Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 47 of 136
Found at i:15477478 original size:384 final size:384
Alignment explanation
Indices: 15476769--15477535 Score: 1525
Period size: 384 Copynumber: 2.0 Consensus size: 384
15476759 AATCATTTGA
15476769 TAGTCATGTAAATAAAAATAATGTTGAAAATGTTGATTAGTATTTTTCTTAAAAACATTCATTCA
1 TAGTCATGTAAATAAAAATAATGTTGAAAATGTTGATTAGTATTTTTCTTAAAAACATTCATTCA
15476834 AACTTATCATGATAAAATATTTTTTTTTGTTGGAATAGTGTTCCTAGGATTGTTTGAGTTTTCTT
66 AACTTATCATGATAAAATATTTTTTTTTGTTGGAATAGTGTTCCTAGGATTGTTTGAGTTTTCTT
15476899 AAAAACATCAGTTATCTTATAATACCAAAGAAAATAGATGCAAATCTTAAAGAAATGAGAGGCCA
131 AAAAACATCAGTTATCTTATAATACCAAAGAAAATAGATGCAAATCTTAAAGAAATGAGAGGCCA
15476964 CGTGTCAATCTCTAAAATTCTCAGGATATTCAATTTATATATAATTTAACGATATTAACTATCTG
196 CGTGTCAATCTCTAAAATTCTCAGGATATTCAATTTATATATAATTTAACGATATTAACTATCTG
15477029 GACTAAATAATAATATTATAAAAATATAGAAATCAAATTATATTAAAAAATTAAAATATAAAAAA
261 GACTAAATAATAATATTATAAAAATATAGAAATCAAATTATATTAAAAAATTAAAATATAAAAAA
*
15477094 TAAAATTAAAATTTAAACATATTGAACTGGCCAAAACTACACTTTAATCATTTATCTAC
326 TAAAATTAAAATTTAAACATATTGAACTGGCCAAAACTAAACTTTAATCATTTATCTAC
15477153 TAGTCATGTAAATAAAAATAATGTTGAAAATGTTGATTAGTATTTTTCTTAAAAACATTCATTCA
1 TAGTCATGTAAATAAAAATAATGTTGAAAATGTTGATTAGTATTTTTCTTAAAAACATTCATTCA
15477218 AACTTATCATGATAAAATATTTTTTTTTGTTGGAATAGTGTTCCTAGGATTGTTTGAGTTTTCTT
66 AACTTATCATGATAAAATATTTTTTTTTGTTGGAATAGTGTTCCTAGGATTGTTTGAGTTTTCTT
15477283 AAAAACATCAGTTATCTTATAATACCAAAGAAAATAGATGCAAATCTTAAAGAAATGAGAGGCCA
131 AAAAACATCAGTTATCTTATAATACCAAAGAAAATAGATGCAAATCTTAAAGAAATGAGAGGCCA
15477348 CGTGTCAATCTCTAAAATTCTCAGGATATTCAATTTATATATAATTTAACGATATTAACTATCTG
196 CGTGTCAATCTCTAAAATTCTCAGGATATTCAATTTATATATAATTTAACGATATTAACTATCTG
15477413 GACTAAATAATAATATTATAAAAATATAGAAATCAAATTATATTAAAAAATTAAAATATAAAAAA
261 GACTAAATAATAATATTATAAAAATATAGAAATCAAATTATATTAAAAAATTAAAATATAAAAAA
15477478 TAAAATTAAAATTTAAACATATTGAACTGGCCAAAACTAAACTTTAATCATTTATCTA
326 TAAAATTAAAATTTAAACATATTGAACTGGCCAAAACTAAACTTTAATCATTTATCTA
15477536 AATATAGAAA
Statistics
Matches: 382, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
384 382 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (384 bp):
TAGTCATGTAAATAAAAATAATGTTGAAAATGTTGATTAGTATTTTTCTTAAAAACATTCATTCA
AACTTATCATGATAAAATATTTTTTTTTGTTGGAATAGTGTTCCTAGGATTGTTTGAGTTTTCTT
AAAAACATCAGTTATCTTATAATACCAAAGAAAATAGATGCAAATCTTAAAGAAATGAGAGGCCA
CGTGTCAATCTCTAAAATTCTCAGGATATTCAATTTATATATAATTTAACGATATTAACTATCTG
GACTAAATAATAATATTATAAAAATATAGAAATCAAATTATATTAAAAAATTAAAATATAAAAAA
TAAAATTAAAATTTAAACATATTGAACTGGCCAAAACTAAACTTTAATCATTTATCTAC
Found at i:15480560 original size:25 final size:25
Alignment explanation
Indices: 15480522--15480604 Score: 148
Period size: 25 Copynumber: 3.3 Consensus size: 25
15480512 TCAAAATAAC
* *
15480522 TCAAAAAAATTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
15480547 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
15480572 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
15480597 TCAAATAA
1 TCAAATAA
15480605 TATCAAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.42
Consensus pattern (25 bp):
TCAAATAAACTTCTATTTTATTACA
Found at i:15480651 original size:45 final size:44
Alignment explanation
Indices: 15480498--15480659 Score: 164
Period size: 45 Copynumber: 3.5 Consensus size: 44
15480488 CTCATGTTAG
* *
15480498 TACATCGAGTAATATCAAAATAACTCAAAAAAATTTCTATTTTAT
1 TACATCAAATAATATCAAAATAACTC-AAAAAATTTCTATTTTAT
** * *
15480543 TACATCAAATAA-ACTTCTATTTTATTACATCAAATAAACTTCTATTTTAT
1 TACATCAAATAATA--TC-A--AAATAAC-TCAAA-AAATTTCTATTTTAT
*
15480593 TACATCAAATAATATCAAAATAACTCTAAAAAATTTCTTTTTTAT
1 TACATCAAATAATATCAAAATAACTC-AAAAAATTTCTATTTTAT
*
15480638 TACATAAAATAATATCAAAATA
1 TACATCAAATAATATCAAAATA
15480660 TTCAAAATAT
Statistics
Matches: 96, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
44 1 0.01
45 46 0.48
46 9 0.09
47 1 0.01
48 1 0.01
49 9 0.09
50 28 0.29
51 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (44 bp):
TACATCAAATAATATCAAAATAACTCAAAAAATTTCTATTTTAT
Found at i:15481116 original size:18 final size:18
Alignment explanation
Indices: 15481078--15481117 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15481068 GACTCGAAAA
* *
15481078 AGGATACATATAAGGGTT
1 AGGATACATATAAAGGCT
*
15481096 AGGATACATTTAAAGGCT
1 AGGATACATATAAAGGCT
15481114 AGGA
1 AGGA
15481118 AACTCACCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:15482823 original size:12 final size:12
Alignment explanation
Indices: 15482800--15482841 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
15482790 TTTTTACGAC
15482800 TTAAAAAA-ATT
1 TTAAAAAATATT
15482811 TTAAAAAATATT
1 TTAAAAAATATT
* *
15482823 TTTAAAATTA-T
1 TTAAAAAATATT
15482834 TTAAAAAA
1 TTAAAAAA
15482842 AGGGAGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:15485258 original size:7 final size:7
Alignment explanation
Indices: 15485245--15485284 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
15485235 TAGTCGATTC
15485245 GTATTTA
1 GTATTTA
*
15485252 ATATTTA
1 GTATTTA
15485259 GTATTTA
1 GTATTTA
15485266 GTATTTA
1 GTATTTA
15485273 GTATTTA
1 GTATTTA
15485280 GTATT
1 GTATT
15485285 ATGTATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:15491549 original size:126 final size:126
Alignment explanation
Indices: 15491332--15491717 Score: 628
Period size: 126 Copynumber: 3.1 Consensus size: 126
15491322 GGAACTATTA
* * * * * * *
15491332 TAGCAAAAGAGCGTTCACGTGGGAGCTTCTTTCACTTCTTTTGTTGACATTACATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAA
*
15491397 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAACTACTG
66 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGATACTACTG
15491458 TAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAA
*
15491523 GCGTTTTTGACACTATTGGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGATACTACTG
66 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGATACTACTG
* *
15491584 TAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACAATGCATCCTGCTTAAA
1 TAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAA
* * * **
15491649 GCATTTATAACACTATTTGCTCAGAAACGCCTTCTCAAAATTATTTTTTCAGATACTACTG
66 GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGATACTACTG
15491710 TAGCAAAA
1 TAGCAAAA
15491718 CGTCTACATG
Statistics
Matches: 243, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 243 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (126 bp):
TAGCAAAAGAGCGTCCATGTGGGAGCTTGTTTCAGTACTTTTGCTGACATTGCATCCTGCTTGAA
GCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGATACTACTG
Found at i:15491792 original size:70 final size:70
Alignment explanation
Indices: 15491679--15491816 Score: 267
Period size: 70 Copynumber: 2.0 Consensus size: 70
15491669 TCAGAAACGC
*
15491679 CTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAACGTCTACATGAGAGGTACTGTAGCAA
1 CTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAACGTCTACATGAGAGCTACTGTAGCAA
15491744 AACAT
66 AACAT
15491749 CTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAACGTCTACATGAGAGCTACTGTAGCAA
1 CTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAACGTCTACATGAGAGCTACTGTAGCAA
15491814 AAC
66 AAC
15491817 GTCTACATGA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (70 bp):
CTTCTCAAAATTATTTTTTCAGATACTACTGTAGCAAAACGTCTACATGAGAGCTACTGTAGCAA
AACAT
Found at i:15491806 original size:28 final size:28
Alignment explanation
Indices: 15491774--15491831 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
15491764 TTTTCAGATA
15491774 CTACTGTAGCAAAACGTCTACATGAGAG
1 CTACTGTAGCAAAACGTCTACATGAGAG
15491802 CTACTGTAGCAAAACGTCTACATGAGAG
1 CTACTGTAGCAAAACGTCTACATGAGAG
15491830 CT
1 CT
15491832 TCTTTTAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (28 bp):
CTACTGTAGCAAAACGTCTACATGAGAG
Found at i:15492139 original size:7 final size:7
Alignment explanation
Indices: 15492127--15492163 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
15492117 TTTTCCTTAA
15492127 AAACCCT
1 AAACCCT
15492134 AAACCCT
1 AAACCCT
15492141 AAACCCT
1 AAACCCT
15492148 AAACCCT
1 AAACCCT
15492155 AAACCCT
1 AAACCCT
15492162 AA
1 AA
15492164 TCTAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:15492247 original size:111 final size:110
Alignment explanation
Indices: 15492030--15492249 Score: 282
Period size: 111 Copynumber: 2.0 Consensus size: 110
15492020 TTTTCCTTAA
* * * *
15492030 AAACCTTAAACCCTAAACCCTAGTCTAATTTTTTTAAAATTTATAATTAATTTATTTAAGTAACC
1 AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
**** *
15492095 CCAAACCCTAATTTATTTAAATTTTTCCTTAAAAACCCTAAACCCT
66 CCAAACCCTAATTTATTTAAAAAAATCCTT-AAAACACTAAACCCT
15492141 AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
1 AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
** *
15492206 TTAAACCCTAATTTATTTTTAAAAAAAATGC-T-AAACACTAAACC
66 CCAAACCCTAATTTA--TTT-AAAAAAATCCTTAAAACACTAAACC
15492250 TTAATCTAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
111 85 0.90
113 4 0.04
114 5 0.05
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.36
Consensus pattern (110 bp):
AAACCCTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACC
CCAAACCCTAATTTATTTAAAAAAATCCTTAAAACACTAAACCCT
Found at i:15492249 original size:90 final size:90
Alignment explanation
Indices: 15492146--15492313 Score: 300
Period size: 90 Copynumber: 1.9 Consensus size: 90
15492136 ACCCTAAACC
* *
15492146 CTAAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCTTAAA
1 CTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAA
15492211 CCCTAATTTATTTTTAAAAAAAATG
66 CCCTAATTTATTTTTAAAAAAAATG
* *
15492236 CTAAACACTAAACCTTAATCTAATTTTTTTAAAATTTATAATTATTTTACTCAAGTAACCCTAAA
1 CTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAA
15492301 CCCTAATTTATTT
66 CCCTAATTTATTT
15492314 GATTTTTTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (90 bp):
CTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAA
CCCTAATTTATTTTTAAAAAAAATG
Found at i:15492597 original size:40 final size:41
Alignment explanation
Indices: 15492502--15492578 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
15492492 AAAGCGCTTT
*
15492502 CTCAAGGAAGCG--CTTTGTCCACGTGGACACAAAGTGCGCC
1 CTCAAGGAAGCGTTTTTTGTCCACGTGGA-ACAAAGTGCGCC
*
15492542 CTCAAGGACGCGTTTTTTGTCCACGTGG-ACAAAGTGC
1 CTCAAGGAAGCGTTTTTTGTCCACGTGGAACAAAGTGC
15492579 TTCCTTGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 20 0.61
42 13 0.39
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.22
Consensus pattern (41 bp):
CTCAAGGAAGCGTTTTTTGTCCACGTGGAACAAAGTGCGCC
Found at i:15503727 original size:147 final size:149
Alignment explanation
Indices: 15503456--15503760 Score: 375
Period size: 147 Copynumber: 2.1 Consensus size: 149
15503446 ACGACTTTAA
*** * *
15503456 CAATTTCAACAATTATTAATAACAAAGAATCCAACATTTTTATTAACAACTTACTAAAATTTCAA
1 CAATTTCAACAATTATTAATAACAAAGAATCCAACAAAATTATCAACAACTTACTAAAATTGCAA
* *
15503521 CCATAAACAATAACAAAACTTCCTTATAACATGCATAAAACATATTCAAAAAATGTAACAACAAT
66 CCATAAACAATAACAAAACTTCCTTATAACATACATAAAACATATTCAAAAAATCTAACAACAAT
15503586 AATA-AAATAACAATTCTAAT
131 AA-AGAAATAACAATTCT-AT
* * **
15503606 -AATTTCAACAATTGTTAATAACAAAGAATCCAACAAAATTA-CACCAACTTACTTCAA-TGCAA
1 CAATTTCAACAATTATTAATAACAAAGAATCCAACAAAATTATCAACAACTTACTAAAATTGCAA
* * * * ** * **
15503668 CCATCAATAATAACACAACTTCCTTATATCATATGTAGAGTATATTCAAAAAATCTAACAACAAT
66 CCATAAACAATAACAAAACTTCCTTATAACATACATAAAACATATTCAAAAAATCTAACAACAAT
*
15503733 AAAGACATAACAATTCTAT
131 AAAGAAATAACAATTCTAT
15503752 CAATTTCAA
1 CAATTTCAA
15503761 AATAAATTAA
Statistics
Matches: 132, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
146 3 0.02
147 80 0.61
148 12 0.09
149 37 0.28
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (149 bp):
CAATTTCAACAATTATTAATAACAAAGAATCCAACAAAATTATCAACAACTTACTAAAATTGCAA
CCATAAACAATAACAAAACTTCCTTATAACATACATAAAACATATTCAAAAAATCTAACAACAAT
AAAGAAATAACAATTCTAT
Found at i:15505031 original size:37 final size:37
Alignment explanation
Indices: 15504984--15505060 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
15504974 CAAACAGACT
15504984 ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
1 ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
15505021 ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
1 ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
15505058 ACA
1 ACA
15505061 AATATTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.29
Consensus pattern (37 bp):
ACACTCAGACTAATAACTTTAGCTAGCCATTACTTAC
Found at i:15507955 original size:32 final size:32
Alignment explanation
Indices: 15507914--15507975 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
15507904 TCTTAATGAG
15507914 TCTATTTTCAATAGAAACAAACAGGAACATAA
1 TCTATTTTCAATAGAAACAAACAGGAACATAA
*
15507946 TCTATTTTCAATAGAAACAAACATGAACAT
1 TCTATTTTCAATAGAAACAAACAGGAACAT
15507976 CATTCAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.27
Consensus pattern (32 bp):
TCTATTTTCAATAGAAACAAACAGGAACATAA
Found at i:15513699 original size:15 final size:15
Alignment explanation
Indices: 15513679--15513708 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15513669 TTACAGTCTC
*
15513679 CCTTATGTGTTTTAT
1 CCTTATGTGGTTTAT
15513694 CCTTATGTGGTTTAT
1 CCTTATGTGGTTTAT
15513709 TTGGGTTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (15 bp):
CCTTATGTGGTTTAT
Found at i:15516147 original size:89 final size:88
Alignment explanation
Indices: 15515989--15516250 Score: 224
Period size: 88 Copynumber: 3.0 Consensus size: 88
15515979 GGTATAGGGT
* * ** * * * * *
15515989 ATATATAATATTATTTGTTGGTTTCACCAAGC-AGTGTTGGACACACACATATATATTATTTATT
1 ATATAT-ATAATATTTGTTAGTTTCACTGA-CTAGTGTTGGGCACATATATATATAATATTTATC
* *
15516053 GGTTTCACCAACTAGTGCTGGACACAC
64 AGTTTCACCAACCAGTGCTGG--ACAC
*
15516080 ATATATATAATATTTGTT-GTTTCACTGACTAGTGTTGGGCACATATATATATAATATTTGTCAG
1 ATATATATAATATTTGTTAGTTTCACTGACTAGTGTTGGGCACATATATATATAATATTTATCAG
* *
15516144 TTTCATCAACCAGTGCTGGGCAC
66 TTTCACCAACCAGTGCTGGACAC
* * * * * * * *
15516167 ATATATATAGTAATTGTTAATTTC-TTCGACTAGTGCTGGGCATATATTTATATAATATTTTTCA
1 ATATATATAATATTTGTTAGTTTCACT-GACTAGTGTTGGGCACATATATATATAATATTTATCA
* * * *
15516231 ATTTCATCGACCAGTCCTGG
65 GTTTCACCAACCAGTGCTGG
15516251 GCATAAAACT
Statistics
Matches: 144, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
87 20 0.14
88 55 0.38
89 52 0.36
90 11 0.08
91 6 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (88 bp):
ATATATATAATATTTGTTAGTTTCACTGACTAGTGTTGGGCACATATATATATAATATTTATCAG
TTTCACCAACCAGTGCTGGACAC
Found at i:15516168 original size:45 final size:45
Alignment explanation
Indices: 15515988--15516253 Score: 202
Period size: 45 Copynumber: 6.0 Consensus size: 45
15515978 AGGTATAGGG
* * * * * *
15515988 TATATATAATATTATTTGTTGGTTTCACCAAGCAGTGTTGGACACA
1 TATATAT-ATAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
* * * * * * * *
15516034 CACATATATATTATTTATTGGTTTCACCAACTAGTGCTGGACACA
1 TATATATATAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
* * * *
15516079 CATATATATAATATTTGTT-GTTTCA-CTGACTAGTGTTGGGCACA
1 TATATATATAATATTTGTTAGTTTCATC-AACCAGTGCTGGGCACA
*
15516123 TATATATATAATATTTGTCAGTTTCATCAACCAGTGCTGGGCACA
1 TATATATATAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
* * * * *
15516168 TATATATAGT-A-A-TTGTTAATTTCTTCGACTAGTGCTGGGCATA
1 TATATATA-TAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
* * * *
15516211 TATTTATATAATATTT-TTCAATTTCATCGACCAGTCCTGGGCA
1 TATATATATAATATTTGTT-AGTTTCATCAACCAGTGCTGGGCA
15516254 TAAAACTTTA
Statistics
Matches: 185, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 34 0.18
44 41 0.22
45 102 0.55
46 7 0.04
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (45 bp):
TATATATATAATATTTGTTAGTTTCATCAACCAGTGCTGGGCACA
Found at i:15516202 original size:43 final size:41
Alignment explanation
Indices: 15516063--15516222 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 41
15516053 GGTTTCACCA
* * *
15516063 ACTAGTGCTGGACACACATATATATAATATTTGTT-GTTTCACTG
1 ACTAGTGCTGG--GCACATATATAT-ATAATTGTTAGTTTCTC-G
* * *
15516107 ACTAGTGTTGGGCACATATATATATAATATTTGTCAGTTTCATCA
1 ACTAGTGCTGGGCACATATATATAT-A-A-TTGTTAGTTTC-TCG
* *
15516152 ACCAGTGCTGGGCACATATATATAGTAATTGTTAATTTCTTCG
1 ACTAGTGCTGGGCACATATATATA-TAATTGTTAGTTTC-TCG
* *
15516195 ACTAGTGCTGGGCATATATTTATATAAT
1 ACTAGTGCTGGGCACATATATATATAAT
15516223 ATTTTTCAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 16 0.17
43 32 0.34
44 15 0.16
45 28 0.29
46 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (41 bp):
ACTAGTGCTGGGCACATATATATATAATTGTTAGTTTCTCG
Found at i:15516226 original size:88 final size:87
Alignment explanation
Indices: 15516054--15516253 Score: 231
Period size: 88 Copynumber: 2.3 Consensus size: 87
15516044 TTATTTATTG
* * * * * *
15516054 GTTTCACCAACTAGTGCTGGACACACATATATATAATATTTGTTGTTTCACTGACTAGTGTTGGG
1 GTTTCATCAACCAGTGCTGG--GCACATATATATAATAATTGTTATTTCACTGACTAGTGCTGGG
15516119 CACATATATATATAATATTTGTCA
64 CACATATATATATAATATTTGTCA
* *
15516143 GTTTCATCAACCAGTGCTGGGCACATATATATAGTAATTGTTAATTTC-TTCGACTAGTGCTGGG
1 GTTTCATCAACCAGTGCTGGGCACATATATATAATAATTGTT-ATTTCACT-GACTAGTGCTGGG
* * *
15516207 CATATATTTATATAATATTTTTCA
64 CACATATATATATAATATTTGTCA
* * *
15516231 ATTTCATCGACCAGTCCTGGGCA
1 GTTTCATCAACCAGTGCTGGGCA
15516254 TAAAACTTTA
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
87 20 0.21
88 57 0.60
89 18 0.19
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (87 bp):
GTTTCATCAACCAGTGCTGGGCACATATATATAATAATTGTTATTTCACTGACTAGTGCTGGGCA
CATATATATATAATATTTGTCA
Found at i:15524647 original size:4 final size:4
Alignment explanation
Indices: 15524638--15524689 Score: 77
Period size: 4 Copynumber: 12.5 Consensus size: 4
15524628 AACCCAATTA
*
15524638 TTAT TTAT TTAT TTGT ATTAT TTAT TTAT TTAT TTAT TTAT TTATT TTAT
1 TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT
15524688 TT
1 TT
15524690 GCATGTTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 37 0.84
5 7 0.16
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:15524658 original size:17 final size:16
Alignment explanation
Indices: 15524635--15524688 Score: 83
Period size: 17 Copynumber: 3.3 Consensus size: 16
15524625 GGCAACCCAA
15524635 TTATTATTTATTTATT
1 TTATTATTTATTTATT
15524651 TGTATTATTTATTTA-T
1 T-TATTATTTATTTATT
15524667 TTATTTATTTATTTATT
1 TTA-TTATTTATTTATT
15524684 TTATT
1 TTATT
15524689 TGCATGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.06
16 16 0.46
17 17 0.49
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTATTATTTATTTATT
Found at i:15527289 original size:93 final size:92
Alignment explanation
Indices: 15527118--15527291 Score: 233
Period size: 93 Copynumber: 1.9 Consensus size: 92
15527108 AAGAGTGTGT
* * * * * *
15527118 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGGTTGTCATCCCTCTTCGTGCCAAAAGGTTCGATAC
1 TGGGCTGAGTAACCGGGGTGGGATGATTGGGTTGTCAT-CATCTTCGCGCCAAAAGGATCAATAC
*
15527183 ATTCTTAAGAAATAAATTAGGAGCATGA
65 ATTCTTAAAAAATAAATTAGGAGCATGA
* *
15527211 TGGGCTGAGTAACTGGGGTGGGATGATTGGGTTGTCAT-ATCTTCGCGTCAAAAGGATCAATACA
1 TGGGCTGAGTAACCGGGGTGGGATGATTGGGTTGTCATCATCTTCGCGCCAAAAGGATCAATACA
15527275 TTCCATTAAAAAATAAA
66 TT-C-TTAAAAAATAAA
15527292 AAAATAAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 23 0.33
92 1 0.01
93 46 0.66
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (92 bp):
TGGGCTGAGTAACCGGGGTGGGATGATTGGGTTGTCATCATCTTCGCGCCAAAAGGATCAATACA
TTCTTAAAAAATAAATTAGGAGCATGA
Found at i:15527307 original size:16 final size:17
Alignment explanation
Indices: 15527281--15527318 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15527271 TACATTCCAT
15527281 TAAAA-AATAAAAA-AA
1 TAAAATAATAAAAATAA
15527296 TAAAATAATAAAAATAA
1 TAAAATAATAAAAATAA
15527313 -AAAATA
1 TAAAATA
15527319 TATATTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAATAATAAAAATAA
Found at i:15532099 original size:18 final size:17
Alignment explanation
Indices: 15532076--15532109 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15532066 ACTCTCAAGA
15532076 AAAACTAGAAATTTAAAT
1 AAAACT-GAAATTTAAAT
*
15532094 AAAACTGTAATTTAAA
1 AAAACTGAAATTTAAA
15532110 ACTAGTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAACTGAAATTTAAAT
Found at i:15534430 original size:18 final size:17
Alignment explanation
Indices: 15534407--15534440 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15534397 AACTCTCAAG
15534407 AAAACCAGAAATTTAAAT
1 AAAACCA-AAATTTAAAT
*
15534425 AAAACCATAATTTAAA
1 AAAACCAAAATTTAAA
15534441 AGCAATTCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAACCAAAATTTAAAT
Found at i:15536467 original size:43 final size:43
Alignment explanation
Indices: 15536398--15536537 Score: 208
Period size: 43 Copynumber: 3.3 Consensus size: 43
15536388 TTATAGAAAT
*
15536398 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
* * *
15536441 AAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
** * *
15536484 AAACGTTGCTAAAGGTCATGTTCTTTCGCGGCGCTTTTTCTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
15536527 AAACGCCGCTA
1 AAACGCCGCTA
15536538 TTATTTGGTG
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTAC
Found at i:15536561 original size:44 final size:44
Alignment explanation
Indices: 15536506--15536633 Score: 132
Period size: 44 Copynumber: 2.9 Consensus size: 44
15536496 AGGTCATGTT
* * *
15536506 CTTTCGCGGCGCTTTTTCTACAAACGCCGCTATTATTTGGTGAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACTATTATTTGGTGAC
* * * *
15536550 CTTTAGCGGCGCTTTTCCCACAAACGCCATTATTGTTTTGTGAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACTATTATTTGGTGAC
* * * * *
15536594 CTTTAGCGGAGATTTTTCAAAAAACACCACTAATT-TTTGG
1 CTTTAGCGGCGCTTTTTCCACAAACGCCACT-ATTATTTGG
15536634 ATTTTTGTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 65 0.96
45 3 0.04
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (44 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCACTATTATTTGGTGAC
Found at i:15536960 original size:21 final size:21
Alignment explanation
Indices: 15536930--15536979 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
15536920 TTTTGCTCTG
*
15536930 CTCTGTTTCCCTCACTGCAGC
1 CTCTGCTTCCCTCACTGCAGC
* *
15536951 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCACTGCAGC
15536972 CTCTGCTT
1 CTCTGCTT
15536980 TAATTTGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.46, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCAGC
Found at i:15539372 original size:21 final size:21
Alignment explanation
Indices: 15539348--15539444 Score: 70
Period size: 21 Copynumber: 4.4 Consensus size: 21
15539338 TTACTGTTGA
15539348 AACCCTAAACCCTAAATCCCT
1 AACCCTAAACCCTAAATCCCT
*
15539369 AACCCTTAACCCCTAAATCCCCCT
1 AACCC-TAAACCCTAAAT--CCCT
* * *
15539393 AACCCTTAAAGCAT-AACCCCT
1 AACCC-TAAACCCTAAATCCCT
* * * *
15539414 AACCCCTGAACCTTAAATCTCA
1 AA-CCCTAAACCCTAAATCCCT
15539436 AACCCTAAA
1 AACCCTAAA
15539445 TCCATACCCC
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
21 22 0.37
22 20 0.34
23 2 0.03
24 15 0.25
ACGTcount: A:0.37, C:0.41, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCCTAAACCCTAAATCCCT
Found at i:15539385 original size:22 final size:23
Alignment explanation
Indices: 15539348--15539432 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 23
15539338 TTACTGTTGA
15539348 AACCC-TAAACCCTAAAT-CCCT
1 AACCCTTAAACCCTAAATCCCCT
*
15539369 AACCCTTAACCCCTAAATCCCCCT
1 AACCCTTAAACCCTAAAT-CCCCT
* *
15539393 AACCCTTAAAGCAT-AA-CCCCT
1 AACCCTTAAACCCTAAATCCCCT
* * *
15539414 AACCCCTGAACCTTAAATC
1 AACCCTTAAACCCTAAATC
15539433 TCAAACCCTA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 20 0.39
22 13 0.25
23 3 0.06
24 15 0.29
ACGTcount: A:0.35, C:0.42, G:0.02, T:0.20
Consensus pattern (23 bp):
AACCCTTAAACCCTAAATCCCCT
Found at i:15540403 original size:8 final size:8
Alignment explanation
Indices: 15540379--15540429 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
15540369 TTATAAACCT
15540379 TAAA-CCC
1 TAAACCCC
**
15540386 TAAATTCC
1 TAAACCCC
15540394 TAAACCCC
1 TAAACCCC
15540402 T-AACCCC
1 TAAACCCC
15540409 TAAATCCCC
1 TAAA-CCCC
*
15540418 TTAACCCC
1 TAAACCCC
15540426 TAAA
1 TAAA
15540430 GCATAACCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
7 11 0.31
8 18 0.50
9 7 0.19
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (8 bp):
TAAACCCC
Found at i:15540424 original size:17 final size:15
Alignment explanation
Indices: 15540392--15540442 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 15
15540382 ACCCTAAATT
15540392 CCTAAACCCCTAACC
1 CCTAAACCCCTAACC
15540407 CCTAAATCCCCTTAACC
1 CCTAAA-CCCC-TAACC
* *
15540424 CCTAAA-GCATAACC
1 CCTAAACCCCTAACC
15540438 CCTAA
1 CCTAA
15540443 CCCTTAAACC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.31
15 7 0.22
16 4 0.12
17 11 0.34
ACGTcount: A:0.35, C:0.45, G:0.02, T:0.18
Consensus pattern (15 bp):
CCTAAACCCCTAACC
Found at i:15540427 original size:24 final size:23
Alignment explanation
Indices: 15540383--15540428 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
15540373 AAACCTTAAA
*
15540383 CCCTAAATTCCTAAACCCCTAAC
1 CCCTAAATCCCTAAACCCCTAAC
*
15540406 CCCTAAATCCCCTTAACCCCTAA
1 CCCTAAAT-CCCTAAACCCCTAA
15540429 AGCATAACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.22
Consensus pattern (23 bp):
CCCTAAATCCCTAAACCCCTAAC
Found at i:15541008 original size:41 final size:38
Alignment explanation
Indices: 15540958--15541199 Score: 232
Period size: 41 Copynumber: 5.9 Consensus size: 38
15540948 TTTTTTTATT
* *
15540958 ATTAGCGGCGCTTTCTCAAAAATGTCGATAAAGGCCCATGC
1 ATTAGCGGCGCTTT-TCAAAAACG-CGCTAAAGGCCCA-GC
*
15540999 ATTAACGGCGCTATTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCT-TTTCAAAAACG-CGCTAAAGGCCC-AGC
* * * *
15541040 ATTAGCGGTGCTTTTTCAAAAACGCCACTAAAGGAACAAGC
1 ATTAGCGGCGC-TTTTCAAAAACG-CGCTAAAGG-CCCAGC
*
15541081 ATTAGCGGCGCATTTTCAAAAACGCCGCTAAAGGCCTGAGC
1 ATTAGCGGCGC-TTTTCAAAAACG-CGCTAAAGGCC-CAGC
* *
15541122 ATTAGCGGCGCTTCTTCAAAAATGCAGCTAAAGGCCCGATC
1 ATTAGCGGCGCTT-TTCAAAAACGC-GCTAAAGGCCC-AGC
*
15541163 ATTAGCGGCGCTTTTTCAAAAACGACGCTAAAAGCCC
1 ATTAGCGGCGC-TTTTCAAAAACG-CGCTAAAGGCCC
15541200 CAAAAACTCA
Statistics
Matches: 172, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
40 4 0.02
41 160 0.93
42 8 0.05
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
ATTAGCGGCGCTTTTCAAAAACGCGCTAAAGGCCCAGC
Found at i:15541098 original size:82 final size:81
Alignment explanation
Indices: 15540958--15541199 Score: 265
Period size: 82 Copynumber: 3.0 Consensus size: 81
15540948 TTTTTTTATT
* * ** * *
15540958 ATTAGCGGCGCTT-TCTCAAAAATGTC-GATAAAGGCCCATGCATTAACGGCGCTATTTCAAAAA
1 ATTAGCGGCGCTTCT-TCAAAAACG-CAGCTAAAGGAACAAGCATTAGCGGCGCT-TTTCAAAAA
15541021 CGCCGCTAAAGGCCCGAGC
63 CGCCGCTAAAGGCCCGAGC
* *
15541040 ATTAGCGGTGCTTTTTCAAAAACGCCA-CTAAAGGAACAAGCATTAGCGGCGCATTTTCAAAAAC
1 ATTAGCGGCGCTTCTTCAAAAACG-CAGCTAAAGGAACAAGCATTAGCGGCGC-TTTTCAAAAAC
*
15541104 GCCGCTAAAGGCCTGAGC
64 GCCGCTAAAGGCCCGAGC
* ** * *
15541122 ATTAGCGGCGCTTCTTCAAAAATGCAGCTAAAGGCCCGATCATTAGCGGCGCTTTTTCAAAAACG
1 ATTAGCGGCGCTTCTTCAAAAACGCAGCTAAAGGAACAAGCATTAGCGGCGC-TTTTCAAAAACG
* *
15541187 ACGCTAAAAGCCC
65 CCGCTAAAGGCCC
15541200 CAAAAACTCA
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
81 2 0.01
82 132 0.97
83 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (81 bp):
ATTAGCGGCGCTTCTTCAAAAACGCAGCTAAAGGAACAAGCATTAGCGGCGCTTTTCAAAAACGC
CGCTAAAGGCCCGAGC
Found at i:15541177 original size:123 final size:123
Alignment explanation
Indices: 15540958--15541186 Score: 329
Period size: 123 Copynumber: 1.9 Consensus size: 123
15540948 TTTTTTTATT
* *
15540958 ATTAGCGGCGCTTTCTCAAAAATGTCGATAAAGGCCCATGCATTAACGGCGCTATTTCAAAAACG
1 ATTAGCGGCGCTTTCTCAAAAACGCCGATAAAGGCCCATGCATTAACGGCGCTATTTCAAAAACG
* *
15541023 CCGCTAAAGGCCCGAGCATTAGCGGTGCTTTTTCAAAAACGCCACTAAAGGAACAAGC
66 CAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGGAACAAGC
* * *
15541081 ATTAGCGGCGCATTT-TCAAAAACGCCGCTAAAGGCCTGA-GCATTAGCGGCGCT-TCTTCAAAA
1 ATTAGCGGCGC-TTTCTCAAAAACGCCGATAAAGGCC-CATGCATTAACGGCGCTAT-TTCAAAA
* *
15541143 ATGCAGCTAAAGGCCCGATCATTAGCGGCGCTTTTTCAAAAACG
63 ACGCAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACG
15541187 ACGCTAAAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
122 1 0.01
123 89 0.95
124 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (123 bp):
ATTAGCGGCGCTTTCTCAAAAACGCCGATAAAGGCCCATGCATTAACGGCGCTATTTCAAAAACG
CAGCTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGGAACAAGC
Found at i:15541343 original size:40 final size:40
Alignment explanation
Indices: 15541292--15541369 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
15541282 GCATTTTCCA
15541292 AAAAGCACCGCTAATGCTCCATCTTTAGCGGCGTTTTTAG
1 AAAAGCACCGCTAATGCTCCATCTTTAGCGGCGTTTTTAG
* ** * *
15541332 AAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
1 AAAAGCACCGCTAATGCTCCATCTTTAGCGGCGTTTTT
15541370 TATCCAAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (40 bp):
AAAAGCACCGCTAATGCTCCATCTTTAGCGGCGTTTTTAG
Found at i:15574741 original size:13 final size:13
Alignment explanation
Indices: 15574723--15574775 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
15574713 CTCACTTATT
15574723 ATTTAATCAATTA
1 ATTTAATCAATTA
*
15574736 ATTTAATTAATTA
1 ATTTAATCAATTA
* *
15574749 AGTTAACTAAATTA
1 ATTTAA-TCAATTA
*
15574763 ATTT-TTCAATTA
1 ATTTAATCAATTA
15574775 A
1 A
15574776 ATAATTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:15580722 original size:14 final size:15
Alignment explanation
Indices: 15580684--15580737 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 15
15580674 ATCAAGATGA
15580684 CTAATTAATTT-AATT
1 CTAATT-ATTTAAATT
15580699 CTAATT-TTTAAATT
1 CTAATTATTTAAATT
15580713 C-AATTATTT-AATT
1 CTAATTATTTAAATT
* *
15580726 ATAATTAATTAA
1 CTAATTATTTAA
15580738 TAATAATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 11 0.33
14 15 0.45
15 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
CTAATTATTTAAATT
Found at i:15594827 original size:21 final size:21
Alignment explanation
Indices: 15594798--15594842 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
15594788 ATGATTATGT
15594798 GGATAATATCTAACCCATAAA
1 GGATAATATCTAACCCATAAA
*
15594819 GGATGATATCTAACCCATAAA
1 GGATAATATCTAACCCATAAA
15594840 GGA
1 GGA
15594843 AGATCATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (21 bp):
GGATAATATCTAACCCATAAA
Found at i:15600209 original size:36 final size:36
Alignment explanation
Indices: 15600169--15600271 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 36
15600159 TCGGATCTTT
*
15600169 CCAAGCTCCTAAATGAGATATCAAGTTTTCTCAATC
1 CCAAGATCCTAAATGAGATATCAAGTTTTCTCAATC
* * *
15600205 CCAAGATCCTTAACGAGATATCAAGTCTTCTCAATC
1 CCAAGATCCTAAATGAGATATCAAGTTTTCTCAATC
** *
15600241 TGAAGAT-CTCAAATGAGATATCGAGTCTTTC
1 CCAAGATCCT-AAATGAGATATCAAGT-TTTC
15600272 CAACTTCTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
35 2 0.04
36 50 0.91
37 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (36 bp):
CCAAGATCCTAAATGAGATATCAAGTTTTCTCAATC
Found at i:15600288 original size:30 final size:30
Alignment explanation
Indices: 15600252--15600343 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
15600242 GAAGATCTCA
* *
15600252 AATGAGATATCGAGTCTT-TCCAA-CTTCTTG
1 AATGAGATATAGAGTCTTCT-CAAGC-TCCTG
*
15600282 AATGAGATATAGGGTCTTCTCAAGCTCCTG
1 AATGAGATATAGAGTCTTCTCAAGCTCCTG
* *
15600312 AATGAGATATAGGGTCTTCTCAAGTTCCTG
1 AATGAGATATAGAGTCTTCTCAAGCTCCTG
15600342 AA
1 AA
15600344 CATCCCCGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
30 54 0.96
31 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (30 bp):
AATGAGATATAGAGTCTTCTCAAGCTCCTG
Found at i:15605000 original size:40 final size:41
Alignment explanation
Indices: 15604921--15605001 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 41
15604911 CTAGAAAAAT
* *
15604921 AAAAAATTTAAAAAGAGGAGAAGATAATCTTGGTTTGTTGAA
1 AAAAAATTTAAAAAGAGGAGAAGATAAACATGG-TTGTTGAA
*
15604963 AAAATAATTTTAAAAGAGGAGAAGATAAACATGTGTTGT
1 AAAA-AATTTAAAAAGAGGAGAAGATAAACATG-GTTGT
15605002 AGATTTACCG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 4 0.12
43 29 0.85
44 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.28
Consensus pattern (41 bp):
AAAAAATTTAAAAAGAGGAGAAGATAAACATGGTTGTTGAA
Found at i:15607485 original size:58 final size:58
Alignment explanation
Indices: 15607395--15607510 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
15607385 AGAGATCCTT
15607395 AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
1 AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
15607453 AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
1 AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
15607511 CCTTTCAACC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.45, C:0.14, G:0.31, T:0.10
Consensus pattern (58 bp):
AGGCAACAATAGAAGGTAGCGACTAAGTAGAGACGGAAAGAGTAAGACGAAAGCAGTC
Found at i:15611699 original size:40 final size:41
Alignment explanation
Indices: 15611620--15611701 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 41
15611610 CTAGAAAAAT
* *
15611620 AAAAAATTTAAAAAGAGGAGAAGATAATCTTGGTTTGTTGAA
1 AAAAAATTTAAAAAGAGGAGAAGATAAACATGG-TTGTTGAA
*
15611662 AAAATAATTTTAAAAGAGGAGAAGATAAACATGTGTTGTT
1 AAAA-AATTTAAAAAGAGGAGAAGATAAACATG-GTTGTT
15611702 AGATTTATCG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 4 0.11
43 30 0.86
44 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (41 bp):
AAAAAATTTAAAAAGAGGAGAAGATAAACATGGTTGTTGAA
Found at i:15613543 original size:28 final size:27
Alignment explanation
Indices: 15613499--15613562 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
15613489 CTGGACTTTG
* * *
15613499 GACATCATTAAAGCATGTAATAAAATTA
1 GACA-CATTAAAACATGCAATAAAATAA
*
15613527 GACACATTAATAACATGCATTAAAATAA
1 GACACATTAA-AACATGCAATAAAATAA
*
15613555 AACACATT
1 GACACATT
15613563 TATCACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.27
Consensus pattern (27 bp):
GACACATTAAAACATGCAATAAAATAA
Found at i:15617757 original size:18 final size:18
Alignment explanation
Indices: 15617734--15617768 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15617724 GAGTTAAACG
15617734 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
*
15617752 AATCGAGTTATTTGAAT
1 AATCGAGTTATTCGAAT
15617769 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:15617908 original size:21 final size:21
Alignment explanation
Indices: 15617884--15617924 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15617874 CCCAAACTCC
*
15617884 CAAACCTTTCTACTT-TTCCCT
1 CAAAACTTT-TACTTCTTCCCT
15617905 CAAAACTTTTACTTCTTCCC
1 CAAAACTTTTACTTCTTCCC
15617925 ACTTTCCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (21 bp):
CAAAACTTTTACTTCTTCCCT
Found at i:15618094 original size:30 final size:31
Alignment explanation
Indices: 15618060--15618119 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
15618050 AAACATTTTA
*
15618060 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
15618090 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
15618120 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:15623503 original size:26 final size:26
Alignment explanation
Indices: 15623467--15623520 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15623457 ACATTTTTTT
15623467 TTCTTTTTAGTACAAAGTAAGAAAGG
1 TTCTTTTTAGTACAAAGTAAGAAAGG
15623493 TTCTTTTTAGTACAAAGTAAGAAAGG
1 TTCTTTTTAGTACAAAGTAAGAAAGG
15623519 TT
1 TT
15623521 AAGGTCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (26 bp):
TTCTTTTTAGTACAAAGTAAGAAAGG
Found at i:15629387 original size:30 final size:28
Alignment explanation
Indices: 15629351--15629433 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 28
15629341 ATAGTGTGGA
* * *
15629351 CCTTAGCCCATTATAGTAATAGTGTGTAGG
1 CCTTAGCCCAATAAAGTAATAGTGGGT--G
* *
15629381 CCTTAGCCCAATACAGTAACAGTGGGTG
1 CCTTAGCCCAATAAAGTAATAGTGGGTG
15629409 CCTTAGCCCAATAAAGTAATTAGTG
1 CCTTAGCCCAATAAAGTAA-TAGTG
15629434 CAATGCAGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 19 0.41
29 4 0.09
30 23 0.50
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (28 bp):
CCTTAGCCCAATAAAGTAATAGTGGGTG
Found at i:15629574 original size:26 final size:26
Alignment explanation
Indices: 15629545--15629611 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
15629535 TATCGTAGCC
* * *
15629545 AAGCTGCCAGTAATAGCGATGCAGCA
1 AAGCTGCCAGTAACAGCAACGCAGCA
* * *
15629571 AAGCTGCTAGTAACAGTAACGTAGCA
1 AAGCTGCCAGTAACAGCAACGCAGCA
15629597 AAGCTGCCAGTAACA
1 AAGCTGCCAGTAACA
15629612 ATATATGTGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
AAGCTGCCAGTAACAGCAACGCAGCA
Found at i:15629807 original size:92 final size:92
Alignment explanation
Indices: 15629650--15629835 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 92
15629640 ATACGTCCCC
15629650 TATATCAAAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
1 TATATCAAAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
15629715 TACTCAGTAACAATCATATAAATAACA
66 TACTCAGTAACAATCATATAAATAACA
*
15629742 TATATCAGAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
1 TATATCAAAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
15629807 TACTCAGTAACAATCATATAAATAACA
66 TACTCAGTAACAATCATATAAATAACA
15629834 TA
1 TA
15629836 GAACAAATCG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (92 bp):
TATATCAAAATCTCAACCCTATGCAGTATGTCAAGTCATAAATCATACGTGTATGCAGTATGTCA
TACTCAGTAACAATCATATAAATAACA
Found at i:15629899 original size:27 final size:27
Alignment explanation
Indices: 15629881--15630041 Score: 189
Period size: 27 Copynumber: 6.0 Consensus size: 27
15629871 GGGTATAACA
*
15629881 GTCATTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
15629908 ATCATTTTA-CCTTTCGGGGGTATTTCA
1 GTCATTTTACCCTTT-GAGGGTATTTCG
* * *
15629935 GTCATTTTAGCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
15629962 GTCAGTTTACCCTTTGAGGGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
15629989 GTCGTTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
15630016 GTCATTCTACCCTTTAAGGGTATTTC
1 GTCATTTTACCCTTTGAGGGTATTTC
15630042 AGTTATTTGC
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.04
27 103 0.92
28 4 0.04
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTTGAGGGTATTTCG
Found at i:15629956 original size:54 final size:54
Alignment explanation
Indices: 15629870--15630049 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 54
15629860 TCAATTTCAA
** ** *
15629870 AGGGTATAACAGTCATTTTACCCTTTAAGGGTATTTCGATCATTTTA-CCTTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTT-G
* * * *
15629924 GGGGTATTTCAGTCATTTTAGCCTTCGGGGGTATTTCGGTCAGTTTACCCTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTG
** * * *
15629978 AGGGTATTTTGGTCGTTTTACCCTTCGAGGGTATTTCGGTCATTCTACCCTTTA
1 AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTG
*
15630032 AGGGTATTTCAGTTATTT
1 AGGGTATTTCAGTCATTT
15630050 GCCCATGAAT
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
54 98 0.95
55 5 0.05
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTTG
Found at i:15630735 original size:35 final size:37
Alignment explanation
Indices: 15630696--15630782 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 37
15630686 TGACAAGGAC
*
15630696 ATTCGACCAAAGA-AAAAGAAGA-GAAGAGAAAAGTG
1 ATTCGACCAAAGAGAAAAGAAGAGGAAGAGAAAAGGG
* *
15630731 ATTCGACTCAGCAGAGAAGAGAAGAGGGAAGAGAAAAGGG
1 ATTCGAC-CA-AAGAGAAAAGAAGA-GGAAGAGAAAAGGG
15630771 ATTCGA-CAAAGA
1 ATTCGACCAAAGA
15630783 TAGAATTCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
35 7 0.16
36 2 0.05
37 6 0.14
38 10 0.23
40 18 0.42
ACGTcount: A:0.51, C:0.10, G:0.30, T:0.09
Consensus pattern (37 bp):
ATTCGACCAAAGAGAAAAGAAGAGGAAGAGAAAAGGG
Found at i:15632845 original size:18 final size:19
Alignment explanation
Indices: 15632810--15632848 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
15632800 TAAAATATAT
*
15632810 AAAAATAAAACATTAAACA
1 AAAAATAAAACATCAAACA
*
15632829 AAAAATAATA-ATCAAACA
1 AAAAATAAAACATCAAACA
15632847 AA
1 AA
15632849 CAACATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATAAAACATCAAACA
Found at i:15642846 original size:21 final size:21
Alignment explanation
Indices: 15642800--15642846 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
15642790 TACAAAAATG
* *
15642800 ATTTTCTTTTCTCTTTTCTCT
1 ATTTTCTTTTCTCTTTTATAT
*
15642821 TTTTTCTTTTGCT-TTTTATAT
1 ATTTTCTTTT-CTCTTTTATAT
15642842 ATTTT
1 ATTTT
15642847 TACATAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.74
Consensus pattern (21 bp):
ATTTTCTTTTCTCTTTTATAT
Found at i:15643218 original size:10 final size:11
Alignment explanation
Indices: 15643192--15643217 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15643182 AAATAATTTT
15643192 AAAAATTTAAA
1 AAAAATTTAAA
15643203 AAAAATTTAAA
1 AAAAATTTAAA
15643214 AAAA
1 AAAA
15643218 TCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:15643382 original size:24 final size:25
Alignment explanation
Indices: 15643341--15643397 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
15643331 ATAACTTTTT
* *
15643341 TTATTTTTTAAAATATTATAATTTC
1 TTATTTTTGAAAATATTACAATTTC
15643366 TTATTTTTGAAAA-ATTACAATTTC
1 TTATTTTTGAAAATATTACAATTTC
*
15643390 TAATTTTT
1 TTATTTTT
15643398 ATTTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (25 bp):
TTATTTTTGAAAATATTACAATTTC
Found at i:15644235 original size:40 final size:40
Alignment explanation
Indices: 15644191--15644271 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
15644181 TGTATAAAAC
15644191 TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
1 TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
15644231 TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
1 TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
15644271 T
1 T
15644272 TTTTTTCCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (40 bp):
TATGATTATTTTCAAGTACACTACTACTGAGCAATAAGGT
Found at i:15646514 original size:24 final size:24
Alignment explanation
Indices: 15646481--15646537 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
15646471 AAACCTAATT
* *
15646481 CTAATTAATGTCAAATATATTATG
1 CTAATAAATGTCAAATATATTATA
*
15646505 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATA
15646529 CTAATAAAT
1 CTAATAAAT
15646538 ATTAAATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATA
Found at i:15646542 original size:24 final size:24
Alignment explanation
Indices: 15646493--15646544 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
15646483 AATTAATGTC
* *
15646493 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATATT
15646517 AAATATATTATACTAATAAATATT
1 AAATATATTATACTAATAAATATT
15646541 AAAT
1 AAAT
15646545 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATATT
Found at i:15657557 original size:24 final size:24
Alignment explanation
Indices: 15657529--15657580 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
15657519 GGCATGCATG
15657529 TACA-TAATGATGTTAGGGAC-TAGA
1 TACATTAAT-ATGTTAGGGACGTA-A
15657553 TACATTAATATGTTAGGGACGTAA
1 TACATTAATATGTTAGGGACGTAA
15657577 TACA
1 TACA
15657581 ATAGTACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (24 bp):
TACATTAATATGTTAGGGACGTAA
Found at i:15657584 original size:140 final size:141
Alignment explanation
Indices: 15657272--15657613 Score: 363
Period size: 140 Copynumber: 2.4 Consensus size: 141
15657262 GACATGCATT
* * * * * * * *
15657272 TACATTGTGATATTAGGGATATAGTATAATAATACACATATCATAAGAAGTAATGCATGTAATTT
1 TACATTATGATGTTAGGGACATAATACAATAGTACACATATAATAAGAAGGAATGCATGTAATTT
* * * * * * * *
15657337 GAGTTGATAGGGGCTATATACATAAGCCACTTATCATAATAAGGTATGGATGTACATATTGATGT
66 CAGTTGATAGGGACTAGATACATAAGCCACTAAGCATAATAAGGCATGCATGTACATAATGATGT
15657402 CAGGGACTATG
131 CAGGGACTATG
* * * *
15657413 TACATTGTGATGTTGGGGACATAGTATAATAGTACACATATAATAAGAAGGAATGCATGTAATTT
1 TACATTATGATGTTAGGGACATAATACAATAGTACACATATAATAAGAAGGAATGCATGTAATTT
* *
15657478 CAGTT-ATTAGGGACTAGATACATCA-TCA-TAAGGCATAATAAGGCATGCATGTACATAATGAT
66 CAGTTGA-TAGGGACTAGATACATAAGCCACTAA-GCATAATAAGGCATGCATGTACATAATGAT
*
15657540 GTTAGGGACTA-G
129 GTCAGGGACTATG
* * *
15657552 ATACATTAAT-ATGTTAGGGACGTAATACAATAGTACACATATTAT-AGTAAGGCATGCATGTA
1 -TACATT-ATGATGTTAGGGACATAATACAATAGTACACATATAATAAG-AAGGAATGCATGTA
15657614 CATTGTGATG
Statistics
Matches: 172, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
139 5 0.03
140 88 0.51
141 79 0.46
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.31
Consensus pattern (141 bp):
TACATTATGATGTTAGGGACATAATACAATAGTACACATATAATAAGAAGGAATGCATGTAATTT
CAGTTGATAGGGACTAGATACATAAGCCACTAAGCATAATAAGGCATGCATGTACATAATGATGT
CAGGGACTATG
Found at i:15657775 original size:141 final size:141
Alignment explanation
Indices: 15657609--15657918 Score: 390
Period size: 141 Copynumber: 2.2 Consensus size: 141
15657599 TAAGGCATGC
* * * * *
15657609 ATGTACATTGTGATGTCAGGGACATATTATAATGGTACACATATCATAA-AAGGGAATGCATATA
1 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACACATACCATAAGAA-GGAATGCATACA
* * *
15657673 ATTTGAGTTAGTAGGGACTATGTAC-GTAGGTCACATATCATAATAAGGCATGCATGCACATTTT
65 ATTTGAGTTAGTAGGAACTATGTACAG-AAGTCACATATCATAATAAGGCATGCATGCACATGTT
*
15657737 GATGTTAGAGATT
129 GATGTTAGAGACT
* * *
15657750 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTATACATACCATAAGAAGGAATGCGTGCAA
1 ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACACATACCATAAGAAGGAATGCATACAA
** * * * *
15657815 TTTGAGTTAGTTTGAACTATGTACAGAAGTCGCATATCATGATAAGGCGTGCATGTACATGTTGA
66 TTTGAGTTAGTAGGAACTATGTACAGAAGTCACATATCATAATAAGGCATGCATGCACATGTTGA
*
15657880 TGTTAGGGACT
131 TGTTAGAGACT
* * *
15657891 ATGTACATTATGATCTTAGGAACATAGT
1 ATGTACATTGTGATGTTAGGGACATAGT
15657919 TGTTAGGCTC
Statistics
Matches: 145, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
141 142 0.98
142 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (141 bp):
ATGTACATTGTGATGTTAGGGACATAGTATAATAGTACACATACCATAAGAAGGAATGCATACAA
TTTGAGTTAGTAGGAACTATGTACAGAAGTCACATATCATAATAAGGCATGCATGCACATGTTGA
TGTTAGAGACT
Found at i:15661953 original size:22 final size:23
Alignment explanation
Indices: 15661924--15661971 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
15661914 GTTTTGAATC
15661924 TTTATTGTTTTT-A-TTCCTTTT
1 TTTATTGTTTTTCATTTCCTTTT
*
15661945 TTTAGTTGTTTTTCATTTTCTTTT
1 TTTA-TTGTTTTTCATTTCCTTTT
15661969 TTT
1 TTT
15661972 TTTCTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 1 0.04
24 10 0.43
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTATTGTTTTTCATTTCCTTTT
Found at i:15678182 original size:25 final size:25
Alignment explanation
Indices: 15678154--15678202 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
15678144 TACAGTCCAT
*
15678154 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGTAGTCTCAGGATATACTAC
*
15678179 CTATAGTAGTTTCAGGATATACTA
1 CTATAGTAGTCTCAGGATATACTA
15678203 TCAAAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (25 bp):
CTATAGTAGTCTCAGGATATACTAC
Found at i:15689072 original size:64 final size:64
Alignment explanation
Indices: 15688999--15689350 Score: 193
Period size: 67 Copynumber: 5.4 Consensus size: 64
15688989 GTTGATACTA
* * *
15688999 TTAATGTTAGCTTATTTAAGATCGCAACCTAAGTTCATTTGATTTAATATCATCAACAATTTTAT
1 TTAA-GTTAGCTTATTTAAGATCACAACCTAAATTCATTTGATTTAAGATCATCAACAATTTTAT
* * * ** * * * * ** *
15689064 TTGAGTTAGCTGATTTAATATCGTAACTTCGAACAACTCA-CTGATTTAAGATC-GCATATGATG
1 TTAAGTTAGCTTATTTAAGATCACAAC--C-TA-AATTCATTTGATTTAAGATCATCA-ACAATT
15689127 TTA-
61 TTAT
* * * ** *
15689130 TTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTAAGATCATGGAGAATTTTAT
1 TTAA-GTTAGCTTATTTAAGATCACAACCTAAATTCATTTGATTTAAGATCATCAACAATTTTAT
* * * * * *
15689195 TTAAGTTAG-TTGATTTAAGATTACAACTCCGAACAACTCA-TTGATTTAATAT--TGCAGCTGA
1 TTAAGTTAGCTT-ATTTAAGATCACAA--CC-TA-AATTCATTTGATTTAAGATCAT-CAAC-AA
*
15689256 TATTA-
59 TTTTAT
* * *
15689261 TTAACATTAGCTTA-TTAAGATCACAACCTAAGTTCATTTGATTT-AGATCATGAACAATTTTAT
1 TTAA-GTTAGCTTATTTAAGATCACAACCTAAATTCATTTGATTTAAGATCATCAACAATTTTAT
* * *
15689324 TTGAGTTAGCTGATTTAAGATCGCAAC
1 TTAAGTTAGCTTATTTAAGATCACAAC
15689351 TCTGAACAGC
Statistics
Matches: 210, Mismatches: 54, Indels: 48
0.67 0.17 0.15
Matches are distributed among these distances:
62 19 0.09
63 31 0.15
64 58 0.28
65 9 0.04
66 23 0.11
67 59 0.28
68 11 0.05
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (64 bp):
TTAAGTTAGCTTATTTAAGATCACAACCTAAATTCATTTGATTTAAGATCATCAACAATTTTAT
Found at i:15689158 original size:131 final size:131
Alignment explanation
Indices: 15688915--15689582 Score: 644
Period size: 131 Copynumber: 5.1 Consensus size: 131
15688905 CTATTTTATC
* * * * * * *
15688915 TATCATGAACAATTTTATTTAAGATAACTGATTTAAGATCACAACTCCGAATAGCTCGCTGATTT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
* * * * ** *
15688980 AATATCGTAGTTGATACTATTAATGTTAGCTTATTTAAGATCGCAACCTAAGTTCATTTGATTTA
66 AAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTTA
15689045 A
131 A
* * * *
15689046 TATCATCAACAATTTTATTTGAGTTAGCTGATTTAATATCGTAACTTCGAACAACTCACTGATTT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
** * * * *
15689111 AAGATCGCATATGATGTTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTA
66 AAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTTA
15689176 A
131 A
* * * * ** * *
15689177 GATCATGGAGAATTTTATTTAAGTTAGTTGATTTAAGATTACAACTCCGAACAACTCATTGATTT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
* *
15689242 AATATTGCAGCTGATATTATTAACATTAGCTTA-TTAAGATCACAACCTAAGTTCATTTGATTT-
66 AAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTTA
15689305 A
131 A
* * * *
15689306 GATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAAC-TCTGAACAGCTCGCTGATT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTC-GAACAACTCACTGATT
* * ** * * *** *
15689370 TAAGATCGTAGCTGGTATTATTAAGGTTAGCTGATTTAATATTGTAACCTATGTTCATTTGATTT
65 TAAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTT
15689435 AA
130 AA
** * * * * * * * * ***
15689437 TATCATGATTAATTTTATTTTAGCTAGTTGATTTAAGATTGTAACTTCTAATAGCTTGTTGATTT
1 TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
* ** ** * * *
15689502 AATATCATAGCTGATATTATTAAGGTT--CATTGGTTTAAGATCGCAACCTATGTTCATTTGATT
66 AAGATCGCAGCTGATATTATTAACATTAGC-TT-ATTTAAGATCACAACCTAAGTTCATTTGATT
15689565 TAA
129 TAA
*
15689568 GATCATGAACAATTT
1 TATCATGAACAATTT
15689583 CTCTCGTGTT
Statistics
Matches: 443, Mismatches: 88, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
128 1 0.00
129 81 0.18
130 54 0.12
131 305 0.69
132 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (131 bp):
TATCATGAACAATTTTATTTAAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
AAGATCGCAGCTGATATTATTAACATTAGCTTATTTAAGATCACAACCTAAGTTCATTTGATTTA
A
Found at i:15689409 original size:260 final size:261
Alignment explanation
Indices: 15688916--15689582 Score: 797
Period size: 260 Copynumber: 2.6 Consensus size: 261
15688906 TATTTTATCT
* ** * *
15688916 ATCATGAACAATTTTATTTAAGATAACTGATTTAAGATCACAACTCCGAATAGCTCGCTGATTTA
1 ATCATGGACAATTTTATTTAAGATAGTTGATTTAAGATTACAACTCCGAATAGCTCGTTGATTTA
* * **
15688981 ATATCGTAGTTGATACTATTAATGTTAGCTTATTTAAGATCGCAACCTAAGTTCATTTGATTTAA
66 ATATCGTAGCTGATATTATTAACATTAGCTTA-TTAAGATCGCAACCTAAGTTCATTTGATTTAA
* * * *
15689046 TATCATCAACAATTTTATTTGAGTTAGCTGATTTAATATCGTAACTTCGAACAACTCACTGATTT
130 GATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTT
* *
15689111 AAGATCGCATATGATGTTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTA
195 AAGATCGCAGATGATATTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTA
15689176 AG
260 AG
* * * * *
15689178 ATCATGGAGAATTTTATTTAAGTTAGTTGATTTAAGATTACAACTCCGAACAACTCATTGATTTA
1 ATCATGGACAATTTTATTTAAGATAGTTGATTTAAGATTACAACTCCGAATAGCTCGTTGATTTA
* * *
15689243 ATATTGCAGCTGATATTATTAACATTAGCTTATTAAGATCACAACCTAAGTTCATTTGATTT-AG
66 ATATCGTAGCTGATATTATTAACATTAGCTTATTAAGATCGCAACCTAAGTTCATTTGATTTAAG
* *
15689307 ATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAAC-TCTGAACAGCTCGCTGATTT
131 ATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTTC-GAACAACTCACTGATTT
* * * ** * *** **
15689371 AAGATCGTAGCTGGTATTATTAAGGTTAGCTGATTTAATATTGTAACCTATGTTCATTTGATTTA
195 AAGATCGCAGATGATATTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTA
*
15689436 AT
260 AG
* * * ** * * *
15689438 ATCAT-GATTAATTTTATTTTAGCTAGTTGATTTAAGATTGTAACTTCTAATAGCTTGTTGATTT
1 ATCATGGA-CAATTTTATTTAAGATAGTTGATTTAAGATTACAACTCCGAATAGCTCGTTGATTT
* * *
15689502 AATATCATAGCTGATATTATTAAGGTTCATT-G-GT-TTAAGATCGCAACCTATGTTCATTTGAT
65 AATATCGTAGCTGATATTATTAA----CATTAGCTTATTAAGATCGCAACCTAAGTTCATTTGAT
15689564 TTAAGATCATGAACAATTT
126 TTAAGATCATGAACAATTT
15689583 CTCTCGTGTT
Statistics
Matches: 344, Mismatches: 54, Indels: 14
0.83 0.13 0.03
Matches are distributed among these distances:
259 4 0.01
260 180 0.52
261 57 0.17
262 98 0.28
263 1 0.00
264 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (261 bp):
ATCATGGACAATTTTATTTAAGATAGTTGATTTAAGATTACAACTCCGAATAGCTCGTTGATTTA
ATATCGTAGCTGATATTATTAACATTAGCTTATTAAGATCGCAACCTAAGTTCATTTGATTTAAG
ATCATGAACAATTTTATTTGAGTTAGCTGATTTAAGATCGCAACTTCGAACAACTCACTGATTTA
AGATCGCAGATGATATTATTAACATTAGCTAATTTAATATCACAACCTAAATTCATTTGATTTAA
G
Found at i:15691222 original size:27 final size:28
Alignment explanation
Indices: 15691136--15691211 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
15691126 ATGACATAAA
15691136 TGAAAAGAATAGCCTTTATGGCGAACTC
1 TGAAAAGAATAGCCTTTATGGCGAACTC
*
15691164 TGAAAAGAATAGCCTTTATGGCGAACTT
1 TGAAAAGAATAGCCTTTATGGCGAACTC
* *
15691192 TGAAAGGGAT-GCCTTTATGG
1 TGAAAAGAATAGCCTTTATGG
15691212 AAAAATCTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 10 0.22
28 35 0.78
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (28 bp):
TGAAAAGAATAGCCTTTATGGCGAACTC
Found at i:15696022 original size:10 final size:10
Alignment explanation
Indices: 15696007--15696031 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15695997 TTTATATATA
15696007 TTTTAGATTT
1 TTTTAGATTT
15696017 TTTTAGATTT
1 TTTTAGATTT
15696027 TTTTA
1 TTTTA
15696032 AGAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
TTTTAGATTT
Found at i:15696063 original size:26 final size:26
Alignment explanation
Indices: 15696034--15696083 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
15696024 TTTTTTTAAG
*
15696034 AATTTATTTTAAA-ATTTAAAATTTGA
1 AATTT-TTATAAATATTTAAAATTTGA
*
15696060 AATTTTTATAAATATTTTAAATTT
1 AATTTTTATAAATATTTAAAATTT
15696084 TAAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
AATTTTTATAAATATTTAAAATTTGA
Found at i:15705081 original size:133 final size:133
Alignment explanation
Indices: 15704843--15705109 Score: 489
Period size: 133 Copynumber: 2.0 Consensus size: 133
15704833 ATATTCTACT
* * **
15704843 AGAGGTGTCAATTATAGTATTCTAGCAATTTAACAAAAACACATAAAAACTCAATCAAATTGGAA
1 AGAGGTGCCAATTATAGTATTCTAGAAATTTAACAAAAACACATAAAAACTCAATCAAATCAGAA
*
15704908 ATAATACTCAACTAATAATCAATTAAATAATTAATTTATACACAAATATTCATGAAAGCCCAAAT
66 ATAATACTCAACTAATAATCAATTAAATAATAAATTTATACACAAATATTCATGAAAGCCCAAAT
15704973 ATC
131 ATC
15704976 AGAGGTGCCAATTATAGTATTCTAGAAATTTAACAAAAACACATAAAAACTCAATCAAATCAGAA
1 AGAGGTGCCAATTATAGTATTCTAGAAATTTAACAAAAACACATAAAAACTCAATCAAATCAGAA
15705041 ATAATACTCAACTAATAATCAATTAAATAATAAATTTATACACAAATATTCATGAAAGCCCAAAT
66 ATAATACTCAACTAATAATCAATTAAATAATAAATTTATACACAAATATTCATGAAAGCCCAAAT
15705106 ATC
131 ATC
15705109 A
1 A
15705110 ATCTCATTAG
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 129 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.27
Consensus pattern (133 bp):
AGAGGTGCCAATTATAGTATTCTAGAAATTTAACAAAAACACATAAAAACTCAATCAAATCAGAA
ATAATACTCAACTAATAATCAATTAAATAATAAATTTATACACAAATATTCATGAAAGCCCAAAT
ATC
Found at i:15705906 original size:22 final size:21
Alignment explanation
Indices: 15705872--15705934 Score: 54
Period size: 23 Copynumber: 2.9 Consensus size: 21
15705862 TTAACATTTT
* *
15705872 AAAATATATAAAATTAAACGA
1 AAAATAAAAAAAATTAAACGA
* *
15705893 AGAAATAAGAAAAATTGAAAACGC
1 A-AAATAAAAAAAATT--AAACGA
*
15705917 AAATTAAAAAAAATTAAA
1 AAAATAAAAAAAATTAAA
15705935 AAAAATCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 4 0.12
22 11 0.33
23 12 0.36
24 6 0.18
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.19
Consensus pattern (21 bp):
AAAATAAAAAAAATTAAACGA
Found at i:15714426 original size:17 final size:17
Alignment explanation
Indices: 15714401--15714434 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15714391 AACTGTTTGG
15714401 GGGGATTTTTTACTCGT
1 GGGGATTTTTTACTCGT
* *
15714418 GGGGTTTTTTTCCTCGT
1 GGGGATTTTTTACTCGT
15714435 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.15, G:0.29, T:0.50
Consensus pattern (17 bp):
GGGGATTTTTTACTCGT
Found at i:15714564 original size:31 final size:32
Alignment explanation
Indices: 15714522--15714591 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
15714512 TTATAAAAGC
*
15714522 GTCACTGAATTA-TTCGAAA-ATTTTCATTTAA
1 GTCACTAAATTACTT-GAAACATTTTCATTTAA
* *
15714553 GTCACTAAATTACTTGAAACTTTTTTATTTAA
1 GTCACTAAATTACTTGAAACATTTTCATTTAA
*
15714585 GTAACTA
1 GTCACTA
15714592 GAATGTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (32 bp):
GTCACTAAATTACTTGAAACATTTTCATTTAA
Found at i:15717307 original size:13 final size:13
Alignment explanation
Indices: 15717289--15717314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15717279 ATTTTTTAGG
15717289 TCATTTTCATTTT
1 TCATTTTCATTTT
15717302 TCATTTTCATTTT
1 TCATTTTCATTTT
15717315 GGAAAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:15718657 original size:12 final size:12
Alignment explanation
Indices: 15718642--15718668 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15718632 TTTAAACTAT
15718642 TTTTTATTTTAG
1 TTTTTATTTTAG
15718654 TTTTTATTTTAG
1 TTTTTATTTTAG
15718666 TTT
1 TTT
15718669 CGTAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTATTTTAG
Found at i:15719146 original size:240 final size:241
Alignment explanation
Indices: 15718682--15719261 Score: 740
Period size: 240 Copynumber: 2.4 Consensus size: 241
15718672 AAATATTATA
* * *
15718682 CATGTGTTATTA-TTATTAGTTTCAAA-TATTACATTTCATTATTTATGTTATGTTATTTATAAA
1 CATGTGTTATTATTTATTAGTTTCAAACCA-TA-ATTTCATTATTTATTTTATGTTATTTTTAAA
* * ** * *
15718745 TACA-ACTATGCAATCTAAATATGTGGTTTTCACATGCATACGCATGTGATAGAATTTCTAGTAT
64 CACACA-TTTGCGTTCTAAATTTGTGG-TTTC-CAT-CATA-GCATGTGATAGAATTTCTAGAAT
* * *
15718809 TAATAATGTATTTGATTGAGTTGGTGCCACAAGTTAACTCGGCACCAGCTCAAGATTGACGACAG
124 TAACAATGTATTTGATTGAGTTGGTGCCACAAGTTAACTCAGCACCAGCTCAAGATTGACGACAA
* * * * * **
15718874 TACTATGATTAACAGTTTAATCAAAATTTTTCATTTTAATATTTTACATATTT
189 CACCATGATAAACAATTAAATCAAAATTTTTCATTTTAATATCATACATATTT
*
15718927 CATGTGTTATTATTTATTAGTTTCAAACCATATATTTCATTAGTTATTTTATGTTATTTTTAAAC
1 CATGTGTTATTATTTATTAGTTTCAAACCATA-ATTTCATTATTTATTTTATGTTATTTTTAAAC
*
15718992 ACACATTTGCGTTCCAAATTTGTGGTTTCCAT-AT-GCATGTGATAGAATTTCTAGAATTAACAA
65 ACACATTTGCGTTCTAAATTTGTGGTTTCCATCATAGCATGTGATAGAATTTCTAGAATTAACAA
* *
15719055 TGTATTTGATTGAGTTGGTGTCACAAGTTAACTCAGCACC-GACTCAAGATTGATGACAACACCA
130 TGTATTTGATTGAGTTGGTGCCACAAGTTAACTCAGCACCAG-CTCAAGATTGACGACAACACCA
* **
15719119 TGATAAACAATTAAATTAATTTTTTTCATTTTAATATCATACATATTT
194 TGATAAACAATTAAATCAAAATTTTTCATTTTAATATCATACATATTT
* * * *
15719167 CGTGTGTTATTATTAATTAGTTTCAAACCATAGTTTCATTATTTATTTGATGTTATTTTTAAACA
1 CATGTGTTATTATTTATTAGTTTCAAACCATAATTTCATTATTTATTTTATGTTATTTTTAAACA
* * *
15719232 TACATTTGTGTTCTAAATTTGTGTTTTCCA
66 CACATTTGCGTTCTAAATTTGTGGTTTCCA
15719262 CGTGTGTAAT
Statistics
Matches: 295, Mismatches: 36, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
239 57 0.19
240 153 0.52
242 2 0.01
244 3 0.01
245 16 0.05
246 62 0.21
247 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (241 bp):
CATGTGTTATTATTTATTAGTTTCAAACCATAATTTCATTATTTATTTTATGTTATTTTTAAACA
CACATTTGCGTTCTAAATTTGTGGTTTCCATCATAGCATGTGATAGAATTTCTAGAATTAACAAT
GTATTTGATTGAGTTGGTGCCACAAGTTAACTCAGCACCAGCTCAAGATTGACGACAACACCATG
ATAAACAATTAAATCAAAATTTTTCATTTTAATATCATACATATTT
Found at i:15720916 original size:42 final size:42
Alignment explanation
Indices: 15720869--15721074 Score: 171
Period size: 42 Copynumber: 4.9 Consensus size: 42
15720859 AGCATCATCC
* * *
15720869 CTTAAGCTCGCATGGGGAGCTTCGCTGATACATAGCTTGTCA
1 CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTTATCA
* * * *
15720911 CTTAAGCTCACGTGGGGAGCTTCGTTGACACATAAGTTATCA
1 CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTTATCA
* * * * * *
15720953 ATTAAACTCACATAGGGAG-TGTCGTTGATACACAACCTATCA
1 CTTAAGCTCACATGGGGAGCT-TCGCTGATACATAACTTATCA
** * * * * * *
15720995 CTTAAGCTCATGTAGAGAGCTTCCCTGATACACAACTTCTCC
1 CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTTATCA
* ** *
15721037 CTTAAGCTCACGTTAGGAGCTTCACTGATACATAACTT
1 CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTT
15721075 GTAAAACCAT
Statistics
Matches: 131, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
41 1 0.01
42 129 0.98
43 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
CTTAAGCTCACATGGGGAGCTTCGCTGATACATAACTTATCA
Found at i:15734315 original size:26 final size:26
Alignment explanation
Indices: 15734279--15734354 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
15734269 TCTTATCCCT
*
15734279 ATTTTACCCTTAGCAAAATTTTGACA
1 ATTTTACCCTTAGTAAAATTTTGACA
* * *
15734305 ATTTTACCCTTAATAAAATTTTAACG
1 ATTTTACCCTTAGTAAAATTTTGACA
*
15734331 ATTTTAACCC-TGGTAAAATTTTGA
1 ATTTT-ACCCTTAGTAAAATTTTGA
15734355 GAAAATATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 38 0.90
27 4 0.10
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.41
Consensus pattern (26 bp):
ATTTTACCCTTAGTAAAATTTTGACA
Found at i:15736066 original size:10 final size:10
Alignment explanation
Indices: 15736051--15736082 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
15736041 TCTTTATTCA
15736051 ACACACATAC
1 ACACACATAC
15736061 ACACACATAC
1 ACACACATAC
*
15736071 ACACACACAC
1 ACACACATAC
15736081 AC
1 AC
15736083 TTATATACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (10 bp):
ACACACATAC
Found at i:15738895 original size:23 final size:23
Alignment explanation
Indices: 15738868--15738915 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
15738858 GGGACCTAAA
15738868 TAAGTTAATTAATGATTCAAGTT
1 TAAGTTAATTAATGATTCAAGTT
15738891 TAAGTTAATTAATGATTCAAGTT
1 TAAGTTAATTAATGATTCAAGTT
15738914 TA
1 TA
15738916 TCATATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (23 bp):
TAAGTTAATTAATGATTCAAGTT
Found at i:15739732 original size:39 final size:39
Alignment explanation
Indices: 15739678--15739756 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
15739668 TTGCATAGGT
*
15739678 GATTTGTATTGAGAATTTTAGCATTTAAACTATTCATTA
1 GATTTGTATTGAGAATTTGAGCATTTAAACTATTCATTA
*
15739717 GATTTGTATTGAGAATTTGAGCATTTAATCTATTCATTA
1 GATTTGTATTGAGAATTTGAGCATTTAAACTATTCATTA
15739756 G
1 G
15739757 GAATCTGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.46
Consensus pattern (39 bp):
GATTTGTATTGAGAATTTGAGCATTTAAACTATTCATTA
Found at i:15742749 original size:9 final size:9
Alignment explanation
Indices: 15742735--15742765 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15742725 GTTAAACGAA
15742735 TCGAGTTAT
1 TCGAGTTAT
*
15742744 TCGAGTTAA
1 TCGAGTTAT
15742753 TCGAGTTAT
1 TCGAGTTAT
15742762 TCGA
1 TCGA
15742766 ATCAACTCNN
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15753436 original size:18 final size:18
Alignment explanation
Indices: 15753397--15753430 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15753387 AGAAGTTGTG
15753397 ATAATTACATATTTAAAA
1 ATAATTACATATTTAAAA
*
15753415 ATAATTAGA-ATTTAAA
1 ATAATTACATATTTAAA
15753431 TTATAAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTACATATTTAAAA
Found at i:15753656 original size:9 final size:9
Alignment explanation
Indices: 15753644--15753700 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
15753634 AATTTTTAAA
15753644 AATAATTTT
1 AATAATTTT
15753653 AATAATTTT
1 AATAATTTT
* *
15753662 TATACTTTT
1 AATAATTTT
15753671 CAAATAATTTT
1 --AATAATTTT
*
15753682 AATGATTTT
1 AATAATTTT
*
15753691 TA-AATTTT
1 AATAATTTT
15753699 AA
1 AA
15753701 AAAATTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
8 6 0.16
9 25 0.66
11 7 0.18
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (9 bp):
AATAATTTT
Found at i:15753695 original size:20 final size:20
Alignment explanation
Indices: 15753649--15753695 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
15753639 TTAAAAATAA
*
15753649 TTTT-AATAATTTTTATACT
1 TTTTAAATAATTTTAATACT
*
15753668 TTTCAAATAATTTTAATGA-T
1 TTTTAAATAATTTTAAT-ACT
15753688 TTTTAAAT
1 TTTTAAAT
15753696 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 19 0.83
21 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTAAATAATTTTAATACT
Found at i:15755169 original size:20 final size:20
Alignment explanation
Indices: 15755146--15755189 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
15755136 ATATAAATTC
* * *
15755146 AAAAAATTATAAATTATTTA
1 AAAAAATTAAAAAATATATA
*
15755166 AAAATATTAAAAAATATATA
1 AAAAAATTAAAAAATATATA
15755186 AAAA
1 AAAA
15755190 GCTAAATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAATTAAAAAATATATA
Found at i:15759470 original size:17 final size:17
Alignment explanation
Indices: 15759450--15759610 Score: 74
Period size: 17 Copynumber: 9.4 Consensus size: 17
15759440 TTTAGAGACT
15759450 TCGCAGTTTTGATGAGC
1 TCGCAGTTTTGATGAGC
* *
15759467 TCGCACTATTGGA-GAGC
1 TCGCAGT-TTTGATGAGC
* * * *
15759484 TTGCAGTATTGGTGAGT
1 TCGCAGTTTTGATGAGC
** *
15759501 TCGCACATTTGATAAGC
1 TCGCAGTTTTGATGAGC
* * *
15759518 TCGCAATTTTGGTGAGT
1 TCGCAGTTTTGATGAGC
* * **
15759535 TCACAGATTTGGGGAGC
1 TCGCAGTTTTGATGAGC
* *
15759552 TCGCAGTCTTGAGTGATC
1 TCGCAGTTTTGA-TGAGC
*
15759570 TCGTAGTTTTG-TAGAGC
1 TCGCAGTTTTGAT-GAGC
* ** *
15759587 TCACACATTTGGTGAGC
1 TCGCAGTTTTGATGAGC
15759604 TCGCAGT
1 TCGCAGT
15759611 CTTGCGATTA
Statistics
Matches: 98, Mismatches: 41, Indels: 10
0.66 0.28 0.07
Matches are distributed among these distances:
16 3 0.03
17 78 0.80
18 17 0.17
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (17 bp):
TCGCAGTTTTGATGAGC
Found at i:15759473 original size:34 final size:34
Alignment explanation
Indices: 15759430--15759506 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
15759420 CGCCTAATAT
* *
15759430 AGCTCGCACTTTTAGAGA-CTTCGCAGTTTTGATG
1 AGCTCGCACTATTAGAGAGCTT-GCAGTATTGATG
* *
15759464 AGCTCGCACTATTGGAGAGCTTGCAGTATTGGTG
1 AGCTCGCACTATTAGAGAGCTTGCAGTATTGATG
*
15759498 AGTTCGCAC
1 AGCTCGCAC
15759507 ATTTGATAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 34 0.92
35 3 0.08
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (34 bp):
AGCTCGCACTATTAGAGAGCTTGCAGTATTGATG
Found at i:15759553 original size:34 final size:34
Alignment explanation
Indices: 15759492--15759556 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
15759482 GCTTGCAGTA
* *
15759492 TTGGTGAGTTCGCACATTTGATAAGCTCGCAATT
1 TTGGTGAGTTCACACATTTGAGAAGCTCGCAATT
* * *
15759526 TTGGTGAGTTCACAGATTTGGGGAGCTCGCA
1 TTGGTGAGTTCACACATTTGAGAAGCTCGCA
15759557 GTCTTGAGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (34 bp):
TTGGTGAGTTCACACATTTGAGAAGCTCGCAATT
Found at i:15769158 original size:29 final size:29
Alignment explanation
Indices: 15769121--15769196 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
15769111 AAAAATTAAG
15769121 TATTA-AAAAATATTATAAGTACT-AAAAT
1 TATTATAAAAATATTATAAGTA-TAAAAAT
* * *
15769149 TCA-TATAAAATTATTAAAATTATAAAAAT
1 T-ATTATAAAAATATTATAAGTATAAAAAT
*
15769178 TATTATAAAAAAATTATAA
1 TATTATAAAAATATTATAA
15769197 AAACTTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (29 bp):
TATTATAAAAATATTATAAGTATAAAAAT
Found at i:15769159 original size:11 final size:10
Alignment explanation
Indices: 15769143--15769286 Score: 72
Period size: 9 Copynumber: 14.4 Consensus size: 10
15769133 TTATAAGTAC
15769143 TAAAATTCATA
1 TAAAATT-ATA
15769154 TAAAATTAT-
1 TAAAATTATA
15769163 TAAAATTATA
1 TAAAATTATA
15769173 -AAAATTATTA
1 TAAAATTA-TA
15769183 TAAAAAAATTATA
1 T---AAAATTATA
*
15769196 -AAAACT-TA
1 TAAAATTATA
15769204 TAAAATTA-A
1 TAAAATTATA
*
15769213 TAAAACTTATT
1 TAAAA-TTATA
* *
15769224 TCAAATTTTA
1 TAAAATTATA
*
15769234 AAAAATGTAT-
1 TAAAAT-TATA
* *
15769244 TGAAATTCT-
1 TAAAATTATA
15769253 TAAAAATTATA
1 T-AAAATTATA
*
15769264 -AAAAATAT-
1 TAAAATTATA
15769272 TAAAATTGATA
1 TAAAATT-ATA
15769283 TAAA
1 TAAA
15769287 CCTAAAGAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
8 2 0.02
9 47 0.47
10 26 0.26
11 17 0.17
13 2 0.02
14 7 0.07
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (10 bp):
TAAAATTATA
Found at i:15769184 original size:12 final size:12
Alignment explanation
Indices: 15769167--15769204 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
15769157 AATTATTAAA
15769167 ATTATAAAAATT
1 ATTATAAAAATT
*
15769179 ATTATAAAAA-A
1 ATTATAAAAATT
15769190 ATTATAAAAACTT
1 ATTATAAAAA-TT
15769203 AT
1 AT
15769205 AAAATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 10 0.45
13 2 0.09
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTATAAAAATT
Found at i:15769204 original size:10 final size:10
Alignment explanation
Indices: 15769144--15769208 Score: 60
Period size: 10 Copynumber: 6.2 Consensus size: 10
15769134 TATAAGTACT
*
15769144 AAAATTCATAT
1 AAAATT-ATAA
*
15769155 AAAATTAT-T
1 AAAATTATAA
15769164 AAAATTATAA
1 AAAATTATAA
15769174 AAATTATTATAAA
1 AAA--ATTAT-AA
15769187 AAAATTATAA
1 AAAATTATAA
*
15769197 AAACTTATAA
1 AAAATTATAA
15769207 AA
1 AA
15769209 TTAATAAAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
9 9 0.19
10 18 0.38
11 11 0.23
12 5 0.10
13 5 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTATAA
Found at i:15769828 original size:19 final size:19
Alignment explanation
Indices: 15769804--15769841 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
15769794 TTTTTGATTA
15769804 TTTTT-ATAATATTTTATGG
1 TTTTTAATAAT-TTTTATGG
15769823 TTTTTAATAATTTTTATGG
1 TTTTTAATAATTTTTATGG
15769842 ATAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (19 bp):
TTTTTAATAATTTTTATGG
Found at i:15769973 original size:31 final size:31
Alignment explanation
Indices: 15769935--15769995 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
15769925 GATAAAAACT
*
15769935 GTTAATGAGAGGGGCTTAATTGTTTATTTTA
1 GTTAATGAGAGGGACTTAATTGTTTATTTTA
* * *
15769966 GTTAATGATAGGTACTTAATTGTTTTTTTT
1 GTTAATGAGAGGGACTTAATTGTTTATTTT
15769996 TTTTTTTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.51
Consensus pattern (31 bp):
GTTAATGAGAGGGACTTAATTGTTTATTTTA
Found at i:15770180 original size:22 final size:21
Alignment explanation
Indices: 15770132--15770180 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
15770122 AAAAATTATA
15770132 TTATAAAAATAATTTATGTTC
1 TTATAAAAATAATTTATGTTC
*
15770153 TT-TAAAAA-AATTATATGTATT
1 TTATAAAAATAATT-TATGT-TC
15770174 TTATAAA
1 TTATAAA
15770181 GTTATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 5 0.21
22 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
TTATAAAAATAATTTATGTTC
Found at i:15770281 original size:25 final size:26
Alignment explanation
Indices: 15770252--15770300 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
15770242 TACCATAAAA
*
15770252 TATAATTTATATA-TTACAAAAATGT
1 TATAATATATATATTTACAAAAATGT
* *
15770277 TATAATATATTTATTTATAAAAAT
1 TATAATATATATATTTACAAAAAT
15770301 TACGGTCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TATAATATATATATTTACAAAAATGT
Found at i:15774249 original size:15 final size:16
Alignment explanation
Indices: 15774225--15774254 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15774215 GCATTGGAAC
15774225 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
15774241 TTTTA-TTTATTTTA
1 TTTTATTTTATTTTA
15774255 GTTAGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:15778044 original size:73 final size:72
Alignment explanation
Indices: 15777961--15778099 Score: 206
Period size: 73 Copynumber: 1.9 Consensus size: 72
15777951 ACAACCACGG
* * *
15777961 AAAAAAAATTATGTAACAAATATATAATATCACATCCGTTCCCATATATAACTCAAAACATGCAT
1 AAAAAAAATTATATAAAAAATATATAATATCACATCCATTCCCATATATAACTCAAAACATGCAT
15778026 AGGATGC
66 AGGATGC
* * **
15778033 AAAAAACAATTATATAAAAAATATATAATATCGCATCTATTCTTATATATAACTCAAAACATGCA
1 AAAAAA-AATTATATAAAAAATATATAATATCACATCCATTCCCATATATAACTCAAAACATGCA
15778098 TA
65 TA
15778100 AGATCTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
72 6 0.10
73 53 0.90
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.29
Consensus pattern (72 bp):
AAAAAAAATTATATAAAAAATATATAATATCACATCCATTCCCATATATAACTCAAAACATGCAT
AGGATGC
Found at i:15778194 original size:7 final size:7
Alignment explanation
Indices: 15778182--15778223 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
15778172 TACTTATAGA
15778182 TAGGGTT
1 TAGGGTT
15778189 TAGGGTTT
1 TAGGG-TT
*
15778197 TAAGGTT
1 TAGGGTT
*
15778204 TATGGTT
1 TAGGGTT
15778211 TAGGGTT
1 TAGGGTT
15778218 TAGGGT
1 TAGGGT
15778224 ATGCATAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:15778325 original size:7 final size:7
Alignment explanation
Indices: 15778313--15778354 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
15778303 TACTTATAGA
15778313 TAGGGTT
1 TAGGGTT
15778320 TAGGGTTT
1 TAGGG-TT
*
15778328 TAAGGTT
1 TAGGGTT
*
15778335 TATGGTT
1 TAGGGTT
15778342 TAGGGTT
1 TAGGGTT
15778349 TAGGGT
1 TAGGGT
15778355 ATGCATAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:15778327 original size:131 final size:131
Alignment explanation
Indices: 15778093--15778446 Score: 681
Period size: 131 Copynumber: 2.7 Consensus size: 131
15778083 AACTCAAAAC
15778093 ATGCATAAGATCTAAAAAATGTCACTTTCTATGTAATCAAATCATTCAAGAAGAGAAATTTATTT
1 ATGCATAAGATCTAAAAAATGTCACTTTCTATGTAATCAAATCATTCAAGAAGAGAAATTTATTT
15778158 TGATTATCTATTTATACTTATAGATAGGGTTTAGGGTTTTAAGGTTTATGGTTTAGGGTTTAGGG
66 TGATTATCTATTTATACTTATAGATAGGGTTTAGGGTTTTAAGGTTTATGGTTTAGGGTTTAGGG
15778223 T
131 T
15778224 ATGCATAAGATCTAAAAAATGTCACTTTCTATGTAATCAAATCATTCAAGAAGAGAAATTTATTT
1 ATGCATAAGATCTAAAAAATGTCACTTTCTATGTAATCAAATCATTCAAGAAGAGAAATTTATTT
15778289 TGATTATCTATTTATACTTATAGATAGGGTTTAGGGTTTTAAGGTTTATGGTTTAGGGTTTAGGG
66 TGATTATCTATTTATACTTATAGATAGGGTTTAGGGTTTTAAGGTTTATGGTTTAGGGTTTAGGG
15778354 T
131 T
* *
15778355 ATGCATAAGATCTAAAAAATGTCACTTTCTATGTAATCAAATCATTCAAGAAGAAAAAATTATTT
1 ATGCATAAGATCTAAAAAATGTCACTTTCTATGTAATCAAATCATTCAAGAAGAGAAATTTATTT
*
15778420 TGATTATCTGTTTATACTTATAGATAG
66 TGATTATCTATTTATACTTATAGATAG
15778447 AACATAACCT
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 220 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (131 bp):
ATGCATAAGATCTAAAAAATGTCACTTTCTATGTAATCAAATCATTCAAGAAGAGAAATTTATTT
TGATTATCTATTTATACTTATAGATAGGGTTTAGGGTTTTAAGGTTTATGGTTTAGGGTTTAGGG
T
Found at i:15779449 original size:19 final size:19
Alignment explanation
Indices: 15779411--15779450 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15779401 AAAATATCAT
*
15779411 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGACTTG
* *
15779430 ATTAATTTTATTTTACTTG
1 ATTAATTTTAATTGACTTG
15779449 AT
1 AT
15779451 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTGACTTG
Found at i:15790495 original size:24 final size:24
Alignment explanation
Indices: 15790452--15790497 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15790442 GGGAAAATCT
* * *
15790452 AGTATTTTTCTTGTACAAAATAAA
1 AGTATTTTTCTGGAAAAAAATAAA
15790476 AGTATTTTTCTGGAAAAAAATA
1 AGTATTTTTCTGGAAAAAAATA
15790498 TTGCTATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (24 bp):
AGTATTTTTCTGGAAAAAAATAAA
Found at i:15795301 original size:259 final size:258
Alignment explanation
Indices: 15794843--15795360 Score: 867
Period size: 259 Copynumber: 2.0 Consensus size: 258
15794833 AATGGAAGTG
* * *
15794843 ATGTTTAGTTAGTCTTTGGTACAAAGATTAAATCGAATAGATTGAAAAACTTAAGATTGACAACC
1 ATGTTTAGTTAGTCTTTGATACAAAGATTAAATCGAATAGATTGAAAAACTCAAGACTGACAACC
*
15794908 TAAGGGAAAATCAAGATAAGTGAGATCGAGAGGTAATCTTATTGGGCACCAATTCATTAGTCCCA
66 TAAGGGAAAATCAAGATAAGTGAGATCGAGAGATAATCTTATTGGGCACCAATTCATTAGTCCCA
**
15794973 GGTTAGCCAGTGAGATCGAGAGATAAATTGGACTAATTTGTCTAATTTGGTAAAGTTGAGACCGA
131 GGTTAGCCAGTGAGATCGAGAGATAAATCAGACTAATTTGTCTAATTTGGTAAAGTTGAGACCGA
* * *
15795038 GAGGTAAAATTAAATCAATTTAGGAGTGTTAGCAATTTAGATCCCTAATTCAAGGTTTAATTA
196 GAGGTAAAATTAAATCAATTTAGAAGTCTTAGCAATTTAGATCACTAATTCAAGGTTTAATTA
*
15795101 ATGTTTAGTTAGTCTTTGATACAAGGATTAAATCGAATAGACTT-AAAAACTCAAGACTGACAAC
1 ATGTTTAGTTAGTCTTTGATACAAAGATTAAATCGAATAGA-TTGAAAAACTCAAGACTGACAA-
15795165 CCTAAGGGAAAATCAAGATAAGTGAGATCGAGAGATAATCTTATTGGGCACCAATTCATTAGTCC
64 CCTAAGGGAAAATCAAGATAAGTGAGATCGAGAGATAATCTTATTGGGCACCAATTCATTAGTCC
* * * * **
15795230 CAGGTTGGCCAGTGAGATTGAGAGATAAATCAGACTAATTTGTCTAATTTTGTATAGTTGAGATT
129 CAGGTTAGCCAGTGAGATCGAGAGATAAATCAGACTAATTTGTCTAATTTGGTAAAGTTGAGACC
15795295 GAGAGGTAAAATTAAATCAATTTAGAAGTCTTAGCAATTTAGATCACTAATTCAAGGTTTAATTA
194 GAGAGGTAAAATTAAATCAATTTAGAAGTCTTAGCAATTTAGATCACTAATTCAAGGTTTAATTA
15795360 A
1 A
15795361 CAACATCGAA
Statistics
Matches: 242, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
258 56 0.23
259 186 0.77
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (258 bp):
ATGTTTAGTTAGTCTTTGATACAAAGATTAAATCGAATAGATTGAAAAACTCAAGACTGACAACC
TAAGGGAAAATCAAGATAAGTGAGATCGAGAGATAATCTTATTGGGCACCAATTCATTAGTCCCA
GGTTAGCCAGTGAGATCGAGAGATAAATCAGACTAATTTGTCTAATTTGGTAAAGTTGAGACCGA
GAGGTAAAATTAAATCAATTTAGAAGTCTTAGCAATTTAGATCACTAATTCAAGGTTTAATTA
Found at i:15801598 original size:12 final size:12
Alignment explanation
Indices: 15801557--15801601 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
15801547 AGTCTCATGA
*
15801557 TCTTTACTTTCT
1 TCTTTACTTACT
15801569 TCTTTACTTAC-
1 TCTTTACTTACT
15801580 TC--T-CTTACT
1 TCTTTACTTACT
15801589 TCTTTACTTACT
1 TCTTTACTTACT
15801601 T
1 T
15801602 GCTTAGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
8 5 0.18
9 3 0.11
11 3 0.11
12 17 0.61
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTTTACTTACT
Found at i:15806162 original size:183 final size:182
Alignment explanation
Indices: 15805850--15806214 Score: 527
Period size: 183 Copynumber: 2.0 Consensus size: 182
15805840 TTAGAGTCAA
*
15805850 GTTCAAAACTCGGATTGTGATTTTGGGTTCACATTTTTATAAAAATGTTTTAAATGAATTGTATT
1 GTTCAAAACTCGGAGTGTGATTTTGGGTTCACATTTTTATAAAAATGTTTTAAATGAATTGTATT
* * * *
15805915 TCTGAGTAATTCTAAAAAATGAGTTTATGAAAATCATGAGTCCCTGGTGCTGGTCCTGTAAGTAC
66 TCTAAGTAATTCTAAAAAATGAGTTTATGAAAATCACGAGTCCCAGGT-CTGATCCTGTAAGTAC
* *
15805980 TTATGCCTTAGCTAAACTTTTAGTTTAGAAAAGCACTATGATACCAGAGTTAG
130 TTATACCTTAGCTAAACTTTTAGTTTAGAAAAACACTATGATACCAGAGTTAG
* * *
15806033 GTTCAAAACTTGGAGTGTGATTTTTGGGTTCACATTTTTATGAAAATGTTTTGAATGAATTGTAT
1 GTTCAAAACTCGGAGTGTGA-TTTTGGGTTCACATTTTTATAAAAATGTTTTAAATGAATTGTAT
* * *
15806098 TTTTAAGTAATTCT-GAAAATGAGTTTATGAAAATCCCGAGTCTCCAGCGT-TGATCCTGTAAGT
65 TTCTAAGTAATTCTAAAAAATGAGTTTATGAAAATCACGAGTC-CCAG-GTCTGATCCTGTAAGT
* * **
15806161 ACTTCTACCTTAGCTAAACTTTTAGTTTAGAAAAATACTATGATATTAGAGTTA
128 ACTTATACCTTAGCTAAACTTTTAGTTTAGAAAAACACTATGATACCAGAGTTA
15806215 CTCTGTTGTA
Statistics
Matches: 162, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
183 103 0.64
184 57 0.35
185 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (182 bp):
GTTCAAAACTCGGAGTGTGATTTTGGGTTCACATTTTTATAAAAATGTTTTAAATGAATTGTATT
TCTAAGTAATTCTAAAAAATGAGTTTATGAAAATCACGAGTCCCAGGTCTGATCCTGTAAGTACT
TATACCTTAGCTAAACTTTTAGTTTAGAAAAACACTATGATACCAGAGTTAG
Found at i:15812748 original size:19 final size:20
Alignment explanation
Indices: 15812714--15812751 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15812704 TTCTCATGGA
*
15812714 CTGTTTTTAGACTTTTGGGT
1 CTGTTTTTAGAATTTTGGGT
15812734 CTGTTTTTA-AATTTTGGG
1 CTGTTTTTAGAATTTTGGG
15812752 ATTTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.13, C:0.08, G:0.24, T:0.55
Consensus pattern (20 bp):
CTGTTTTTAGAATTTTGGGT
Found at i:15814914 original size:9 final size:9
Alignment explanation
Indices: 15814900--15814953 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
15814890 TGATATGGAT
15814900 TTATAAAAA
1 TTATAAAAA
15814909 TTATAAAAA
1 TTATAAAAA
15814918 TTATAAAAA
1 TTATAAAAA
*
15814927 -AACTAATAAA
1 TTA-TAA-AAA
15814937 TTAT-AAAA
1 TTATAAAAA
15814945 TTAATAAAA
1 TT-ATAAAA
15814954 CATATTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 6 0.16
9 24 0.63
10 7 0.18
11 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:15814974 original size:21 final size:22
Alignment explanation
Indices: 15814940--15814988 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
15814930 TAATAAATTA
15814940 TAAAA-TTAAT-AAAACATATT
1 TAAAATTTAATAAAAACATATT
*
15814960 TAAAATTTTATAAAAACATATT
1 TAAAATTTAATAAAAACATATT
15814982 TAAAATT
1 TAAAATT
15814989 CTCTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 5 0.19
21 4 0.15
22 17 0.65
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAATTTAATAAAAACATATT
Found at i:15814978 original size:22 final size:22
Alignment explanation
Indices: 15814950--15814997 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
15814940 TAAAATTAAT
*
15814950 AAAACATATTTAAAATTTTATA
1 AAAACATATTTAAAATTCTATA
*
15814972 AAAACATATTTAAAATTCTCTA
1 AAAACATATTTAAAATTCTATA
15814994 AAAA
1 AAAA
15814998 TCCATAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAACATATTTAAAATTCTATA
Found at i:15816262 original size:17 final size:18
Alignment explanation
Indices: 15816232--15816265 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15816222 GTACATCATT
15816232 TAATTTATAGCATAATAA
1 TAATTTATAGCATAATAA
15816250 TAATTTA-AGCATAATA
1 TAATTTATAGCATAATA
15816266 TAAAGAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
TAATTTATAGCATAATAA
Found at i:15818097 original size:26 final size:27
Alignment explanation
Indices: 15818049--15818111 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
15818039 ATATATGATT
15818049 GAAATACCCCCATAGGGTAAAATAACC
1 GAAATACCCCCATAGGGTAAAATAACC
15818076 GAAATACCCCCATAGGGT-AAATAACC
1 GAAATACCCCCATAGGGTAAAATAACC
15818102 GAAATACCCC
1 GAAATACCCC
15818112 TAGGAGATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 18 0.50
27 18 0.50
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATAACC
Done.