGTAC
1 GATACAACCCCAGACTGGTAC
57811983 CAACACAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (22 bp):
GATACAACCCCAGACTGGTACT
Found at i:57819482 original size:20 final size:20
Alignment explanation
Indices: 57819436--57819482 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
57819426 ATAAATATTT
*
57819436 TTAAAAATATAACAATAAAT
1 TTAAAAATATAACAATAAAA
* *
57819456 TTTAAAATAT-ACATTACAAA
1 TTAAAAATATAACAATA-AAA
57819476 TTAAAAA
1 TTAAAAA
57819483 AAAAACACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAAAAATATAACAATAAAA
Found at i:57819947 original size:5 final size:5
Alignment explanation
Indices: 57819937--57819993 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
57819927 TTGGGGAAGG
*
57819937 TTTTA TTTTA TTTTA TTTTA TTTTA TATTTAA TTTAA TTAATTA TTTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTT-A TTTTA TT--TTA TTTTA
57819985 TTTTA TTTT
1 TTTTA TTTT
57819994 GAATATAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 30 0.67
6 5 0.11
7 6 0.13
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:57820183 original size:3 final size:3
Alignment explanation
Indices: 57820175--57820208 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
57820165 TGAGCGTTAA
57820175 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
57820209 AAAAATCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:57820659 original size:21 final size:22
Alignment explanation
Indices: 57820635--57820771 Score: 80
Period size: 20 Copynumber: 6.7 Consensus size: 22
57820625 TTCCCTTGTA
57820635 AATTTTTTGGTACTTCC-TTAT
1 AATTTTTTGGTACTTCCTTTAT
* *
57820656 AATTTTTT-ATACTT-CTTCAT
1 AATTTTTTGGTACTTCCTTTAT
** *
57820676 TTTTTTTTGGGTA-TTCCTTTGT
1 AATTTTTT-GGTACTTCCTTTAT
* *
57820698 AA-TTTTTGGTA-TTCCCTCAT
1 AATTTTTTGGTACTTCCTTTAT
* * *
57820718 -ATTTTTTTGTAC--CCGTAAT
1 AATTTTTTGGTACTTCCTTTAT
* *
57820737 AGTTTTTAGGTAC-TCCTTTAT
1 AATTTTTTGGTACTTCCTTTAT
57820758 AA-TTTTTGGTACTT
1 AATTTTTTGGTACTT
57820772 TTTAGTACTT
Statistics
Matches: 85, Mismatches: 22, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
19 7 0.08
20 50 0.59
21 22 0.26
22 6 0.07
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (22 bp):
AATTTTTTGGTACTTCCTTTAT
Found at i:57820668 original size:20 final size:21
Alignment explanation
Indices: 57820615--57820670 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
57820605 ACTTCATCGT
*
57820615 ATTTTTTATA-TTCCCTTGTAA
1 ATTTTTTATACTT-CCTTATAA
*
57820636 ATTTTTTGGTACTTCCTTAT-A
1 ATTTTTT-ATACTTCCTTATAA
57820657 ATTTTTTATACTTC
1 ATTTTTTATACTTC
57820671 TTCATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 6 0.20
21 15 0.50
22 7 0.23
23 2 0.07
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTTTATACTTCCTTATAA
Found at i:57821780 original size:39 final size:41
Alignment explanation
Indices: 57821687--57821786 Score: 134
Period size: 39 Copynumber: 2.5 Consensus size: 41
57821677 TTAGAATCCT
* *
57821687 TGAAAAGGTTGAAAAGGATGTTATTCGAAAGGGATAACACA
1 TGAAAAGGTTGAAAAGGATGTTATCCGAAAGGGATAACAAA
* *
57821728 TGGAAAA-GATGAAAAGGATG-TATCCGAAA-GGATATCAAA
1 T-GAAAAGGTTGAAAAGGATGTTATCCGAAAGGGATAACAAA
57821767 TGAAAAGGTTGAAAAGGATG
1 TGAAAAGGTTGAAAAGGATG
57821787 ACAAATGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
38 5 0.10
39 21 0.40
40 8 0.15
41 13 0.25
42 5 0.10
ACGTcount: A:0.46, C:0.06, G:0.28, T:0.20
Consensus pattern (41 bp):
TGAAAAGGTTGAAAAGGATGTTATCCGAAAGGGATAACAAA
Found at i:57825941 original size:17 final size:18
Alignment explanation
Indices: 57825919--57825954 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
57825909 AATCTATATA
*
57825919 TATGTATATTTAT-TTTT
1 TATGTACATTTATATTTT
57825936 TATGTACATTTATATTTT
1 TATGTACATTTATATTTT
57825954 T
1 T
57825955 TCCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (18 bp):
TATGTACATTTATATTTT
Found at i:57827172 original size:17 final size:17
Alignment explanation
Indices: 57827150--57827189 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
57827140 GAGATCAATA
57827150 ATGACACCTTCCAACAG
1 ATGACACCTTCCAACAG
57827167 ATGACACCTTCCAACAG
1 ATGACACCTTCCAACAG
57827184 ATGACA
1 ATGACA
57827190 GTTGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (17 bp):
ATGACACCTTCCAACAG
Found at i:57832744 original size:3 final size:3
Alignment explanation
Indices: 57832736--57832760 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57832726 AATTCAAAAG
57832736 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
57832761 AAGAAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:57844348 original size:19 final size:19
Alignment explanation
Indices: 57844277--57844360 Score: 73
Period size: 19 Copynumber: 4.3 Consensus size: 19
57844267 GTTTAGGGAA
57844277 ACATATATATATTCATGGC
1 ACATATATATATTCATGGC
* * **
57844296 ACGATATCATGTA-TGATGAA
1 AC-ATAT-ATATATTCATGGC
*
57844316 ACAGTTTA-ATATTCATGGC
1 ACA-TATATATATTCATGGC
57844335 ACATATATATATTCATGGC
1 ACATATATATATTCATGGC
57844354 ACGATAT
1 AC-ATAT
57844361 CATGTATGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
18 5 0.10
19 24 0.49
20 16 0.33
21 4 0.08
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATATATATATTCATGGC
Found at i:57844367 original size:58 final size:58
Alignment explanation
Indices: 57844277--57844386 Score: 220
Period size: 58 Copynumber: 1.9 Consensus size: 58
57844267 GTTTAGGGAA
57844277 ACATATATATATTCATGGCACGATATCATGTATGATGAAACAGTTTAATATTCATGGC
1 ACATATATATATTCATGGCACGATATCATGTATGATGAAACAGTTTAATATTCATGGC
57844335 ACATATATATATTCATGGCACGATATCATGTATGATGAAACAGTTTAATATT
1 ACATATATATATTCATGGCACGATATCATGTATGATGAAACAGTTTAATATT
57844387 GTGTACGAGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (58 bp):
ACATATATATATTCATGGCACGATATCATGTATGATGAAACAGTTTAATATTCATGGC
Found at i:57845400 original size:20 final size:20
Alignment explanation
Indices: 57845375--57845414 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
57845365 AGTCTTTCTG
57845375 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
57845395 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
57845415 TTCATCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.45, G:0.05, T:0.40
Consensus pattern (20 bp):
CGATTTCCCCTCATCCTTTC
Found at i:57847078 original size:17 final size:17
Alignment explanation
Indices: 57847056--57847088 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57847046 TTATTTTCTA
57847056 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
57847073 TATAAGTTTTGTAAAT
1 TATAAGTTTTCTAAAT
57847089 AATTATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:57847136 original size:24 final size:22
Alignment explanation
Indices: 57847109--57847169 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
57847099 AATTTATTAG
57847109 TATA-ATTTTTTAAAAAAAAAT
1 TATATATTTTTTAAAAAAAAAT
*
57847130 TATTATATTGTTTT-AAAAATAAT
1 TA-TATATT-TTTTAAAAAAAAAT
57847153 TATATATTTTTTAAAAA
1 TATATATTTTTTAAAAA
57847170 TTTAAATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 6 0.17
22 12 0.34
23 13 0.37
24 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TATATATTTTTTAAAAAAAAAT
Found at i:57847149 original size:20 final size:21
Alignment explanation
Indices: 57847124--57847171 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
57847114 TTTTTTAAAA
57847124 AAAAATTATTATAT-TGTTTT
1 AAAAATTATTATATATGTTTT
* *
57847144 AAAAATAATTATATATTTTTT
1 AAAAATTATTATATATGTTTT
57847165 AAAAATT
1 AAAAATT
57847172 TAAATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AAAAATTATTATATATGTTTT
Found at i:57847186 original size:21 final size:20
Alignment explanation
Indices: 57847134--57847181 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
57847124 AAAAATTATT
*
57847134 ATATTGTTTTAAAAATAATTAT
1 ATATT-TTTTAAAAAT-ATTAA
57847156 ATATTTTTTAAAAAT-TTAA
1 ATATTTTTTAAAAATATTAA
57847175 ATATTTT
1 ATATTTT
57847182 ATTTATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
21 10 0.40
22 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATATTTTTTAAAAATATTAA
Found at i:57847300 original size:8 final size:7
Alignment explanation
Indices: 57847287--57847332 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
57847277 TAACGTATAT
57847287 ATAATAAC
1 ATAAT-AC
57847295 ATAATA-
1 ATAATAC
*
57847301 A-ATTAC
1 ATAATAC
57847307 ATAATAC
1 ATAATAC
57847314 ATAATAAC
1 ATAAT-AC
57847322 ATAATAC
1 ATAATAC
57847329 ATAA
1 ATAA
57847333 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:57847325 original size:15 final size:15
Alignment explanation
Indices: 57847287--57847332 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
57847277 TAACGTATAT
57847287 ATAATAACATAAT--
1 ATAATAACATAATAC
*
57847300 A-AATTACATAATAC
1 ATAATAACATAATAC
57847314 ATAATAACATAATAC
1 ATAATAACATAATAC
57847329 ATAA
1 ATAA
57847333 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:57847329 original size:53 final size:52
Alignment explanation
Indices: 57847272--57847440 Score: 153
Period size: 53 Copynumber: 3.4 Consensus size: 52
57847262 ATTTTACAGC
*
57847272 ATACATAACGTATATATAATAACATAATAAATTACATAATACATAATAACATA
1 ATACATAACTTATATATAATAA-ATAATAAATTACATAATACATAATAACATA
** *
57847325 ATACATAACTTATATATAAGT---T--TGTATAAC-T--TACATAATAAC-T-
1 ATACATAACTTATATATAA-TAAATAATAAATTACATAATACATAATAACATA
* ** *
57847368 -TTCATAACTTATATATAATCTGATAATACATTACATAATACATAATAACATA
1 ATACATAACTTATATATAAT-AAATAATAAATTACATAATACATAATAACATA
57847420 ATACATAACTTATATTATAAT
1 ATACATAACTTATA-TATAAT
57847441 CTTGCATAAC
Statistics
Matches: 93, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
41 1 0.01
42 17 0.18
44 1 0.01
45 12 0.13
47 6 0.06
48 6 0.06
50 12 0.13
51 1 0.01
53 30 0.32
54 7 0.08
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (52 bp):
ATACATAACTTATATATAATAAATAATAAATTACATAATACATAATAACATA
Found at i:57847354 original size:21 final size:20
Alignment explanation
Indices: 57847328--57847385 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
57847318 TAACATAATA
*
57847328 CATAACTTATATATAAGTTT
1 CATAACTTATATATAACTTT
* *
57847348 GTATAACTTACATAATAACTTT
1 -CATAACTTATAT-ATAACTTT
57847370 CATAACTTATATATAA
1 CATAACTTATATATAA
57847386 TCTGATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.13
21 20 0.65
22 7 0.23
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.41
Consensus pattern (20 bp):
CATAACTTATATATAACTTT
Found at i:57847381 original size:95 final size:96
Alignment explanation
Indices: 57847275--57847474 Score: 314
Period size: 95 Copynumber: 2.1 Consensus size: 96
57847265 TTACAGCATA
*
57847275 CATAACGTATATATAATAACATAATAAATTACATAATACATAATAACATAATACATAACTTATA-
1 CATAACTTATATATAATAACATAATAAATTACATAATACATAATAACATAATACATAACTTATAT
* *
57847339 TATAAGT-TTGTATAACTTACATAATAACTTT
66 TATAA-TCTTGCATAACTTACATAATAACTTC
*** *
57847370 CATAACTTATATATAATCTGATAATACATTACATAATACATAATAACATAATACATAACTTATAT
1 CATAACTTATATATAATAACATAATAAATTACATAATACATAATAACATAATACATAACTTATAT
57847435 TATAATCTTGCATAACTTACATAATAACTTC
66 TATAATCTTGCATAACTTACATAATAACTTC
57847466 CATAACTTA
1 CATAACTTA
57847475 ATACACCACT
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
95 60 0.62
96 36 0.38
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (96 bp):
CATAACTTATATATAATAACATAATAAATTACATAATACATAATAACATAATACATAACTTATAT
TATAATCTTGCATAACTTACATAATAACTTC
Found at i:57847407 original size:12 final size:14
Alignment explanation
Indices: 57847390--57847426 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
57847380 ATATAATCTG
57847390 ATAATACAT-T-AC
1 ATAATACATATAAC
57847402 ATAATACATAATAAC
1 ATAATACAT-ATAAC
57847417 ATAATACATA
1 ATAATACATA
57847427 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:57847420 original size:8 final size:7
Alignment explanation
Indices: 57847390--57847427 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
57847380 ATATAATCTG
57847390 ATAATAC
1 ATAATAC
57847397 AT--TAC
1 ATAATAC
57847402 ATAATAC
1 ATAATAC
57847409 ATAATAAC
1 ATAAT-AC
57847417 ATAATAC
1 ATAATAC
57847424 ATAA
1 ATAA
57847428 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:57847439 original size:27 final size:27
Alignment explanation
Indices: 57847370--57847440 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
57847360 TAATAACTTT
***
57847370 CATAACTTATA-TATAATCTGATAATA
1 CATAACTTATATTATAATAACATAATA
* * *
57847396 CATTACATA-ATACATAATAACATAATA
1 CATAACTTATAT-TATAATAACATAATA
57847423 CATAACTTATATTATAAT
1 CATAACTTATATTATAAT
57847441 CTTGCATAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTATATTATAATAACATAATA
Found at i:57847448 original size:22 final size:21
Alignment explanation
Indices: 57847423--57847474 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
57847413 TAACATAATA
* * *
57847423 CATAACTTATATTATAATCTTG
1 CATAACTTACATAATAA-CTTC
57847445 CATAACTTACATAATAACTTC
1 CATAACTTACATAATAACTTC
57847466 CATAACTTA
1 CATAACTTA
57847475 ATACACCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (21 bp):
CATAACTTACATAATAACTTC
Found at i:57847573 original size:9 final size:9
Alignment explanation
Indices: 57847545--57847859 Score: 241
Period size: 9 Copynumber: 36.2 Consensus size: 9
57847535 CATATATAGA
*
57847545 AACTGACAT
1 AACTTACAT
* *
57847554 AAATTAAAT
1 AACTTACAT
57847563 AACTTACAT
1 AACTTACAT
57847572 AACTTACAT
1 AACTTACAT
*
57847581 AAATTA-AGT
1 AACTTACA-T
57847590 AACTTACAT
1 AACTTACAT
57847599 AACTTACAT
1 AACTTACAT
*
57847608 AACCTACAT
1 AACTTACAT
* *
57847617 AAATTAAAT
1 AACTTACAT
57847626 AACTTACAT
1 AACTTACAT
57847635 AACTTACAT
1 AACTTACAT
57847644 AACTTACAT
1 AACTTACAT
57847653 AACTTACAT
1 AACTTACAT
* *
57847662 AAATTAAAT
1 AACTTACAT
57847671 AACTTACAT
1 AACTTACAT
57847680 AACTTACAT
1 AACTTACAT
* *
57847689 AAATTAAAT
1 AACTTACAT
*
57847698 TACTTACAT
1 AACTTACAT
57847707 AACTTACAT
1 AACTTACAT
*
57847716 TA--TACAT
1 AACTTACAT
*
57847723 AACCTT-CTT
1 AA-CTTACAT
57847732 AACTTACAT
1 AACTTACAT
* *
57847741 TA--TACAC
1 AACTTACAT
* *
57847748 GACTCACAT
1 AACTTACAT
57847757 AA-TTA-AT
1 AACTTACAT
*
57847764 -A-TTACGTTTT
1 AACTTAC---AT
57847774 AACTTACAT
1 AACTTACAT
*
57847783 AA-TAAC-T
1 AACTTACAT
**
57847790 TTCTTACAT
1 AACTTACAT
57847799 AACTTACAT
1 AACTTACAT
*
57847808 TACTTACAGT
1 AACTTACA-T
57847818 -ACTTACAT
1 AACTTACAT
57847826 AA--TACAT
1 AACTTACAT
*
57847833 AA--TATAT
1 AACTTACAT
57847840 AACTTACAT
1 AACTTACAT
57847849 AACTTACAT
1 AACTTACAT
57847858 AA
1 AA
57847860 TACATAAAAA
Statistics
Matches: 241, Mismatches: 45, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
6 4 0.02
7 27 0.11
8 13 0.05
9 188 0.78
10 4 0.02
11 1 0.00
12 4 0.02
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:57847804 original size:25 final size:25
Alignment explanation
Indices: 57847773--57847861 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
57847763 TATTACGTTT
*
57847773 TAACTTACATAATAACTTTCTTACA
1 TAACTTACATAATAACTTACTTACA
* * *
57847798 TAACTTACATTACTTACAGTACTTACA
1 TAACTTACA-TAATAAC-TTACTTACA
*
57847825 TAA--TACATAATATA-TAACTTACA
1 TAACTTACATAATA-ACTTACTTACA
57847848 TAACTTACATAATA
1 TAACTTACATAATA
57847862 CATAAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
23 10 0.20
24 3 0.06
25 23 0.45
26 5 0.10
27 10 0.20
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (25 bp):
TAACTTACATAATAACTTACTTACA
Found at i:57850154 original size:21 final size:21
Alignment explanation
Indices: 57850118--57850184 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
57850108 AACTTAAAGA
* *
57850118 AGAGGCGGCAGTGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
*
57850139 AGCGGCTGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
* * *
57850160 GGAGGCTGTAGCGAGAGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
57850181 AGAG
1 AGAG
57850185 CAGAGCAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.28, C:0.16, G:0.49, T:0.06
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGGGAAGC
Found at i:57850547 original size:43 final size:43
Alignment explanation
Indices: 57850498--57850661 Score: 197
Period size: 42 Copynumber: 3.9 Consensus size: 43
57850488 GCGTTTTTGT
*
57850498 AAAAAAACGCTACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
1 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
* *
57850541 AAAAAAATGCCACTAAAGAACATGTTCTTTAGCAGCGCTTA-A
1 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
* * * ** *
57850583 GAAAAAATGACGTTAAAGAACATGTTCTTTAGAGGCGCTTAG-
1 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
* ** *
57850625 AAAAAAATGCCGTTAAAGACCATGTTCTTTAGCGGCG
1 AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG
57850662 TTTTTGTTTG
Statistics
Matches: 107, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 69 0.64
43 38 0.36
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGA
Found at i:57857637 original size:12 final size:12
Alignment explanation
Indices: 57857620--57857645 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57857610 ATTAAGCCCT
57857620 TTCTTGTTCTTA
1 TTCTTGTTCTTA
57857632 TTCTTGTTCTTA
1 TTCTTGTTCTTA
57857644 TT
1 TT
57857646 TGTAGTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (12 bp):
TTCTTGTTCTTA
Found at i:57863040 original size:15 final size:16
Alignment explanation
Indices: 57863020--57863049 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57863010 TGGTGCCTTA
57863020 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
57863035 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
57863050 AGCATGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:57863287 original size:9 final size:9
Alignment explanation
Indices: 57863273--57863303 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
57863263 AATTAAAACC
57863273 TAAATATAA
1 TAAATATAA
57863282 TAAATATAA
1 TAAATATAA
57863291 TAAATATAA
1 TAAATATAA
57863300 TAAA
1 TAAA
57863304 GATCCAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAATATAA
Found at i:57869492 original size:6 final size:6
Alignment explanation
Indices: 57869481--57869520 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
57869471 AAAAAGAAGA
* * *
57869481 AAAATC AAAATC AAAATC AAAGTC AAAATA AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
57869521 AGAGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.70, C:0.10, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:57869554 original size:21 final size:21
Alignment explanation
Indices: 57869505--57869554 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
57869495 AATCAAAGTC
* *
57869505 AAAATAAAAATGAAAAAGAGA
1 AAAAAAAAAAAGAAAAAGAGA
*
57869526 GAAAAAAAAAAGAAAAAG-GA
1 AAAAAAAAAAAGAAAAAGAGA
*
57869546 AAAACAAAA
1 AAAAAAAAA
57869555 GGAGAGGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAAGAAAAAGAGA
Found at i:57871918 original size:131 final size:131
Alignment explanation
Indices: 57871742--57872052 Score: 514
Period size: 131 Copynumber: 2.4 Consensus size: 131
57871732 GTAGATCTCG
* * *
57871742 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATTTTATCTTCCACAGGAGTAGGGAAA
1 TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCACAGGAGTAGGGAAA
*
57871807 CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTGGAATAGGTTGGAAATTACAGATCTT
66 CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTGAAATAGGTTGGAAATTACAGATCTT
57871872 A
131 A
* * * *
57871873 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACGACGAATCTTATCTTCCCCATGAGTAGGGAAA
1 TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCACAGGAGTAGGGAAA
* *
57871938 CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGAAATAGGTTGGAAATTGCAGATCTT
66 CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTGAAATAGGTTGGAAATTACAGATCTT
*
57872003 G
131 A
*
57872004 TCTCCCTAAGCAGTAGCGAAGCAGATCGAAGACGGCGAATCTTATCTTC
1 TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
57872053 AAGTGTAAGG
Statistics
Matches: 166, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 166 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (131 bp):
TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCACAGGAGTAGGGAAA
CAGATTTAAGCCACAAGTCCTATGTCCCTGACCAACAGTGAAATAGGTTGGAAATTACAGATCTT
A
Found at i:57872306 original size:44 final size:44
Alignment explanation
Indices: 57872258--57872460 Score: 112
Period size: 44 Copynumber: 4.7 Consensus size: 44
57872248 TTGATAATCC
57872258 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
1 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
*** * * * * ** **
57872302 TATCTTTTTGAAGTTACAGTAGAGTAGATC-GCAT-CCAG-TCT
1 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
* * * *
57872343 TATCTCCCTGAATTTGCAGTGGAGCAGA-CATAAGAAACCA-ATCC
1 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAA--AGATCT
* ** * * **
57872387 TATCTCCTTGAGGTTGCAGTGGAGCGGATCAAAATGATGGATCT
1 TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
* * *
57872431 TATCTCTCT-AAAGTGGCAGTAGAGCAGATC
1 TATCTCCCTGAAA-TTGCAGTGGAGCAGATC
57872461 GCATCAAGTC
Statistics
Matches: 110, Mismatches: 41, Indels: 16
0.66 0.25 0.10
Matches are distributed among these distances:
40 1 0.01
41 25 0.23
42 2 0.02
43 3 0.03
44 74 0.67
45 5 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAATTGCAGTGGAGCAGATCAAAATAAAAGATCT
Found at i:57872363 original size:129 final size:129
Alignment explanation
Indices: 57872211--57872472 Score: 296
Period size: 129 Copynumber: 2.0 Consensus size: 129
57872201 AAGAAGCAAA
** ** *
57872211 TCTTATCTCCCTGAGATTGCAGTGGAACAG-GTTGAAGTTGA-TAATCCTATCTCCCTGAAATTG
1 TCTTATCTCCCTGAGATTGCAGTGGAACAGACAT-AAG-AAACCAATCCTATCTCCCTGAAATTG
* * * * * *
57872274 CAGTGGAGCAGATCAAAATAAAAGATCTTATCTTTTTGAAGTTACAGTAGAGTAGATCGCATCCA
64 CAGTGGAGCAGATCAAAATAAAAGATCTTATCTCTCTAAAGTGACAGTAGAGCAGATCGCATCAA
57872339 G
129 G
* * **
57872340 TCTTATCTCCCTGA-ATTTGCAGTGGAGCAGACATAAGAAACCAATCCTATCTCCTTGAGGTTGC
1 TCTTATCTCCCTGAGA-TTGCAGTGGAACAGACATAAGAAACCAATCCTATCTCCCTGAAATTGC
* * ** *
57872404 AGTGGAGCGGATCAAAATGATGGATCTTATCTCTCTAAAGTGGCAGTAGAGCAGATCGCATCAAG
65 AGTGGAGCAGATCAAAATAAAAGATCTTATCTCTCTAAAGTGACAGTAGAGCAGATCGCATCAAG
57872469 TCTT
1 TCTT
57872473 GCTGACTAGA
Statistics
Matches: 110, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
128 2 0.02
129 107 0.97
130 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTGCAGTGGAACAGACATAAGAAACCAATCCTATCTCCCTGAAATTGCA
GTGGAGCAGATCAAAATAAAAGATCTTATCTCTCTAAAGTGACAGTAGAGCAGATCGCATCAAG
Found at i:57872771 original size:9 final size:9
Alignment explanation
Indices: 57872753--57872782 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
57872743 ATTAAAACCC
57872753 AAATATAAT
1 AAATATAAT
*
57872762 AAATAAAAT
1 AAATATAAT
57872771 AAATATAAT
1 AAATATAAT
57872780 AAA
1 AAA
57872783 GATCCAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAATATAAT
Found at i:57878499 original size:31 final size:31
Alignment explanation
Indices: 57878461--57878544 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
57878451 GAATTATTCA
**
57878461 AAAGTTTTTATTTAAGTCGTTGAACTCTTCG
1 AAAGTTTTTATTTAAGTCACTGAACTCTTCG
*
57878492 AAAGTTTTTATTTAAGACACTGAACTCTTCG
1 AAAGTTTTTATTTAAGTCACTGAACTCTTCG
57878523 AAAGTTTTTATTTAAGTCACTG
1 AAAGTTTTTATTTAAGTCACTG
57878545 GGTTGTTAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (31 bp):
AAAGTTTTTATTTAAGTCACTGAACTCTTCG
Found at i:57878775 original size:18 final size:18
Alignment explanation
Indices: 57878752--57878790 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
57878742 TTGTTTCATG
57878752 AAAAAAAA-CTGAACTGTA
1 AAAAAAAATC-GAACTGTA
*
57878770 AAAAAAAATCGAATTGTA
1 AAAAAAAATCGAACTGTA
57878788 AAA
1 AAA
57878791 GAGAAGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (18 bp):
AAAAAAAATCGAACTGTA
Found at i:57885932 original size:19 final size:19
Alignment explanation
Indices: 57885908--57885973 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
57885898 ATTAGAAAAG
57885908 ATTTTATAAAAAATAATAA
1 ATTTTATAAAAAATAATAA
* * *
57885927 ATTTTAGAAAAATTATTAA
1 ATTTTATAAAAAATAATAA
57885946 ATTTTAATAAAAATATAA-AA
1 ATTTT-ATAAAAA-ATAATAA
57885966 A-TTTATAA
1 ATTTTATAA
57885974 TTTTTTCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.10
19 24 0.62
20 9 0.23
21 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTTTATAAAAAATAATAA
Found at i:57885966 original size:29 final size:30
Alignment explanation
Indices: 57885934--57885997 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
57885924 TAAATTTTAG
57885934 AAAAATTATTAA-ATTTTAATAAAAAT-ATA
1 AAAAATTA-TAATATTTTAATAAAAATCATA
* * *
57885963 AAAATTTATAATTTTTTCATAAAAATCATA
1 AAAAATTATAATATTTTAATAAAAATCATA
57885993 AAAAA
1 AAAAA
57885998 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.10
29 19 0.66
30 7 0.24
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAAATTATAATATTTTAATAAAAATCATA
Found at i:57886262 original size:29 final size:29
Alignment explanation
Indices: 57886228--57886316 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 29
57886218 TTCTTACAAC
*
57886228 TTTATAAAATTTTA-AATTTTTTGTATAT
1 TTTATAAAATTTTACAATTTTTTCTATAT
* * *
57886256 TTCTAT-ATATTTTATAATTTTTACTAT-T
1 TT-TATAAAATTTTACAATTTTTTCTATAT
* *
57886284 TTTATAAAATTTAACAATTTTTTTTATGAT
1 TTTATAAAATTTTACAATTTTTTCTAT-AT
57886314 TTT
1 TTT
57886317 TATATTTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
27 3 0.06
28 28 0.58
29 13 0.27
30 4 0.08
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTATAAAATTTTACAATTTTTTCTATAT
Found at i:57886276 original size:57 final size:59
Alignment explanation
Indices: 57886211--57886334 Score: 150
Period size: 58 Copynumber: 2.2 Consensus size: 59
57886201 TTACATTTTG
*
57886211 TATAATTTTCTTAC-AACTTTATAAAATTTTA-AATTTTTTGTAT-ATTTCTATATATTT
1 TATAATTTT-TTACTAACTTTATAAAATTTAACAATTTTTTGTATGATTTCTATATATTT
** * * *
57886268 TATAA-TTTTTACTATTTTTATAAAATTTAACAATTTTTTTTATGATTTTTATATTTTT
1 TATAATTTTTTACTAACTTTATAAAATTTAACAATTTTTTGTATGATTTCTATATATTT
57886326 TAT-ATTTTT
1 TATAATTTTT
57886335 AATAAATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
55 4 0.07
56 17 0.30
57 17 0.30
58 19 0.33
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (59 bp):
TATAATTTTTTACTAACTTTATAAAATTTAACAATTTTTTGTATGATTTCTATATATTT
Found at i:57886288 original size:56 final size:57
Alignment explanation
Indices: 57886228--57886335 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 57
57886218 TTCTTACAAC
*
57886228 TTTATAAAATTTTA-AATTTTTTGTAT-ATTTCTATATATTTTATAATTTTTACTATT
1 TTTATAAAATTTAACAATTTTTTGTATGATTTCTATATATTTTAT-ATTTTTACTATT
* * *
57886284 TTTATAAAATTTAACAATTTTTTTTATGATTTTTATATTTTTTATATTTTTA
1 TTTATAAAATTTAACAATTTTTTGTATGATTTCTATATATTTTATATTTTTA
57886336 ATAAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
56 13 0.28
57 18 0.39
58 15 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (57 bp):
TTTATAAAATTTAACAATTTTTTGTATGATTTCTATATATTTTATATTTTTACTATT
Found at i:57886599 original size:91 final size:91
Alignment explanation
Indices: 57886445--57886654 Score: 289
Period size: 91 Copynumber: 2.3 Consensus size: 91
57886435 AGTGGAGGCC
** * * * *
57886445 TAATTGCTTTTTTTGAAAAAGTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAT
1 TAATTGCTTTTTTAAAAAAAGTTTGAGGATATTTTTGATGCATTTTGAAAGTTCAAGTACCCAAA
**
57886510 TGAATGT-AAAAAAAAATTAGGGGCT
66 TGAATGTAAAAAAAAAAGCAGGGGCT
* *
57886535 TAATTG-TTTTTTAAAAAAAAGGTTTGAGGATATTTTTTATGCATTTTGGAAGTTCAAGTACCCA
1 TAATTGCTTTTTT-AAAAAAA-GTTTGAGGATATTTTTGATGCATTTTGAAAGTTCAAGTACCCA
*
57886599 AATGAGTGTAAAAAAAAAAGCAGGGGCT
64 AATGAATGTAAAAAAAAAAGCAGGGGCT
57886627 TAATTGCTTTTTTAAAAAAAGTTTGAGG
1 TAATTGCTTTTTTAAAAAAAGTTTGAGG
57886655 GCTTTTTGCA
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
89 6 0.06
90 11 0.10
91 53 0.50
92 29 0.28
93 6 0.06
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.37
Consensus pattern (91 bp):
TAATTGCTTTTTTAAAAAAAGTTTGAGGATATTTTTGATGCATTTTGAAAGTTCAAGTACCCAAA
TGAATGTAAAAAAAAAAGCAGGGGCT
Found at i:57890111 original size:29 final size:29
Alignment explanation
Indices: 57890069--57890127 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
57890059 GTCAAGTGTT
57890069 GTCATTCAACTTGCTAATGTATCATATTA
1 GTCATTCAACTTGCTAATGTATCATATTA
57890098 GTCATTCAACTTGCTAATGTATCATATTA
1 GTCATTCAACTTGCTAATGTATCATATTA
57890127 G
1 G
57890128 CAATACGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (29 bp):
GTCATTCAACTTGCTAATGTATCATATTA
Found at i:57892822 original size:28 final size:31
Alignment explanation
Indices: 57892779--57892835 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
57892769 GTACCTAATT
57892779 TTTTTTTTGTCACAAG-TAGTATCTAAACTA
1 TTTTTTTTGTCACAAGTTAGTATCTAAACTA
*
57892809 TTTTTTTT-TC-CAAGTTGGTATCTAAAC
1 TTTTTTTTGTCACAAGTTAGTATCTAAAC
57892836 AATACTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 13 0.52
30 8 0.32
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (31 bp):
TTTTTTTTGTCACAAGTTAGTATCTAAACTA
Found at i:57903998 original size:22 final size:20
Alignment explanation
Indices: 57903973--57904012 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
57903963 ATTTTTATCC
57903973 TTTAATATTTATAAAATTTTAA
1 TTTAAT-TTT-TAAAATTTTAA
*
57903995 TTTAATTTTTTAAATTTT
1 TTTAATTTTTAAAATTTT
57904013 GTAAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTTTTAAAATTTTAA
Found at i:57916788 original size:42 final size:42
Alignment explanation
Indices: 57916724--57916830 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
57916714 ACGCGGCCAG
* *
57916724 GGACATGAGCGTGTGCCTAGGCCGTGTGAGCCACACGGGTAA
1 GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACAGGTAA
*
57916766 GGACATGAGTGTGTGCCCAGGCCGTGTGAGCCACACAGGTAA
1 GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACAGGTAA
* * *
57916808 GGACATGGGCATGTGTCCAGGCC
1 GGACATGAGCGTGTGCCCAGGCC
57916831 ATACAACTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.17
Consensus pattern (42 bp):
GGACATGAGCGTGTGCCCAGGCCGTGTGAGCCACACAGGTAA
Found at i:57920105 original size:42 final size:42
Alignment explanation
Indices: 57920058--57920156 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
57920048 ACAAGGTCAG
*
57920058 GGACATGGGTGTGTGCCTAGGCCGTGTGAGCCACACGAA-CAA
1 GGACATGGGTGTGTGCCCAGGCCGTGTGAGCCACAC-AAGCAA
* * *
57920100 GGACATGGGCGTGTGCCCAGTCTGTGTGAGCCACACAAGCAA
1 GGACATGGGTGTGTGCCCAGGCCGTGTGAGCCACACAAGCAA
57920142 GGACATGGGTGTGTG
1 GGACATGGGTGTGTG
57920157 TCCATATAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.04
42 49 0.96
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.18
Consensus pattern (42 bp):
GGACATGGGTGTGTGCCCAGGCCGTGTGAGCCACACAAGCAA
Found at i:57923760 original size:15 final size:15
Alignment explanation
Indices: 57923742--57923788 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
57923732 ATACAAAAAG
57923742 AAGAAATAGAAAA-AA
1 AAGAAAT-GAAAATAA
57923757 AAGAAATGAAAATAA
1 AAGAAATGAAAATAA
*
57923772 AAAAAATGAAAATAA
1 AAGAAATGAAAATAA
57923787 AA
1 AA
57923789 AAGGAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAGAAATGAAAATAA
Found at i:57923773 original size:18 final size:18
Alignment explanation
Indices: 57923752--57923799 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 18
57923742 AAGAAATAGA
57923752 AAAAAAAGAAATGAAAAT
1 AAAAAAAGAAATGAAAAT
57923770 --AAAAA-AAATGAAAAT
1 AAAAAAAGAAATGAAAAT
*
57923785 AAAAAAGGAAATGAA
1 AAAAAAAGAAATGAA
57923800 TACGTTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 10 0.38
16 5 0.19
17 4 0.15
18 7 0.27
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.10
Consensus pattern (18 bp):
AAAAAAAGAAATGAAAAT
Found at i:57923784 original size:21 final size:21
Alignment explanation
Indices: 57923745--57923789 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
57923735 CAAAAAGAAG
*
57923745 AAATAGAAAAAAAAGAAATGA
1 AAATAGAAAAAAAAGAAATAA
*
57923766 AAATA-AAAAAAATGAAAATAA
1 AAATAGAAAAAAAAG-AAATAA
57923787 AAA
1 AAA
57923790 AGGAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (21 bp):
AAATAGAAAAAAAAGAAATAA
Found at i:57924480 original size:42 final size:42
Alignment explanation
Indices: 57924428--57924561 Score: 196
Period size: 42 Copynumber: 3.2 Consensus size: 42
57924418 TCGTGTCTTC
* * * *
57924428 GCCCGTGTAACTCACTGATTTGAGACATACGGTTGTGTCCCA
1 GCCCATGTAACTCACTGACTTGAGACACACGGTCGTGTCCCA
*
57924470 GCCCATGTAACTCCCTGACTTGAGACACACGGTCGTGTCCCA
1 GCCCATGTAACTCACTGACTTGAGACACACGGTCGTGTCCCA
* * *
57924512 GCCCATGTAACTCACTGACTTGAGATACGCGGTCATGTCCCA
1 GCCCATGTAACTCACTGACTTGAGACACACGGTCGTGTCCCA
57924554 GCCCATGT
1 GCCCATGT
57924562 CTCTGCCCGT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (42 bp):
GCCCATGTAACTCACTGACTTGAGACACACGGTCGTGTCCCA
Found at i:57931005 original size:29 final size:29
Alignment explanation
Indices: 57930961--57931028 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
57930951 GAATAGGTGG
**
57930961 AGAACTTGTTTGTTGAGAGTTCGCGATGA
1 AGAACTTGTTCATTGAGAGTTCGCGATGA
57930990 AGAACTTGTTCATTGAGAGTTCGCGATGA
1 AGAACTTGTTCATTGAGAGTTCGCGATGA
57931019 AGAACTTGTT
1 AGAACTTGTT
57931029 AGAATTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (29 bp):
AGAACTTGTTCATTGAGAGTTCGCGATGA
Found at i:57936913 original size:22 final size:23
Alignment explanation
Indices: 57936883--57936925 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
57936873 TCATTTTGGA
*
57936883 TTATATCAAATTTAAATTATTTC
1 TTATATCAAATTCAAATTATTTC
*
57936906 TTAT-TCAACTTCAAATTATT
1 TTATATCAAATTCAAATTATT
57936926 AACATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATATCAAATTCAAATTATTTC
Found at i:57941676 original size:15 final size:18
Alignment explanation
Indices: 57941638--57941684 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
57941628 TCTTACTTTT
57941638 ATAATTAAATATATTTAA
1 ATAATTAAATATATTTAA
57941656 ATAATTAAA-AT-TTTAA
1 ATAATTAAATATATTTAA
*
57941672 A-AATTAAGTATAT
1 ATAATTAAATATAT
57941685 ACTCTTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 3 0.12
18 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATTAAATATATTTAA
Found at i:57942600 original size:18 final size:18
Alignment explanation
Indices: 57942573--57942611 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
57942563 TTGGATTGTT
57942573 AAAATATT-AATAATATA
1 AAAATATTAAATAATATA
*
57942590 AAAATTATTAAATGATATA
1 AAAA-TATTAAATAATATA
57942609 AAA
1 AAA
57942612 GTACTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAATATTAAATAATATA
Found at i:57952682 original size:75 final size:75
Alignment explanation
Indices: 57952536--57952683 Score: 163
Period size: 75 Copynumber: 2.0 Consensus size: 75
57952526 GGAGGATAGA
* * * *
57952536 ACTTTGAAAATATGTAGCACTCTAAAGAAGACACTACTTAATTTACGTGATACAAGACTCATTTA
1 ACTTTGAAAATATATAGCACTCTAAAGAAGACACTACTTAATTTACGCGATACAAGAATCACTTA
*
57952601 CCATGTGATG
66 ACATGTGATG
* * * * ** *
57952611 ACTTTGAAAATGTATA-CTACTCTAAAGAAGGCACTACTTGATTTATGCGATATGAGAATGACTT
1 ACTTTGAAAATATATAGC-ACTCTAAAGAAGACACTACTTAATTTACGCGATACAAGAATCACTT
*
57952675 AATATGTGA
65 AACATGTGA
57952684 CCAGTCTTAT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
74 1 0.02
75 58 0.98
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (75 bp):
ACTTTGAAAATATATAGCACTCTAAAGAAGACACTACTTAATTTACGCGATACAAGAATCACTTA
ACATGTGATG
Found at i:57965131 original size:457 final size:456
Alignment explanation
Indices: 57964272--57965177 Score: 1413
Period size: 457 Copynumber: 2.0 Consensus size: 456
57964262 GTCTTCTTAA
* * * * *
57964272 TGATTAATATGATCATTGTCAACAAATGACCGTGATTAAATTGCTCATTTGAGAACAAGCAACTT
1 TGATTAATATGATCACTATCAACAAATGACCGTGATTAAATTGCTCATTCGAGAACAAACAACCT
*
57964337 GTGGCCACATTCTATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTAAT
66 GTGGCCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTAAT
* * *
57964402 TGAGCTATGAATTCCACTATTGCTAGTAAAGTCATGTCATACACAAGTCATGTACCCAACATACC
131 TGAGCTATGAATTCCACTATTGCTAGTAAAGCCATGCCATACACAAGTCATGTAACCAACATACC
* * * ** * ** *
57964467 AGCTATCCTGCTCGATCATTTTTAGAGTGTAAGCCTTCATTTATATCAAAGCACATGAGTTACAT
196 AGATATCCTACTCGATCATCTTTAGAGCATAAACCCCCACTTATATCAAAGCACATGAGTTACAT
**
57964532 ATGTGTGGTCAGTGACTAATTCAGAATTTAGGTAAATCACACCATGAATGTCACAAGTGAATTAA
261 ATGCATGGTCAGTGACTAATTCAGAATTTAGGTAAATCACACCATGAATGTCACAAGTGAATTAA
*
57964597 TTCACAAACGGATTCAGAATTAATTTATCTTGGATCCAGTCCAATGTATCATTCTACCAATGAAT
326 TTCACAAACGGATTCAGAATTAATTCATCTTGGATCCAGTCCAATGTATCATTCTACCAATGAAT
*
57964662 ACATCTATGTCTCTA-TCCGTGGAGTCAACTGCTCTGATAGCCAAGACTAGTCATATCATGTGGC
391 ACATCTATGTCTCTACT-CGTGGAGTCAACTGCTCCGATAGCCAAGACTAGTCATATCATGTGGC
57964726 TG
455 TG
* *
57964728 TGATTAAATATGATCACTATCAACAAATGACTGTGATTAAATTGCTCGTTCGAGAACAAA-ACAC
1 TGATT-AATATGATCACTATCAACAAATGACCGTGATTAAATTGCTCATTCGAGAACAAACA-AC
*
57964792 CTGTGGCCATATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTA
64 CTGTGGCCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTA
* *
57964857 ATTGAGTTATGAATTCCACTGTTGCTAGTAAAGCCATGCCATACACAAGTCATGTAACCAACATA
129 ATTGAGCTATGAATTCCACTATTGCTAGTAAAGCCATGCCATACACAAGTCATGTAACCAACATA
*
57964922 -CTGATGATCCTACTCGATCATCTTTAGAGCATAAACCCCCACTTATATCAAAGCACATGAGTTA
194 CCAGAT-ATCCTACTCGATCATCTTTAGAGCATAAACCCCCACTTATATCAAAGCACATGAGTTA
* *
57964986 CATATGCATGGTCAGTGACTAATTTAGGATTTAGGTAAATCACACCATGAATGTCACAAGTGAAT
258 CATATGCATGGTCAGTGACTAATTCAGAATTTAGGTAAATCACACCATGAATGTCACAAGTGAAT
* * * * * **
57965051 TAATTCACAAATGGATTCATAATTAATTCATCTTGGGTCTAGTCCAATGTATCATTTTGTCAATG
323 TAATTCACAAACGGATTCAGAATTAATTCATCTTGGATCCAGTCCAATGTATCATTCTACCAATG
*
57965116 AATACATCTATGTCTCTACTCGTGGATTCAACTGCTCCGATAGCCAAGACTAGTCATATCAT
388 AATACATCTATGTCTCTACTCGTGGAGTCAACTGCTCCGATAGCCAAGACTAGTCATATCAT
57965178 TGATTGGAAT
Statistics
Matches: 408, Mismatches: 38, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
456 9 0.02
457 398 0.98
458 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (456 bp):
TGATTAATATGATCACTATCAACAAATGACCGTGATTAAATTGCTCATTCGAGAACAAACAACCT
GTGGCCACATTCCATATTTATCAATCCACACAATGCCAATGAGAGGATATTGTTAACTCTTTAAT
TGAGCTATGAATTCCACTATTGCTAGTAAAGCCATGCCATACACAAGTCATGTAACCAACATACC
AGATATCCTACTCGATCATCTTTAGAGCATAAACCCCCACTTATATCAAAGCACATGAGTTACAT
ATGCATGGTCAGTGACTAATTCAGAATTTAGGTAAATCACACCATGAATGTCACAAGTGAATTAA
TTCACAAACGGATTCAGAATTAATTCATCTTGGATCCAGTCCAATGTATCATTCTACCAATGAAT
ACATCTATGTCTCTACTCGTGGAGTCAACTGCTCCGATAGCCAAGACTAGTCATATCATGTGGCT
G
Found at i:57966338 original size:12 final size:12
Alignment explanation
Indices: 57966321--57966346 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57966311 AAAGATTTGG
57966321 TAATTGAATGGT
1 TAATTGAATGGT
57966333 TAATTGAATGGT
1 TAATTGAATGGT
57966345 TA
1 TA
57966347 GGTGGTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (12 bp):
TAATTGAATGGT
Found at i:57967372 original size:3 final size:3
Alignment explanation
Indices: 57967364--57967418 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
57967354 AATTTCTATG
57967364 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57967412 ATT ATT A
1 ATT ATT A
57967419 AAAACTAACG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:57969158 original size:25 final size:25
Alignment explanation
Indices: 57969111--57969158 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
57969101 AGAGATTTTT
** *
57969111 TTTAAAAGGTAGTTTCTTTAATACA
1 TTTAAAAGGTAGTTTAGTCAATACA
*
57969136 TTTAAAGGGTAGTTTAGTCAATA
1 TTTAAAAGGTAGTTTAGTCAATA
57969159 ACAATGGATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (25 bp):
TTTAAAAGGTAGTTTAGTCAATACA
Found at i:57973939 original size:18 final size:18
Alignment explanation
Indices: 57973890--57973928 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
57973880 ATTAAAATTT
*
57973890 TAAAAATCAAATTTAAAC
1 TAAAGATCAAATTTAAAC
57973908 TAAAGATCAAATTTAAAC
1 TAAAGATCAAATTTAAAC
57973926 TAA
1 TAA
57973929 TTACAGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAGATCAAATTTAAAC
Found at i:57974006 original size:29 final size:29
Alignment explanation
Indices: 57973962--57974025 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
57973952 AAATAATTTG
* * *
57973962 ATCTTTATTCAGCCAATTTCAAATCTTCA
1 ATCTTTATCCACCCAACTTCAAATCTTCA
57973991 ATCTTTATCCACCCAACTTCAAATCTTCA
1 ATCTTTATCCACCCAACTTCAAATCTTCA
57974020 ATCTTT
1 ATCTTT
57974026 CAATCTACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.41
Consensus pattern (29 bp):
ATCTTTATCCACCCAACTTCAAATCTTCA
Found at i:57980382 original size:6 final size:6
Alignment explanation
Indices: 57980371--57980395 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57980361 CATCCATGGA
57980371 CTTCCT CTTCCT CTTCCT CTTCCT C
1 CTTCCT CTTCCT CTTCCT CTTCCT C
57980396 GTGTTATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
CTTCCT
Found at i:57983294 original size:17 final size:17
Alignment explanation
Indices: 57983274--57983306 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57983264 TATAGGATTA
*
57983274 ATAAAATTATTTTTTTT
1 ATAAAATAATTTTTTTT
57983291 ATAAAATAATTTTTTT
1 ATAAAATAATTTTTTT
57983307 ATTTCTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAAAATAATTTTTTTT
Done.