Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 260 of 290
Found at i:89670679 original size:27 final size:27
Alignment explanation
Indices: 89670250--89670669 Score: 479
Period size: 27 Copynumber: 15.6 Consensus size: 27
89670240 TGATTTGTGA
*
89670250 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
89670277 AATTACTGAAATACACTTGTAGAGTAC
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
89670304 AAATACCGGAATACCCATGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
89670331 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
89670358 AATTACCGAAATACCCCTATGGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
89670385 AATTACTGAAATACCCCTGTATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * **
89670412 AAATAC-CAGAATACCTATGTAGGGTA-
1 AATTACTGA-AATACCCCTGTAGGGTAG
* *
89670438 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
*
89670465 AATTA-TCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
89670492 AATTACTAAAATACTCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
89670519 AATTACTGAAATGCCCATGTATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
89670546 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
89670573 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
89670600 AATTAC-CATAATACCCCTGTAGGGTAG
1 AATTACTGA-AATACCCCTGTAGGGTAG
*
89670627 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
89670654 AATTACTGAGATACCC
1 AATTACTGAAATACCC
89670670 TTGGGGGGTA
Statistics
Matches: 330, Mismatches: 56, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.07
27 306 0.93
28 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:89670698 original size:81 final size:80
Alignment explanation
Indices: 89670193--89670688 Score: 475
Period size: 81 Copynumber: 6.1 Consensus size: 80
89670183 CCTCGATCAA
** * * **
89670193 TAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTA
1 TAAAATTACC-AAATACCCCT-GTAGGGTAGAATTACCGAAATACCCCTGTA-GGGTAG-AATTA
89670255 CTGAAATACCCTTGTAGGG
62 CTGAAATACCCTTGTAGGG
* * * * * * * * * *
89670274 TAGAATTACTGAAATACACTTGTAGAGTACAAATACCGGAATACCCATGTAGGGTAGAATTACCG
1 TAAAATTAC-CAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
*
89670339 AAATACCCCTGTAGGG
65 AAATACCCTTGTAGGG
* * * * * *
89670355 TAAAATTACCGAAATACCCCTATGGGGTAGAATTACTGAAATACCCCTGTATGGTAGAAATAC-C
1 TAAAATTACC-AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
89670419 AGAATA-CCTATGTAGGG
65 A-AATACCCT-TGTAGGG
* * * *
89670436 T-AAATTACCGAAATACCCCTGTAGGGTAAAATTATCGAAATACCCCTATAGGGTAGAATTACTA
1 TAAAATTACC-AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
*
89670500 AAATACTCC-TGTAAGG
65 AAATAC-CCTTGTAGGG
* * * * *
89670516 TAGAATTACTGAAATGCCCATGTATGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
1 TAAAATTAC-CAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
*
89670581 AAATACCCTTGTAAGG
65 AAATACCCTTGTAGGG
* **
89670597 TAGAATTACCATAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACTG
1 TAAAATTACCA-AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
* **
89670662 AGATACCCTTGGGGGG
65 AAATACCCTTGTAGGG
89670678 TAAAATTACCA
1 TAAAATTACCA
89670689 TTTTGCCCCT
Statistics
Matches: 340, Mismatches: 61, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
80 72 0.21
81 264 0.78
82 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (80 bp):
TAAAATTACCAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGA
AATACCCTTGTAGGG
Found at i:89671141 original size:31 final size:31
Alignment explanation
Indices: 89671095--89671237 Score: 178
Period size: 31 Copynumber: 4.6 Consensus size: 31
89671085 ATTGCTTTCA
* *
89671095 GATTTTGATTTTTGATTCTGTTGCCTGATACT
1 GATTCTGA-TTTTGATTCTGTTACCTGATACT
*
89671127 GGTTCTGATTTTGATTCTGTTACCTGATACT
1 GATTCTGATTTTGATTCTGTTACCTGATACT
* *
89671158 GATTCTGATTTTAATTCTGTTACCTGATACA
1 GATTCTGATTTTGATTCTGTTACCTGATACT
* * * * *
89671189 GATTCCGATTCTGATTCTGTCACCTAATTCT
1 GATTCTGATTTTGATTCTGTTACCTGATACT
*
89671220 GATTCTGATTCTGATTCT
1 GATTCTGATTTTGATTCT
89671238 AGTTCTGATA
Statistics
Matches: 97, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
31 91 0.94
32 6 0.06
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (31 bp):
GATTCTGATTTTGATTCTGTTACCTGATACT
Found at i:89671167 original size:6 final size:6
Alignment explanation
Indices: 89671119--89671246 Score: 66
Period size: 6 Copynumber: 20.8 Consensus size: 6
89671109 ATTCTGTTGC
* * * *
89671119 CTGATA CTGGTT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * * * * *
89671168 TTAATT CTG-TT ACCTGATA CAGATT CCGATT CTGATT CTG-TCAC CTAATT
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT
89671218 CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGA-TT CTGAT
89671247 AATGTTTCTT
Statistics
Matches: 91, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 6 0.07
6 73 0.80
7 9 0.10
8 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:89685754 original size:46 final size:46
Alignment explanation
Indices: 89685701--89685876 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
89685691 TATTTGGGCA
89685701 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
89685747 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
89685792 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
89685840 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89685877 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.06
46 58 0.54
47 29 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:89685856 original size:93 final size:93
Alignment explanation
Indices: 89685697--89685869 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
89685687 AGGATATTTG
* *
89685697 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCCAACTCGTTGAG
89685762 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
89685790 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCCAA-CTCGTTGA
89685854 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
89685870 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
92 4 0.05
93 73 0.95
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:89689824 original size:42 final size:43
Alignment explanation
Indices: 89689765--89689886 Score: 162
Period size: 42 Copynumber: 2.9 Consensus size: 43
89689755 TAGGGTTAGT
*
89689765 TGAGATTT-TGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTTCTATGTAAGACCATATCTGGGATATGGCATCGATA
*
89689807 TGAGATTTCT-TGTAAGACCACAGT-TGGGATATTGGCATCGATA
1 TGAGATTTCTATGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* *
89689850 TGAGA-TCCTACGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTTCTATGTAAGACCATATCTGGGATATGGCAT
89689887 TGGTATGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
42 36 0.51
43 35 0.49
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
TGAGATTTCTATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:89689865 original size:43 final size:42
Alignment explanation
Indices: 89689776--89689886 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 42
89689766 GAGATTTTGT
* *
89689776 GTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCTT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGATTCCTC
*
89689818 GTAAGACCACAGT-TGGGATATTGGCATCGATATGAGA-TCCTAC
1 GTAAGACCATA-TCTGGGATA-TGGCATCGATATGAGATTCCT-C
89689861 GTAAGACCATATCTGGGATATGGCAT
1 GTAAGACCATATCTGGGATATGGCAT
89689887 TGGTATGATT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
GTAAGACCATATCTGGGATATGGCATCGATATGAGATTCCTC
Found at i:89700149 original size:42 final size:42
Alignment explanation
Indices: 89700090--89700211 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
89700080 TAGGGTTAGT
*
89700090 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
* * * * ** *
89700132 TGAGATTTTGTGAAAGACCACAGCTGGCCTATTGGCGTCAATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCAATA
** * *
89700175 TGAGATCCCATGTAAGACCATATCTTGGATATGGCAT
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
89700212 TGGTATGATT
Statistics
Matches: 60, Mismatches: 19, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
42 30 0.50
43 30 0.50
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:89704810 original size:43 final size:43
Alignment explanation
Indices: 89704749--89705085 Score: 505
Period size: 43 Copynumber: 7.9 Consensus size: 43
89704739 TATGATGAAT
* *
89704749 TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
*
89704792 TCGGGCCTCGAGCCTAGCAGGCTATAATGCTGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* *
89704835 TCGAGCCTCGAGCCTAGCAGGCTATAATGCTGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
*
89704878 TCGGGCCTCGAGCCTAGCAGGCTATAATGCTGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * * *
89704921 TCAGACCTCGAGCCTAGCAGGCTATAATACTGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* ** *
89704964 TTGGGAATCGAGCCTAGCAGGCTATAATGCCGATGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
*
89705007 TCAGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * *
89705050 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAA
89705086 TGAATTCAAA
Statistics
Matches: 269, Mismatches: 25, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
42 12 0.04
43 257 0.96
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.22
Consensus pattern (43 bp):
TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:89705679 original size:16 final size:18
Alignment explanation
Indices: 89705648--89705680 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
89705638 AACTCGTCAC
89705648 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
89705666 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
89705681 AACTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:89709601 original size:43 final size:43
Alignment explanation
Indices: 89709540--89709790 Score: 351
Period size: 43 Copynumber: 5.9 Consensus size: 43
89709530 TATGATGAAT
* *
89709540 TCGGGCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
*
89709583 TCGGGCCTCGAGCCTAGCAGGCTATAATGCTGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* * * *
89709626 TCAGACCTCGAGCCTAGCAGGCTATAATACTGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
* ** *
89709669 TTGGGAATCGAGCCTAGCAGGCTATAATGCCGATGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
*
89709712 TCAGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
** * *
89709755 TTTGGCTTCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAA
89709791 TGAATTCAAA
Statistics
Matches: 187, Mismatches: 21, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
42 12 0.06
43 175 0.94
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (43 bp):
TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
Found at i:89710384 original size:16 final size:18
Alignment explanation
Indices: 89710353--89710385 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
89710343 AACTCGTCAC
89710353 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
89710371 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
89710386 AACTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:89713372 original size:28 final size:28
Alignment explanation
Indices: 89713332--89713388 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
89713322 GGGAGTAAGC
89713332 ATAAAGCTTAGTAAGTTCACATGAAAAT
1 ATAAAGCTTAGTAAGTTCACATGAAAAT
*
89713360 ATAAAGCTTAGTAAGTTCACATGCAAAT
1 ATAAAGCTTAGTAAGTTCACATGAAAAT
89713388 A
1 A
89713389 AATAGCAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (28 bp):
ATAAAGCTTAGTAAGTTCACATGAAAAT
Found at i:89728417 original size:27 final size:27
Alignment explanation
Indices: 89728386--89728563 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89728376 TAAATTGTAC
89728386 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
89728413 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89728439 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
89728467 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
89728495 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89728522 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
89728549 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89728564 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:89728500 original size:82 final size:81
Alignment explanation
Indices: 89728387--89728542 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89728377 AAATTGTACA
* *
89728387 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
89728451 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
89728468 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
89728533 TGCGAGTTGA
65 TGCGAATTGA
89728543 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:89728554 original size:82 final size:81
Alignment explanation
Indices: 89728383--89728563 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
89728373 GATTAAATTG
* *
89728383 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
89728448 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
89728464 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
89728528 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
89728546 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
89728564 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:89736302 original size:40 final size:40
Alignment explanation
Indices: 89736219--89736481 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
89736209 TTGAATGCTG
* * * * * *
89736219 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
89736259 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
89736299 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
89736339 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
89736379 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
89736419 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
89736458 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
89736482 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:89736501 original size:79 final size:80
Alignment explanation
Indices: 89736258--89736516 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
89736248 AAGTGAATAT
* * * * * *
89736258 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
89736322 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
** * *
89736338 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
89736403 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
89736418 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
89736482 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
89736497 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
89736517 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:89742653 original size:40 final size:40
Alignment explanation
Indices: 89742591--89742798 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
89742581 GGGTGTTACA
* *
89742591 TAGCCCGGATATAATAACTCGCACCAATGCCTTCGGGACT
1 TAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACT
* * * * *
89742631 TGGCCCAGATATAGTATCTCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACT
*
89742671 TAGCCCGGATGTAATAACTCACACAAATGCCTTCGGGACT
1 TAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACT
* *
89742711 TAGCCCGGATGTAATAACTCACACAAATGCCTTTGGGACT
1 TAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACT
* * * *
89742751 TAGCCCGGA-ACTAGTCACT-AGCGCAAATGCCTCCGGGACT
1 TAGCCCGGATA-TAATAACTCA-CACAAATGCCTTCGGGACT
89742791 TAGCCCGG
1 TAGCCCGG
89742799 TTATCATCCG
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 147 0.99
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
TAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACT
Found at i:89747328 original size:79 final size:78
Alignment explanation
Indices: 89747226--89747448 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
89747216 GCTCCTCGTT
* *
89747226 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
89747291 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
89747306 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
89747369 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
89747384 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGC-CCAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
89747447 GA
63 GA
89747449 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 47 0.38
79 58 0.47
80 18 0.15
81 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:89747343 original size:39 final size:40
Alignment explanation
Indices: 89747226--89747448 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
89747216 GCTCCTCGTT
* *
89747226 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
89747266 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
89747306 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
89747345 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
89747384 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGC-
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
*
89747424 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
89747449 CATCATTCAA
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 65 0.39
41 9 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:89759618 original size:44 final size:44
Alignment explanation
Indices: 89759555--89760346 Score: 980
Period size: 44 Copynumber: 18.0 Consensus size: 44
89759545 TAGCCAATCC
* *
89759555 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
** * *
89759599 AGCAGATTTGGAATCTCTGTATTGTCAGAGGGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * *
89759643 AGCAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCGAAGCT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* ** * *
89759687 AGCAGATTCGAAGTCTCTGTATTGGCAGAGAGTAGATCGAAAAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * * * *
89759731 AGCAGATTTGGCATCTCTGTGTTGACTGAGAGTAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* ** * *
89759775 AGAAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCAAATAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* *
89759819 AGTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * * *
89759863 AGCAGATTTGGCATCTCTG-ATTGTCAGAGGGTAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* *
89759906 AGCAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * * * *
89759950 CA-CAGATTTGACGTCTCTGTGATTGACAGAGTGCAAATCGAAGCT
1 -AGCAGATTTGGCGTCTCTGT-ATTGGCAGAGAGCAGATCGAAGAT
* * *
89759995 AGTAGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAAAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * * *
89760039 AGCAGATTTGGCATCTCTGTGTTGACAGAGAGTAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* ** *
89760083 AGAAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCGAATAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* *
89760127 AGTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * * * *
89760171 AGCAGATTTGGCATCTCTG-ATTGTCAGAGGGTAGATCAAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
*
89760214 AGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* *
89760258 AGCAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* *
89760302 CA-CAGATTTGGCGTCTCTGTGATTGACAGAGAGCAAATCGAAGAT
1 -AGCAGATTTGGCGTCTCTGT-ATTGGCAGAGAGCAGATCGAAGAT
89760347 GACAGATCTT
Statistics
Matches: 645, Mismatches: 96, Indels: 13
0.86 0.13 0.02
Matches are distributed among these distances:
43 75 0.12
44 510 0.79
45 60 0.09
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (44 bp):
AGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
Found at i:89760113 original size:308 final size:307
Alignment explanation
Indices: 89759555--89760343 Score: 1285
Period size: 308 Copynumber: 2.6 Consensus size: 307
89759545 TAGCCAATCC
* * **
89759555 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGATAGCAGATTTGGAATCTCTGTA
1 AGCAGATTTGGCATCTCTG-ATTGTCAGAGGGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTA
* * *
89759620 TTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCGAAG
65 TTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAG
* * *
89759685 CTAGCAGATTCGAAGTCTCTGTATTGGCAGAGAGTAGATCGAAAATAGCAGATTTGGCATCTCTG
130 CTAGCAGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCAGATTTGGCATCTCTG
*
89759750 TGTTGACTGAGAGTAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCAA
195 TGTTGACAGAGAGTAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCAA
89759815 ATATAGTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
260 ATATAGTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
89759863 AGCAGATTTGGCATCTCTGATTGTCAGAGGGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
1 AGCAGATTTGGCATCTCTGATTGTCAGAGGGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
* * *
89759928 TGTCAGAGGGCAGATCGAAGATCA-CAGATTTGACGTCTCTGTGATTGACAGAGTGCAAATCGAA
66 TGTCAGAGGGCAGATCGAAGAT-AGCAGATTTGGCGTCTCTGT-ATTGACAGAGAGCAGATCGAA
*
89759992 GCTAGTAGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCAGATTTGGCATCTCT
129 GCTAGCAGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCAGATTTGGCATCTCT
*
89760057 GTGTTGACAGAGAGTAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCG
194 GTGTTGACAGAGAGTAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCA
89760122 AATATAGTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
259 AATATAGTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
*
89760171 AGCAGATTTGGCATCTCTGATTGTCAGAGGGTAGATCAAAGATAGCAGATTTGGCGTCTCTGTAT
1 AGCAGATTTGGCATCTCTGATTGTCAGAGGGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
* * * * * *
89760236 TGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGA
66 TGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGC
* * *
89760301 TCA-CAGATTTGGCGTCTCTGTGATTGACAGAGAGCAAATCGAA
131 T-AGCAGATTTGACGTCTCTGT-ATTGGCAGAGAGCAGATCGAA
89760344 GATGACAGAT
Statistics
Matches: 447, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
307 117 0.26
308 330 0.74
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (307 bp):
AGCAGATTTGGCATCTCTGATTGTCAGAGGGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
TGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGC
TAGCAGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAAATAGCAGATTTGGCATCTCTGT
GTTGACAGAGAGTAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATCAAA
TATAGTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGAT
Found at i:89760644 original size:18 final size:17
Alignment explanation
Indices: 89760631--89760677 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
89760621 CCAAATATAT
89760631 ATAAAAAATAAAATAAA
1 ATAAAAAATAAAATAAA
*
89760648 ATAAAAAAT-GAAT-AA
1 ATAAAAAATAAAATAAA
89760663 ATAAATATAATAAAA
1 ATAAA-A-AATAAAA
89760678 AACCAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 7 0.28
16 4 0.16
17 12 0.48
18 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
ATAAAAAATAAAATAAA
Found at i:89760688 original size:24 final size:24
Alignment explanation
Indices: 89760636--89760689 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
89760626 TATATATAAA
** *
89760636 AAATAAAATAAAATAAAAAATGAAT
1 AAAT-AAATAAAATAAAAAACCAAC
*
89760661 AAATAAATATAATAAAAAACCAAC
1 AAATAAATAAAATAAAAAACCAAC
89760685 AAATA
1 AAATA
89760690 TTATAACAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (24 bp):
AAATAAATAAAATAAAAAACCAAC
Found at i:89763369 original size:131 final size:130
Alignment explanation
Indices: 89763059--89763405 Score: 371
Period size: 131 Copynumber: 2.6 Consensus size: 130
89763049 CAAAAATCCC
* * * *
89763059 TCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TCAAAACAAAGACAAGATTCGATGTTTGACAATTCG-AGAATCGTGCCCTAACGTGTTGGGTTGC
* * *
89763124 AATTTTGCGTTTGCTCAAAATAATCGAATACCACTTCAAAATTTCACTCATGTCTTTTAAAAATT
65 AATTTCGCGTTTGCTCAAAATAATCGAATACCACTTCAAAATTTCACTCATATCTTCTAAAAATT
89763189 T
130 T
* *
89763190 TCAAAACAGAGACAAGATTCGATATTT-AGCAATTC-ACGTAATCGTGCCCTAACGTGTTGGGTT
1 TCAAAACAAAGACAAGATTCGATGTTTGA-CAATTCGA-G-AATCGTGCCCTAACGTGTTGGGTT
* * * *
89763253 GCAATTTCGCGTTTGCTCAAAATAGTC-AAGTGTCC-CTTCAGAATTTCATTCATATCTTCTAAA
63 GCAATTTCGCGTTTGCTCAAAATAATCGAA-T-ACCACTTCAAAATTTCACTCATATCTTCTAAA
89763316 AATGATT
126 AAT--TT
* * * * * ** ***
89763323 T-AAAACAAAGGCAATATTCGGTGTTTGACAATTCGAGAATCATGCCCTATCGTACTGGGTTTTG
1 TCAAAACAAAGACAAGATTCGATGTTTGACAATTCGAGAATCGTGCCCTAACGTGTTGGGTTGCA
*
89763387 ATTTCTCGTTTGCTCAAAA
66 ATTTCGCGTTTGCTCAAAA
89763406 CGATCAAACA
Statistics
Matches: 181, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
130 3 0.02
131 144 0.80
132 29 0.16
133 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (130 bp):
TCAAAACAAAGACAAGATTCGATGTTTGACAATTCGAGAATCGTGCCCTAACGTGTTGGGTTGCA
ATTTCGCGTTTGCTCAAAATAATCGAATACCACTTCAAAATTTCACTCATATCTTCTAAAAATTT
Found at i:89763588 original size:132 final size:132
Alignment explanation
Indices: 89763456--89763709 Score: 303
Period size: 132 Copynumber: 1.9 Consensus size: 132
89763446 AAATTATTTA
* * * * * * **
89763456 AAAATAAAGACGATGTTCAATGTTTGGCGATTTGA-GAATCGTGCCCTATCATGTTGGGTTGCGC
1 AAAACAAAGACGATATTCAATGTTTGGCGATTCGAGGAATAGTACCCTATCATGCTGGGTTGCAA
** * * *
89763520 TTTTTCATTGGTTCGAAACAATTGAAGATCCCTTCGGAATTTCCCTCACATTTTCTAAAAACCCT
66 TTTCCCATTGGTTCAAAACAATCGAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAAACCCT
89763585 TT
131 TT
* * *
89763587 AAAACGAAGGCGATATTCAATGTTTGGCGATTCGAGGAATAGTACCCTATCGTGCTGGGTTGCAA
1 AAAACAAAGACGATATTCAATGTTTGGCGATTCGAGGAATAGTACCCTATCATGCTGGGTTGCAA
* * * * * *
89763652 TTTCCCATTTGTTCAAAATAATCGAATATCTCTTTGGAATTTCACTCATATTTTCTAA
66 TTTCCCATTGGTTCAAAACAATCGAAGATCCCTTCGGAATTTCACTCACATTTTCTAA
89763710 GGTGAGGTAA
Statistics
Matches: 100, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
131 30 0.30
132 70 0.70
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (132 bp):
AAAACAAAGACGATATTCAATGTTTGGCGATTCGAGGAATAGTACCCTATCATGCTGGGTTGCAA
TTTCCCATTGGTTCAAAACAATCGAAGATCCCTTCGGAATTTCACTCACATTTTCTAAAAACCCT
TT
Found at i:89770548 original size:300 final size:300
Alignment explanation
Indices: 89770006--89770605 Score: 1191
Period size: 300 Copynumber: 2.0 Consensus size: 300
89769996 AAAAACAATT
89770006 GAATTAAGACAATACCTAAGGAAAAATCCACCTACACTTCACTTGTTATTTGACTCTGAATCGGA
1 GAATTAAGACAATACCTAAGGAAAAATCCACCTACACTTCACTTGTTATTTGACTCTGAATCGGA
89770071 CGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCCCTCTCGAGACTA
66 CGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCCCTCTCGAGACTA
89770136 ACAACGTCTAACCTTAGGTTGAATAATTGAAATCTCTTTTTAATGAACTCTCTAGGGTTTCATTA
131 ACAACGTCTAACCTTAGGTTGAATAATTGAAATCTCTTTTTAATGAACTCTCTAGGGTTTCATTA
89770201 ACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTC
196 ACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTC
89770266 TAGGCGCGCAACCAACTCCGCTTAATTAAGACAAATGTAC
261 TAGGCGCGCAACCAACTCCGCTTAATTAAGACAAATGTAC
89770306 GAATTAAGACAATACCTAAGGAAAAATCCACCTACACTTCACTTGTTATTTGACTCTGAATCGGA
1 GAATTAAGACAATACCTAAGGAAAAATCCACCTACACTTCACTTGTTATTTGACTCTGAATCGGA
89770371 CGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCCCTCTCGAGACTA
66 CGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCCCTCTCGAGACTA
89770436 ACAACGTCTAACCTTAGGTTGAATAATTGAAATCTCTTTTTAATGAACTCTCTAGGGTTTCATTA
131 ACAACGTCTAACCTTAGGTTGAATAATTGAAATCTCTTTTTAATGAACTCTCTAGGGTTTCATTA
89770501 ACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTC
196 ACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTC
*
89770566 TAGGCGCGCATCCAACTCCGCTTAATTAAGACAAATGTAC
261 TAGGCGCGCAACCAACTCCGCTTAATTAAGACAAATGTAC
89770606 TCTTAGACAG
Statistics
Matches: 299, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 299 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (300 bp):
GAATTAAGACAATACCTAAGGAAAAATCCACCTACACTTCACTTGTTATTTGACTCTGAATCGGA
CGATTTATTCATTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCCCTCTCGAGACTA
ACAACGTCTAACCTTAGGTTGAATAATTGAAATCTCTTTTTAATGAACTCTCTAGGGTTTCATTA
ACTCAATCTATGGATCCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTC
TAGGCGCGCAACCAACTCCGCTTAATTAAGACAAATGTAC
Found at i:89782355 original size:16 final size:16
Alignment explanation
Indices: 89782336--89782372 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
89782326 ATATTTTTTA
89782336 AAAAAAATGGATATAT
1 AAAAAAATGGATATAT
89782352 AAAAAAATGGATATAT
1 AAAAAAATGGATATAT
89782368 AAAAA
1 AAAAA
89782373 CAACAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.22
Consensus pattern (16 bp):
AAAAAAATGGATATAT
Found at i:89784694 original size:21 final size:20
Alignment explanation
Indices: 89784670--89784708 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
89784660 ATGTGTTTTG
89784670 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
89784691 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
89784709 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:89784718 original size:21 final size:21
Alignment explanation
Indices: 89784670--89784716 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
89784660 ATGTGTTTTG
*
89784670 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAGATTATCA
89784691 ATGTTTGATGATAG-TTATACA
1 ATGTTTGATGATAGATTAT-CA
89784712 A-GTTT
1 ATGTTT
89784717 TGTTAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATCA
Found at i:89785254 original size:15 final size:15
Alignment explanation
Indices: 89785234--89785263 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89785224 GAACCTTAGA
89785234 ATAGATTTGGATACT
1 ATAGATTTGGATACT
89785249 ATAGATTTGGATACT
1 ATAGATTTGGATACT
89785264 TGACAACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
ATAGATTTGGATACT
Found at i:89805263 original size:21 final size:21
Alignment explanation
Indices: 89805219--89805264 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
89805209 TGTTTTGATG
* *
89805219 TTTGATGATAGATTATGAATT
1 TTTGATGATAGATTATCAAGT
89805240 TTTGATGATAG-TTATACAAGT
1 TTTGATGATAGATTAT-CAAGT
89805261 TTTG
1 TTTG
89805265 TTAAGTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (21 bp):
TTTGATGATAGATTATCAAGT
Found at i:89806208 original size:17 final size:17
Alignment explanation
Indices: 89806182--89806217 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
89806172 GATGCATATT
*
89806182 TTGAAGTGTATATTTGA
1 TTGAAGTGTATATGTGA
*
89806199 TTGAATTGTATATGTGA
1 TTGAAGTGTATATGTGA
89806216 TT
1 TT
89806218 TTGGTCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (17 bp):
TTGAAGTGTATATGTGA
Found at i:89813909 original size:6 final size:6
Alignment explanation
Indices: 89813898--89813958 Score: 122
Period size: 6 Copynumber: 10.2 Consensus size: 6
89813888 CGAGCTCATA
89813898 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
89813946 TATTTT TATTTT T
1 TATTTT TATTTT T
89813959 CAAAAAAATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:89814193 original size:39 final size:39
Alignment explanation
Indices: 89814145--89814227 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
89814135 CTACATAATC
*
89814145 CCTCAATATCAATGGTTCGATGTCTAAATCCATTCAAGG
1 CCTCGATATCAATGGTTCGATGTCTAAATCCATTCAAGG
* *
89814184 CCTCGATATCAATGGTTTGATGTCTAAATCCGTTCAAGG
1 CCTCGATATCAATGGTTCGATGTCTAAATCCATTCAAGG
89814223 -CTCGA
1 CCTCGA
89814228 GGAATTAAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 5 0.12
39 36 0.88
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (39 bp):
CCTCGATATCAATGGTTCGATGTCTAAATCCATTCAAGG
Found at i:89820391 original size:49 final size:47
Alignment explanation
Indices: 89820123--89820475 Score: 589
Period size: 47 Copynumber: 7.4 Consensus size: 47
89820113 CCCTTCGGGA
* * * *
89820123 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89820170 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89820217 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89820264 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89820311 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89820358 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89820407 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89820456 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
89820476 GTACATCAAT
Statistics
Matches: 295, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 203 0.69
49 92 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89825974 original size:48 final size:48
Alignment explanation
Indices: 89825898--89826079 Score: 238
Period size: 48 Copynumber: 3.8 Consensus size: 48
89825888 ATGATTTATA
* *
89825898 AGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTGTTGATATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATG
* * * *
89825946 AGAGCTAGTGTAAGACCATGACTAGGACATGGCATCGACGTTGATATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATG
* * *
89825994 AGAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGGCATTGATAAG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATG
* * * * *
89826042 TGTGCCAGTGTAAGACCATATTTGGGATATGGCATCGG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
89826080 AATCGGTATG
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (48 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATG
Found at i:89826138 original size:42 final size:42
Alignment explanation
Indices: 89826081--89826175 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
89826071 TGGCATCGGA
* * *
89826081 ATCGGTATGTGATTTCATGTAAAACCATATATGGGATATGGC
1 ATCGATATGAGATTTCATGTAAAACCATATATGGGACATGGC
* * * * *
89826123 GTTGATATGAGATTTCATGTAAGACCATGTCTGGGACATGGC
1 ATCGATATGAGATTTCATGTAAAACCATATATGGGACATGGC
89826165 ATCGATATGAG
1 ATCGATATGAG
89826176 GTCTCGTATA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (42 bp):
ATCGATATGAGATTTCATGTAAAACCATATATGGGACATGGC
Found at i:89837831 original size:45 final size:44
Alignment explanation
Indices: 89837769--89837989 Score: 157
Period size: 45 Copynumber: 5.1 Consensus size: 44
89837759 TAGGATTTTG
**
89837769 ATATGTGTTTTTATGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCG-T
* * * * * **
89837814 ATATGTGTTTTCGTGTAAAATCACATTTGGGATGTTATCATCGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCG-T
* * * * **
89837859 ATATGTGGTTACGTGTAAGACCATGTCTGGGACATCAGCATCGT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGT
* *
89837903 AT-T-CG-ATTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATC-T
1 ATATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGT
* * ** * *
89837943 ATATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCATTGT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGT
89837987 ATA
1 ATA
89837990 ATATATGTGA
Statistics
Matches: 135, Mismatches: 33, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
40 3 0.02
41 27 0.20
42 3 0.02
43 26 0.19
44 8 0.06
45 68 0.50
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (44 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGT
Found at i:89845945 original size:18 final size:18
Alignment explanation
Indices: 89845922--89845959 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
89845912 TCTAAGGCCC
89845922 TATTGAGTGTCAGTATGA
1 TATTGAGTGTCAGTATGA
89845940 TATTGAGTGTCAGTATGA
1 TATTGAGTGTCAGTATGA
89845958 TA
1 TA
89845960 GTTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.39
Consensus pattern (18 bp):
TATTGAGTGTCAGTATGA
Found at i:89865020 original size:56 final size:56
Alignment explanation
Indices: 89864934--89865165 Score: 455
Period size: 56 Copynumber: 4.1 Consensus size: 56
89864924 NNNNNNNNNN
89864934 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
89864990 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
89865046 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
89865102 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
89865158 TTGCCCAT
1 TTGCCCAT
89865166 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:89869094 original size:43 final size:43
Alignment explanation
Indices: 89869046--89869262 Score: 128
Period size: 43 Copynumber: 5.1 Consensus size: 43
89869036 GCAATAAGCT
89869046 TGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCC
1 TGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCC
* *** * ** * *
89869089 TGCTAG-GCTCGGAGCCCGATA--ATATTCACTAGC-TTAAAGCT
1 TGCTAGACCTTTAAGTCCGATATCAT-TTCACCGGCATT-ACGCC
* * * *
89869130 TGCTAGACCTTTAAGTCCAATATCATTCCATCGACATTACGCC
1 TGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCC
* ** * * * * *
89869173 TGCTAG-GCTCGGAA-CCCCATA--ATATTCACCAGC-TTAAAGCT
1 TGCTAGACCT-TTAAGTCCGATATCAT-TTCACCGGCATT-ACGCC
*
89869214 TGCTAGACCTTTAAGTCTGATATCATTTCACCGGCATTACGCC
1 TGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCC
89869257 TGCTAG
1 TGCTAG
89869263 GCTCAAAGCC
Statistics
Matches: 118, Mismatches: 42, Indels: 28
0.63 0.22 0.15
Matches are distributed among these distances:
40 8 0.07
41 32 0.27
42 32 0.27
43 38 0.32
44 8 0.07
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (43 bp):
TGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCC
Found at i:89869109 original size:42 final size:42
Alignment explanation
Indices: 89869062--89869275 Score: 109
Period size: 42 Copynumber: 5.1 Consensus size: 42
89869052 ACCTTTAAGT
*
89869062 CCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGC
1 CCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGC
** * * * ** *
89869104 CCGATA--ATATTCACTAGC-TTAAAGCTTGCTAGACCTTTAAGT
1 CCGATATCAT-TTCACCGGCATT-ACGCCTGCTAG-GCTCGAAGC
* * * *
89869146 CCAATATCATTCCATCGACATTACGCCTGCTAGGCTCGGAA-C
1 CCGATATCATTTCACCGGCATTACGCCTGCTAGGCTC-GAAGC
* * * * * ** *
89869188 CCCATA--ATATTCACCAGC-TTAAAGCTTGCTAGACCTTTAAGT
1 CCGATATCAT-TTCACCGGCATT-ACGCCTGCTAG-GCTCGAAGC
* *
89869230 CTGATATCATTTCACCGGCATTACGCCTGCTAGGCTCAAAGC
1 CCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGC
89869272 CCGA
1 CCGA
89869276 AATTCATCAC
Statistics
Matches: 116, Mismatches: 42, Indels: 28
0.62 0.23 0.15
Matches are distributed among these distances:
40 8 0.07
41 32 0.28
42 36 0.31
43 32 0.28
44 8 0.07
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (42 bp):
CCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGC
Found at i:89869135 original size:84 final size:84
Alignment explanation
Indices: 89869041--89869275 Score: 380
Period size: 84 Copynumber: 2.8 Consensus size: 84
89869031 CACTGGCAAT
89869041 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
*
89869106 GATAATATTCACTAGCTTA
66 GATAATATTCACCAGCTTA
* * * * *
89869125 AAGCTTGCTAGACCTTTAAGTCCAATATCATTCCATCGACATTACGCCTGCTAGGCTCGGAACCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
*
89869190 CATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* **
89869209 AAGCTTGCTAGACCTTTAAGTCTGATATCATTTCACCGGCATTACGCCTGCTAGGCTCAAAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
89869274 GA
66 GA
89869276 AATTCATCAC
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 135 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
GATAATATTCACCAGCTTA
Found at i:89873983 original size:73 final size:73
Alignment explanation
Indices: 89873864--89874011 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
89873854 AGGTTTGTTC
89873864 TTAGTCGATTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAGTACTACAAAACCCAAGC
1 TTAGTCGATTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAGTACTACAAAACCCAAGC
89873929 TTTAATTT
66 TTTAATTT
89873937 TTAGTCGATTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAGTACTACAAAACCCAAGC
1 TTAGTCGATTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAGTACTACAAAACCCAAGC
89874002 TTTAATTT
66 TTTAATTT
89874010 TT
1 TT
89874012 GATTTTGATG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (73 bp):
TTAGTCGATTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAGTACTACAAAACCCAAGC
TTTAATTT
Found at i:89880917 original size:20 final size:20
Alignment explanation
Indices: 89880892--89880934 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
89880882 AACTCCTATT
89880892 CCATCCCTCTACTATAAATA
1 CCATCCCTCTACTATAAATA
89880912 CCATCCCTCTACTATAAATA
1 CCATCCCTCTACTATAAATA
89880932 CCA
1 CCA
89880935 AATGTAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (20 bp):
CCATCCCTCTACTATAAATA
Found at i:89883191 original size:45 final size:44
Alignment explanation
Indices: 89883126--89883469 Score: 219
Period size: 45 Copynumber: 7.7 Consensus size: 44
89883116 GATTGGAGAG
* *
89883126 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCTCATCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATT-TCATCGTGA
* * * * *
89883171 CGCCATACTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTA-TTTC-ATCGTGA
* * * *
89883217 TGCCAT-GTGTCTTTTAACTATGGTCTTATTTCTTTGATTCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTCA-TCGTGA
* * ** *** *
89883261 TGCCATAGTGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA-TTTATTTCATCGTGA
*** * * * * * *
89883306 TGCCATAACATCTTTTAGCCATGGTCTTACTTGTTTC-TGGTATGG
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTCATCG--TGA
* * * *
89883351 TGCCATAGTGTCTTTCAACTATGGTCTTATTTATTT-TTGGTATA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTCATCGT-GA
** * * *
89883395 GTGCCATAGTGTCTTTCAACTGTGGTCTTATTTATTT-TTGGTATA
1 -TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTCATCGT-GA
*
89883440 GTGCCATAGTGTCTTTCAACTATGGTCTTA
1 -TGCCATAGTGTCTTTCAACCATGGTCTTA
89883470 ATCATTTCCT
Statistics
Matches: 237, Mismatches: 52, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
43 2 0.01
44 15 0.06
45 206 0.87
46 14 0.06
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (44 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTTCATCGTGA
Found at i:89884358 original size:20 final size:20
Alignment explanation
Indices: 89884333--89884413 Score: 126
Period size: 20 Copynumber: 4.0 Consensus size: 20
89884323 AGAGCCACAC
89884333 GCCCGCGTGGCTTGGGACAT
1 GCCCGCGTGGCTTGGGACAT
*
89884353 GCCCGCGTGGCTTGGGACAC
1 GCCCGCGTGGCTTGGGACAT
*
89884373 GCCCGTGTGGCTTGGGACAT
1 GCCCGCGTGGCTTGGGACAT
* *
89884393 GCCTGTGTGGCTTGGGACAT
1 GCCCGCGTGGCTTGGGACAT
89884413 G
1 G
89884414 TGACAGCCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.10, C:0.27, G:0.41, T:0.22
Consensus pattern (20 bp):
GCCCGCGTGGCTTGGGACAT
Found at i:89884384 original size:40 final size:40
Alignment explanation
Indices: 89884329--89884411 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
89884319 TTTAAGAGCC
89884329 ACACGCCCGCGTGGCTTGGGACATGCCCGCGTGGCTTGGG
1 ACACGCCCGCGTGGCTTGGGACATGCCCGCGTGGCTTGGG
* * *
89884369 ACACGCCCGTGTGGCTTGGGACATGCCTGTGTGGCTTGGG
1 ACACGCCCGCGTGGCTTGGGACATGCCCGCGTGGCTTGGG
89884409 ACA
1 ACA
89884412 TGTGACAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.12, C:0.29, G:0.39, T:0.20
Consensus pattern (40 bp):
ACACGCCCGCGTGGCTTGGGACATGCCCGCGTGGCTTGGG
Found at i:89886109 original size:79 final size:81
Alignment explanation
Indices: 89885973--89886157 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
89885963 TTGAATGATG
*
89885973 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
89886037 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
89886052 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
89886114 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
89886132 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89886158 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:89886171 original size:40 final size:40
Alignment explanation
Indices: 89885974--89886157 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
89885964 TGAATGATGT
* * * *
89885974 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
89886014 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
89886054 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
89886092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
89886133 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
89886158 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:89886179 original size:79 final size:79
Alignment explanation
Indices: 89886026--89886190 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
89886016 GGACTAAGAT
* **
89886026 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
89886091 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
89886105 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
89886168 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
89886184 CCGAAGG
1 CCGAAGG
89886191 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:89888659 original size:42 final size:42
Alignment explanation
Indices: 89888548--89888702 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
89888538 TACTACACTA
* * * * *
89888548 ATGCCATATCCCAGATATAGTCTTAGATG-GGATCTCATATCG
1 ATGCCATATCCCAAATATGGTCTTACACGAAGA-CTCATATCG
* ** *
89888590 ATGCCGATAGCCCATCTATGGTCTTACACGAA-ACGTCATATCC
1 ATGCC-ATATCCCAAATATGGTCTTACACGAAGAC-TCATATCG
* *
89888633 ATGCCATATCCCAAATATGGTCTTACACGAAGTCTCGTAAT-G
1 ATGCCATATCCCAAATATGGTCTTACACGAAGACTCAT-ATCG
*
89888675 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAAATATGGTCTTACAC
89888703 ATAGTCTCGG
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 59 0.63
43 34 0.37
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACGAAGACTCATATCG
Found at i:89893260 original size:52 final size:52
Alignment explanation
Indices: 89893181--89893293 Score: 217
Period size: 52 Copynumber: 2.2 Consensus size: 52
89893171 AGGATGTTTC
89893181 AAAGTGTTTTTCAACTTGCTTTGATATGATTAGAAGGTTTCTAAACTTTCCCT
1 AAAGT-TTTTTCAACTTGCTTTGATATGATTAGAAGGTTTCTAAACTTTCCCT
89893234 AAAGTTTTTTCAACTTGCTTTGATATGATTAGAAGGTTTCTAAACTTTCCCT
1 AAAGTTTTTTCAACTTGCTTTGATATGATTAGAAGGTTTCTAAACTTTCCCT
89893286 AAAGTTTT
1 AAAGTTTT
89893294 GTTAAGAGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 55 0.92
53 5 0.08
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.44
Consensus pattern (52 bp):
AAAGTTTTTTCAACTTGCTTTGATATGATTAGAAGGTTTCTAAACTTTCCCT
Found at i:89901223 original size:20 final size:21
Alignment explanation
Indices: 89901180--89901225 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
89901170 ACTGTTTTGT
89901180 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
89901200 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
89901219 TATGGGC
1 TATGGGC
89901226 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:89901285 original size:60 final size:60
Alignment explanation
Indices: 89901216--89901354 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
89901206 CCAACTGTGT
* *
89901216 TAATATGGGCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTATGGCCCAGATTGATAC
1 TAATATGGGCAAGGCCCAATATACTCTCATAC-TATAA-AGGGCTATGGCCCAGATTAATAC
* * * * * *
89901276 TGATATGGGCTAGGCCCAGTATACTCTGATACTATAAGGGGCTATGGCCCAGATTAATAT
1 TAATATGGGCAAGGCCCAATATACTCTCATACTATAAAGGGCTATGGCCCAGATTAATAC
*
89901336 TAATATGTGCTAAGGCCCA
1 TAATATGGGC-AAGGCCCA
89901355 GTTAACTCTG
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 48 0.74
61 15 0.23
62 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (60 bp):
TAATATGGGCAAGGCCCAATATACTCTCATACTATAAAGGGCTATGGCCCAGATTAATAC
Found at i:89909189 original size:48 final size:48
Alignment explanation
Indices: 89909137--89909228 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
89909127 TGTCACTGTT
* * * *
89909137 GATGCCATGTCCTAGACATGATCTTATACTAG-CACACATATCATCACC
1 GATGCCATGACCCAGACATGATCTTACAC-AGACACAAATATCATCACC
*
89909185 GATGCCATGACCCAGACATGGTCTTACACAGACACAAATATCAT
1 GATGCCATGACCCAGACATGATCTTACACAGACACAAATATCAT
89909229 TAATCACAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
47 2 0.05
48 36 0.95
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (48 bp):
GATGCCATGACCCAGACATGATCTTACACAGACACAAATATCATCACC
Found at i:89923130 original size:3 final size:3
Alignment explanation
Indices: 89923122--89923161 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
89923112 GTATTATATT
89923122 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
89923162 AAGAAAGTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:89923201 original size:9 final size:9
Alignment explanation
Indices: 89923185--89923224 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
89923175 CATGCAAATT
89923185 AAAAGAAA-
1 AAAAGAAAG
89923193 AAGAAGAAAG
1 AA-AAGAAAG
89923203 AAAAGAAAG
1 AAAAGAAAG
89923212 AAAAAGAAAG
1 -AAAAGAAAG
89923222 AAA
1 AAA
89923225 GACAAGAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.07
9 16 0.55
10 11 0.38
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:89923222 original size:23 final size:22
Alignment explanation
Indices: 89923186--89923232 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
89923176 ATGCAAATTA
89923186 AAAGAAAAAGAAGAAAGAAAAG
1 AAAGAAAAAGAAGAAAGAAAAG
*
89923208 AAAGAAAAAGAAAGAAAGACAAG
1 AAAGAAAAAG-AAGAAAGAAAAG
89923231 AA
1 AA
89923233 GGGAGAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAAGAAAGAAAAG
Found at i:89923232 original size:19 final size:19
Alignment explanation
Indices: 89923185--89923224 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
89923175 CATGCAAATT
*
89923185 AAAAGAAA-AAGAAGAAAG
1 AAAAGAAAGAAAAAGAAAG
89923203 AAAAGAAAGAAAAAGAAAG
1 AAAAGAAAGAAAAAGAAAG
89923222 AAA
1 AAA
89923225 GACAAGAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAAGAAAGAAAAAGAAAG
Found at i:89924021 original size:43 final size:43
Alignment explanation
Indices: 89923972--89924132 Score: 250
Period size: 43 Copynumber: 3.7 Consensus size: 43
89923962 TTAAAAAAAT
* *
89923972 GCCGCTAAAAGTCACTGCTTTTAGCGGCGTTTGTTGGGAAAGC
1 GCCGCTAAAAGTCACGGCTTTTAGCGACGTTTGTTGGGAAAGC
* *
89924015 GCCGCTAAAAGTGACGGCTTTTAGCGGCGTTTGTTGGGAAAGC
1 GCCGCTAAAAGTCACGGCTTTTAGCGACGTTTGTTGGGAAAGC
* * *
89924058 GCTGCTAAAAGTCACTGCTTTTAGCGATGTTTGTTGGGAAAGC
1 GCCGCTAAAAGTCACGGCTTTTAGCGACGTTTGTTGGGAAAGC
*
89924101 GTCGCTAAAAGTCACGGCTTTTAGCGACGTTT
1 GCCGCTAAAAGTCACGGCTTTTAGCGACGTTT
89924133 TCCAAAAAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
GCCGCTAAAAGTCACGGCTTTTAGCGACGTTTGTTGGGAAAGC
Found at i:89924151 original size:86 final size:86
Alignment explanation
Indices: 89923964--89924151 Score: 234
Period size: 86 Copynumber: 2.2 Consensus size: 86
89923954 GCGTTTATTT
* *
89923964 AAAAAAATGCCGCTAAAAGTCACTGCTTTTAGCGGCGTTTGTTGGGAAAGCGCCGCTAAAAGTGA
1 AAAAAAAT-CCGCTAAAAGTCACTGCTTTTAGCGACGTTTGTTGGGAAAGCGCCGCTAAAAGTCA
* **
89924029 CGGCTTTTAGCGGCGTTTGTTG
65 CGGCTTTTAGCGACGTTTGTCA
** *** * * *
89924051 GGAAAGCGCTGCTAAAAGTCACTGCTTTTAGCGATGTTTGTTGGGAAAGCGTCGCTAAAAGTCAC
1 AAAAAAATCCGCTAAAAGTCACTGCTTTTAGCGACGTTTGTTGGGAAAGCGCCGCTAAAAGTCAC
89924116 GGCTTTTAGCGACGTTT-TCCA
66 GGCTTTTAGCGACGTTTGT-CA
89924137 AAAAAAATCCGCTAA
1 AAAAAAATCCGCTAA
89924152 TTTTAACAGA
Statistics
Matches: 81, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
85 1 0.01
86 77 0.95
87 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (86 bp):
AAAAAAATCCGCTAAAAGTCACTGCTTTTAGCGACGTTTGTTGGGAAAGCGCCGCTAAAAGTCAC
GGCTTTTAGCGACGTTTGTCA
Found at i:89924240 original size:31 final size:30
Alignment explanation
Indices: 89924205--89924270 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
89924195 CTTCCTGCAT
* *
89924205 TAAAATCCAACCAAATGCAACAAATATAGTA
1 TAAAATCCAACCAAA-ACAACAAATATAGCA
* * *
89924236 TAAAATGCAGCCAAAACAACAAATTTAGCA
1 TAAAATCCAACCAAAACAACAAATATAGCA
89924266 TAAAA
1 TAAAA
89924271 AATACAACCG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.56, C:0.18, G:0.08, T:0.18
Consensus pattern (30 bp):
TAAAATCCAACCAAAACAACAAATATAGCA
Found at i:89924541 original size:21 final size:21
Alignment explanation
Indices: 89924517--89924601 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 21
89924507 TCTGCTGCCA
89924517 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
89924538 TCGCT-CGTGCCT-TGGCCTCCC
1 TCGCTGC-TGCCTCT-GCCTCCC
* * * *
89924559 CCACTGCTACCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
89924580 TCGCTGCTG-CTGCTGCCTCCC
1 TCGCTGCTGCCT-CTGCCTCCC
89924601 T
1 T
89924602 TTCTACTGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
20 3 0.06
21 46 0.90
22 2 0.04
ACGTcount: A:0.02, C:0.51, G:0.20, T:0.27
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:89924610 original size:21 final size:21
Alignment explanation
Indices: 89924570--89924610 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
89924560 CACTGCTACC
*
89924570 GCTGCCTCCCTCGCTGCTGCT
1 GCTGCCTCCCTCGCTACTGCT
**
89924591 GCTGCCTCCCTTTCTACTGC
1 GCTGCCTCCCTCGCTACTGC
89924611 CTCCGCTCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.46, G:0.20, T:0.32
Consensus pattern (21 bp):
GCTGCCTCCCTCGCTACTGCT
Found at i:89930188 original size:9 final size:9
Alignment explanation
Indices: 89930092--89930182 Score: 62
Period size: 9 Copynumber: 9.9 Consensus size: 9
89930082 AGGGATTATC
89930092 TTATGTAAA
1 TTATGTAAA
89930101 TTATGTAAGA
1 TTATGTAA-A
89930111 -TATGATATATA
1 TTATG-TA-A-A
89930122 TTTATGT--A
1 -TTATGTAAA
**
89930130 TTATGTAGG
1 TTATGTAAA
89930139 TTATGTAAA
1 TTATGTAAA
*
89930148 TTATGTAAG
1 TTATGTAAA
* **
89930157 TTATTTATC
1 TTATGTAAA
89930166 TTATGTAAA
1 TTATGTAAA
89930175 TTATGTAA
1 TTATGTAA
89930183 GATATGATAC
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
7 6 0.09
8 1 0.02
9 47 0.73
10 3 0.05
11 2 0.03
12 1 0.02
13 4 0.06
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.48
Consensus pattern (9 bp):
TTATGTAAA
Found at i:89933456 original size:74 final size:74
Alignment explanation
Indices: 89933335--89933530 Score: 322
Period size: 74 Copynumber: 2.6 Consensus size: 74
89933325 NNNNNNNNNN
* *
89933335 TATTTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAAT
1 TATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAATTATGTAAAT
89933400 TATGTAAGT
66 TATGTAAGT
* *
89933409 TATTTATCTTATGTAAATTATGTAAGATATGATACGTCA-TTATGTATTATGTAAATTATGTGAA
1 TATTTATCTTATGTAAATTATGTAAGATATGATACAT-ATTTATGTATTATGTAAATTATGTAAA
89933473 TTATGTAAGT
65 TTATGTAAGT
* *
89933483 TATTTACCTTATGTAAATTATGTAAGATATGATATATATTTATGTATT
1 TATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATT
89933531 GTGATTGAGT
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
73 1 0.01
74 111 0.98
75 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (74 bp):
TATTTATCTTATGTAAATTATGTAAGATATGATACATATTTATGTATTATGTAAATTATGTAAAT
TATGTAAGT
Found at i:89933513 original size:9 final size:9
Alignment explanation
Indices: 89933343--89933507 Score: 99
Period size: 9 Copynumber: 17.9 Consensus size: 9
89933333 NNTATTTATC
89933343 TTATGTAAA
1 TTATGTAAA
89933352 TTATGTAAGA
1 TTATGTAA-A
89933362 -TATGATATATA
1 TTATG-TA-A-A
89933373 TTTATGT--A
1 -TTATGTAAA
*
89933381 TTATGTAAG
1 TTATGTAAA
89933390 TTATGTAAA
1 TTATGTAAA
*
89933399 TTATGTAAG
1 TTATGTAAA
* **
89933408 TTATTTATC
1 TTATGTAAA
89933417 TTATGTAAA
1 TTATGTAAA
89933426 TTATGTAAGA
1 TTATGTAA-A
*
89933436 -TATGATACGTCA
1 TTATG-TA---AA
89933448 TTATGT--A
1 TTATGTAAA
89933455 TTATGTAAA
1 TTATGTAAA
*
89933464 TTATGTGAA
1 TTATGTAAA
*
89933473 TTATGTAAG
1 TTATGTAAA
* **
89933482 TTATTTACC
1 TTATGTAAA
89933491 TTATGTAAA
1 TTATGTAAA
89933500 TTATGTAA
1 TTATGTAA
89933508 GATATGATAT
Statistics
Matches: 121, Mismatches: 20, Indels: 30
0.71 0.12 0.18
Matches are distributed among these distances:
7 13 0.11
8 1 0.01
9 88 0.73
10 6 0.05
11 2 0.02
12 3 0.02
13 8 0.07
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAA
Found at i:89933762 original size:12 final size:14
Alignment explanation
Indices: 89933716--89933760 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
89933706 TAAAATAAAA
89933716 TAAAATAAAATATT
1 TAAAATAAAATATT
89933730 TAAAATAAAATATT
1 TAAAATAAAATATT
89933744 TAAAATAAAAT-TT
1 TAAAATAAAATATT
89933757 TAAA
1 TAAA
89933761 TACAATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 6 0.19
14 25 0.81
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAATAAAATATT
Found at i:89933767 original size:12 final size:12
Alignment explanation
Indices: 89933718--89933768 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 12
89933708 AAATAAAATA
89933718 AAATAAAATATTT
1 AAATAAAAT-TTT
89933731 AAAATAAAATATTT
1 -AAATAAAAT-TTT
89933745 AAAATAAAATTTT
1 -AAATAAAATTTT
*
89933758 AAATACAATTT
1 AAATAAAATTT
89933769 AATTTAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 10 0.28
13 3 0.08
14 23 0.64
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATAAAATTTT
Found at i:89934379 original size:21 final size:21
Alignment explanation
Indices: 89934353--89934402 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
89934343 ATTATTTTGC
**
89934353 TTTTTATTCGTCATTTCAATT
1 TTTTTATAAGTCATTTCAATT
*
89934374 TTTTTA-AAGTGATTTCAATT
1 TTTTTATAAGTCATTTCAATT
89934394 TTGTTTATA
1 TT-TTTATA
89934403 TTTATAGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.54
21 10 0.42
22 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (21 bp):
TTTTTATAAGTCATTTCAATT
Found at i:89946833 original size:46 final size:47
Alignment explanation
Indices: 89946754--89946869 Score: 141
Period size: 46 Copynumber: 2.5 Consensus size: 47
89946744 CAAAGTAATA
89946754 TCCCAGACATGGTCTTACACTGACTATCATCTCG-TAGCCGATG-CATG
1 TCCCAGACATGGTCTTACACTGAC-ATCATCTCGAT-GCCGATGCCATG
* *
89946801 TCCTAGACAT-GTCTTACACT-AGCACTCGTCTCGATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGA-CA-TCATCTCGATGCCGATGCCATG
*
89946848 TCCCAAACATGGTCTTACACTG
1 TCCCAGACATGGTCTTACACTG
89946870 GCTCTAATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
45 2 0.03
46 25 0.42
47 22 0.37
48 10 0.17
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTGACATCATCTCGATGCCGATGCCATG
Found at i:89954403 original size:46 final size:45
Alignment explanation
Indices: 89954353--89954520 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
89954343 TCTTATAGCT
*
89954353 GATGCATGTCCCAGACATGTCTTGCACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCC
* * ** * *
89954399 GATGCATGTCCTAGACATGTCTTACACTAGCACCCGTCTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCC
* * **
89954445 GATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTT
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCC
89954493 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
89954521 AGCCCACAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 53 0.53
47 25 0.25
48 21 0.21
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCC
Found at i:89954456 original size:140 final size:141
Alignment explanation
Indices: 89954255--89954520 Score: 347
Period size: 140 Copynumber: 1.9 Consensus size: 141
89954245 TGGGTAAGGT
* * *
89954255 GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAA
1 GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCACACATCTCATGCCGATGCCATGTCCCAA
* * ** *
89954320 ACATGGTTTTACACTGATTATCATCTTATAGCTGATGCATGTCCCAGACATGTCTTGCACTGGCT
66 ACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
89954385 TACATCTCGAG
131 TACATCTCGAG
* * * *
89954396 GCCGATG-CATGTCCTAGACA-TGTCTTACACTAGCACCCGTCTCGATGCCGATGCTATGTCCCA
1 GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCACACATCTC-ATGCCGATGCCATGTCCCA
* * * * * *
89954459 GACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATGTCCCAGACATGTCTTACACT
65 AACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACT
89954521 AGCCCACAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
139 18 0.17
140 81 0.76
141 7 0.07
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (141 bp):
GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCACACATCTCATGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
TACATCTCGAG
Found at i:89954502 original size:94 final size:92
Alignment explanation
Indices: 89954353--89954523 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
89954343 TCTTATAGCT
* * *
89954353 GATGCATGTCCCAGACATGTCTTGCACTGGCTTACATCTCGAGGCCGATGCATGTCCTAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACATG
89954418 TCTTACACTAGCACCCGTCTCGATGCC
66 TCTTACACTAGCACCCGTCTCGATGCC
* **
89954445 GATGCTATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGTTGATGCATGTCCCAGA
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGTCCCAGA
89954508 CATGTCTTACACTAGC
62 CATGTCTTACACTAGC
89954524 CCACAATAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 49 0.71
95 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCACCCGTCTCGATGCC
Found at i:89956637 original size:17 final size:17
Alignment explanation
Indices: 89956615--89956647 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
89956605 TTTTTATCAT
89956615 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
89956632 TTATCATTTATCGGGC
1 TTATCATTTATCGGGC
89956648 TTTGTCAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:89959255 original size:31 final size:31
Alignment explanation
Indices: 89959217--89959280 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
89959207 TTTAACTTAA
89959217 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
1 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
89959248 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
1 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
89959279 CT
1 CT
89959281 ATCTAGTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (31 bp):
CTTTAAAATCAGTTAATTTAACTCGAAAAGT
Found at i:89959622 original size:31 final size:29
Alignment explanation
Indices: 89959549--89959634 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 29
89959539 TAAGAATTGA
* * *
89959549 ATCAAACCAAAATTTCATGTATAAAATTAT
1 ATCAAACTAAAATTT-ATATATATAATTAT
*
89959579 A-CAAAATCAAAATTTATATATATAATTGCAT
1 ATCAAACT-AAAATTTATATATATAATT--AT
*
89959610 ATCAAACTAAAA--TATATGTATAATT
1 ATCAAACTAAAATTTATATATATAATT
89959635 TTAAAATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
29 26 0.57
30 8 0.17
31 7 0.15
32 5 0.11
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.35
Consensus pattern (29 bp):
ATCAAACTAAAATTTATATATATAATTAT
Found at i:89961602 original size:16 final size:16
Alignment explanation
Indices: 89961566--89961617 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
89961556 AGAGTTAGGG
*
89961566 TATTTAATATTTTTAA
1 TATTTAAAATTTTTAA
*
89961582 -GTTTAAAATTTTTAA
1 TATTTAAAATTTTTAA
***
89961597 TATTTAGGGTTTTTAA
1 TATTTAAAATTTTTAA
89961613 TATTT
1 TATTT
89961618 TTAAATTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (16 bp):
TATTTAAAATTTTTAA
Found at i:89961634 original size:25 final size:25
Alignment explanation
Indices: 89961583--89961634 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
89961573 TATTTTTAAG
*
89961583 TTTAAAATTTTTAATATTTAGGGTT
1 TTTAAAATTTTTAATATTTAGAGTT
*
89961608 TTTAATATTTTTAA-ATTTA-AGATT
1 TTTAAAATTTTTAATATTTAGAG-TT
89961632 TTT
1 TTT
89961635 GACTGAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 10 0.42
25 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
TTTAAAATTTTTAATATTTAGAGTT
Found at i:89969995 original size:5 final size:5
Alignment explanation
Indices: 89969959--89970007 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
89969949 GCAAATTAAG
*
89969959 AAAGA ACAG- AAAG- AAA-A AAAG- AAAGAA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA AAAGA AAAGA
89970006 AA
1 AA
89970008 GGGAGAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 13 0.34
5 21 0.55
6 4 0.11
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:89970409 original size:24 final size:24
Alignment explanation
Indices: 89970380--89970433 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
89970370 AAATGTGAGA
*
89970380 ATAAAAATTAGTCTCGGTTTAAGG
1 ATAAAAATTAGTCTCGATTTAAGG
*
89970404 ATAAAAATTAGTCTCGATTTAGGG
1 ATAAAAATTAGTCTCGATTTAAGG
89970428 ACTAAA
1 A-TAAA
89970434 TTGGAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (24 bp):
ATAAAAATTAGTCTCGATTTAAGG
Found at i:89974695 original size:15 final size:14
Alignment explanation
Indices: 89974668--89974711 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
89974658 CTATTGCTTT
*
89974668 ATTCTGTTCTGTTC
1 ATTCTGCTCTGTTC
*
89974682 AGTTTTGCTCTGTTCC
1 A-TTCTGCTCTGTT-C
89974698 ATTCTGCTCTGTTC
1 ATTCTGCTCTGTTC
89974712 TGTCTTGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.07, C:0.25, G:0.16, T:0.52
Consensus pattern (14 bp):
ATTCTGCTCTGTTC
Found at i:89976738 original size:28 final size:28
Alignment explanation
Indices: 89976686--89976741 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
89976676 CAGATATTTT
* *
89976686 TTAAAATTAAGAAAAATAACTAAAAAAA
1 TTAAAATTAAGAAAAAAAACCAAAAAAA
*
89976714 TTAAAATTAA-AAAAAAAACCCAAAAAA
1 TTAAAATTAAGAAAAAAAACCAAAAAAA
89976741 T
1 T
89976742 ATCAAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (28 bp):
TTAAAATTAAGAAAAAAAACCAAAAAAA
Found at i:89976910 original size:34 final size:35
Alignment explanation
Indices: 89976845--89976910 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
89976835 AATTTTATTA
* * *
89976845 AAAAATTATAAACTTATTAAAATTTATAAAAATCC
1 AAAAATGATAAACTTATTAAAATTAAAAAAAATCC
89976880 AAAAATGA-AAACTT-TTAGAAATTAAAAAAAA
1 AAAAATGATAAACTTATTA-AAATTAAAAAAAA
89976911 ATAATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.11
34 17 0.63
35 7 0.26
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (35 bp):
AAAAATGATAAACTTATTAAAATTAAAAAAAATCC
Found at i:89980211 original size:29 final size:30
Alignment explanation
Indices: 89980164--89980225 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
89980154 ACTTAACAAG
89980164 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
*
89980194 CAAATGCCT-TAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
89980223 CAA
1 CAA
89980226 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.60, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:89980275 original size:14 final size:14
Alignment explanation
Indices: 89980256--89980286 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89980246 ATCCAAACAA
89980256 TAACAACAAAATAG
1 TAACAACAAAATAG
*
89980270 TAACAACATAATAG
1 TAACAACAAAATAG
89980284 TAA
1 TAA
89980287 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:89980751 original size:42 final size:42
Alignment explanation
Indices: 89980690--89980794 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
89980680 AGTTACATAA
* * * *
89980690 CTTGGACACATGCCTATGTCCTTGCCCATGTGGCTCACACGG
1 CTTGGGCACATGCCCATGTCCTTGCCCATGTAGCTCACACAG
* *
89980732 CTTGGGCACATGCCCATGTCCTTGCCCGTGTAGCTTACACAG
1 CTTGGGCACATGCCCATGTCCTTGCCCATGTAGCTCACACAG
*
89980774 -TCTGGGCACACGCCCATGTCC
1 CT-TGGGCACATGCCCATGTCC
89980795 CTGGCCGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 54 0.98
ACGTcount: A:0.16, C:0.35, G:0.24, T:0.25
Consensus pattern (42 bp):
CTTGGGCACATGCCCATGTCCTTGCCCATGTAGCTCACACAG
Found at i:89985969 original size:22 final size:22
Alignment explanation
Indices: 89985943--89985985 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
89985933 TCTTCCTATT
89985943 TTGCTACCATATTACTATTATA
1 TTGCTACCATATTACTATTATA
* * *
89985965 TTGCTACTATTTTATTATTAT
1 TTGCTACCATATTACTATTAT
89985986 TGTTTAGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (22 bp):
TTGCTACCATATTACTATTATA
Found at i:89986021 original size:77 final size:77
Alignment explanation
Indices: 89985927--89986079 Score: 243
Period size: 77 Copynumber: 2.0 Consensus size: 77
89985917 TATTTTCTTA
*
89985927 TTGTTTTCTTCCTATTTTGCTACCATATTACTATTATATTGCTACTATTTTATTATTATTGTTTA
1 TTGTTTTCTCCCTATTTTGCTACCATATTACTATTATATTGCTACTATTTTATTATTATTGTTTA
89985992 GATATTGTATAG
66 GATATTGTATAG
* * * * * *
89986004 TTGTTTTCTCCCTATTTTGCTACCATTTTACTATTATGTTGTTACTATTTTGTTGTTATTGTTTG
1 TTGTTTTCTCCCTATTTTGCTACCATATTACTATTATATTGCTACTATTTTATTATTATTGTTTA
89986069 GATATTGTATA
66 GATATTGTATA
89986080 AAACTTATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.20, C:0.12, G:0.11, T:0.57
Consensus pattern (77 bp):
TTGTTTTCTCCCTATTTTGCTACCATATTACTATTATATTGCTACTATTTTATTATTATTGTTTA
GATATTGTATAG
Found at i:89986050 original size:14 final size:14
Alignment explanation
Indices: 89986031--89986061 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89986021 TGCTACCATT
89986031 TTACTATTATGTTG
1 TTACTATTATGTTG
*
89986045 TTACTATTTTGTTG
1 TTACTATTATGTTG
89986059 TTA
1 TTA
89986062 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:89986126 original size:29 final size:30
Alignment explanation
Indices: 89986092--89986153 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
89986082 ACTTATTTTA
89986092 TTGTTAATTTTGTTATTATTTTA-AGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
*
89986121 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
89986151 TTG
1 TTG
89986154 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:89987808 original size:74 final size:74
Alignment explanation
Indices: 89987725--89987876 Score: 286
Period size: 74 Copynumber: 2.1 Consensus size: 74
89987715 AAATATAGAT
* *
89987725 AAAAGAATAACACAACTTGATATGATCACAGATGGAGAATGTCCAAATATAGAAACTTAAATTAA
1 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
89987790 AGAATAAAA
66 AGAATAAAA
89987799 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
1 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
89987864 AGAATAAAA
66 AGAATAAAA
89987873 AAAA
1 AAAA
89987877 AGGAGAGGAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (74 bp):
AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
AGAATAAAA
Found at i:89990474 original size:15 final size:15
Alignment explanation
Indices: 89990454--89990500 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
89990444 CTAAGCCTTC
89990454 TACTATATTATATAA
1 TACTATATTATATAA
* *
89990469 TACTATATCATATCA
1 TACTATATTATATAA
*
89990484 TA-TATAATATATTAA
1 TACTATATTATA-TAA
89990499 TA
1 TA
89990501 GTTTACATAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (15 bp):
TACTATATTATATAA
Found at i:89990668 original size:6 final size:6
Alignment explanation
Indices: 89990659--89990686 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
89990649 CCAATACCAA
89990659 CCAAAC CCAAAC CCAAAC CCAAAC CCAA
1 CCAAAC CCAAAC CCAAAC CCAAAC CCAA
89990687 GTATTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAAAC
Found at i:89990946 original size:8 final size:8
Alignment explanation
Indices: 89990933--89990982 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
89990923 ATAACACTAT
89990933 TTATTATA
1 TTATTATA
*
89990941 TTATTAAA
1 TTATTATA
*
89990949 TTAATATA
1 TTATTATA
* *
89990957 TTATCACA
1 TTATTATA
89990965 TTA-TATA
1 TTATTATA
89990972 TT-TTATA
1 TTATTATA
89990979 TTAT
1 TTAT
89990983 CTTTAAATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
7 10 0.31
8 22 0.69
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:89991099 original size:15 final size:15
Alignment explanation
Indices: 89991079--89991120 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
89991069 ATATTCAACT
89991079 AATATTTATAAAAAA
1 AATATTTATAAAAAA
*
89991094 AATATTTCACTTAAAAA
1 AATATTT-A-TAAAAAA
89991111 AATA-TTATAA
1 AATATTTATAA
89991121 TTACTTTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 2 0.09
15 8 0.35
16 3 0.13
17 10 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATTTATAAAAAA
Found at i:89992916 original size:40 final size:40
Alignment explanation
Indices: 89992872--89992952 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
89992862 GGGTAGAAAG
*
89992872 TAAGTTACACCATGGTTGGTTTGTGGTGATTTTAATGAGA
1 TAAGTTACACCATAGTTGGTTTGTGGTGATTTTAATGAGA
89992912 TAAGTTACACCATAGTTGGTTTGTGGTGATTTTAATGAGA
1 TAAGTTACACCATAGTTGGTTTGTGGTGATTTTAATGAGA
89992952 T
1 T
89992953 TTTATTTTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (40 bp):
TAAGTTACACCATAGTTGGTTTGTGGTGATTTTAATGAGA
Found at i:90007080 original size:16 final size:17
Alignment explanation
Indices: 90007059--90007094 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
90007049 TGCTAGAAAG
*
90007059 TACAAC-ATTAATTTCC
1 TACAACAATTAATTCCC
90007075 TACAACAATTAATTCCC
1 TACAACAATTAATTCCC
90007092 TAC
1 TAC
90007095 TTAAAGCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (17 bp):
TACAACAATTAATTCCC
Found at i:90011817 original size:46 final size:45
Alignment explanation
Indices: 90011767--90011886 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 45
90011757 GATGAGAGCT
*
90011767 AGTGTAAGACATGT-TAGGGACATGCATCGACCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGGACATGAATCG-CCTACGAGATGT--GCC
* *
90011813 AGTGTAAGACATGTCTA-GGACATGAATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTAGGGACATGAATCGCCTACGAGATGTGCC
90011857 AGTGTAAGACCATGTCT-GGGACATTGAATC
1 AGTGTAAGA-CATGTCTAGGGACA-TGAATC
90011887 AGCACGAATA
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
44 11 0.17
45 14 0.21
46 39 0.59
47 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGGACATGAATCGCCTACGAGATGTGCC
Found at i:90022558 original size:93 final size:93
Alignment explanation
Indices: 90022446--90022709 Score: 485
Period size: 93 Copynumber: 2.8 Consensus size: 93
90022436 GCCCCTAAGT
* * *
90022446 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
90022510 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
90022539 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
90022604 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
90022632 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
90022697 CGAGTTCGGATGC
66 CGAGTTCGGATGC
90022710 TCAACCATCC
Statistics
Matches: 167, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 2 0.01
93 165 0.99
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:90022560 original size:47 final size:47
Alignment explanation
Indices: 90022492--90022660 Score: 238
Period size: 47 Copynumber: 3.6 Consensus size: 47
90022482 ATCCATAAGT
90022492 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
90022539 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--TTCA-C
90022585 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
90022632 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
90022661 CATTTGCATC
Statistics
Matches: 105, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 29 0.28
47 58 0.55
48 2 0.02
49 1 0.01
50 6 0.06
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:90022706 original size:46 final size:46
Alignment explanation
Indices: 90022441--90022706 Score: 285
Period size: 46 Copynumber: 5.7 Consensus size: 46
90022431 AACCCGCCCC
* * *
90022441 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCA
* * *
90022487 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
90022535 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
90022580 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
90022628 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
90022673 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90022707 TGCTCAACCA
Statistics
Matches: 182, Mismatches: 23, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
43 12 0.07
44 2 0.01
45 6 0.03
46 88 0.48
47 58 0.32
48 4 0.02
49 2 0.01
50 10 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:90051069 original size:6 final size:6
Alignment explanation
Indices: 90051053--90051102 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
90051043 TTAATACAAC
* * *
90051053 AAAAT- AAAATA AAAATA AGTAAGA CAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA
90051101 AA
1 AA
90051103 TATCTAACCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 5 0.14
6 29 0.78
7 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:90053999 original size:21 final size:22
Alignment explanation
Indices: 90053974--90054014 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
90053964 ACGTCCATGT
*
90053974 GAAGG-GGCACCCGCCCGTGCA
1 GAAGGAGGCACACGCCCGTGCA
*
90053995 GAAGGAGGCACATGCCCGTG
1 GAAGGAGGCACACGCCCGTG
90054015 TGACCTAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.32, G:0.39, T:0.07
Consensus pattern (22 bp):
GAAGGAGGCACACGCCCGTGCA
Found at i:90069797 original size:40 final size:39
Alignment explanation
Indices: 90069748--90069833 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
90069738 CATTCCAATA
*
90069748 AAAAAAATATTTATAGTCAAAAGTAAACCATTAAATAAAC
1 AAAAAAATATTTATAGT-AAAAGTAAAACATTAAATAAAC
* *
90069788 CAAAAAATATTTATAGTAAAAGTAAAACATTGAATAAAC
1 AAAAAAATATTTATAGTAAAAGTAAAACATTAAATAAAC
90069827 AAAAAAA
1 AAAAAAA
90069834 AAAAGAAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 26 0.62
40 16 0.38
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (39 bp):
AAAAAAATATTTATAGTAAAAGTAAAACATTAAATAAAC
Found at i:90069834 original size:40 final size:41
Alignment explanation
Indices: 90069747--90069834 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 41
90069737 CCATTCCAAT
*
90069747 AAAAAAAATATTTATAGTCAAAAGTAAACCATTAAATAAAC
1 AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
* *
90069788 -CAAAAAATATTTATAGT-AAAAGTAAAACATTGAATAAAC
1 AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
90069827 AAAAAAAA
1 AAAAAAAA
90069835 AAAGAAGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 20 0.48
40 22 0.52
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.23
Consensus pattern (41 bp):
AAAAAAAATATTTATAGTCAAAAGTAAAACATTAAATAAAC
Found at i:90073310 original size:37 final size:37
Alignment explanation
Indices: 90073238--90073310 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
90073228 AGTCTTAAGG
*
90073238 TTTGGGTAGAAAACTTAAGGAAGTTATAATCTTAAAA
1 TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAAA
* * * * *
90073275 TTTGGGTAGAAAATTTGAGGGAGTTGTAAGGTTAAA
1 TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAA
90073311 CATTGTCCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (37 bp):
TTTGGGTAGAAAACTTAAGGAAGTTATAAGCTTAAAA
Found at i:90074396 original size:23 final size:23
Alignment explanation
Indices: 90074369--90074415 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
90074359 TGATAATTTT
90074369 TTAAATCTACTTATGAATTACAC
1 TTAAATCTACTTATGAATTACAC
90074392 TTAAATCTACTTATGAATTACAC
1 TTAAATCTACTTATGAATTACAC
90074415 T
1 T
90074416 GTGAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAAATCTACTTATGAATTACAC
Found at i:90075401 original size:159 final size:159
Alignment explanation
Indices: 90075201--90075503 Score: 498
Period size: 159 Copynumber: 1.9 Consensus size: 159
90075191 GATCAAGTCA
* * *
90075201 GTAAATATTATCTGTTAATATTTACAAGCCTATTAAAGTGTTATAGTGATTTTTGGTCCGGAAAT
1 GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
* * * *
90075266 TTTGTTGATCGGTTAGTAATTAAAATATAAGGACTAAATCGTAAAAATAGTAAAAGTTGATTTCA
66 TTTGTTGATCAGTTAGTAATTAAAACATAAGAACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
90075331 ATTGGCTTTATCTAATAAATGATCAGTTG
131 ATTGGCTTTATCTAATAAATGATCAGTTG
* * *
90075360 GTAAATATTATCTATTAATATTTACAAACTTATTAAGGTGTTATAGTGATCTTTGGTCCGGTAAT
1 GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
*
90075425 TTTGTTGATCAGTTAGTAATTAAAGCATAAGAACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
66 TTTGTTGATCAGTTAGTAATTAAAACATAAGAACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
*
90075490 ATTGGTTTTATCTA
131 ATTGGCTTTATCTA
90075504 GTAATTGAGT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 132 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (159 bp):
GTAAATATTATCTATTAATATTTACAAACCTATTAAAGTGTTATAGTGATCTTTGGTCCGGAAAT
TTTGTTGATCAGTTAGTAATTAAAACATAAGAACTAAATCGTAAAAATAGTAAAAGCTGATTTCA
ATTGGCTTTATCTAATAAATGATCAGTTG
Found at i:90076581 original size:22 final size:22
Alignment explanation
Indices: 90076556--90076630 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
90076546 TTTCACTTCG
*
90076556 GTGCCTACTGATTCGTACTACA
1 GTGCCTACTGATTCGCACTACA
* *
90076578 GTGCCTACT-ATTCAGCATTTCA
1 GTGCCTACTGATTC-GCACTACA
* * *
90076600 GTACTTATTGATTCGCACTAC-
1 GTGCCTACTGATTCGCACTACA
90076621 GTGCCTACTG
1 GTGCCTACTG
90076631 CTTAGTACTT
Statistics
Matches: 40, Mismatches: 11, Indels: 5
0.71 0.20 0.09
Matches are distributed among these distances:
21 11 0.28
22 25 0.62
23 4 0.10
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (22 bp):
GTGCCTACTGATTCGCACTACA
Found at i:90082183 original size:12 final size:12
Alignment explanation
Indices: 90082168--90082200 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
90082158 CACTGCCTTA
90082168 CACACGGCCTAC
1 CACACGGCCTAC
*
90082180 CACACGGCCTAT
1 CACACGGCCTAC
90082192 CACACGGCC
1 CACACGGCC
90082201 GTGTGGCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:90092609 original size:25 final size:25
Alignment explanation
Indices: 90092581--90092691 Score: 91
Period size: 25 Copynumber: 4.4 Consensus size: 25
90092571 ACTTGTAATT
* * *
90092581 CCTTTGTGGTGATTTATTTGGGAAG
1 CCTTTGTGGTGAGTTACTTGGAAAG
* ** *
90092606 CCTTTGTGGCGAGTTACTTATAAAA
1 CCTTTGTGGTGAGTTACTTGGAAAG
* * *
90092631 CCTTTATGGTGATTTATTTGCG-AAG
1 CCTTTGTGGTGAGTTACTTG-GAAAG
90092656 CCTTTGTGGT-AGGTTACTTGGAAAG
1 CCTTTGTGGTGA-GTTACTTGGAAAG
*
90092681 CCTATGTGGTG
1 CCTTTGTGGTG
90092692 TAATGTCTAG
Statistics
Matches: 64, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
24 2 0.03
25 62 0.97
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.40
Consensus pattern (25 bp):
CCTTTGTGGTGAGTTACTTGGAAAG
Found at i:90092612 original size:50 final size:50
Alignment explanation
Indices: 90092558--90092664 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 50
90092548 AAGCCAAGTA
* ** * *
90092558 TTTGTGGC-ATGTCACTTGTAATTCCTTTGTGGTGATTTATTTGGGAAGCC
1 TTTGTGGCGA-GTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
*
90092608 TTTGTGGCGAGTTACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
1 TTTGTGGCGAGTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
90092658 TTTGTGG
1 TTTGTGG
90092665 TAGGTTACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 49 0.98
51 1 0.02
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.43
Consensus pattern (50 bp):
TTTGTGGCGAGTCACTTATAAAACCTTTATGGTGATTTATTTGCGAAGCC
Found at i:90092691 original size:50 final size:50
Alignment explanation
Indices: 90092585--90092691 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 50
90092575 GTAATTCCTT
* * * *
90092585 TGTGGTGATTTATTTGGGAAGCCTTTGTGGCGAGTTACTTATAAAACCTT
1 TGTGGTGATTTATTTGCGAAGCCTTTGTGGAGAGTTACTTAGAAAACCTA
* * *
90092635 TATGGTGATTTATTTGCGAAGCCTTTGTGGTAG-GTTACTTGGAAAGCCTA
1 TGTGGTGATTTATTTGCGAAGCCTTTGTGG-AGAGTTACTTAGAAAACCTA
90092685 TGTGGTG
1 TGTGGTG
90092692 TAATGTCTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (50 bp):
TGTGGTGATTTATTTGCGAAGCCTTTGTGGAGAGTTACTTAGAAAACCTA
Found at i:90108043 original size:79 final size:81
Alignment explanation
Indices: 90107934--90108116 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
90107924 TACTCGTTCA
* *
90107934 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
90107997 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
90108014 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
90108077 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
90108093 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
90108117 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:90108116 original size:40 final size:40
Alignment explanation
Indices: 90107913--90108116 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
90107903 CGGAATTTAA
** *
90107913 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90107953 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90107993 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90108032 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
90108072 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
90108112 CCGGA
1 CCGGA
90108117 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.