Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 252 of 438
Found at i:78054814 original size:40 final size:39
Alignment explanation
Indices: 78054770--78054880 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 39
78054760 AAGTGACTAT
*
78054770 ATCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
1 ATCCGGGCTA-GATCCGAAGGCATTCGTGCGAGTTAATAA
* * *
78054810 ATCCGGGCTA-ACCCGAAGGCATT-GTGCAAGTTACTAA
1 ATCCGGGCTAGATCCGAAGGCATTCGTGCGAGTTAATAA
* *
78054847 ACCCGGGTTA-AGTCCCGAAGGCATTCGTGCGAGT
1 ATCCGGGCTAGA-T-CCGAAGGCATTCGTGCGAGT
78054881 CGCTATAACC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
37 21 0.35
38 12 0.20
39 11 0.18
40 16 0.27
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAGATCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:78054831 original size:38 final size:39
Alignment explanation
Indices: 78054784--78054880 Score: 135
Period size: 37 Copynumber: 2.5 Consensus size: 39
78054774 GGACTAGGAT
*
78054784 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAA-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
* * *
78054822 CCGAAGGCATT-GTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAG-C
78054861 CCGAAGGCATTCGTGCGAGT
1 CCGAAGGCATTCGTGCGAGT
78054881 CGCTATAACC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
37 21 0.41
38 11 0.22
39 12 0.24
40 7 0.14
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGC
Found at i:78054875 original size:77 final size:79
Alignment explanation
Indices: 78054731--78054880 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 79
78054721 TCGAATGATG
* * * *
78054731 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAG-CCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
78054796 GTGCGAGTTAATAAA
65 GTGCGAGTTAATAAA
* **
78054811 TCCGGGCTAA-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
78054873 GTGCGAGT
65 GTGCGAGT
78054881 CGCTATAACC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 1 0.02
77 36 0.58
78 15 0.24
80 10 0.16
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTTAATAAA
Found at i:78059412 original size:28 final size:29
Alignment explanation
Indices: 78059358--78059419 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
78059348 GAAAGCATGT
*
78059358 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
78059387 ATATGAATGAGA-TTGGGCCTAGTGGGTC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
78059415 ATATG
1 ATATG
78059420 CATGTATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.31
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:78063669 original size:42 final size:42
Alignment explanation
Indices: 78063552--78063709 Score: 131
Period size: 44 Copynumber: 3.7 Consensus size: 42
78063542 ATTGGTATTA
**
78063552 ATCTGAATTATCGTGTAAGACTGTGTCTGGGACACAGTCATCG
1 ATCTGAATT-TCGTGTAAGACCATGTCTGGGACACAGTCATCG
* *
78063595 ATTTGAAATTTACGTGTAAGACCATGTTTGGGACATCAG-CATCG
1 ATCTG-AATTT-CGTGTAAGACCATGTCTGGGACA-CAGTCATCG
* * * * *
78063639 TATCT-AATTTCGTATAAGACCCTGTCTGGGATAGAGGCATCG
1 -ATCTGAATTTCGTGTAAGACCATGTCTGGGACACAGTCATCG
* * * *
78063681 ATACTAAATTACATGTAAGACCACGTCTG
1 AT-CTGAATTTCGTGTAAGACCATGTCTG
78063710 AGACGTTGGT
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
41 4 0.04
42 26 0.28
43 28 0.30
44 29 0.31
45 6 0.06
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (42 bp):
ATCTGAATTTCGTGTAAGACCATGTCTGGGACACAGTCATCG
Found at i:78065244 original size:34 final size:34
Alignment explanation
Indices: 78065193--78065287 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 34
78065183 GCAATGCAAA
* * * *
78065193 TAGTCTGGGCCTAAGCCC-TCTACAGTAGCATTAT
1 TAGTGTGGGCCTTAGCCCAT-TACAGTAACAGTAT
**
78065227 TAGTGTGGGCCTTAGCCCATTATGGTAACAGTAT
1 TAGTGTGGGCCTTAGCCCATTACAGTAACAGTAT
*
78065261 CAGTGTGGGCCTTAGCCCAATT-CAGTA
1 TAGTGTGGGCCTTAGCCC-ATTACAGTA
78065288 CATTATCAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
34 46 0.92
35 4 0.08
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (34 bp):
TAGTGTGGGCCTTAGCCCATTACAGTAACAGTAT
Found at i:78069626 original size:2 final size:2
Alignment explanation
Indices: 78069619--78069653 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
78069609 ATCTTTCTAG
78069619 AT 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 AT A
78069654 AATTTAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78072452 original size:40 final size:40
Alignment explanation
Indices: 78072407--78072573 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
78072397 CGGAATATAA
78072407 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
78072447 CCGGATA-AATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
78072486 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
78072526 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
78072566 CCGGATAT
1 CCGGATAT
78072574 CATTCAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 66 0.65
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78080464 original size:40 final size:40
Alignment explanation
Indices: 78080419--78080585 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
78080409 CGGAATATAA
78080419 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78080459 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
78080499 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
78080539 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
78080578 CCGGATAT
1 CCGGATAT
78080586 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78080569 original size:80 final size:79
Alignment explanation
Indices: 78080435--78080583 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
78080425 ATAATCACGT
* *
78080435 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
78080500 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
78080515 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
78080578 CCGGAT
64 CCGGAT
78080584 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:78087189 original size:40 final size:39
Alignment explanation
Indices: 78087022--78087204 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
78087012 AATGTTCGAG
78087022 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
78087061 TGATATCCGGGCTAAGCCCGAAGACAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
78087100 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* **
78087139 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
78087179 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
78087205 GTTTGAACGA
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 86 0.69
40 39 0.31
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:78095456 original size:39 final size:39
Alignment explanation
Indices: 78095413--78095581 Score: 168
Period size: 39 Copynumber: 4.3 Consensus size: 39
78095403 GCTACTCGTT
* * *
78095413 CAAATACCTTCGGGACATAGCCCG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCGATT-TAGTAACTCGCA
*
78095452 CAAATGCCTT-GGGACTTAACCCGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGATTTAGTAACTCGCA
* * *
78095490 CAAATGCCTTC--GATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATA-ACCCGATTTAGTAACTCGCA
* * *
78095529 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATA-ACCCGATTTAGTAACTCGCA
78095569 CAAATGCCTTCGG
1 CAAATGCCTTCGG
78095582 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
37 2 0.02
38 36 0.31
39 40 0.34
40 39 0.33
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGACATAACCCGATTTAGTAACTCGCA
Found at i:78095556 original size:40 final size:40
Alignment explanation
Indices: 78095440--78095634 Score: 265
Period size: 40 Copynumber: 5.0 Consensus size: 40
78095430 TAGCCCGTTA
* * * *
78095440 TAGTAGCTCGCACAAATGCCTTGGGA-CTTA-ACCCGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
78095478 TAGTAACTCGCACAAATGCCTTC-GATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
78095517 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
78095557 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
78095597 TAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
78095635 CATCATTCGA
Statistics
Matches: 144, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
37 2 0.01
38 25 0.17
39 29 0.20
40 77 0.53
41 11 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:78103867 original size:50 final size:50
Alignment explanation
Indices: 78103752--78103892 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 50
78103742 CATGTAATAA
* * * *
78103752 GATGCCAAGGCCATATCCCAAATATGGTCTTACATGGGA--TCACATACC
1 GATGCAAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATACC
* * *
78103800 GATGCAAATGCCATGTCCTAGACATGGTCCTACATGGGATCTCACATATCC
1 GATGCAAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATA-CC
* *
78103851 -ATGCGAATTCCATGTCCCAAACATGGTCTTACAT-GGATCTCA
1 GATGCAAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCA
78103893 TTACTCATGG
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
48 32 0.41
49 8 0.10
50 36 0.46
51 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
GATGCAAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATACC
Found at i:78104076 original size:20 final size:20
Alignment explanation
Indices: 78104051--78104108 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
78104041 GTCACCTATA
* *
78104051 TCATGAACTCAGACCACAAC
1 TCATGAGCTCAGATCACAAC
78104071 TCATGAGCTCAGATCACAAC
1 TCATGAGCTCAGATCACAAC
78104091 TCATGAGCTCAGATCACA
1 TCATGAGCTCAGATCACA
78104109 TATTTTCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (20 bp):
TCATGAGCTCAGATCACAAC
Found at i:78106443 original size:6 final size:6
Alignment explanation
Indices: 78106425--78106544 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
78106415 TAAGAACATT
* *
78106425 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
78106474 ATTAGA ATCAGT ATCAGGTA A-CCGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
78106525 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
78106545 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.74
7 13 0.15
8 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:78106472 original size:31 final size:31
Alignment explanation
Indices: 78106434--78106544 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
78106424 TATCAGAACT
* * * *
78106434 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
78106465 AGAATCAGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
78106496 CGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
78106527 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
78106545 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 60 0.85
32 11 0.15
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:78106727 original size:27 final size:26
Alignment explanation
Indices: 78106682--78106780 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
78106672 CAGTTATCAA
* *
78106682 ATATTGTGACAAAGTCACCAGATACAG
1 ATATTGTGGCAAAGCCACCAGA-ACAG
*
78106709 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAAAGCCACCAGAACAG
* *
78106735 ATATTTGTGGCATAGCCACCAGAAATAG
1 ATA-TTGTGGCAAAGCCACCAG-AACAG
*
78106763 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAAAGCCAC
78106781 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.78
28 7 0.11
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
ATATTGTGGCAAAGCCACCAGAACAG
Found at i:78107464 original size:27 final size:27
Alignment explanation
Indices: 78107425--78107601 Score: 230
Period size: 27 Copynumber: 6.6 Consensus size: 27
78107415 TACCCCACAA
*
78107425 GGTATCTT-GGTAATTCCACCCTACAGG
1 GGTAT-TTCGGTAATTCTACCCTACAGG
** *
78107452 GGTATTTTAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
78107479 GGTATTTCGGTAATTCTACCCTACAGT
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
78107506 TGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
78107533 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
78107560 GGTATTTTGGTATTTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
78107587 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
78107602 TTGTAAATCG
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 2 0.02
27 127 0.98
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:78107723 original size:27 final size:27
Alignment explanation
Indices: 78107693--78107923 Score: 295
Period size: 27 Copynumber: 8.6 Consensus size: 27
78107683 TACAGGTCGA
* * **
78107693 GGGTATTTTTGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
78107720 GGGTATATTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * **
78107747 AGGTATTTTGATAATTTTACAAACCCT
1 GGGTATTTTGGTAATTTTACAAACCAG
78107774 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
78107801 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
78107828 GGGTATTTTAGTAATTTTACAAACCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
78107854 GGGTA-TTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
78107880 AGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
78107907 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
78107924 GGTAAGTAAA
Statistics
Matches: 174, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
25 18 0.10
26 9 0.05
27 147 0.84
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:78107767 original size:81 final size:81
Alignment explanation
Indices: 78107637--78107923 Score: 309
Period size: 81 Copynumber: 3.6 Consensus size: 81
78107627 TTCTGTAAAT
* ** ** ** *
78107637 CAGGGGTACTTTGGT-ATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTCGAGGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTGATAATTTTACA-AACCAGGGTATT
* * *
78107700 TTTGTAATTTCACAAAT
65 TTGGTAATTTTACAAAC
* * *
78107717 TAGGGGTATATTGGTAATTTTACAAACCAGA-GGTATTTTGATAATTTTACAAACCCTGGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTGATAATTTTACAAA-CCAGGGTATT
78107781 TTGGTAATTTTACAAAC
65 TTGGTAATTTTACAAAC
**
78107798 CAGGGGTATTTTGGTAATTTTGTAAACCA-AGGGTATTTT-AGTAATTTTACAAACCAGGGTA-T
1 CAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTGA-TAATTTTACAAACCAGGGTATT
*
78107860 TTGGTAATTTTATAAAC
65 TTGGTAATTTTACAAAC
** * *
78107877 CAAAGGTATTTTTGTAATTTTACAAACCAG-GGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTGATAATTT
78107924 GGTAAGTAAA
Statistics
Matches: 174, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
79 56 0.32
80 21 0.12
81 95 0.55
82 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAGAGGGTATTTTGATAATTTTACAAACCAGGGTATTT
TGGTAATTTTACAAAC
Found at i:78107907 original size:106 final size:108
Alignment explanation
Indices: 78107720--78107928 Score: 323
Period size: 106 Copynumber: 2.0 Consensus size: 108
78107710 CACAAATTAG
* ***
78107720 GGGTATATTGGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCCTGGGTATTTTGG
1 GGGTATATTAGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCAAAGGTATTTTGG
*
78107785 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACCAA
* * * *
78107828 GGGTATTTTAGTAATTTTACAAACCAG-GGTA-TTTGGTAATTTTATAAACCAAAGGTATTTTTG
1 GGGTATATTAGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCAAAGGTATTTTGG
78107891 TAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAA
78107929 GTAAAGTTGT
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 63 0.68
107 4 0.04
108 25 0.27
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (108 bp):
GGGTATATTAGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCAAAGGTATTTTGG
TAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACCAA
Found at i:78109753 original size:40 final size:40
Alignment explanation
Indices: 78109698--78109907 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
78109688 AACATTGGAA
78109698 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78109738 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78109778 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
78109818 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
78109857 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
78109898 CTATATCCGG
1 ATATATCCGG
78109908 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:78117886 original size:40 final size:40
Alignment explanation
Indices: 78117831--78118040 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
78117821 AACATTGGAA
78117831 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78117871 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
78117911 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
78117951 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
78117990 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
78118031 CTATATCCGG
1 ATATATCCGG
78118041 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:78125267 original size:13 final size:13
Alignment explanation
Indices: 78125249--78125273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78125239 AAGTAATTGA
78125249 ACACGGGCGTGTT
1 ACACGGGCGTGTT
78125262 ACACGGGCGTGT
1 ACACGGGCGTGT
78125274 CTCTACCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:78129299 original size:51 final size:51
Alignment explanation
Indices: 78129239--78129341 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
78129229 TAGAAATCTT
*
78129239 GAATACAGGTATTTTCGCAGGGACGCGGCCAAGCACACAGGCGTGCGTAAG
1 GAATACAGGTATTTTCGCAGGGACGCGGCCAAGCACACAAGCGTGCGTAAG
78129290 GAATACAGGTATTTTCGCAGGGACGCGGCCAAGCACACAAGCGTGCGTAAG
1 GAATACAGGTATTTTCGCAGGGACGCGGCCAAGCACACAAGCGTGCGTAAG
78129341 G
1 G
78129342 CCATGTGAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.28, C:0.23, G:0.33, T:0.16
Consensus pattern (51 bp):
GAATACAGGTATTTTCGCAGGGACGCGGCCAAGCACACAAGCGTGCGTAAG
Found at i:78140846 original size:40 final size:40
Alignment explanation
Indices: 78140787--78140978 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
78140777 CGGATGATAA
* *
78140787 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAATTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTA-TAT
* * *
78140827 TCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* **
78140867 CCGGGCTAAGTCCCGAAGGCAATTATGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
78140907 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * * *
78140947 CCGGGCTATGTCCCAAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGT
78140979 AGCTATCTCC
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 135 0.99
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
Found at i:78144141 original size:50 final size:50
Alignment explanation
Indices: 78144072--78144314 Score: 272
Period size: 50 Copynumber: 4.8 Consensus size: 50
78144062 TAAAATGGAT
* * * *
78144072 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACTAGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * ** * *
78144122 TTAGGTTGCATGTGTAGTACTAAGTTCAGGCTACTAAATGTACCCGATAG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
78144172 CTTCGATCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCC-GATGG
1 -TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG
***
78144223 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* *
78144273 TTAGCTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTA
78144315 TCGATCACGT
Statistics
Matches: 160, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.01
50 119 0.74
51 37 0.23
52 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:78144207 original size:101 final size:99
Alignment explanation
Indices: 78144072--78144316 Score: 296
Period size: 101 Copynumber: 2.4 Consensus size: 99
78144062 TAAAATGGAT
* * *
78144072 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTA-CTAGATTGTTAGGTTGCA-TGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGG-T-CAGTGT
* *
78144135 GTAGTACTAAGTTCAGGCTACTAAATGTACCCGATAG
63 GTAGTACTAAGTGCAGGCTACTAAATGTACCAGATAG
* * *
78144172 CTTCGATCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCCGATGGTTAGGTCATGTGTG
1 -TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA-GTGTG
** *
78144237 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
64 TAGTACTAAGTGCAGGCTACTAAATGTACCAGATAG
* * * *
78144273 TTAGCTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTATC
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC
78144317 GATCACGTGT
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
99 2 0.02
100 39 0.31
101 82 0.66
102 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (99 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCAGTGTGTA
GTACTAAGTGCAGGCTACTAAATGTACCAGATAG
Found at i:78145224 original size:16 final size:16
Alignment explanation
Indices: 78145203--78145233 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78145193 GTAACGCCAC
*
78145203 AAAAATCCCGAAATCA
1 AAAAATCCCAAAATCA
78145219 AAAAATCCCAAAATC
1 AAAAATCCCAAAATC
78145234 TTGAATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAATCCCAAAATCA
Found at i:78146351 original size:16 final size:16
Alignment explanation
Indices: 78146317--78146367 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
78146307 ATGTATCGAC
* *
78146317 AAAAGCTGAAATGCCG
1 AAAAGCTGAAAAGTCG
*
78146333 AAAAGCTGAAAAGTTG
1 AAAAGCTGAAAAGTCG
* *
78146349 AAATGCCGAAAAGTCG
1 AAAAGCTGAAAAGTCG
78146365 AAA
1 AAA
78146368 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.24, T:0.14
Consensus pattern (16 bp):
AAAAGCTGAAAAGTCG
Found at i:78146634 original size:29 final size:28
Alignment explanation
Indices: 78146578--78146692 Score: 131
Period size: 29 Copynumber: 4.0 Consensus size: 28
78146568 GTGAGCATGA
* * *
78146578 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
78146606 ATATAAATGTGAGTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
78146635 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
78146664 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
78146692 A
1 A
78146693 GTTACAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 27 0.37
29 46 0.63
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:78146701 original size:57 final size:58
Alignment explanation
Indices: 78146591--78146701 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
78146581 TGAATGTGAC
*
78146591 TGGGCCTAACGGGCCATATAAATGTGAGTTGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGAGTTGGGCCTAATAGGCCATATACAGGTGATT
* * * *
78146649 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGT-TACAGGT
1 TGGGCCTAACGGGCCATATAAATATGAGTTGGGCCTAATAGGCCA-TATACAGGT
78146702 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGAGTTGGGCCTAATAGGCCATATACAGGTGATT
Found at i:78153236 original size:40 final size:39
Alignment explanation
Indices: 78153071--78153254 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78153061 AAATTGAATG
* * *
78153071 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78153111 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78153151 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78153191 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78153230 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78153255 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78153279 original size:80 final size:81
Alignment explanation
Indices: 78153111--78153299 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78153101 GCTGGAAATT
* * * *
78153111 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78153176 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78153192 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78153255 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78153271 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78153300 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78161266 original size:40 final size:41
Alignment explanation
Indices: 78161179--78161329 Score: 136
Period size: 40 Copynumber: 3.8 Consensus size: 41
78161169 AATTGAATGA
* * * **
78161179 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTGAGTCA-TAC
* *
78161219 TAACCGGGTTAAGACCCGAAGGCAATTGTGCT-AGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCTGAGT--CATAC
*
78161260 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTG-TGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCTGAGTCATAC
*
78161299 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
78161330 AAATCGTGAT
Statistics
Matches: 90, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
38 1 0.01
39 6 0.07
40 81 0.90
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCTGAGTCATAC
Found at i:78161343 original size:40 final size:39
Alignment explanation
Indices: 78161178--78161361 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
78161168 AAATTGAATG
* * *
78161178 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78161218 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * ** * *
78161258 ACATCCGGGCTAAGACCCGAAGGCATTCGTGTGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78161298 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78161337 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78161362 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 102 0.92
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78165359 original size:50 final size:51
Alignment explanation
Indices: 78165240--78165373 Score: 180
Period size: 50 Copynumber: 2.6 Consensus size: 51
78165230 TAAGAACACA
* * *
78165240 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGG-TTTAGGTCACG
* * ***
78165292 TGTGTAGTACTAGGTGCATGCTACTACGTGTATCCGATGG-TTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGGTTTAGGTCACG
78165342 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA
78165374 CTAGATTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 40 0.55
52 33 0.45
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.34
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGGTTTAGGTCACG
Found at i:78165396 original size:50 final size:50
Alignment explanation
Indices: 78165236--78165406 Score: 164
Period size: 50 Copynumber: 3.4 Consensus size: 50
78165226 ATTGTAAGAA
* * * * *
78165236 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGAT--TGTTAGGT
* * * ** *
78165288 CACGTGTGTAGTACTAGGTGCATGCTACTACGTGTATCCGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGTTAGGT
* *
78165338 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGTTAGCT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TAAGATTGTTAGGT
* * *
78165388 CCCATGTGTGGTGCTAAGT
1 CACATGTGTAGTACTAAGT
78165407 ACAGTAATAA
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
50 64 0.65
51 1 0.01
52 34 0.34
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGTTAGGT
Found at i:78168964 original size:41 final size:41
Alignment explanation
Indices: 78168916--78169066 Score: 142
Period size: 41 Copynumber: 3.4 Consensus size: 41
78168906 TCAATGGGTC
*
78168916 TGCTCACACAAGCTGATGGTCATGATGAAGCTACACAGTGT
1 TGCTCACACAAGCTGATGGTCATGACGAAGCTACACAGTGT
* ** *
78168957 TACTCACACAAGCTGATGAGAATTTGCAACACACGAAGCTATCA-ACGGGT
1 TGCTCACACAAGCTGATG-G----T-C-A-TGACGAAGCTA-CACA-GTGT
*
78169007 CTGCTCACACAAGCTGATGGTCATGACGCAGCTACACAGTGT
1 -TGCTCACACAAGCTGATGGTCATGACGAAGCTACACAGTGT
78169049 TGCTCACACAAGCTGATG
1 TGCTCACACAAGCTGATG
78169067 AGAATCCGCA
Statistics
Matches: 88, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
41 35 0.40
42 6 0.07
43 9 0.10
44 1 0.01
45 1 0.01
46 2 0.02
47 1 0.01
48 1 0.01
49 9 0.10
50 6 0.07
51 17 0.19
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (41 bp):
TGCTCACACAAGCTGATGGTCATGACGAAGCTACACAGTGT
Found at i:78169057 original size:92 final size:92
Alignment explanation
Indices: 78168900--78169081 Score: 310
Period size: 92 Copynumber: 2.0 Consensus size: 92
78168890 TCTCACTCTC
* *
78168900 AAGCTATCAATGGGTCTGCTCACACAAGCTGATGGTCATGATGAAGCTACACAGTGTTACTCACA
1 AAGCTATCAACGGGTCTGCTCACACAAGCTGATGGTCATGACGAAGCTACACAGTGTTACTCACA
**
78168965 CAAGCTGATGAGAATTTGCAACACACG
66 CAAGCTGATGAGAATCCGCAACACACG
* *
78168992 AAGCTATCAACGGGTCTGCTCACACAAGCTGATGGTCATGACGCAGCTACACAGTGTTGCTCACA
1 AAGCTATCAACGGGTCTGCTCACACAAGCTGATGGTCATGACGAAGCTACACAGTGTTACTCACA
78169057 CAAGCTGATGAGAATCCGCAACACA
66 CAAGCTGATGAGAATCCGCAACACA
78169082 TGCCAGATAA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (92 bp):
AAGCTATCAACGGGTCTGCTCACACAAGCTGATGGTCATGACGAAGCTACACAGTGTTACTCACA
CAAGCTGATGAGAATCCGCAACACACG
Found at i:78173074 original size:40 final size:40
Alignment explanation
Indices: 78173015--78173252 Score: 347
Period size: 40 Copynumber: 6.0 Consensus size: 40
78173005 TCGAATGATG
* * * *
78173015 TCCGGGCTAAG-TCCTGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGATCC-GAAGGCATTTGTGC-GAGTTACTAAA
78173055 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
78173095 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
78173135 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
78173175 TCCGGACTAAGGTCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
** *
78173215 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
78173253 TAACCGGGCT
Statistics
Matches: 185, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 174 0.94
41 10 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78173260 original size:40 final size:39
Alignment explanation
Indices: 78173015--78173280 Score: 338
Period size: 40 Copynumber: 6.6 Consensus size: 39
78173005 TCGAATGATG
* * * *
78173015 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAA
78173055 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
78173095 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
78173135 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
78173175 TCCGGACTAAGGTCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAA-GTCCGAAGGCATTTGTGCGAGTTACTAAA
** *
78173215 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
78173256 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
78173281 AACGAGTAGC
Statistics
Matches: 209, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
39 2 0.01
40 194 0.93
41 13 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78173287 original size:80 final size:79
Alignment explanation
Indices: 78173015--78173313 Score: 331
Period size: 80 Copynumber: 3.7 Consensus size: 79
78173005 TCGAATGATG
* * * * **
78173015 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGATCCGAAGGCATT
78173079 TGTGCGAGTTACTAAA
64 TGTGCGAGTTACTAAA
**
78173095 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTT
78173160 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
*
78173175 TCCGGACTAAGGTCCAAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGACTAA-GTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGAT-CCGAAGGCATT
*
78173239 TGTGCGAGCTACTATAA
64 TGTGCGAGTTACTA-AA
* * * ** *
78173256 -CCGGGCTATGTCCCGAAGGTATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGA-TCCGAAGG
78173314 TACGTGATTC
Statistics
Matches: 195, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
79 18 0.09
80 164 0.84
81 13 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:78177087 original size:27 final size:28
Alignment explanation
Indices: 78177042--78177137 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
78177032 GCGTAGATCA
78177042 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
78177070 TGAAATTA-CCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
78177097 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
78177125 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
78177138 GGGTTTAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.05
27 34 0.54
28 26 0.41
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:78180630 original size:28 final size:28
Alignment explanation
Indices: 78180597--78180693 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
78180587 GCGTAGATCA
78180597 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
78180625 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
78180653 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
78180681 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
78180694 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:78182626 original size:50 final size:49
Alignment explanation
Indices: 78182508--78182679 Score: 233
Period size: 50 Copynumber: 3.5 Consensus size: 49
78182498 GAGCAATGAA
*
78182508 ATCCCATGTAGGACCATGTCTGGGACATGGCATTGGCATCGAATATG-AG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-AATATGTAG
* *
78182557 ATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCATCAATATGTAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGT-AG
* *
78182607 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAGT-AGTACGT-G
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCAATATGTAG
* *
78182655 ATCCTATGTAAGACCATATCTGGGA
1 ATCCCATGTAAGACCATGTCTGGGA
78182680 TATAGCCTTT
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
48 30 0.27
49 37 0.33
50 43 0.39
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (49 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTAG
Found at i:78187590 original size:2 final size:2
Alignment explanation
Indices: 78187583--78187618 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
78187573 GCTCTTGCAC
78187583 AT 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 AT
78187619 GTTTGCACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78188432 original size:40 final size:40
Alignment explanation
Indices: 78188322--78188579 Score: 348
Period size: 40 Copynumber: 6.5 Consensus size: 40
78188312 TGGATGATAA
* * *
78188322 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
78188362 CCGGGC-CAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
78188401 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78188441 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
*
78188481 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78188521 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
78188560 CC-GGCTAAACCCCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
78188580 CTTGGTTGGG
Statistics
Matches: 197, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
38 19 0.10
39 44 0.22
40 132 0.67
41 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:78195563 original size:19 final size:20
Alignment explanation
Indices: 78195489--78195562 Score: 80
Period size: 21 Copynumber: 3.7 Consensus size: 20
78195479 TTAGGAGGGA
*
78195489 ATGCATAGGAATAAAAAGGGC
1 ATGCATAGGAA-AAAATGGGC
78195510 ATGCATAGGAAAAAATGGGC
1 ATGCATAGGAAAAAATGGGC
** *
78195530 -T-TTTTGGACAAAAATGGGC
1 ATGCATAGGA-AAAAATGGGC
78195549 ATGCATAGGAAAAA
1 ATGCATAGGAAAAA
78195563 TTTGAAAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.09
19 11 0.26
20 13 0.30
21 15 0.35
ACGTcount: A:0.45, C:0.09, G:0.27, T:0.19
Consensus pattern (20 bp):
ATGCATAGGAAAAAATGGGC
Found at i:78207192 original size:12 final size:12
Alignment explanation
Indices: 78207175--78207199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78207165 AACAACATAG
78207175 TAGATAGTCAAT
1 TAGATAGTCAAT
78207187 TAGATAGTCAAT
1 TAGATAGTCAAT
78207199 T
1 T
78207200 TAGCTAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TAGATAGTCAAT
Found at i:78215850 original size:28 final size:28
Alignment explanation
Indices: 78215807--78215867 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
78215797 GATTGCATGA
78215807 ATATGAAAGTGATTGGGCCTGACAGGCC
1 ATATGAAAGTGATTGGGCCTGACAGGCC
* **
78215835 ATATGAAAGTGGTTGGGCCTGATGGGCC
1 ATATGAAAGTGATTGGGCCTGACAGGCC
78215863 ATATG
1 ATATG
78215868 TGTAACACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (28 bp):
ATATGAAAGTGATTGGGCCTGACAGGCC
Found at i:78217533 original size:29 final size:28
Alignment explanation
Indices: 78217499--78217601 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
78217489 TACTCAATCA
*
78217499 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
78217528 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
78217557 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
78217586 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
78217602 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:78226563 original size:40 final size:40
Alignment explanation
Indices: 78226436--78226565 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
78226426 ATTCTGGAAA
* *
78226436 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
78226476 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
78226516 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
78226556 TTATATCCGG
1 TTATATCCGG
78226566 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:78228872 original size:29 final size:28
Alignment explanation
Indices: 78228838--78228940 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
78228828 TACTCAATCA
*
78228838 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
78228867 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
78228896 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
78228925 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
78228941 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:78239868 original size:40 final size:40
Alignment explanation
Indices: 78239809--78239994 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
78239799 CATTGGAATG
* * * *
78239809 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
78239849 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
78239889 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
78239928 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
78239968 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
78239995 CGAGCGAGTC
Statistics
Matches: 120, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 32 0.27
40 86 0.72
41 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:78239942 original size:79 final size:80
Alignment explanation
Indices: 78239809--78239961 Score: 209
Period size: 79 Copynumber: 1.9 Consensus size: 80
78239799 CATTGGAATG
* * ** *
78239809 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTACCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
78239874 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
78239889 ATATCCGGGCTAAG-ACCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTACCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
78239953 ATCGTGCGA
66 ATCGTGCGA
78239962 ATCACTATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 49 0.78
80 14 0.22
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTACCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:78245642 original size:41 final size:41
Alignment explanation
Indices: 78245597--78245714 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
78245587 TGAAAGATAA
78245597 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
78245638 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
78245668 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
78245709 ATGTAG
1 ATGTAG
78245715 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:78245653 original size:71 final size:71
Alignment explanation
Indices: 78245565--78245728 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
78245555 GAGATGTATC
78245565 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
78245630 AGGACA
66 AGGACA
78245636 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
78245701 AGGACA
66 AGGACA
78245707 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
78245729 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:78250614 original size:40 final size:40
Alignment explanation
Indices: 78250555--78250741 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
78250545 CATTGGAATG
* * * *
78250555 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
78250595 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
78250635 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
78250675 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
78250715 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
78250742 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:78250657 original size:80 final size:80
Alignment explanation
Indices: 78250555--78250708 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
78250545 CATTGGAATG
* * ** *
78250555 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
78250620 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
78250635 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
78250700 ATCGTGCGA
66 ATCGTGCGA
78250709 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:78250723 original size:80 final size:80
Alignment explanation
Indices: 78250559--78250741 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
78250549 GGAATGATAT
* ** * *
78250559 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
78250624 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
78250639 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
78250704 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
78250719 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
78250742 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:78250761 original size:80 final size:80
Alignment explanation
Indices: 78250559--78250776 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
78250549 GGAATGATAT
* * * * * * * *
78250559 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
78250623 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
78250639 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
78250704 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
78250719 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
78250777 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:78254302 original size:40 final size:40
Alignment explanation
Indices: 78254257--78254423 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
78254247 CGGAATATAA
78254257 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
78254297 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
78254337 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
78254377 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
78254416 CCGGATAT
1 CCGGATAT
78254424 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:78274142 original size:31 final size:31
Alignment explanation
Indices: 78274104--78274174 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
78274094 TTACTGGGCT
78274104 GAAGCCTTTTCATAAATCATATCACTAGGCC
1 GAAGCCTTTTCATAAATCATATCACTAGGCC
* *
78274135 GAAGCCTTTTCATAAATCATATCATTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTAGGCC
*
78274166 AAAGCCTTT
1 GAAGCCTTT
78274175 ACTGTAAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (31 bp):
GAAGCCTTTTCATAAATCATATCACTAGGCC
Found at i:78274245 original size:42 final size:42
Alignment explanation
Indices: 78274198--78274289 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
78274188 TAGCCCTTAG
** *** *
78274198 GCCCATTTCAATATCACATGTCATGTTAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
78274240 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
78274282 GCCCATTT
1 GCCCATTT
78274290 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:78274505 original size:26 final size:26
Alignment explanation
Indices: 78274434--78274608 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
78274424 CCTCTTTAAT
**
78274434 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
78274459 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
78274484 AACTGGGGCATAAGCCCCTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
78274510 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
78274536 AACTGGGGCATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
78274562 AATTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
78274588 AACTGGTGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
78274609 GCACTTCCTC
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 33 0.25
26 99 0.75
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:78274530 original size:52 final size:52
Alignment explanation
Indices: 78274434--78274608 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
78274424 CCTCTTTAAT
78274434 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
78274484 AACTGGGGCATAAGCCCCTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* * *
78274536 AACTGGGGCATAAGCCATTTTCGGTAAATTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
78274588 AACTGGTGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
78274609 GCACTTCCTC
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
50 10 0.09
51 24 0.21
52 82 0.71
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:78275446 original size:27 final size:27
Alignment explanation
Indices: 78275411--78275494 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
78275401 GGGCATATTC
* *
78275411 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
78275438 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
* *
78275465 GTCACTTTACCCTACAAGGGCTTTATG
1 GTCACTTTACCCTACAGGGGCTTTACG
78275492 GTC
1 GTC
78275495 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:78275586 original size:27 final size:27
Alignment explanation
Indices: 78275533--78275838 Score: 172
Period size: 27 Copynumber: 11.3 Consensus size: 27
78275523 TTTCATCCTA
* * * *
78275533 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
78275560 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * *
78275587 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* * *
78275616 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
78275643 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
78275670 TAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
78275697 C-AGTGGTATTTTGGTCATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
78275724 C-AGTGGTATTTTAGCAATTTTACATA-
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * *
78275750 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* * *
78275777 CGAGGGTATTTTGGTAATTTTGTAAGC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
78275804 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
78275831 CGAGGGTA
1 CAAGGGTA
78275839 AAACAGTAAT
Statistics
Matches: 220, Mismatches: 50, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
26 22 0.10
27 172 0.78
28 13 0.06
29 13 0.06
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:78275705 original size:54 final size:54
Alignment explanation
Indices: 78275541--78275838 Score: 206
Period size: 54 Copynumber: 5.5 Consensus size: 54
78275531 TACAAGGGTG
* * * ** *
78275541 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAACCAGTGGTA
*** * * * ** * *
78275595 TTTCCATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTA
1 TTTTGGTAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTACAAACCAGTGGTA
* * *
78275651 TTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAACCAGTGGTA
* * * * * *
78275705 TTTTGGTCATTTTACAAA-CCAGTGGTATTTTAGCAATTTTACATACTAG-GGTA
1 TTTTGGTAATTTTACAAATCAAG-GGTATTTCAGTAATTTTACAAACCAGTGGTA
** * ** ** *
78275758 TTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAGCCAAG-GGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAACC-AGTGGTA
* ** *
78275812 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
78275839 AAACAGTAAT
Statistics
Matches: 190, Mismatches: 49, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
53 38 0.20
54 102 0.54
55 14 0.07
56 36 0.19
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAACCAGTGGTA
Found at i:78275846 original size:27 final size:27
Alignment explanation
Indices: 78275816--78275891 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 27
78275806 AGGGTATTTT
* *
78275816 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
78275843 AGTAATTCTCTAAAT-AAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
78275869 AGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
78275892 CTTTGGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 19 0.45
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:78285212 original size:40 final size:40
Alignment explanation
Indices: 78285153--78285440 Score: 337
Period size: 40 Copynumber: 7.2 Consensus size: 40
78285143 CATTGGAATG
* * *
78285153 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
*
78285193 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTATT
* * *
78285233 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
*
78285273 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTATT
* * **
78285313 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* * * *
78285353 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
* ** * * * *
78285393 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
78285433 ATATCCGG
1 ATATCCGG
78285441 TTAAATTCCG
Statistics
Matches: 211, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.03
40 200 0.95
41 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTATT
Found at i:78285286 original size:80 final size:80
Alignment explanation
Indices: 78285153--78285440 Score: 398
Period size: 80 Copynumber: 3.6 Consensus size: 80
78285143 CATTGGAATG
78285153 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
78285218 TTCGTGCGAGTTGTT
66 TTCGTGCGAGTTGTT
78285233 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
78285298 TTCGTGCGAGTTGTT
66 TTCGTGCGAGTTGTT
* * * * ** * *
78285313 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-
***
78285378 ATT-GTGCGAGTCACT
65 ATTCGTGCGAGTTGTT
* ** * * * *
78285393 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCCGG
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGG
78285441 TTAAATTCCG
Statistics
Matches: 186, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 183 0.98
81 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTTGTT
Found at i:78303038 original size:40 final size:39
Alignment explanation
Indices: 78302947--78303098 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
78302937 ATAAGCATGT
* * * *
78302947 GCACAAATGCCTTCGGGTCTTAGCCCAGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATG-CTA
**
78302987 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-ATGCTA
* * *
78303027 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAA-TGCTA
* * *
78303067 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
78303099 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 89 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATGCTA
Found at i:78304492 original size:40 final size:40
Alignment explanation
Indices: 78304426--78304592 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
78304416 AAATTGAATG
* * *
78304426 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
78304465 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
78304505 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
78304545 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
78304585 ATATCCGG
1 ATATCCGG
78304593 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:78312468 original size:40 final size:40
Alignment explanation
Indices: 78312409--78312550 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
78312399 AAATTGAATG
* * *
78312409 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
78312449 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
78312489 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
78312529 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
78312551 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:78312551 original size:40 final size:39
Alignment explanation
Indices: 78312448--78312576 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
78312438 TGCTGGAAAT
* * *
78312448 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
78312488 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
78312528 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
78312568 TATATCCGG
1 TATATCCGG
78312577 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:78320717 original size:71 final size:71
Alignment explanation
Indices: 78320634--78320797 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
78320624 CGATTTGTCT
*
78320634 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACTTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
78320699 CTTTCA
66 CTTTCA
78320705 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
78320770 CTTTCA
66 CTTTCA
78320776 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
78320798 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:78320835 original size:71 final size:70
Alignment explanation
Indices: 78320634--78320831 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
78320624 CGATTTGTCT
* * * * *
78320634 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACTTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
78320699 CTTTCA
65 CTTTCA
* * * *
78320705 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
78320770 CTTTCA
65 CTTTCA
* *
78320776 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
78320832 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:78323260 original size:10 final size:10
Alignment explanation
Indices: 78323245--78323274 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
78323235 AAAATTCCTT
78323245 ATTTCCTTTC
1 ATTTCCTTTC
*
78323255 ATTTCCATTC
1 ATTTCCTTTC
78323265 ATTTCCTTTC
1 ATTTCCTTTC
78323275 TCATCCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.13, C:0.30, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTCCTTTC
Found at i:78328678 original size:27 final size:27
Alignment explanation
Indices: 78328640--78328691 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
78328630 ATGTTTGCTC
* *
78328640 GTGTTTAGCCTCGTACCCTATTCCTTT
1 GTGTTTAGCCTCATACCCTACTCCTTT
78328667 GTGTTTAGCCTCATACCCTACTCCT
1 GTGTTTAGCCTCATACCCTACTCCT
78328692 ACGTCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.33, G:0.13, T:0.40
Consensus pattern (27 bp):
GTGTTTAGCCTCATACCCTACTCCTTT
Found at i:78329883 original size:20 final size:20
Alignment explanation
Indices: 78329855--78329897 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
78329845 CATATAAATA
*
78329855 AAAACTTA-TATTTAATTTTT
1 AAAACTTATTA-TGAATTTTT
*
78329875 AAAATTTATTATGAATTTTT
1 AAAACTTATTATGAATTTTT
78329895 AAA
1 AAA
78329898 GTCAGAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAACTTATTATGAATTTTT
Found at i:78330829 original size:46 final size:44
Alignment explanation
Indices: 78330762--78330930 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 44
78330752 AACCCGCCCC
*
78330762 TAAGTGAACTCGGACTCAACTCAACGAGCTTTGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTTGGCATTC-CATCCA
* * * *
78330808 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG-ATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGCATTCC-A--TCCA
* *
78330854 TTTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCACATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTTGG-CATTC-CATCCA
78330901 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
78330931 CGGATGCTCA
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 6 0.06
46 55 0.54
47 29 0.29
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTTGGCATTCCATCCA
Found at i:78330879 original size:93 final size:93
Alignment explanation
Indices: 78330767--78330937 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
78330757 GCCCCTAAGT
* *
78330767 GAACTCGGACTCAACTCAACGAGCTTTGG-CGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTTGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
78330831 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
78330860 GAACTCGGACTCAACTCAACGAGTTTGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
78330925 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78330938 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 5 0.07
93 69 0.93
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTTGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:78338096 original size:29 final size:29
Alignment explanation
Indices: 78337995--78338116 Score: 156
Period size: 29 Copynumber: 4.2 Consensus size: 29
78337985 TGACGAGATC
*
78337995 GGCACTAAGTGTGCGTGCT-GAAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAA-ATAT
* * *
78338024 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
78338053 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
* * * *
78338082 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAT
78338111 GGCACT
1 GGCACT
78338117 GGGTGTGCGA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 78 0.95
30 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAT
Found at i:78338129 original size:29 final size:29
Alignment explanation
Indices: 78337994--78338129 Score: 141
Period size: 29 Copynumber: 4.7 Consensus size: 29
78337984 GTGACGAGAT
*
78337994 CGGCACTAAGTGTGCGTGCT-GAAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAA-ATA
* * *
78338023 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
*
78338052 AGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 CGGCACTAAGTGTGCGA-GCTGGAAAAATA
* * * *
78338081 TGACACTATGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
78338110 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
78338130 CGGAGGGTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
29 86 0.95
30 5 0.05
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:78339701 original size:47 final size:45
Alignment explanation
Indices: 78339580--78339748 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 45
78339570 GTGTTACAGT
*
78339580 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG-C-CATTAAGA
* *
78339626 GAGCCAGTGTAAGACTATTTCTGGGACATGGCATCGG-CATTAAGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCCATTAAGA
* * * *
78339671 CGAGTGCTAGTGTAAGACATGTCTGAGACAT-GCATTGGCC-GTGAGA
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCATTAAGA
* *
78339717 CGTAAGCCAGTGTAAGACATATCTGGGACATG
1 -G--AGCTAGTGTAAGACATGTCTGGGACATG
78339749 TATCAACTAC
Statistics
Matches: 102, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
45 7 0.07
46 51 0.50
47 24 0.24
48 20 0.20
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCATTAAGA
Found at i:78347381 original size:46 final size:46
Alignment explanation
Indices: 78347232--78347453 Score: 159
Period size: 46 Copynumber: 4.8 Consensus size: 46
78347222 GGGCTATTCT
* * * * *
78347232 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGACCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-AACGA
* * * * *
78347278 GAGCCAGTGTAAGACCATGTCTGGGTCATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAAACGA
* * *
78347326 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAAACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAAACG-A
* * *
78347373 -AGCCAGTGTAAGACATGAT-TGGGACATGCGTCG-GCTACGAGA-G-
1 GAGCCAGTGTAAGACATG-TCTGGGACATGCATCGACCT-CGAAACGA
* * *
78347416 GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
78347454 ACAGATATCC
Statistics
Matches: 138, Mismatches: 27, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 61 0.44
47 27 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAAACGA
Found at i:78358958 original size:101 final size:98
Alignment explanation
Indices: 78358821--78359007 Score: 275
Period size: 101 Copynumber: 1.9 Consensus size: 98
78358811 CCAAAAATCT
* *
78358821 GGTACACACAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATTTTATACACGTAGTTGC
1 GGTACACACAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTTGC
78358886 CTGCACTTAGTACTACACACGTGATTGAAGTTGTTG
66 CTGCAC-T--TACTACACACGTGATTGAAGTTGTTG
* * * * * *
78358922 GGTACGCATAGTAGCCTGCACTTAGTATTACACATGTGACCTAACTATCTGGTACACGTAGTTGC
1 GGTACACACAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTTGC
78358987 CTGCACTTACTACACACGTGA
66 CTGCACTTACTACACACGTGA
78359008 CCTAAAACCA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
98 14 0.18
100 1 0.01
101 63 0.81
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (98 bp):
GGTACACACAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTTGC
CTGCACTTACTACACACGTGATTGAAGTTGTTG
Found at i:78359017 original size:150 final size:149
Alignment explanation
Indices: 78358772--78359054 Score: 372
Period size: 150 Copynumber: 1.9 Consensus size: 149
78358762 GAAGCTATCT
*
78358772 GGTACGCATAGTAGCCTGCACTTAGTACTACGCATGTGACCAAAAATCTGGTACACACAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAAAATCTGGTACACACAGTAGCC
* * * * * *
78358837 TACACTTAGTACTACACATGTGACCTAACCATTTTATACACGTAGTTGCCTGCACTTAGTACTAC
66 TACACTTA-TACTACACACGTGACCTAACCATCTTAAACACATAGTAGCCTGCACATAGTACTAC
78358902 ACACGTGATTGAAGTTGTTG
130 ACACGTGATTGAAGTTGTTG
* ** ** *
78358922 GGTACGCATAGTAGCCTGCACTTAGTATTACACATGTGACCTAACTATCTGGTACACGTAGTTGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAAAATCTGGTACACACAGTAGC
* * *
78358987 CTGCAC-T-TACTACACACGTGACCTAAAACCATCTTAAAGACATAGTAGCCTGCACATATTACT
65 CTACACTTATACTACACACGTGACCT--AACCATCTTAAACACATAGTAGCCTGCACATAGTACT
78359050 ACACA
128 ACACA
78359055 TGTGTTCCCA
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
148 16 0.14
150 75 0.66
151 23 0.20
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAAAATCTGGTACACACAGTAGCC
TACACTTATACTACACACGTGACCTAACCATCTTAAACACATAGTAGCCTGCACATAGTACTACA
CACGTGATTGAAGTTGTTG
Found at i:78364113 original size:30 final size:30
Alignment explanation
Indices: 78364077--78364171 Score: 136
Period size: 30 Copynumber: 3.2 Consensus size: 30
78364067 CAGTCAGGCT
*
78364077 ACACGCTCATGTCACCAGGCCGTGTCCCTC
1 ACACGCTCGTGTCACCAGGCCGTGTCCCTC
* * *
78364107 ATACGCTCGTGTCACCAGGACGTATCCCTC
1 ACACGCTCGTGTCACCAGGCCGTGTCCCTC
* *
78364137 ACACGCTTGTGTCACTAGGCCGTGTCCCTC
1 ACACGCTCGTGTCACCAGGCCGTGTCCCTC
78364167 ACACG
1 ACACG
78364172 GTTGAGACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.18, C:0.39, G:0.21, T:0.22
Consensus pattern (30 bp):
ACACGCTCGTGTCACCAGGCCGTGTCCCTC
Found at i:78364188 original size:30 final size:30
Alignment explanation
Indices: 78364093--78364192 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
78364083 TCATGTCACC
* * * * *
78364093 AGGCCGTGTCCCTCATACGCTCGTGTCACC
1 AGGCCGTGTCCCTCACACGCTTGAGACACT
* * * *
78364123 AGGACGTATCCCTCACACGCTTGTGTCACT
1 AGGCCGTGTCCCTCACACGCTTGAGACACT
*
78364153 AGGCCGTGTCCCTCACACGGTTGAGACA-T
1 AGGCCGTGTCCCTCACACGCTTGAGACACT
78364182 ACGGCCGTGTC
1 A-GGCCGTGTC
78364193 TCATCCATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 57 0.97
ACGTcount: A:0.17, C:0.35, G:0.25, T:0.23
Consensus pattern (30 bp):
AGGCCGTGTCCCTCACACGCTTGAGACACT
Found at i:78366416 original size:50 final size:49
Alignment explanation
Indices: 78366253--78366478 Score: 262
Period size: 50 Copynumber: 4.6 Consensus size: 49
78366243 CTGGTATGCA
*
78366253 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGATACACG
* * * *
78366302 TAGTAGGCTGCACTTAGTACTACACACGTGA-C--C-ATTTTATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGATACACG
*
78366347 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCTGATACACG
* * * * * *
78366397 TACTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC---AACAATCTGATACACG
* *
78366449 TAGTATCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
78366479 TTCTCACAAT
Statistics
Matches: 148, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
45 38 0.26
46 2 0.01
48 1 0.01
49 30 0.20
50 40 0.27
52 37 0.25
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGATACACG
Found at i:78366418 original size:95 final size:94
Alignment explanation
Indices: 78366253--78366429 Score: 327
Period size: 95 Copynumber: 1.9 Consensus size: 94
78366243 CTGGTATGCA
* *
78366253 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACGTAGTAGGCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACGTACTAGCCTGCACTTA
78366318 GTACTACACACGTGACCATTTTATACACG
66 GTACTACACACGTGACCATTTTATACACG
78366347 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTACTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACAATCTGGTACACGTACTAGCCTGCACTT
78366412 AGTACTACACACGTGACC
65 AGTACTACACACGTGACC
78366430 TAAAACCATC
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
94 33 0.41
95 47 0.59
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (94 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACGTACTAGCCTGCACTTA
GTACTACACACGTGACCATTTTATACACG
Found at i:78370043 original size:6 final size:6
Alignment explanation
Indices: 78370025--78370137 Score: 54
Period size: 6 Copynumber: 18.3 Consensus size: 6
78370015 AAGAAACATT
* * *
78370025 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCATA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * * *
78370074 ATCAGT ATCAGGTA ACCA-A ATCAAA ATCAGA ATCTGT ATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
78370124 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
78370138 GTGAATACAA
Statistics
Matches: 79, Mismatches: 17, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
5 8 0.10
6 59 0.75
7 7 0.09
8 5 0.06
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:78370071 original size:31 final size:31
Alignment explanation
Indices: 78370036--78370137 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
78370026 TCAGAACTAG
* * * *
78370036 AATCAGAATCAGAATTAGGTGACAGAATCAT
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
78370067 AATCAGAATCAGTATCAGGTAACCA-AATCAA
1 AATCAGAATCAGTATCAGGTAA-CAGAATCAA
*
78370098 AATCAGAATCTGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
78370129 AATCAGAAT
1 AATCAGAAT
78370138 GTGAATACAA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 2 0.03
31 60 0.94
32 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:78370984 original size:27 final size:27
Alignment explanation
Indices: 78370954--78371005 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
78370944 AGGTATCTCC
*
78370954 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCCACCCTACAAGGGTATTTTA
*
78370981 GTAATTCTACCCTACAAGGGTATTT
1 GTAATTCCACCCTACAAGGGTATTT
78371006 CAAAAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCCACCCTACAAGGGTATTTTA
Found at i:78371013 original size:27 final size:27
Alignment explanation
Indices: 78370956--78371020 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
78370946 GTATCTCCGT
* * * **
78370956 AATTCCACCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAAGGGTATTTCAAA
78370983 AATTCTACCCTACAAGGGTATTTCAAA
1 AATTCTACCCTACAAGGGTATTTCAAA
78371010 AATTCTACCCT
1 AATTCTACCCT
78371021 TTACCCTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCAAA
Found at i:78371086 original size:27 final size:27
Alignment explanation
Indices: 78371048--78371279 Score: 365
Period size: 27 Copynumber: 8.6 Consensus size: 27
78371038 TTCGGTAATT
78371048 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
78371075 GGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
78371102 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
78371129 GGGTATTGCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
78371156 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
78371183 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
78371210 GGGTATTGCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
78371237 GGGTATTTCGATAATTTTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
78371264 GAGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
78371280 GGGTATTTCG
Statistics
Matches: 188, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:78371112 original size:54 final size:54
Alignment explanation
Indices: 78371048--78371511 Score: 698
Period size: 54 Copynumber: 8.8 Consensus size: 54
78371038 TTCGGTAATT
*
78371048 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
* * *
78371102 GGGTATTTCGGTAATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
*
78371156 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
* * * * *
78371210 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGATAATTTTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
*
78371264 GAGTATTTCGGTAA---T----T----GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
* *
78371307 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
* *
78371361 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
* *
78371415 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
78371469 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATT
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATT
78371512 TTGTAAACAA
Statistics
Matches: 367, Mismatches: 32, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
43 37 0.10
46 1 0.00
47 1 0.00
50 1 0.00
51 1 0.00
54 326 0.89
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAG
Found at i:78371152 original size:81 final size:81
Alignment explanation
Indices: 78371048--78371511 Score: 716
Period size: 81 Copynumber: 5.9 Consensus size: 81
78371038 TTCGGTAATT
* *
78371048 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
78371113 TAATTCTACCCTATAG
66 TAATTCTACCCTATAG
*
78371129 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
* *
78371194 TAATTCTACCTTACAG
66 TAATTCTACCCTATAG
* * *
78371210 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGATAATTTTACCCTACAAGAGTATTTCGG
1 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
78371275 T-A----A---T-T--
66 TAATTCTACCCTATAG
* *
78371280 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
78371345 TAATTCTACCCTATAG
66 TAATTCTACCCTATAG
*
78371361 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
* *
78371426 TAATTCTACCTTACAG
66 TAATTCTACCCTATAG
* *
78371442 GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
78371507 TAATT
66 TAATT
78371512 TTGTAAACAA
Statistics
Matches: 351, Mismatches: 21, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
70 61 0.17
71 1 0.00
73 1 0.00
75 1 0.00
76 1 0.00
78 1 0.00
79 1 0.00
80 1 0.00
81 283 0.81
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (81 bp):
GGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
TAATTCTACCCTATAG
Found at i:78371301 original size:43 final size:43
Alignment explanation
Indices: 78371237--78371322 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
78371227 TACCCTACAG
*
78371237 GGGTATTTCGATAATTTTACCCTACAAGAGTATTTCGGTAATT
1 GGGTATTTCGATAATTCTACCCTACAAGAGTATTTCGGTAATT
* * *
78371280 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATT
1 GGGTATTTCGATAATTCTACCCTACAAGAGTATTTCGGTAATT
78371323 CTACCCTACA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (43 bp):
GGGTATTTCGATAATTCTACCCTACAAGAGTATTTCGGTAATT
Found at i:78371318 original size:27 final size:27
Alignment explanation
Indices: 78371280--78371511 Score: 410
Period size: 27 Copynumber: 8.6 Consensus size: 27
78371270 TTCGGTAATT
78371280 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
78371307 GGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
78371334 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
78371361 GGGTATTGCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
78371388 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
78371415 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
78371442 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
78371469 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
78371496 GGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
78371512 TTGTAAACAA
Statistics
Matches: 193, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:78371577 original size:40 final size:40
Alignment explanation
Indices: 78371533--78371609 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
78371523 GGGTATTTCA
* *
78371533 GTAATTTTATAAATTGAGGGTAAAATGGTAATTCTATACG
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATACG
*
78371573 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT
78371610 CTTACAAGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (40 bp):
GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATACG
Found at i:78371649 original size:27 final size:27
Alignment explanation
Indices: 78371619--78371741 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
78371609 TCTTACAAGA
78371619 GTATTTTAGTAATTTTACAAATCGAGG
1 GTATTTTAGTAATTTTACAAATCGAGG
* *
78371646 GTATTTCAGTAATTTTGCAAA-CTGAGG
1 GTATTTTAGTAATTTTACAAATC-GAGG
**
78371673 GTATTTCGGTAATTTTACAAATCGAGG
1 GTATTTTAGTAATTTTACAAATCGAGG
* * *
78371700 ATA-TTTAGGTAATTTTATAAATCGGGG
1 GTATTTTA-GTAATTTTACAAATCGAGG
* *
78371727 GTACTTTGGTAATTT
1 GTATTTTAGTAATTT
78371742 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.04
27 74 0.91
28 4 0.05
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GTATTTTAGTAATTTTACAAATCGAGG
Found at i:78372377 original size:29 final size:29
Alignment explanation
Indices: 78372335--78372395 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
78372325 GGCTTTTTGT
78372335 GTCATATTTCATCCCCAATTAATTATAAG
1 GTCATATTTCATCCCCAATTAATTATAAG
78372364 GTCATATTTCATCCCCAATTAATTATAAG
1 GTCATATTTCATCCCCAATTAATTATAAG
78372393 GTC
1 GTC
78372396 TAAAGGCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (29 bp):
GTCATATTTCATCCCCAATTAATTATAAG
Found at i:78373884 original size:6 final size:6
Alignment explanation
Indices: 78373866--78373972 Score: 51
Period size: 6 Copynumber: 17.3 Consensus size: 6
78373856 AAGAAACATT
* * *
78373866 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * * *
78373915 ATCAGGTA A-CCGA ATCAAA ATCAGA ACCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
78373965 ATCAGA AT
1 ATCAGA AT
78373973 GTGAATATAA
Statistics
Matches: 74, Mismatches: 16, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
5 6 0.08
6 57 0.77
7 8 0.11
8 3 0.04
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:78373903 original size:25 final size:25
Alignment explanation
Indices: 78373875--78373972 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 25
78373865 TATCAGAACT
* *
78373875 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
78373900 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
78373925 CGAATCAAAATCAGAACCAGTATCAGGTAAC
1 AGAATCAGAATCAG----A--ATCAGGTAAC
*
78373956 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
78373973 GTGAATATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
25 36 0.60
27 1 0.02
31 23 0.38
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:78373937 original size:31 final size:31
Alignment explanation
Indices: 78373902--78373972 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
78373892 TAGGTGACAG
*
78373902 AATCAGAATCAGTATCAGGTAACCGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
*
78373933 AATCAGAACCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
78373964 AATCAGAAT
1 AATCAGAAT
78373973 GTGAATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.18
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:78374200 original size:27 final size:26
Alignment explanation
Indices: 78374092--78374200 Score: 128
Period size: 27 Copynumber: 4.1 Consensus size: 26
78374082 AGCATGGTTG
* *
78374092 CTAGAACAGATATTGTGACAAAGTCA
1 CTAGAACAGATATTGTGGCAAAGCCA
*
78374118 CCAGATACAGATATTGTGGCAAAGCCA
1 CTAGA-ACAGATATTGTGGCAAAGCCA
* * *
78374145 CCAGAACAAATATTTGTGGCATAGCCA
1 CTAGAACAGATA-TTGTGGCAAAGCCA
*
78374172 CTAGAATCAGATAATGTGGCAAAGCCA
1 CTAGAA-CAGATATTGTGGCAAAGCCA
78374199 CT
1 CT
78374201 TAATAGAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
26 10 0.14
27 56 0.79
28 5 0.07
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (26 bp):
CTAGAACAGATATTGTGGCAAAGCCA
Found at i:78374282 original size:32 final size:31
Alignment explanation
Indices: 78374213--78374288 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
78374203 ATAGAATACG
* *
78374213 TGGCACAAAGCCATCAATAACTGTAATAACT
1 TGGCACAAAGCCATCAATAACGGTAATAAAT
* * *
78374244 TCGGCACATAGCCATCAGTGACGGTAATATAAT
1 T-GGCACAAAGCCATCAATAACGGTAATA-AAT
*
78374277 TGGCACACAGCC
1 TGGCACAAAGCC
78374289 TTCGGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.03
32 33 0.89
33 3 0.08
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (31 bp):
TGGCACAAAGCCATCAATAACGGTAATAAAT
Found at i:78374390 original size:22 final size:22
Alignment explanation
Indices: 78374358--78374415 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
78374348 TAAATACGTT
*
78374358 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
78374380 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
78374402 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
78374416 CGATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:78374819 original size:27 final size:27
Alignment explanation
Indices: 78374762--78375171 Score: 529
Period size: 27 Copynumber: 15.3 Consensus size: 27
78374752 GGGGAAAAAT
* * * *
78374762 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78374788 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78374815 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78374842 GGTAATTCAACCCTACA-GGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78374868 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
78374895 GATAATTCTACCGTATAGAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78374922 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78374949 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
78374976 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
78375003 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
78375030 GGTAATTCTACCCTACAGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
* *
78375057 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78375084 GATAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
78375111 AGTAATTCTACCCTATAGGGGTTTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
78375138 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
78375165 GATAATT
1 GGTAATT
78375172 TTGTAAACCA
Statistics
Matches: 332, Mismatches: 48, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
26 37 0.11
27 294 0.89
28 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:78375186 original size:27 final size:27
Alignment explanation
Indices: 78375156--78375214 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
78375146 TACCCTACAG
*
78375156 GGGTATTTCGATAATTTTGTAAACCAA
1 GGGTATTTCAATAATTTTGTAAACCAA
* *
78375183 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTGTAAACCAA
78375210 GGGTA
1 GGGTA
78375215 AAATGGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTGTAAACCAA
Found at i:78375224 original size:27 final size:27
Alignment explanation
Indices: 78375194--78375281 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
78375184 GGTATTTCAA
*
78375194 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* * * *
78375221 TAATTCTATAAATCAAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAATGG
78375248 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
78375275 TAATTCT
1 TAATTCT
78375282 ATCTTATAGG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGG
Found at i:78375238 original size:54 final size:54
Alignment explanation
Indices: 78375175--78375283 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
78375165 GATAATTTTG
*** *
78375175 TAAACCAAGGGTATTTCAATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTA
1 TAAACCAAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
* *
78375229 TAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
1 TAAACCAAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
78375283 T
1 T
78375284 CTTATAGGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.31
Consensus pattern (54 bp):
TAAACCAAGGGTAAAACAATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
Found at i:78375334 original size:27 final size:27
Alignment explanation
Indices: 78375304--78375415 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
78375294 TATTCCAATC
78375304 ATTTTACAAATCGAGGGTATTTTAGTA
1 ATTTTACAAATCGAGGGTATTTTAGTA
* **
78375331 ATTTTGCAAA-CTGAGGGTATTTCGGTA
1 ATTTTACAAATC-GAGGGTATTTTAGTA
* *
78375358 ATTTTAGAAATCGAGGATA-TTTAGGTA
1 ATTTTACAAATCGAGGGTATTTTA-GTA
* * * *
78375385 ATTTTATAAATCGGGGGTACTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTAGTA
78375412 ATTT
1 ATTT
78375416 GGTAAACTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 3 0.04
27 62 0.90
28 4 0.06
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCGAGGGTATTTTAGTA
Found at i:78375403 original size:54 final size:54
Alignment explanation
Indices: 78375304--78375415 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
78375294 TATTCCAATC
* *
78375304 ATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTA-TTTCGGTA
1 ATTTTACAAATCGAGGATATTTTAGTAATTTTACAAACTGAGGGTACTTT-GGTA
* * *
78375358 ATTTTAGAAATCGAGGATA-TTTAGGTAATTTTATAAA-TCGGGGGTACTTTGGTA
1 ATTTTACAAATCGAGGATATTTTA-GTAATTTTACAAACT-GAGGGTACTTTGGTA
78375412 ATTT
1 ATTT
78375416 GGTAAACTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
53 5 0.10
54 42 0.84
55 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.40
Consensus pattern (54 bp):
ATTTTACAAATCGAGGATATTTTAGTAATTTTACAAACTGAGGGTACTTTGGTA
Found at i:78377561 original size:14 final size:15
Alignment explanation
Indices: 78377531--78377562 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
78377521 CACCGATATC
78377531 AATAGCTCCATACAG
1 AATAGCTCCATACAG
78377546 AATAGCTCCA-ACAG
1 AATAGCTCCATACAG
78377560 AAT
1 AAT
78377563 TGAAAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (15 bp):
AATAGCTCCATACAG
Done.