Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 317 of 444
Found at i:91518283 original size:25 final size:24
Alignment explanation
Indices: 91518233--91518295 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
91518223 CATGTTATCT
*
91518233 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
91518259 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
91518284 TACATATTTTTT
1 TATGTATTTTTT
91518296 TTATATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:91518385 original size:25 final size:24
Alignment explanation
Indices: 91518357--91518412 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
91518347 GTTATATTTT
*
91518357 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
91518382 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
91518405 CACTATTA
1 CACTATTA
91518413 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:91519368 original size:141 final size:141
Alignment explanation
Indices: 91519114--91519395 Score: 528
Period size: 141 Copynumber: 2.0 Consensus size: 141
91519104 TAGACCAAAG
*
91519114 GCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAAAGGTGATCCGATCACACCTGATAAAA
1 GCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAAAGGTGATCCGATCACACCTAATAAAA
*
91519179 GATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAATAAAGTCGATCCCCGTTTTCAAAAGAA
66 GATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAACAAAGTCGATCCCCGTTTTCAAAAGAA
91519244 TGGTTTCGACA
131 TGGTTTCGACA
*
91519255 GCCCTGTTTTAGTAAACTAAGATTGATTTATTAAAACAAAGGTGATCCGATCACACCTAATAAAA
1 GCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAAAGGTGATCCGATCACACCTAATAAAA
*
91519320 GATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAACAAAGTCGATCCCCGTTTTCAAAAGAA
66 GATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAACAAAGTCGATCCCCGTTTTCAAAAGAA
91519385 TGGTTTCGACA
131 TGGTTTCGACA
91519396 AACTAATAGT
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 137 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (141 bp):
GCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAAAGGTGATCCGATCACACCTAATAAAA
GATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAACAAAGTCGATCCCCGTTTTCAAAAGAA
TGGTTTCGACA
Found at i:91522839 original size:31 final size:31
Alignment explanation
Indices: 91522801--91522863 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
91522791 AATCAGAGTA
91522801 AAAATACTTTTACAACCCTTAAAATGAATTT
1 AAAATACTTTTACAACCCTTAAAATGAATTT
91522832 AAAATACTTTTACAACCCTTAAAATGAATTT
1 AAAATACTTTTACAACCCTTAAAATGAATTT
91522863 A
1 A
91522864 TGGGACCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATACTTTTACAACCCTTAAAATGAATTT
Found at i:91525637 original size:21 final size:21
Alignment explanation
Indices: 91525613--91525655 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
91525603 AAATTCATAT
91525613 TATGAGATACTTGAATTTTTG
1 TATGAGATACTTGAATTTTTG
91525634 TATGAGATACTTGAATTTTTG
1 TATGAGATACTTGAATTTTTG
91525655 T
1 T
91525656 GAGACAAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (21 bp):
TATGAGATACTTGAATTTTTG
Found at i:91528784 original size:3 final size:3
Alignment explanation
Indices: 91528776--91528830 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
91528766 TTTTGTTTTC
*
91528776 ACT ACT ACT ACT ACT ACT ACT ACT ATT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
91528824 ACT ACT A
1 ACT ACT A
91528831 TTATTATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ACT
Found at i:91532586 original size:27 final size:27
Alignment explanation
Indices: 91532493--91532592 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
91532483 CATCCTGTCA
* * * *
91532493 ACCTTTGTGGTGTACTCTGAATGAATC
1 ACCTTTGTAGCGTACTCTGTATGGATC
* * * *
91532520 ACCTTTATAGTGTACTCTATATAGATGC
1 ACCTTTGTAGCGTACTCTGTATGGAT-C
* * *
91532548 -CATTTCTGGCGTACTCTGTATGGATC
1 ACCTTTGTAGCGTACTCTGTATGGATC
91532574 ACCTTTGTAGCGTACTCTG
1 ACCTTTGTAGCGTACTCTG
91532593 ATTAGATTGC
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
ACCTTTGTAGCGTACTCTGTATGGATC
Found at i:91533384 original size:22 final size:23
Alignment explanation
Indices: 91533342--91533386 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
91533332 ATAAGGAATA
91533342 TTGAGTATAATAAGAGTATGATAG
1 TTGAGTATAATAAGAG-ATGATAG
91533366 TTGATGTATAAT-AGA-ATGATA
1 TTGA-GTATAATAAGAGATGATA
91533387 AACTATGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (23 bp):
TTGAGTATAATAAGAGATGATAG
Found at i:91534800 original size:131 final size:130
Alignment explanation
Indices: 91534639--91534897 Score: 369
Period size: 131 Copynumber: 2.0 Consensus size: 130
91534629 ATTTGGAGAA
* * *
91534639 CATGAGTGAAATTCTAAAGGAATTCTCGATTATTTGGAACAAACAGGAGATCGCAACCCAGCACG
1 CATGAGTGAAATTCCAAAGGAATTCTCGATTATTTGGAACAAACAGGAAATCGCAACCCAACACG
* *
91534704 ATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCATTTTGAA-GAATTTTTAAA
66 ATAGGGCACGATT-CCCGAATTGCCAAACACCGAACATTACCTTCATTTT-AACGAATTCTTAAA
91534768 AG
129 AG
* * * *
91534770 CATGAGTGAAATTCCAAAGGAATAT-TCGATTGTTTTGAACAGACGGGAAATCGCAACCCAACAC
1 CATGAGTGAAATTCCAAAGGAAT-TCTCGATTATTTGGAACAAACAGGAAATCGCAACCCAACAC
** *
91534834 GATAGGGCACGATTCCCGAATTGCCAAACACCGAGTATTGCCTTCATTTTAACGAATTCTTAAA
65 GATAGGGCACGATTCCCGAATTGCCAAACACCGAACATTACCTTCATTTTAACGAATTCTTAAA
91534898 TGAATAATTA
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
129 2 0.02
130 42 0.37
131 69 0.61
132 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (130 bp):
CATGAGTGAAATTCCAAAGGAATTCTCGATTATTTGGAACAAACAGGAAATCGCAACCCAACACG
ATAGGGCACGATTCCCGAATTGCCAAACACCGAACATTACCTTCATTTTAACGAATTCTTAAAAG
Found at i:91535201 original size:13 final size:14
Alignment explanation
Indices: 91535178--91535209 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
91535168 AACCAAAACA
91535178 ATACACACAATAAT
1 ATACACACAATAAT
91535192 ATAC-CACAATAAT
1 ATACACACAATAAT
91535205 ATACA
1 ATACA
91535210 TAGCATGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (14 bp):
ATACACACAATAAT
Found at i:91537870 original size:15 final size:15
Alignment explanation
Indices: 91537850--91537880 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91537840 ACATTTAGAC
91537850 AACCATGTGAGGAAA
1 AACCATGTGAGGAAA
91537865 AACCATGTGAGGAAA
1 AACCATGTGAGGAAA
91537880 A
1 A
91537881 TTATACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.26, T:0.13
Consensus pattern (15 bp):
AACCATGTGAGGAAA
Found at i:91548655 original size:26 final size:25
Alignment explanation
Indices: 91548626--91548684 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
91548616 AAAAAAAATA
91548626 ATGTTTTTAATGTAAT-GTTTATTATT
1 ATGTTTTTAAT-TAATAG-TTATTATT
* * *
91548652 ATGTTTTCAATTTATAGTTGTTATT
1 ATGTTTTTAATTAATAGTTATTATT
91548677 ATGTTTTT
1 ATGTTTTT
91548685 TTTAATTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.63
Consensus pattern (25 bp):
ATGTTTTTAATTAATAGTTATTATT
Found at i:91556596 original size:16 final size:16
Alignment explanation
Indices: 91556575--91556611 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
91556565 TTGTATTATT
91556575 ATTATATGTTAAAAAG
1 ATTATATGTTAAAAAG
91556591 ATTATATGTTAAAAAG
1 ATTATATGTTAAAAAG
91556607 ATTAT
1 ATTAT
91556612 GTATTGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (16 bp):
ATTATATGTTAAAAAG
Found at i:91558842 original size:107 final size:105
Alignment explanation
Indices: 91558656--91558931 Score: 281
Period size: 107 Copynumber: 2.6 Consensus size: 105
91558646 TTTTGACCGA
* * * * * *
91558656 TTCACGATACTGCTCACACAAGCTGATGAGAATCCACAATGTATGTAA-GATCTCAGCCATTATA
1 TTCACGATGCTGCTCACACAAGCT-TTGAGAATCCGCAA--CATGTAAGGATCTCAGCCATCAGA
* * * * *
91558720 ATGATCTATTTCATCAGTACAGAGTA-TTCAGTCATTTCACTAG
63 ACGATCTATATCATCAGAACAGAGTAGCT-AGTCAATTCACTAG
*
91558763 TTCACGATGTTGCTCACACAAGCTTTCGAGAATCCGCAACATGTACAGGATCTCAGCCATCAGAA
1 TTCACGATGCTGCTCACACAAGCTTT-GAGAATCCGCAACATGTA-AGGATCTCAGCCATCAGAA
* * * *
91558828 CGGTCTATATCATCAGAATATAGTAGCTATTCAATTCACTAG
64 CGATCTATATCATCAGAACAGAGTAGCTAGTCAATTCACTAG
*
91558870 TTCACGATGCTGCTCACACAAGTTGTTGAGAAAT-CGCAACATATGT-AGGATCTCAGCCATCA
1 TTCACGATGCTGCTCACACAAGCT-TTGAG-AATCCGCAAC--ATGTAAGGATCTCAGCCATCA
91558932 CGATGGTGTG
Statistics
Matches: 143, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
105 5 0.03
106 2 0.01
107 126 0.88
108 6 0.04
109 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (105 bp):
TTCACGATGCTGCTCACACAAGCTTTGAGAATCCGCAACATGTAAGGATCTCAGCCATCAGAACG
ATCTATATCATCAGAACAGAGTAGCTAGTCAATTCACTAG
Found at i:91561613 original size:5 final size:5
Alignment explanation
Indices: 91561603--91561636 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
91561593 TTGAAGTAGA
* *
91561603 AGAAG AGAAG AAAAG AGAAG AGAAG AGAAA AGAA
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAA
91561637 AATAGTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:91562065 original size:2 final size:2
Alignment explanation
Indices: 91562058--91562090 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
91562048 TATAAATCAG
91562058 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91562091 TAGTTGAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:91569001 original size:21 final size:21
Alignment explanation
Indices: 91568977--91569016 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
91568967 AAAATTTTAA
91568977 TGTAAAATAAGTTTA-TTTTCT
1 TGTAAAATAA-TTTACTTTTCT
91568998 TGTAAAATAATTTACTTTT
1 TGTAAAATAATTTACTTTT
91569017 TTAAAAAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (21 bp):
TGTAAAATAATTTACTTTTCT
Found at i:91569264 original size:33 final size:32
Alignment explanation
Indices: 91569201--91569264 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 32
91569191 ATTGTTAAAC
* *
91569201 ATAAATATTTAATTATTTATATTTAGTCATATA
1 ATAAATAATTAATTATTAATATTTA-TCATATA
91569234 ATAAATAATTAATATAATTAATATTT-TCATA
1 ATAAATAATTAAT-T-ATTAATATTTATCATA
91569265 AATTATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 17 0.63
34 1 0.04
35 9 0.33
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (32 bp):
ATAAATAATTAATTATTAATATTTATCATATA
Found at i:91569319 original size:15 final size:16
Alignment explanation
Indices: 91569292--91569322 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
91569282 ATTTTATTTT
91569292 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
91569308 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
91569323 TAATGTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:91569406 original size:34 final size:32
Alignment explanation
Indices: 91569349--91569415 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 32
91569339 TTATTGAAAA
* * *
91569349 TATTCAATATAAATATTTTAATAATAGATATT
1 TATTCAATATAAATATATAAATAATAAATATT
91569381 TATTACAATTATAAATATATAAATAATAAATATT
1 TATT-CAA-TATAAATATATAAATAATAAATATT
91569415 T
1 T
91569416 TATAGTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 4 0.13
33 3 0.10
34 23 0.77
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (32 bp):
TATTCAATATAAATATATAAATAATAAATATT
Found at i:91570092 original size:5 final size:5
Alignment explanation
Indices: 91570076--91570111 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
91570066 CTGTGTATCC
91570076 TCCTT CTCCTT TCCTT TCCTT TCCTT TCCCTT TCCT
1 TCCTT -TCCTT TCCTT TCCTT TCCTT T-CCTT TCCT
91570112 CCTCCTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (5 bp):
TCCTT
Found at i:91570107 original size:11 final size:10
Alignment explanation
Indices: 91570076--91570111 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
91570066 CTGTGTATCC
91570076 TCCTTCTCCTT
1 TCCTT-TCCTT
91570087 TCCTTTCCTT
1 TCCTTTCCTT
91570097 TCCTTTCCCTT
1 TCCTTT-CCTT
91570108 TCCT
1 TCCT
91570112 CCTCCTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.46
11 13 0.54
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (10 bp):
TCCTTTCCTT
Found at i:91570107 original size:16 final size:16
Alignment explanation
Indices: 91570076--91570117 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
91570066 CTGTGTATCC
91570076 TCCTTCTCCTTTCCTT
1 TCCTTCTCCTTTCCTT
91570092 TCCTT-TCCTTTCCCTT
1 TCCTTCTCCTTT-CCTT
*
91570108 TCCTCCTCCT
1 TCCTTCTCCT
91570118 AGTTTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 13 0.57
17 4 0.17
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (16 bp):
TCCTTCTCCTTTCCTT
Found at i:91575381 original size:25 final size:25
Alignment explanation
Indices: 91575352--91575404 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
91575342 TTTTCAAGAG
91575352 TTGTCACACCCCCAAACTTGAGTTA
1 TTGTCACACCCCCAAACTTGAGTTA
91575377 TTGTCACACCCCCAAACTTGAGTTA
1 TTGTCACACCCCCAAACTTGAGTTA
91575402 TTG
1 TTG
91575405 CTTGTCCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (25 bp):
TTGTCACACCCCCAAACTTGAGTTA
Found at i:91577845 original size:3 final size:3
Alignment explanation
Indices: 91577826--91577873 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
91577816 ACACTTGGTG
* *
91577826 TGT TGT TAT T-T TCT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
91577873 T
1 T
91577874 CTATTTGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.02, C:0.02, G:0.27, T:0.69
Consensus pattern (3 bp):
TGT
Found at i:91580042 original size:93 final size:93
Alignment explanation
Indices: 91579929--91580100 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
91579919 CGCCCATAAG
* *
91579929 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
91579994 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
91580022 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
91580087 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
91580101 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:91580097 original size:46 final size:46
Alignment explanation
Indices: 91579922--91580097 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
91579912 TGTAACCCGC
* * *
91579922 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
91579968 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
91580018 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
91580061 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
91580098 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:91590240 original size:40 final size:40
Alignment explanation
Indices: 91590195--91590361 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
91590185 CGGAATATAA
91590195 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
91590235 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
91590275 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
91590315 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
91590354 CCGGATAT
1 CCGGATAT
91590362 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:91590345 original size:80 final size:79
Alignment explanation
Indices: 91590211--91590361 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
91590201 ATAATCACGT
*
91590211 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
91590276 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
91590291 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
91590354 CCGGATAT
64 CCGGATAT
91590362 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:91591624 original size:56 final size:54
Alignment explanation
Indices: 91591551--91591663 Score: 131
Period size: 56 Copynumber: 2.1 Consensus size: 54
91591541 TCCTCCCCCT
91591551 TTTCCCTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTC
1 TTTCCCTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTCTTTTC
* *** *
91591607 TTTCCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTC
1 TTTCCCTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTC
91591661 TTT
1 TTT
91591664 TTTTTTTTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 14 0.28
56 32 0.64
57 4 0.08
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTCCCTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTC
Found at i:91618270 original size:14 final size:14
Alignment explanation
Indices: 91618251--91618277 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91618241 GTAGACGGGT
91618251 TTTCTAAAATTTAA
1 TTTCTAAAATTTAA
91618265 TTTCTAAAATTTA
1 TTTCTAAAATTTA
91618278 GGTTATGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTCTAAAATTTAA
Found at i:91621803 original size:35 final size:36
Alignment explanation
Indices: 91621757--91621825 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
91621747 AGCCCCCCAA
** *
91621757 AAAAAACCTAACCCAAAAA-AAAAAATGAAAAAATG
1 AAAAAACCTAACAAAAAAATAAAAAATAAAAAAATG
91621792 AAAAAACCTAACAAAAAAATAAAAAATAAAAAAA
1 AAAAAACCTAACAAAAAAATAAAAAATAAAAAAA
91621826 AACCTAGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.77, C:0.12, G:0.03, T:0.09
Consensus pattern (36 bp):
AAAAAACCTAACAAAAAAATAAAAAATAAAAAAATG
Found at i:91621826 original size:30 final size:31
Alignment explanation
Indices: 91621755--91621831 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 31
91621745 TAAGCCCCCC
91621755 AAAAAAAACCTAACCCAAAAAAAAAAATGAAAA
1 AAAAAAAACCTAA-CCAAAAAAAAAAA-GAAAA
*
91621788 AATGAAAAAACCTAA-CAAAAAAATAAAA-AATA
1 AA--AAAAAACCTAACCAAAAAAA-AAAAGAAAA
91621820 AAAAAAAACCTA
1 AAAAAAAACCTA
91621832 GCCACCTAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
30 10 0.25
32 5 0.12
33 10 0.25
34 4 0.10
35 11 0.28
ACGTcount: A:0.75, C:0.13, G:0.03, T:0.09
Consensus pattern (31 bp):
AAAAAAAACCTAACCAAAAAAAAAAAGAAAA
Found at i:91622636 original size:3 final size:3
Alignment explanation
Indices: 91622597--91622622 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
91622587 TTATTGTAGA
91622597 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
91622623 CATACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:91624377 original size:12 final size:12
Alignment explanation
Indices: 91624357--91624392 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
91624347 ATTCATTTAA
91624357 CATTCATGCATT
1 CATTCATGCATT
*
91624369 CATTTATGCATT
1 CATTCATGCATT
*
91624381 CATTCATTCATT
1 CATTCATGCATT
91624393 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:91631407 original size:72 final size:72
Alignment explanation
Indices: 91631285--91631660 Score: 390
Period size: 72 Copynumber: 5.2 Consensus size: 72
91631275 AAGCCTTTTT
* * * * * *
91631285 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAACCTCAGGTCACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
91631350 ATTTTCA
66 ATTTTCA
* ** *
91631357 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
91631422 AATTTCA
66 ATTTTCA
* ** * * * *
91631429 ATTTCTGTTGTCAAAAAAATCAACTCGTATTGCAAGCGGCGAGTTGAGCCTCAGGTCACACGCCG
1 ATTTTTG-TGT-TTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--ACACGCTG
*
91631494 AAGTATTTTCA
62 AGGTATTTTCA
* *
91631505 A-TTTT-TG---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT
1 ATTTTTGTGTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
*
91631565 AATTTCA
66 ATTTTCA
* * ** *
91631572 ATTTCTGT-TTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACG-TCGAG
1 ATTTTTGTGTTT-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT-GAG
91631635 GTATTTTCA
64 GTATTTTCA
91631644 ATTTTTGT-TTTCAAAAA
1 ATTTTTGTGTTT-AAAAA
91631661 AAAAAAAATC
Statistics
Matches: 252, Mismatches: 41, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
67 17 0.07
68 3 0.01
69 37 0.15
71 1 0.00
72 135 0.54
73 5 0.02
74 34 0.13
75 3 0.01
76 17 0.07
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (72 bp):
ATTTTTGTGTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTCA
Found at i:91631555 original size:143 final size:139
Alignment explanation
Indices: 91631374--91631650 Score: 419
Period size: 143 Copynumber: 2.0 Consensus size: 139
91631364 TGTTTTAATT
91631374 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
* *** *
91631439 TCAAAAAAATCAACTCGTATTGCAAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAAGTATTTTC
66 TC--AAAAATCAACTCATATTGCAAGAAACGAGTTGAGCCTCAAG--ACACGCCGAAGTATTTTC
91631504 AATTTTTGAAAAA
127 AATTTTTGAAAAA
* *
91631517 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
* * * *
91631582 TCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTCGAGGTATTTTCAATT
66 TCAAAAATCAACTCATATTGCAAGAAACGAGTTGAGCCTCAAGACACGCCGAAGTATTTTCAATT
91631647 TTTG
131 TTTG
91631651 TTTTCAAAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
139 24 0.20
141 34 0.28
143 65 0.53
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (139 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
TCAAAAATCAACTCATATTGCAAGAAACGAGTTGAGCCTCAAGACACGCCGAAGTATTTTCAATT
TTTGAAAAA
Found at i:91632519 original size:29 final size:29
Alignment explanation
Indices: 91632487--91632542 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
91632477 ACCCCAAAAA
*
91632487 AAAAAGAAGAAAAAAT-GAAAAAACCTAAC
1 AAAAA-AAGAAAAAATAAAAAAAACCTAAC
*
91632516 AAAAAAATAAAAAATAAAAAAAACCTA
1 AAAAAAAGAAAAAATAAAAAAAACCTA
91632543 GCCACCTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (29 bp):
AAAAAAAGAAAAAATAAAAAAAACCTAAC
Found at i:91632537 original size:37 final size:37
Alignment explanation
Indices: 91632467--91632538 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
91632457 AGCCCCCCAA
***
91632467 AAAAAACCTAACCCCAAAAAAAAAAGAAGAAAAAATG
1 AAAAAACCTAACAAAAAAAAAAAAAGAAGAAAAAATG
*
91632504 AAAAAACCTAACAAAAAAATAAAAAATAA-AAAAAA
1 AAAAAACCTAACAAAAAAA-AAAAAAGAAGAAAAAA
91632539 CCTAGCCACC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 22 0.73
38 8 0.27
ACGTcount: A:0.76, C:0.12, G:0.04, T:0.07
Consensus pattern (37 bp):
AAAAAACCTAACAAAAAAAAAAAAAGAAGAAAAAATG
Found at i:91633341 original size:37 final size:37
Alignment explanation
Indices: 91633299--91633400 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
91633289 CTAATATTTT
91633299 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
91633336 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
91633379 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
91633401 CCAAATAGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:91639391 original size:18 final size:18
Alignment explanation
Indices: 91639368--91639405 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
91639358 TGTTTTTGGG
91639368 TTGCGCTTAAAATATTTT
1 TTGCGCTTAAAATATTTT
91639386 TTGCGCTTAAAATATTTT
1 TTGCGCTTAAAATATTTT
91639404 TT
1 TT
91639406 ACTTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (18 bp):
TTGCGCTTAAAATATTTT
Found at i:91639449 original size:24 final size:24
Alignment explanation
Indices: 91639394--91639450 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
91639384 TTTTGCGCTT
91639394 AAAATATTTTTTACTTTAAATAAA
1 AAAATATTTTTTACTTTAAATAAA
* * **
91639418 ATATTATTATTTTA-TTTTTATAAA
1 AAAATATT-TTTTACTTTAAATAAA
91639442 AAAATATTT
1 AAAATATTT
91639451 AAATATATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
23 1 0.04
24 20 0.77
25 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
AAAATATTTTTTACTTTAAATAAA
Found at i:91639740 original size:22 final size:22
Alignment explanation
Indices: 91639711--91639774 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
91639701 AGCACCTACC
*
91639711 AGAA-GAGAAAAAGAAAGGAG-
1 AGAAGGAGAAAAAGAAAGAAGA
*
91639731 AGAAAGGAGAAAAAAAAAGAAGA
1 AG-AAGGAGAAAAAGAAAGAAGA
*
91639754 AGAAGAAGAAGAAAGAAAGAA
1 AGAAGGAGAA-AAAGAAAGAA
91639775 AGAAACAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 21 0.58
23 11 0.31
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (22 bp):
AGAAGGAGAAAAAGAAAGAAGA
Found at i:91640015 original size:58 final size:59
Alignment explanation
Indices: 91639944--91640056 Score: 165
Period size: 58 Copynumber: 1.9 Consensus size: 59
91639934 TTATTTTTTA
* * * *
91639944 TAATTATTTTAAAATTAATTTGTTAGTAA-TAGGATTATGTTATGAATTGTTGTGTTTG
1 TAATTATTCTAAAACTAATTTATTAGTAATTAGGATTATGTTATAAATTGTTGTGTTTG
*
91640002 TAATTATTCTAAAACTAATTTATTAGTAATTTAGGTTTATGTTATAAATTGTTGT
1 TAATTATTCTAAAACTAATTTATTAGTAA-TTAGGATTATGTTATAAATTGTTGT
91640057 TGTACTTAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 26 0.54
60 22 0.46
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (59 bp):
TAATTATTCTAAAACTAATTTATTAGTAATTAGGATTATGTTATAAATTGTTGTGTTTG
Found at i:91640377 original size:99 final size:102
Alignment explanation
Indices: 91640257--91640511 Score: 333
Period size: 99 Copynumber: 2.5 Consensus size: 102
91640247 TTATAGTTAT
* * *
91640257 TTATTTTGTTAATAATTTATGAGATTATG-T-TACAAATTGTTAGTGTTTAG-TATAGGGTTTTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGATATATAAATTGTTAGTGTTTAGTTAT-GGGTTTTG
*
91640319 TGATTTTTTAGTAATGTA-ATTTAAAAAAA-AA-TTATAG
63 TGATATTTTAGTAATGTATATTTAAAAAAATAATTTATAG
* *
91640356 TTATTTTGTTAGTAATTTATGATTAGGATATATAAATTGTTAATGTTTAGTTATGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGATATATAAATTGTTAGTGTTTAGTTATGGGTTTTGTGA
*
91640421 TATTTTAGTAATGTATTTTTTTAAAAAAATAATTTTATAG
66 TATTTTAGTAATGTA--TATTTAAAAAAATAA-TTTATAG
* *
91640461 TTATTTTGTTAGTAGTTTATGATTAGGTTATATAAATTGTTAGTGTTTAGT
1 TTATTTTGTTAGTAATTTATGATTAGGATATATAAATTGTTAGTGTTTAGT
91640512 GTTTTGTGAT
Statistics
Matches: 137, Mismatches: 10, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
97 6 0.04
98 1 0.01
99 61 0.45
100 3 0.02
102 10 0.07
103 2 0.01
105 54 0.39
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (102 bp):
TTATTTTGTTAGTAATTTATGATTAGGATATATAAATTGTTAGTGTTTAGTTATGGGTTTTGTGA
TATTTTAGTAATGTATATTTAAAAAAATAATTTATAG
Found at i:91640418 original size:23 final size:22
Alignment explanation
Indices: 91640392--91640444 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
91640382 GATATATAAA
* *
91640392 TTGTTAATGTTTAGTTATGTGTT
1 TTGTTAAT-TTTAGTAATGTATT
*
91640415 TTGTGATATTTTAGTAATGTATT
1 TTGTTA-ATTTTAGTAATGTATT
*
91640438 TTTTTAA
1 TTGTTAA
91640445 AAAAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 1 0.04
23 21 0.88
24 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (22 bp):
TTGTTAATTTTAGTAATGTATT
Found at i:91642947 original size:78 final size:77
Alignment explanation
Indices: 91642827--91643063 Score: 302
Period size: 77 Copynumber: 3.1 Consensus size: 77
91642817 GGGTATAAAT
* * **
91642827 AACTTCATATTTATGTGATGAAGTTTTTGTCATTTTATTTATCAATTTTATGTTTTTTTTTTTGC
1 AACTTTATATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTTATG-TTTTTTTTTTGC
91642892 AATTTAAATAGTA
65 AATTTAAATAGTA
*
91642905 AACTTTATATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTTATGATTTTTTTTTGCA
1 AACTTTATATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTTATGTTTTTTTTTTGCA
91642970 ATTTAAATAGTA
66 ATTTAAATAGTA
* * * * * * *
91642982 AAGTTTGTTTTTATGTAATAACTTTTTCG-CTATTTTAGTTATCAATTTTATG--GTTTTTTT-C
1 AACTTTATATTTATGTAATGACTTTTTTGTC-ATTTTATTTATCAATTTTATGTTTTTTTTTTGC
*
91643043 AATTTAAATAAATA
65 AATTTAAAT-AGTA
91643057 AACTTTA
1 AACTTTA
91643064 GATTAACTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
74 10 0.07
75 15 0.11
76 1 0.01
77 68 0.48
78 48 0.34
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.56
Consensus pattern (77 bp):
AACTTTATATTTATGTAATGACTTTTTTGTCATTTTATTTATCAATTTTATGTTTTTTTTTTGCA
ATTTAAATAGTA
Found at i:91654859 original size:7 final size:7
Alignment explanation
Indices: 91654847--91654882 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
91654837 TTTTTTATAC
91654847 TAATAAA
1 TAATAAA
91654854 TAATAAA
1 TAATAAA
91654861 TAATGAAA
1 TAAT-AAA
*
91654869 TAATATA
1 TAATAAA
91654876 TAATAAA
1 TAATAAA
91654883 AGGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:91654871 original size:15 final size:14
Alignment explanation
Indices: 91654847--91654882 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
91654837 TTTTTTATAC
91654847 TAATAAATAATAAA
1 TAATAAATAATAAA
*
91654861 TAATGAAATAATATA
1 TAAT-AAATAATAAA
91654876 TAATAAA
1 TAATAAA
91654883 AGGAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:91654915 original size:10 final size:10
Alignment explanation
Indices: 91654900--91654972 Score: 62
Period size: 10 Copynumber: 7.2 Consensus size: 10
91654890 TAATATAGGG
91654900 AATAATATAT
1 AATAATATAT
91654910 AATAATATAT
1 AATAATATAT
* *
91654920 GAT-ATGTAAT
1 AATAATAT-AT
91654930 AA-AATATAT
1 AATAATATAT
*
91654939 AAATAAAATAT
1 -AATAATATAT
91654950 AATGAA-ATAT
1 AAT-AATATAT
91654960 AATAATATGAT
1 AATAATAT-AT
91654971 AA
1 AA
91654973 CTATCATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
9 7 0.14
10 32 0.63
11 12 0.24
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (10 bp):
AATAATATAT
Found at i:91655149 original size:12 final size:12
Alignment explanation
Indices: 91655130--91655166 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
91655120 TAAAATATAT
91655130 AATGTATAATAA
1 AATGTATAATAA
*
91655142 AATTTATAAATAA
1 AATGTAT-AATAA
91655155 AATGTATAATAA
1 AATGTATAATAA
91655167 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:91655155 original size:13 final size:13
Alignment explanation
Indices: 91655130--91655163 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
91655120 TAAAATATAT
91655130 AATGTAT-AATAA
1 AATGTATAAATAA
*
91655142 AATTTATAAATAA
1 AATGTATAAATAA
91655155 AATGTATAA
1 AATGTATAA
91655164 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:91655187 original size:11 final size:11
Alignment explanation
Indices: 91655171--91655197 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
91655161 TAATAATAAA
91655171 AATAATATATG
1 AATAATATATG
91655182 AATAATATATG
1 AATAATATATG
91655193 AATAA
1 AATAA
91655198 AAAATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (11 bp):
AATAATATATG
Found at i:91656867 original size:44 final size:44
Alignment explanation
Indices: 91656817--91656989 Score: 242
Period size: 44 Copynumber: 3.9 Consensus size: 44
91656807 TCAGGAATGT
* *
91656817 CAAATCTGCTATCTTC-ACTCTGCT-TCCTGTCAACACAGAGACGC
1 CAAATCTGCTATCTTCGA-TCTGCTCT-CTGACAATACAGAGACGC
* *
91656861 CAAATCTGCTATCTCCGATCTGCTCTCTGACAATACAGAGACGT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
*
91656905 CAAATCTTCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * *
91656949 CAAATTTGCTATCTTCGATCTGCTCTCTGATAATGCAGAGA
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
91656990 TGCCCTCGAT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
44 114 0.98
45 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
Found at i:91657034 original size:30 final size:32
Alignment explanation
Indices: 91656966--91657034 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
91656956 GCTATCTTCG
* * * **
91656966 ATCTGCTCTCTGATAATGCAGAGATGCCCTCG
1 ATCTGCTCTCTGACAATACAGAGACGCCCTAA
91656998 ATCTGCTCTCTGACAATACAGAGACG-CC-AA
1 ATCTGCTCTCTGACAATACAGAGACGCCCTAA
91657028 ATCTGCT
1 ATCTGCT
91657035 ATCTTCGATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 7 0.22
31 2 0.06
32 23 0.72
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (32 bp):
ATCTGCTCTCTGACAATACAGAGACGCCCTAA
Found at i:91657045 original size:76 final size:76
Alignment explanation
Indices: 91656919--91657066 Score: 269
Period size: 76 Copynumber: 1.9 Consensus size: 76
91656909 TCTTCTATCT
* * *
91656919 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATTTGCTATCTTCGATCTGCTCTCTGATAATG
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
91656984 CAGAGATGCCC
66 CAGAGATGCCC
91656995 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
91657060 CAGAGAT
66 CAGAGAT
91657067 CCCAAATCTG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (76 bp):
TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
CAGAGATGCCC
Found at i:91657089 original size:120 final size:120
Alignment explanation
Indices: 91656876--91657113 Score: 406
Period size: 120 Copynumber: 2.0 Consensus size: 120
91656866 CTGCTATCTC
* *
91656876 CGATCTGCTCTCTGACAATACAGAGACGTCAAATCTTCTATCTTCGATCTGCTCTCTGACAATAC
1 CGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
* * *
91656941 AGAGACGCCAAATTTGCTATCTTCGATCTGCTCTCTGATAATGCAGAGATGCCCT
66 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCCT
91656996 CGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
1 CGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
*
91657061 AGAGATC-CCAAATCTGCTATCTTCGATCTGCTCTTTGACAATACAGAGATGCC
66 AGAGA-CGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCC
91657114 AAATCTGCTA
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 110 0.99
121 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (120 bp):
CGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCCT
Found at i:91657125 original size:164 final size:164
Alignment explanation
Indices: 91656851--91657155 Score: 513
Period size: 164 Copynumber: 1.9 Consensus size: 164
91656841 TCCTGTCAAC
* *
91656851 ACAGAGACGCCAAATCTGCTATCTCCGATCTGCTCTCTGACAATACAGAGACGTCAAATCTTCTA
1 ACAGAGACGCCAAATCTGCTATCTCCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * *
91656916 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATTTGCTATCTTCGATCTGCTCTCTGATA
66 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACA
*
91656981 ATGCAGAGATGCCCTCGATCTGCTCTCTGACAAT
131 ATACAGAGATGCCCTCGATCTGCTCTCTGACAAT
*
91657015 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATC-CCAAATCTGCT
1 ACAGAGACGCCAAATCTGCTATCTCCGATCTGCTCTCTGACAATACAGAGA-CGCCAAATCTGCT
* *
91657079 ATCTTCGATCTGCTCTTTGACAATACAGAGATGCCAAATCTGCTATCTTCAATCTGCTCTCTGAC
65 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGAC
91657144 AATACAGAGATG
130 AATACAGAGATG
91657156 TCAAATTTGC
Statistics
Matches: 131, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
164 130 0.99
165 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (164 bp):
ACAGAGACGCCAAATCTGCTATCTCCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACA
ATACAGAGATGCCCTCGATCTGCTCTCTGACAAT
Found at i:91657175 original size:208 final size:208
Alignment explanation
Indices: 91656817--91657197 Score: 597
Period size: 208 Copynumber: 1.8 Consensus size: 208
91656807 TCAGGAATGT
*
91656817 CAAATCTGCTATCTTCACTCTGCTTCCTGTCAACACAGAGACGCCAAATCTGCTATCTCCGATCT
1 CAAATCTGCTATCTTCACTCTGCTTCCTGACAACACAGAGACGCCAAATCTGCTATCTCCGATCT
* * *
91656882 GCTCTCTGACAATACAGAGACGTCAAATCTTCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
66 GCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGAC
* * *
91656947 GCCAAATTTGCTATCTTCGATCTGCTCTCTGATAATGCAGAGATGCCCTCGATCTGCTCTCTGAC
131 GCCAAATTTGCTATCTTCGATCTACTCTCTGACAATACAGAGATGCCCTCGATCTGCTCTCTGAC
91657012 AATACAGAGACGC
196 AATACAGAGACGC
* *
91657025 CAAATCTGCTATCTTCGA-TCTGC-TCTCTGACAATACAGAGATC-CCAAATCTGCTATCTTCGA
1 CAAATCTGCTATCTTC-ACTCTGCTTC-CTGACAACACAGAGA-CGCCAAATCTGCTATCTCCGA
* *
91657087 TCTGCTCTTTGACAATACAGAGATGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGA
63 TCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGA
* *
91657152 GATGTCAAATTTGCTATCTTCGATCTACTCTCTGACAATACAGAGA
128 GACGCCAAATTTGCTATCTTCGATCTACTCTCTGACAATACAGAGA
91657198 CGCCACATCT
Statistics
Matches: 157, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
207 2 0.01
208 153 0.97
209 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (208 bp):
CAAATCTGCTATCTTCACTCTGCTTCCTGACAACACAGAGACGCCAAATCTGCTATCTCCGATCT
GCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGAC
GCCAAATTTGCTATCTTCGATCTACTCTCTGACAATACAGAGATGCCCTCGATCTGCTCTCTGAC
AATACAGAGACGC
Found at i:91657223 original size:44 final size:44
Alignment explanation
Indices: 91656995--91657221 Score: 357
Period size: 44 Copynumber: 5.2 Consensus size: 44
91656985 AGAGATGCCC
91656995 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCT
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCT
91657039 TCGATCTGCTCTCTGACAATACAGAGATC-CCAAATCTGCTATCT
1 TCGATCTGCTCTCTGACAATACAGAGA-CGCCAAATCTGCTATCT
* *
91657083 TCGATCTGCTCTTTGACAATACAGAGATGCCAAATCTGCTATCT
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCT
* * * *
91657127 TCAATCTGCTCTCTGACAATACAGAGATGTCAAATTTGCTATCT
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCT
* * *
91657171 TCGATCTACTCTCTGACAATACAGAGACGCCACATCTGCTATTT
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCT
91657215 TCGATCT
1 TCGATCT
91657222 ACATTGTCCC
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 167 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCT
Found at i:91662857 original size:71 final size:71
Alignment explanation
Indices: 91662769--91663003 Score: 452
Period size: 71 Copynumber: 3.3 Consensus size: 71
91662759 GAGATGTATC
*
91662769 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTTCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91662834 AGGACA
66 AGGACA
91662840 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91662905 AGGACA
66 AGGACA
*
91662911 CCATGTAGACAAGAGAGCTACATGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91662976 AGGACA
66 AGGACA
91662982 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
91663004 AGACAAATCG
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 161 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:91662917 original size:41 final size:41
Alignment explanation
Indices: 91662872--91662989 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
91662862 TGAAAGATAA
91662872 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
91662913 ATGTAGAC-AAG-AG-A-GC-T-A---C-A-TGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
91662943 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
91662984 ATGTAG
1 ATGTAG
91662990 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 8 0.15
32 2 0.04
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 2 0.04
40 8 0.15
41 14 0.26
42 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:91663589 original size:35 final size:35
Alignment explanation
Indices: 91663549--91663618 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
91663539 TTTACATGCC
91663549 TAAATTCCTTATTGAGACTAGTTTTAAATGAAACA
1 TAAATTCCTTATTGAGACTAGTTTTAAATGAAACA
91663584 TAAATTCCTTATTGAGACTAGTTTTAAATGAAACA
1 TAAATTCCTTATTGAGACTAGTTTTAAATGAAACA
91663619 GACTTCAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (35 bp):
TAAATTCCTTATTGAGACTAGTTTTAAATGAAACA
Found at i:91671981 original size:10 final size:10
Alignment explanation
Indices: 91671966--91672038 Score: 62
Period size: 10 Copynumber: 7.2 Consensus size: 10
91671956 TAATATAGGG
91671966 AATAATATAT
1 AATAATATAT
91671976 AATAATATAT
1 AATAATATAT
* *
91671986 GAT-ATGTAAT
1 AATAATAT-AT
91671996 AA-AATATAT
1 AATAATATAT
*
91672005 AAATAAAATAT
1 -AATAATATAT
91672016 AATCAA-ATAT
1 AAT-AATATAT
91672026 AATAATATGAT
1 AATAATAT-AT
91672037 AA
1 AA
91672039 CTATCATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
9 7 0.14
10 32 0.63
11 12 0.24
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (10 bp):
AATAATATAT
Found at i:91672212 original size:12 final size:12
Alignment explanation
Indices: 91672193--91672229 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
91672183 TAAAATATAT
91672193 AATGTATAATAA
1 AATGTATAATAA
*
91672205 AATTTATAAATAA
1 AATGTAT-AATAA
91672218 AATGTATAATAA
1 AATGTATAATAA
91672230 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:91672218 original size:13 final size:13
Alignment explanation
Indices: 91672193--91672226 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
91672183 TAAAATATAT
91672193 AATGTAT-AATAA
1 AATGTATAAATAA
*
91672205 AATTTATAAATAA
1 AATGTATAAATAA
91672218 AATGTATAA
1 AATGTATAA
91672227 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:91672238 original size:25 final size:24
Alignment explanation
Indices: 91672185--91672252 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
91672175 ATATATAGTA
*
91672185 AAAT-ATATAATGTATAATAAAAT
1 AAATAATAAAATGTATAATAAAAT
**
91672208 TTATAAATAAAATGTATAATAATAA-
1 AAAT-AATAAAATGTATAATAA-AAT
* *
91672233 AAATAATATAATGAATAATA
1 AAATAATAAAATGTATAATA
91672253 TATGAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.06
24 14 0.40
25 17 0.49
26 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAATAAAATGTATAATAAAAT
Found at i:91672257 original size:11 final size:12
Alignment explanation
Indices: 91672189--91672261 Score: 51
Period size: 12 Copynumber: 6.1 Consensus size: 12
91672179 ATAGTAAAAT
*
91672189 ATATAATGTATA
1 ATATAATGAATA
* **
91672201 ATAAAATTTATAA
1 ATATAATGAAT-A
* *
91672214 ATAAAATGTATA
1 ATATAATGAATA
*
91672226 ATAATAA-AAATA
1 AT-ATAATGAATA
91672238 ATATAATGAATA
1 ATATAATGAATA
91672250 ATAT-ATGAATA
1 ATATAATGAATA
91672261 A
1 A
91672262 AAAATAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
11 12 0.24
12 25 0.49
13 14 0.27
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (12 bp):
ATATAATGAATA
Found at i:91674186 original size:78 final size:78
Alignment explanation
Indices: 91674055--91674211 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
91674045 ATCAGAAGGA
91674055 TCCTACGCATTATGTCTCATGAAGGTCAATGGCTTTTAAGGCACATTTCTAGGGAGAATAACCAA
1 TCCTACGCATTATGTCTCATGAAGGTCAATGGCTTTTAAGGCACATTTCTAGGGAGAATAACCAA
91674120 GTTACAGATTGCT
66 GTTACAGATTGCT
*
91674133 TCCTACGCATTATGTCTCATGAAGGTCAATGGCTTTTAAGGCACATTTTTAGGGAGAATAACCAA
1 TCCTACGCATTATGTCTCATGAAGGTCAATGGCTTTTAAGGCACATTTCTAGGGAGAATAACCAA
* *
91674198 GTTGCGGATTGCT
66 GTTACAGATTGCT
91674211 T
1 T
91674212 AGCCAAAATG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (78 bp):
TCCTACGCATTATGTCTCATGAAGGTCAATGGCTTTTAAGGCACATTTCTAGGGAGAATAACCAA
GTTACAGATTGCT
Found at i:91677565 original size:15 final size:15
Alignment explanation
Indices: 91677547--91677576 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91677537 TTTCTTCTTT
91677547 CCTTCTTTCCTTTTC
1 CCTTCTTTCCTTTTC
*
91677562 CCTTCTTTTCTTTTC
1 CCTTCTTTCCTTTTC
91677577 TTTTCTGTTT
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:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (15 bp):
CCTTCTTTCCTTTTC
Found at i:91680180 original size:16 final size:16
Alignment explanation
Indices: 91680130--91680181 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
91680120 TTCCACTATG
*
91680130 TATTTTATTACCTATTT
1 TATTTTATTACAT-TTT
* * *
91680147 TAATTAATTTACAATTT
1 TATTTTA-TTACATTTT
91680164 TATTTTATTACATTTT
1 TATTTTATTACATTTT
91680180 TA
1 TA
91680182 CAACATTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
16 10 0.37
17 13 0.48
18 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTATTACATTTT
Found at i:91687494 original size:21 final size:21
Alignment explanation
Indices: 91687440--91687495 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
91687430 TTAGGGATTC
91687440 CACACGGGCGTGTGCTTCGGAG
1 CACACGGGCGTGT-CTTCGGAG
* *
91687462 CACATGGTCGTGT-TTGGCGG-G
1 CACACGGGCGTGTCTT--CGGAG
91687483 CACACGGGCGTGT
1 CACACGGGCGTGT
91687496 GAGACCCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 2 0.07
21 12 0.43
22 14 0.50
ACGTcount: A:0.12, C:0.25, G:0.41, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTCTTCGGAG
Found at i:91687622 original size:21 final size:21
Alignment explanation
Indices: 91687566--91687622 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
91687556 ACACGGCCTG
*
91687566 TTCACACGGGCGTGTCCCTAC
1 TTCACACGGTCGTGTCCCTAC
* *
91687587 TTCACACGAAT-GTGTGCCT-C
1 TTCACACG-GTCGTGTCCCTAC
91687607 TGTCACACGGTCGTGT
1 T-TCACACGGTCGTGT
91687623 ACTACCATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.16, C:0.32, G:0.25, T:0.28
Consensus pattern (21 bp):
TTCACACGGTCGTGTCCCTAC
Found at i:91691097 original size:21 final size:21
Alignment explanation
Indices: 91691073--91691112 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91691063 GTTACACGTC
91691073 TATGTCCCTACT-TCACACGGG
1 TATGTCCCT-CTGTCACACGGG
*
91691094 TATGTGCCTCTGTCACACG
1 TATGTCCCTCTGTCACACG
91691113 ACCATGTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (21 bp):
TATGTCCCTCTGTCACACGGG
Found at i:91694043 original size:31 final size:31
Alignment explanation
Indices: 91694008--91694083 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
91693998 TTAGACCTCT
*
91694008 TAAAATTTTTTAAAATTTTAATTAAATTATA
1 TAAAATTTTTAAAAATTTTAATTAAATTATA
* * *
91694039 TAAAAGTTTTAAAAATTTTAATTAAGTTATT
1 TAAAATTTTTAAAAATTTTAATTAAATTATA
*
91694070 TAAAATTTTGAAAA
1 TAAAATTTTTAAAA
91694084 TTCTCTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (31 bp):
TAAAATTTTTAAAAATTTTAATTAAATTATA
Found at i:91695210 original size:2 final size:2
Alignment explanation
Indices: 91695203--91695244 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
91695193 GTAAAAGCAA
91695203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91695245 CCTATTCAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91697583 original size:30 final size:30
Alignment explanation
Indices: 91697547--91697614 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
91697537 AGGTACAAGT
91697547 GGTGGTGGAGCAAGTGTGGCTAATAGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATAGAGTA
* *
91697577 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATAGAGTA
91697607 GGTGGTGG
1 GGTGGTGG
91697615 CAAAGGCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.21, C:0.06, G:0.50, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATAGAGTA
Found at i:91707499 original size:25 final size:23
Alignment explanation
Indices: 91707447--91707501 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
91707437 TATAAATAGT
91707447 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
91707470 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
91707495 AATAGTG
1 AATAGTG
91707502 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:91707582 original size:22 final size:22
Alignment explanation
Indices: 91707557--91707630 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
91707547 TATGAAATAG
* *
91707557 ATATAAAAAAAATATGTACATA
1 ATATAATAAAAATATATACATA
* *
91707579 ATATAGTGTAAAAATACATACATA
1 ATATA--ATAAAAATATATACATA
*
91707603 ATATAATTAAAATATATACATA
1 ATATAATAAAAATATATACATA
*
91707625 AGATAA
1 ATATAA
91707631 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 24 0.57
24 18 0.43
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (22 bp):
ATATAATAAAAATATATACATA
Found at i:91707600 original size:24 final size:23
Alignment explanation
Indices: 91707564--91707630 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 23
91707554 TAGATATAAA
* *
91707564 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAAT-T
*
91707588 AAAAATACATACATAATATAATT
1 AAAAATATATACATAATATAATT
*
91707611 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
91707631 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
22 18 0.47
23 1 0.03
24 19 0.50
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAATT
Found at i:91708102 original size:16 final size:16
Alignment explanation
Indices: 91708064--91708102 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
91708054 CTCCAAAAAA
*
91708064 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
91708080 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
91708096 AATAACT
1 AAAAACT
91708103 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:91708301 original size:30 final size:30
Alignment explanation
Indices: 91708261--91708327 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
91708251 AGGTACAAGT
*
91708261 GGTGCTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
* *
91708291 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
91708321 GGTGGTG
1 GGTGGTG
91708328 TCAAAGGCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.07, G:0.49, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
Found at i:91709034 original size:2 final size:2
Alignment explanation
Indices: 91709029--91709056 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
91709019 TTTTTTAACA
91709029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91709057 TTAATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91709297 original size:16 final size:16
Alignment explanation
Indices: 91709276--91709308 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
91709266 TCATATATTT
*
91709276 ATCAATAATTGAACTA
1 ATCAATAATTCAACTA
91709292 ATCAATAATTCAACTA
1 ATCAATAATTCAACTA
91709308 A
1 A
91709309 CTTTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (16 bp):
ATCAATAATTCAACTA
Found at i:91710864 original size:12 final size:12
Alignment explanation
Indices: 91710847--91710872 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91710837 ATTTTGAGCT
91710847 ACACTGATGGTC
1 ACACTGATGGTC
91710859 ACACTGATGGTC
1 ACACTGATGGTC
91710871 AC
1 AC
91710873 CCTGTTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (12 bp):
ACACTGATGGTC
Found at i:91715457 original size:16 final size:17
Alignment explanation
Indices: 91715431--91715465 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
91715421 CAGAATCAGG
*
91715431 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
91715448 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
91715464 TT
1 TT
91715466 TAGATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:91715885 original size:25 final size:25
Alignment explanation
Indices: 91715857--91715921 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
91715847 TAAATTATAT
*
91715857 TTTCCAAGA-ATAACAATTCTATCGA
1 TTTCCAAGAGAGAA-AATTCTATCGA
* *
91715882 TTTCTATGAGAGAAAATTCTATCGA
1 TTTCCAAGAGAGAAAATTCTATCGA
* *
91715907 TTTCTATGAGAGAAA
1 TTTCCAAGAGAGAAA
91715922 GTTTTACTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 33 0.92
26 3 0.08
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (25 bp):
TTTCCAAGAGAGAAAATTCTATCGA
Found at i:91716016 original size:47 final size:47
Alignment explanation
Indices: 91715958--91716084 Score: 209
Period size: 47 Copynumber: 2.7 Consensus size: 47
91715948 ATATTTCCTG
*
91715958 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATT
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATC
* * * *
91716005 GTTTGGGGAACAAAGATTTTAGTTAAATAATCTATACTCACACTATC
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATC
91716052 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCT
1 GTTAGGGGAACAAGGATTTTAGTTAAATAAGCT
91716085 TTTTTTTTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (47 bp):
GTTAGGGGAACAAGGATTTTAGTTAAATAAGCTATACGCACACTATC
Found at i:91718627 original size:22 final size:22
Alignment explanation
Indices: 91718602--91718708 Score: 97
Period size: 22 Copynumber: 4.9 Consensus size: 22
91718592 GTATGGGTTT
* *
91718602 AACACTTTTGTGCTCTTTGTTC
1 AACACTTTGGTGCTCTCTGTTC
91718624 AACACTTTGGTGCTCTCTGTTC
1 AACACTTTGGTGCTCTCTGTTC
** * * *
91718646 AGTACTTCGGTACTCTCTGATC
1 AACACTTTGGTGCTCTCTGTTC
* * *
91718668 AGCACTTTGGTGCTCTCTATTT
1 AACACTTTGGTGCTCTCTGTTC
* * *
91718690 AGCAGTATGGTGCTCTCTG
1 AACACTTTGGTGCTCTCTG
91718709 GTGTGGTCTA
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 69 1.00
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (22 bp):
AACACTTTGGTGCTCTCTGTTC
Found at i:91718706 original size:44 final size:44
Alignment explanation
Indices: 91718611--91718708 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
91718601 TAACACTTTT
* * * *
91718611 GTGCTCTTTGTTCAACACTTTGGTGCTCTCTGTTCAGTACTTCG
1 GTGCTCTCTGATCAACACTTTGGTGCTCTCTATTCAGCACTTCG
* * * *
91718655 GTACTCTCTGATCAGCACTTTGGTGCTCTCTATTTAGCAGTAT-G
1 GTGCTCTCTGATCAACACTTTGGTGCTCTCTATTCAGCACT-TCG
91718699 GTGCTCTCTG
1 GTGCTCTCTG
91718709 GTGTGGTCTA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 43 0.98
45 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.41
Consensus pattern (44 bp):
GTGCTCTCTGATCAACACTTTGGTGCTCTCTATTCAGCACTTCG
Found at i:91719957 original size:32 final size:32
Alignment explanation
Indices: 91719916--91719980 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
91719906 TATCGACGGT
*
91719916 ACATCAAATATTATTCCTAAAAAATGGAATTA
1 ACATCAAATATTATTCCTAAAAAATAGAATTA
91719948 ACATCAAATATTATTCCTAAAAAATAGAATTA
1 ACATCAAATATTATTCCTAAAAAATAGAATTA
91719980 A
1 A
91719981 TAATAGATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (32 bp):
ACATCAAATATTATTCCTAAAAAATAGAATTA
Found at i:91723708 original size:15 final size:14
Alignment explanation
Indices: 91723688--91723728 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
91723678 ATAAAGGAAT
91723688 AATAAAAATAATAA
1 AATAAAAATAATAA
*
91723702 GAATAAAAAT-TTAA
1 -AATAAAAATAATAA
91723716 AAT-AAAATAATAA
1 AATAAAAATAATAA
91723729 TGACAACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 3 0.13
15 9 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
AATAAAAATAATAA
Found at i:91723806 original size:4 final size:4
Alignment explanation
Indices: 91723799--91723837 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
91723789 TAAAAAAAAG
*
91723799 TAAA TAAA TAAA T-AA TAAA TAAA TCAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
91723838 CAGTTTGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:91725337 original size:45 final size:45
Alignment explanation
Indices: 91725221--91725707 Score: 301
Period size: 45 Copynumber: 10.7 Consensus size: 45
91725211 TGTTTTAACT
* * *
91725221 TGCTCCGCTGCAACTTCTA-GGAGATAAGATTAG-TAGCTTCAATC
1 TGCTCCACTACAACTT-TAGGGAGATAAGATTTGCTAGCTTCAATC
** ** ** *
91725265 TGCTTTACT-GTACTTTTAAAGAGATAAGATTTGCTATCTTCAATC
1 TGCTCCACTACAAC-TTTAGGGAGATAAGATTTGCTAGCTTCAATC
* * * * * *
91725310 TACTCCACTGCAACTTCAGGGAAATAAGATTAG--GGCTTCAATC
1 TGCTCCACTACAACTTTAGGGAGATAAGATTTGCTAGCTTCAATC
* **
91725353 TGCTCCACTACAACTTTAGGGAGATAAGATTTGCCATGGTAGATTTGATC
1 TGCTCCACTACAACTTTAGGGAGATAAGATTTG-C----TAGCTTCAATC
* * * * *
91725403 TGAC-CTACTACAACTTCAGAGG-TATAGGATTTGTGACTTGTAGCTTTAATC
1 TG-CTCCACTACAACTTTAG-GGAGATAAGA-TT-TG-C---TAGCTTCAATC
** * * *
91725454 TATTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATC
1 TGCTCCACTACAACTTTAGGGAGATAAGATTTGCTAGCTTCAATC
* * * * * * *
91725499 TACTCCGCTACAACTTCAGGGAGATAAAATTGGATACCTTCAATC
1 TGCTCCACTACAACTTTAGGGAGATAAGATTTGCTAGCTTCAATC
* ** * * * *
91725544 TGCTTCACTGTAACTTTAGAGAGATAAGATTAG-TGGCTTCAATT
1 TGCTCCACTACAACTTTAGGGAGATAAGATTTGCTAGCTTCAATC
* * *
91725588 TGCTCCACTACAACTTTAGGGAGATAAAATTGGCTACCTTCAATC
1 TGCTCCACTACAACTTTAGGGAGATAAGATTTGCTAGCTTCAATC
** *
91725633 TGCTCCACTGTAACTTTAGGGAGATAAGATTAG-T-GACTTCAATC
1 TGCTCCACTACAACTTTAGGGAGATAAGATTTGCTAG-CTTCAATC
* *
91725677 TGTTCCACTACAACTTCAGGGAGATAAGATT
1 TGCTCCACTACAACTTTAGGGAGATAAGATT
91725708 CACCATGGTA
Statistics
Matches: 339, Mismatches: 85, Indels: 38
0.73 0.18 0.08
Matches are distributed among these distances:
43 40 0.12
44 91 0.27
45 136 0.40
46 2 0.01
48 1 0.00
49 2 0.01
50 30 0.09
51 34 0.10
52 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (45 bp):
TGCTCCACTACAACTTTAGGGAGATAAGATTTGCTAGCTTCAATC
Found at i:91725614 original size:89 final size:89
Alignment explanation
Indices: 91725457--91725703 Score: 361
Period size: 89 Copynumber: 2.8 Consensus size: 89
91725447 TTTAATCTAT
* * * * *
91725457 TCCACTGCAACTTTAGGGAAATAAGATTTGCT-ATCTTCAATCTACTCCGCTACAACTTCAGGGA
1 TCCACTGTAACTTTAGGGAGATAAGATTAG-TGA-CTTCAATCTGCTCCACTACAACTTCAGGGA
91725521 GATAAAATTGGATACCTTCAATCTGC
64 GATAAAATTGGATACCTTCAATCTGC
* * * * *
91725547 TTCACTGTAACTTTAGAGAGATAAGATTAGTGGCTTCAATTTGCTCCACTACAACTTTAGGGAGA
1 TCCACTGTAACTTTAGGGAGATAAGATTAGTGACTTCAATCTGCTCCACTACAACTTCAGGGAGA
*
91725612 TAAAATTGGCTACCTTCAATCTGC
66 TAAAATTGGATACCTTCAATCTGC
*
91725636 TCCACTGTAACTTTAGGGAGATAAGATTAGTGACTTCAATCTGTTCCACTACAACTTCAGGGAGA
1 TCCACTGTAACTTTAGGGAGATAAGATTAGTGACTTCAATCTGCTCCACTACAACTTCAGGGAGA
91725701 TAA
66 TAA
91725704 GATTCACCAT
Statistics
Matches: 139, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
89 114 0.82
90 25 0.18
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (89 bp):
TCCACTGTAACTTTAGGGAGATAAGATTAGTGACTTCAATCTGCTCCACTACAACTTCAGGGAGA
TAAAATTGGATACCTTCAATCTGC
Found at i:91725831 original size:324 final size:323
Alignment explanation
Indices: 91725232--91725849 Score: 907
Period size: 324 Copynumber: 1.9 Consensus size: 323
91725222 GCTCCGCTGC
** ** * *
91725232 AACTTCTAGGAGATAAGATTAGTAGCTTCAATCTGCTTTACTGTACTTTTAAAGAGATAAGATTT
1 AACTTCTAGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTCAACTTTTAAAGAGATAAAATTG
* *
91725297 GCTATCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTAGGGCTTCAATCTGCTCCACT
66 GCTACCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTAGGACTTCAATCTGCTCCACT
* ** * * *
91725362 ACAACTTTAGGGAGATAAGATTTGCCATGGTAGATTTGATCTGACCTACTACAACTTCAGAGGTA
131 ACAACTTCAGGGAGATAAGATTCACCATGGTAGATTTGATCCGAACTACTACAACTTCAGAAGTA
* * * *
91725427 TAGGATTTGTGACTTGTAGCTTTAATCTATTCCACTGCAACTTTAGGGAAATAAGATTTGCTATC
196 TAGGATTTGTGACTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAAACAAAATTTGATATC
91725492 TTCAATCTACTCCGCTACAACTTCAGGGAGATAAAATTGGATACCTTCAATCTGCTTCACTGT
261 TTCAATCTACTCCGCTACAACTTCAGGGAGATAAAATTGGATACCTTCAATCTGCTTCACTGT
* * **
91725555 AACTT-TAGAGAGATAAGATTAGTGGCTTCAATTTGCTCCACTACAAC-TTTAGGGAGATAAAAT
1 AACTTCTAG-GAGATAAGATTAGTAGCTTCAATCTGCTCCACT-CAACTTTTAAAGAGATAAAAT
* * * * *
91725618 TGGCTACCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTAGTGACTTCAATCTGTTCC
64 TGGCTACCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTAG-GACTTCAATCTGCTCC
* *
91725683 ACTACAACTTCAGGGAGATAAGATTCACCATGGTAGATTTGATCCGAACTACTGCAATTTCAGAA
128 ACTACAACTTCAGGGAGATAAGATTCACCATGGTAGATTTGATCCGAACTACTACAACTTCAGAA
*
91725748 GTATAGGATTTGTGACTTGTAGCTTTAATCTATTCCACTGTAACTTCAGGGAAACAAAATTTGAT
193 GTATAGGATTTGTGACTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAAACAAAATTTGAT
* *
91725813 ATCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAA
258 ATCTTCAATCTACTCCGCTACAACTTCAGGGAGATAA
91725850 GATTAGTGGC
Statistics
Matches: 260, Mismatches: 32, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
322 3 0.01
323 89 0.34
324 168 0.65
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (323 bp):
AACTTCTAGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTCAACTTTTAAAGAGATAAAATTG
GCTACCTTCAATCTACTCCACTGCAACTTCAGGGAAATAAGATTAGGACTTCAATCTGCTCCACT
ACAACTTCAGGGAGATAAGATTCACCATGGTAGATTTGATCCGAACTACTACAACTTCAGAAGTA
TAGGATTTGTGACTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAAACAAAATTTGATATC
TTCAATCTACTCCGCTACAACTTCAGGGAGATAAAATTGGATACCTTCAATCTGCTTCACTGT
Found at i:91733098 original size:15 final size:15
Alignment explanation
Indices: 91733078--91733110 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
91733068 CTTCAGTACC
*
91733078 AAATAAATAATAAAT
1 AAATAAATAACAAAT
91733093 AAATAAATAACAAAT
1 AAATAAATAACAAAT
91733108 AAA
1 AAA
91733111 GCACCTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATAACAAAT
Found at i:91734449 original size:2 final size:2
Alignment explanation
Indices: 91734444--91734476 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
91734434 AAAAAAGAAA
91734444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
91734477 AACATGACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91734639 original size:13 final size:13
Alignment explanation
Indices: 91734614--91734652 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
91734604 CAATATGATT
91734614 TAAAA-AAAGTAAA
1 TAAAATAAA-TAAA
91734627 TAAAATAAATAAA
1 TAAAATAAATAAA
91734640 TAAAATAAATAAA
1 TAAAATAAATAAA
91734653 ATAGTCTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 22 0.88
14 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:91737778 original size:70 final size:71
Alignment explanation
Indices: 91737685--91737847 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
91737675 CGATTTGTCT
91737685 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
91737750 CTTTCA
66 CTTTCA
91737756 CGTAGCT-TCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
91737820 CTTTCA
66 CTTTCA
91737826 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
91737848 GATACATCTC
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
70 70 0.77
71 21 0.23
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:91745337 original size:71 final size:71
Alignment explanation
Indices: 91745251--91745414 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
91745241 CGATTTGTCT
91745251 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
91745316 CTTTCA
66 CTTTCA
91745322 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
91745387 CTTTCA
66 CTTTCA
91745393 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
91745415 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:91747778 original size:93 final size:93
Alignment explanation
Indices: 91747665--91747836 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
91747655 CGCCCATAAG
* *
91747665 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
91747730 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
91747758 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
91747823 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
91747837 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:91747833 original size:46 final size:46
Alignment explanation
Indices: 91747658--91747833 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
91747648 TGTAACCCGC
* * *
91747658 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
91747704 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
91747754 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
91747797 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
91747834 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:91751679 original size:23 final size:23
Alignment explanation
Indices: 91751649--91751695 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
91751639 CATAGCTTAA
91751649 TGCAACTCAATTTAATCCATAAG
1 TGCAACTCAATTTAATCCATAAG
91751672 TGCAACTCAATTTAATCCATAAG
1 TGCAACTCAATTTAATCCATAAG
91751695 T
1 T
91751696 CTAACACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (23 bp):
TGCAACTCAATTTAATCCATAAG
Found at i:91762074 original size:27 final size:27
Alignment explanation
Indices: 91761944--91762074 Score: 192
Period size: 27 Copynumber: 4.9 Consensus size: 27
91761934 ACTACCAAAG
* *
91761944 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
91761971 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
91761998 TACCCTCTATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
91762025 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
91762052 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
91762075 AAAATACCCT
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
27 92 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:91762082 original size:27 final size:27
Alignment explanation
Indices: 91762052--91762325 Score: 184
Period size: 27 Copynumber: 10.2 Consensus size: 27
91762042 ATTACTGTTT
* *
91762052 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
91762079 TACCCTTG-TTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
91762105 TACCTTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * * *
91762132 TACCGTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
91762158 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
91762185 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
91762212 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * **
91762239 TACCACT-GGTTTGTGAAATTACTGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* * *
91762266 TACTCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
91762293 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
91762320 TACCCT
1 TACCCT
91762326 TGACTTTCTA
Statistics
Matches: 195, Mismatches: 40, Indels: 23
0.76 0.16 0.09
Matches are distributed among these distances:
26 47 0.24
27 146 0.75
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:91762083 original size:54 final size:55
Alignment explanation
Indices: 91761971--91762099 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 55
91761961 ATTACCGTTT
* * * * ****
91761971 TACCCTCGATTTACAGAATTA-TCGTTTTACCCTCTATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTCGTTTTACCCTCGATTTACAAAATTACTAAAA
91762025 TACCCTTGATTTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACTCGTTTTACCCTCGATTTACAAAATTACTAAAA
*
91762079 TACCCTTG-TTTACAAAATTAC
1 TACCCTTGATTTACAGAATTAC
91762100 CAAAATACCT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 12 0.18
54 52 0.80
55 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (55 bp):
TACCCTTGATTTACAGAATTACTCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:91762260 original size:81 final size:80
Alignment explanation
Indices: 91762066--91762299 Score: 308
Period size: 81 Copynumber: 2.9 Consensus size: 80
91762056 CTCGATTTAC
* ** * * * **
91762066 AAAATTACTAAAATACCCTTGTTTACAAAATTACCAAAATACCTTCGATCAGTAAAATTACCAAA
1 AAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
*
91762131 ATA-CCGTAGTCTGT
66 ATACCCCTAGTCTGT
*
91762145 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
91762210 AATACCCCTAGTTTGT
65 AATACCCCTAGTCTGT
* * * *
91762226 AAAATTACCAAAATACCACTGGTTTGTGAAATTACTGAAATACTCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
91762291 AATACCCCT
65 AATACCCCT
91762300 GATTTACAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 14 0.10
80 47 0.35
81 75 0.55
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTCTGT
Found at i:91762369 original size:27 final size:27
Alignment explanation
Indices: 91762336--91762387 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
91762326 TGACTTTCTA
91762336 AAAATTA-TGGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
91762363 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
91762388 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:91762471 original size:27 final size:27
Alignment explanation
Indices: 91762428--91762500 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
91762418 AAATGACTAA
*
91762428 AATACCCCTATTA-GGTAAAGAGACCGT
1 AATACCCCT-GTAGGGTAAAGAGACCGT
* *
91762455 AA-AGCCCCTGTAGGGTAAAGTGACTGT
1 AATA-CCCCTGTAGGGTAAAGAGACCGT
*
91762482 AATACCCCTGTATGGTAAA
1 AATACCCCTGTAGGGTAAA
91762501 ATGACGAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAGAGACCGT
Found at i:91763384 original size:52 final size:51
Alignment explanation
Indices: 91763306--91763428 Score: 230
Period size: 52 Copynumber: 2.4 Consensus size: 51
91763296 GAGGAAGTGC
91763306 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
91763358 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
91763409 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
91763429 ATTAAAGAGG
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 10 0.14
51 25 0.35
52 36 0.51
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:91763403 original size:25 final size:26
Alignment explanation
Indices: 91763306--91763428 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
91763296 GAGGAAGTGC
**
91763306 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
91763332 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
91763358 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
91763384 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
91763409 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
91763429 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.36
26 58 0.64
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:91763632 original size:42 final size:42
Alignment explanation
Indices: 91763573--91763664 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
91763563 TAGTCTCCCC
* ** *
91763573 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
91763615 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
91763657 AAATGGGC
1 AAATGGGC
91763665 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:91763765 original size:31 final size:31
Alignment explanation
Indices: 91763688--91763766 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
91763678 CGTTTACAGT
* *
91763688 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATAATTTATGA
91763719 AAAGGCTTCGGCCCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGATATAATTTATGA
91763750 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
91763767 AACCGTTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATAATTTATGA
Found at i:91766710 original size:2 final size:2
Alignment explanation
Indices: 91766698--91766732 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
91766688 TCTATGGATG
91766698 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91766733 TTTTGTATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:91770799 original size:26 final size:26
Alignment explanation
Indices: 91770763--91770870 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
91770753 TGAAATTTCA
91770763 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
91770789 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
91770815 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
91770841 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
91770867 ATCA
1 ATCA
91770871 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:91773752 original size:26 final size:26
Alignment explanation
Indices: 91773719--91773769 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
91773709 ATACATAATT
91773719 CCTCAATCCATTACTCAATTTGTTCG
1 CCTCAATCCATTACTCAATTTGTTCG
*
91773745 CCTCAATCTATTACTCAATTTGTTC
1 CCTCAATCCATTACTCAATTTGTTC
91773770 ATTTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.41
Consensus pattern (26 bp):
CCTCAATCCATTACTCAATTTGTTCG
Found at i:91774219 original size:43 final size:43
Alignment explanation
Indices: 91774158--91774300 Score: 178
Period size: 46 Copynumber: 3.2 Consensus size: 43
91774148 TAATTCTATG
* * * *
91774158 GTGTCTTTCAGCCATGGTCTTATTCATTTTTTGTCATGCCATT
1 GTGTCTTTCAACTATGGTCTTATTCATTTTTCGTCATGCCATA
* *
91774201 GTGTCTTTCAACTTTGGTCTTATTCATTTTCCGTCTTATTGCCATA
1 GTGTCTTTCAACTATGGTCTTATTCATTTTTCGTC--A-TGCCATA
*
91774247 GTGTCTTTCAACTATGGTCTTATTCATTTGATTCGTGATGCCATA
1 GTGTCTTTCAACTATGGTCTTATTCATTT--TTCGTCATGCCATA
91774292 GTGTCTTTC
1 GTGTCTTTC
91774301 GGCTATTATT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
43 30 0.35
45 17 0.20
46 35 0.41
48 4 0.05
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.48
Consensus pattern (43 bp):
GTGTCTTTCAACTATGGTCTTATTCATTTTTCGTCATGCCATA
Found at i:91774351 original size:45 final size:45
Alignment explanation
Indices: 91774282--91774406 Score: 117
Period size: 45 Copynumber: 2.8 Consensus size: 45
91774272 ATTTGATTCG
** * * *
91774282 TGATGCCATAGTGTCTTTCGGCTATTATTTTACTCAATAAAATCA
1 TGATGCCATAGCATCTTTCAGCTATGATCTTACTCAATAAAATCA
* * ** * *
91774327 TGATGCCATAGCATGTTTCAGCTATGGTCTTACTTGATACAATCG
1 TGATGCCATAGCATCTTTCAGCTATGATCTTACTCAATAAAATCA
* *
91774372 TGATGCCATAACATCTTTCAACTAT-AGTCTTACTC
1 TGATGCCATAGCATCTTTCAGCTATGA-TCTTACTC
91774407 GTTTCTAGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (45 bp):
TGATGCCATAGCATCTTTCAGCTATGATCTTACTCAATAAAATCA
Found at i:91779100 original size:46 final size:46
Alignment explanation
Indices: 91779029--91779176 Score: 226
Period size: 46 Copynumber: 3.2 Consensus size: 46
91779019 ATAGTGTTGT
* *
91779029 TAGGATATTATTATTAGATTTTATTTTTTACCAATTTGATTCATAA
1 TAGGATATTATTATTAGATATTATTTTTTAGCAATTTGATTCATAA
* *
91779075 TAGGATATTATTATTAGATACTATTTTTTAGCAATTTGATTCGTAA
1 TAGGATATTATTATTAGATATTATTTTTTAGCAATTTGATTCATAA
* * *
91779121 TAGGATATTATTATTAGATATTATCTTTTAGAAATTTGATTCCTAA
1 TAGGATATTATTATTAGATATTATTTTTTAGCAATTTGATTCATAA
91779167 TA-GATATTAT
1 TAGGATATTAT
91779177 AGGATTTTAT
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 8 0.09
46 86 0.91
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (46 bp):
TAGGATATTATTATTAGATATTATTTTTTAGCAATTTGATTCATAA
Done.