Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 270 of 295
Found at i:92293264 original size:44 final size:44
Alignment explanation
Indices: 92293201--92293290 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
92293191 AGTGTTATTG
* *
92293201 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTAC
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
92293245 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
92293289 AT
1 AT
92293291 ATAGTGTGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (44 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTAC
Found at i:92293291 original size:23 final size:23
Alignment explanation
Indices: 92293201--92293296 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
92293191 AGTGTTATTG
92293201 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
92293224 TTCAGTGGTAGCTTTGGCTAC--
1 ATCAGTGGTAGCTTCGGCTACAT
92293245 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
92293268 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
92293291 AT-AGTG
1 ATCAGTG
92293297 TGGCACTTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
21 19 0.28
22 4 0.06
23 44 0.66
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:92300318 original size:18 final size:17
Alignment explanation
Indices: 92300285--92300323 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
92300275 TTGTATAAAT
92300285 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
92300303 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
92300320 TGTG
1 TGTG
92300324 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:92300576 original size:23 final size:23
Alignment explanation
Indices: 92300549--92300646 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
92300539 AGTGTTATTG
92300549 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
92300572 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
92300595 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
92300617 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
92300640 ATCAGTG
1 ATCAGTG
92300647 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:92300615 original size:45 final size:45
Alignment explanation
Indices: 92300551--92300639 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
92300541 TGTTATTGAT
* *
92300551 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
92300596 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
92300640 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:92304025 original size:72 final size:71
Alignment explanation
Indices: 92303927--92304092 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
92303917 GAGTTAAGCC
** * *
92303927 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
92303991 TGAGGTA
65 TGAGGTA
*
92303998 TTTTCAATTTTTGTATTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
92304063 TGAGGTA
65 TGAGGTA
* *
92304070 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
92304093 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:92304195 original size:140 final size:140
Alignment explanation
Indices: 92304025--92304652 Score: 1159
Period size: 140 Copynumber: 4.5 Consensus size: 140
92304015 TTAATTTCAA
92304025 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
92304090 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
92304155 TCAAAATCAG
131 TCAAAATCAG
*
92304165 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
92304230 TTTACGTTGTTCAAGAATAAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
92304295 TCAAAATCAG
131 TCAAAATCAG
* *
92304305 CTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
92304370 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
92304435 TCAAAATCAG
131 TCAAAATCAG
92304445 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
92304510 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
92304575 TCAAAATCAG
131 TCAAAATCAG
92304585 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
92304649 TCAA
62 TCAA
92304653 AAAAAAAATT
Statistics
Matches: 473, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
139 2 0.00
140 442 0.93
142 23 0.05
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:92304508 original size:13 final size:13
Alignment explanation
Indices: 92304490--92304523 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
92304480 CGCTGAGGTA
*
92304490 TTTTCAATTTCTG
1 TTTTCAATTTATG
92304503 TTTTCAATTTATG
1 TTTTCAATTTATG
92304516 TTGTTCAA
1 TT-TTCAA
92304524 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:92304736 original size:49 final size:49
Alignment explanation
Indices: 92304680--92304775 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
92304670 ATATTGCAAG
*
92304680 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
92304729 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
92304776 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:92304968 original size:55 final size:56
Alignment explanation
Indices: 92304908--92305029 Score: 176
Period size: 57 Copynumber: 2.2 Consensus size: 56
92304898 TGAGGTATTC
* *
92304908 TTAATTTTTGTTGTTTC-AAAAA-TCAACTCATGTTGCGAGAGGTGAGTTAAGCCTT
1 TTAATTTCTGTT-TTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
* *
92304963 TTAATTTCTGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTAATTTCTGTTTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
92305020 TTAATTTCTG
1 TTAATTTCTG
92305030 CGAGAGTTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
54 4 0.07
55 11 0.18
56 5 0.08
57 40 0.67
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (56 bp):
TTAATTTCTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
Found at i:92305034 original size:30 final size:30
Alignment explanation
Indices: 92304998--92305059 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
92304988 CAACTCATAT
92304998 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
92305028 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
92305058 TG
1 TG
92305060 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:92306710 original size:15 final size:15
Alignment explanation
Indices: 92306687--92306729 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
92306677 TTTCTAATAC
92306687 GTATATATATATGTAT
1 GTATATATATAT-TAT
*
92306703 -TTTATATATATTAT
1 GTATATATATATTAT
92306717 GTATATATATATT
1 GTATATATATATT
92306730 TTTTTAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
GTATATATATATTAT
Found at i:92306721 original size:13 final size:15
Alignment explanation
Indices: 92306690--92306726 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
92306680 CTAATACGTA
*
92306690 TATATATATGTATTT
1 TATATATATGTATTG
92306705 TATATATAT-TA-TG
1 TATATATATGTATTG
92306718 TATATATAT
1 TATATATAT
92306727 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
TATATATATGTATTG
Found at i:92308373 original size:14 final size:14
Alignment explanation
Indices: 92308342--92308383 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
92308332 CACAAAAAAA
* *
92308342 TATTCTTTTTTTAG
1 TATTCTTTTTCTAT
92308356 TATTCTTTTTCTAT
1 TATTCTTTTTCTAT
*
92308370 TATT-TTTGTCTAT
1 TATTCTTTTTCTAT
92308383 T
1 T
92308384 TTATTACCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.71
Consensus pattern (14 bp):
TATTCTTTTTCTAT
Found at i:92309025 original size:49 final size:49
Alignment explanation
Indices: 92308968--92309063 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
92308958 ATATTAGCCT
*
92308968 AATCAATAATCCCCCCATTATTTCAAAGACTTCAACTCCCCCCCCCCCC
1 AATCAATAATCCCCCCATTATTTCAAAGACTTCAAATCCCCCCCCCCCC
92309017 AATCAATAATCCCCCCATTATTTCAAAGACTTCAAATCCCCCCCCCC
1 AATCAATAATCCCCCCATTATTTCAAAGACTTCAAATCCCCCCCCCC
92309064 TTTTTTATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.45, G:0.02, T:0.23
Consensus pattern (49 bp):
AATCAATAATCCCCCCATTATTTCAAAGACTTCAAATCCCCCCCCCCCC
Found at i:92322772 original size:20 final size:20
Alignment explanation
Indices: 92322747--92322786 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
92322737 GTTAACTTGG
*
92322747 AGTTGGAGGTTCAATATGAA
1 AGTTGGAGGTTCAAGATGAA
92322767 AGTTGGAGGTTCAAGATGAA
1 AGTTGGAGGTTCAAGATGAA
92322787 TTGGAAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (20 bp):
AGTTGGAGGTTCAAGATGAA
Found at i:92326339 original size:27 final size:27
Alignment explanation
Indices: 92326287--92326337 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
92326277 AATGTAAAAA
* *
92326287 AATATATATATATATTGTTATAAAATT
1 AATATAAATACATATTGTTATAAAATT
92326314 AATATAAATACATATT-TTATAAAA
1 AATATAAATACATATTGTTATAAAA
92326338 ATACTGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
AATATAAATACATATTGTTATAAAATT
Found at i:92326348 original size:26 final size:27
Alignment explanation
Indices: 92326281--92326340 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
92326271 GTTTACAATG
* *
92326281 TAAAAA-AATATATATATATATTGTTA
1 TAAAAATAATATAAATACATATTGTTA
*
92326307 TAAAATTAATATAAATACATATT-TTA
1 TAAAAATAATATAAATACATATTGTTA
92326333 TAAAAATA
1 TAAAAATA
92326341 CTGTAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (27 bp):
TAAAAATAATATAAATACATATTGTTA
Found at i:92332010 original size:52 final size:53
Alignment explanation
Indices: 92331953--92332119 Score: 164
Period size: 52 Copynumber: 3.1 Consensus size: 53
92331943 ATAGAAATTG
92331953 TGAAAATGGAGAAATGAGAAAT-ATTTGAAAATGATTATGGTTTTCTCCAAAA
1 TGAAAATGGAGAAATGAGAAATCATTTGAAAATGATTATGGTTTTCTCCAAAA
* * * *
92332005 TGAAAAT--AAAAATGAAGAAATGAAATCATTTGGAAATAATTATGGTTTTTTTCCAAAA
1 TGAAAATGGAGAAAT---G--A-GAAATCATTTGAAAATGATTATGG-TTTTCTCCAAAA
* * * *
92332063 TGAAAATGGAGAAAT--GAAATCATTTAAAAATGAATGTAGTTTTCTCCAAAA
1 TGAAAATGGAGAAATGAGAAATCATTTGAAAATGATTATGGTTTTCTCCAAAA
92332114 TGAAAA
1 TGAAAA
92332120 AGACCTGGAA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
50 5 0.05
51 17 0.18
52 25 0.27
53 1 0.01
55 1 0.01
56 5 0.05
57 16 0.17
58 18 0.19
60 5 0.05
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (53 bp):
TGAAAATGGAGAAATGAGAAATCATTTGAAAATGATTATGGTTTTCTCCAAAA
Found at i:92332051 original size:57 final size:58
Alignment explanation
Indices: 92331955--92332069 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
92331945 AGAAATTGTG
* *
92331955 AAAATGGAGAAATGAGAAATATTTGAAAATGATTATGG-TTTTCTCCAAAATGAAAATA
1 AAAATGAAGAAAT-AGAAATATTTGAAAATAATTATGGTTTTTCTCCAAAATGAAAATA
* *
92332013 AAAATGAAGAAAT-GAAATCATTTGGAAATAATTATGGTTTTTTTCCAAAATGAAAAT
1 AAAATGAAGAAATAGAAAT-ATTTGAAAATAATTATGGTTTTTCTCCAAAATGAAAAT
92332070 GGAGAAATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 5 0.10
57 16 0.31
58 30 0.59
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31
Consensus pattern (58 bp):
AAAATGAAGAAATAGAAATATTTGAAAATAATTATGGTTTTTCTCCAAAATGAAAATA
Found at i:92332082 original size:57 final size:55
Alignment explanation
Indices: 92331953--92332082 Score: 144
Period size: 57 Copynumber: 2.4 Consensus size: 55
92331943 ATAGAAATTG
*
92331953 TGAAAATGGAGAAATG--A-GAAATATTTGAAAATGATTATGGTTTTCTCCAAAA
1 TGAAAATGGAGAAATGAAATGAAATATTTGAAAATAATTATGGTTTTCTCCAAAA
* * *
92332005 TGAAAAT--AAAAATGAAGAAATGAAATCATTTGGAAATAATTATGGTTTTTTTCCAAAA
1 TGAAAATGGAGAAAT---GAAATGAAAT-ATTTGAAAATAATTATGG-TTTTCTCCAAAA
92332063 TGAAAATGGAGAAATGAAAT
1 TGAAAATGGAGAAATGAAAT
92332083 CATTTAAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
50 5 0.08
52 7 0.11
53 1 0.02
55 1 0.02
56 5 0.08
57 21 0.33
58 18 0.29
60 5 0.08
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (55 bp):
TGAAAATGGAGAAATGAAATGAAATATTTGAAAATAATTATGGTTTTCTCCAAAA
Found at i:92341603 original size:29 final size:30
Alignment explanation
Indices: 92341540--92341607 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
92341530 AAGGGGTCGG
* * *
92341540 ATAAAATTTTAATTTTTTATAGTATATTAT
1 ATAAAATTTTAATTTTTTATAGAAGATTAA
92341570 ATAAAATTTTAATTTTTT-TA-AAGATTAA
1 ATAAAATTTTAATTTTTTATAGAAGATTAA
*
92341598 ATTAAATTTT
1 ATAAAATTTT
92341608 TATAATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 14 0.41
29 2 0.06
30 18 0.53
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (30 bp):
ATAAAATTTTAATTTTTTATAGAAGATTAA
Found at i:92347835 original size:2 final size:2
Alignment explanation
Indices: 92347822--92347859 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
92347812 CGAATTCATT
*
92347822 CA CA CG CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
92347860 TATATATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:92348120 original size:39 final size:39
Alignment explanation
Indices: 92348077--92348208 Score: 201
Period size: 39 Copynumber: 3.4 Consensus size: 39
92348067 GGTCTTTAAC
* ** *
92348077 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
92348116 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
92348155 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
92348194 CCGGATATATTTCCA
1 CCGGATATATTTCCA
92348209 ATCTCATATA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:92349584 original size:25 final size:25
Alignment explanation
Indices: 92349550--92349601 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
92349540 AGCTGAAACC
92349550 TATGCATAGCATTATTCAAGATTTA
1 TATGCATAGCATTATTCAAGATTTA
92349575 TATGCATAGCATTATTCAAGATTTA
1 TATGCATAGCATTATTCAAGATTTA
92349600 TA
1 TA
92349602 CCCTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (25 bp):
TATGCATAGCATTATTCAAGATTTA
Found at i:92355770 original size:2 final size:2
Alignment explanation
Indices: 92355763--92355804 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
92355753 CGAACTCATT
92355763 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
92355805 TATATATATC
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:92356063 original size:39 final size:39
Alignment explanation
Indices: 92356020--92356151 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
92356010 GGTCTTTAAC
* ** * *
92356020 CCGGATATTTTTCCAGCACGTAGCCTGCAGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
92356059 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
92356098 CCGGATATTTTTTCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
92356137 CCGGATATATTTCCA
1 CCGGATATATTTCCA
92356152 ATCTCATATA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:92364694 original size:10 final size:10
Alignment explanation
Indices: 92364668--92364699 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
92364658 GATCAAGTAA
92364668 AATT-AAATT
1 AATTAAAATT
92364677 AA-TAAAATT
1 AATTAAAATT
92364686 AATTAAAATT
1 AATTAAAATT
92364696 AATT
1 AATT
92364700 TTTAAGTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 9 0.43
10 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTAAAATT
Found at i:92368491 original size:18 final size:18
Alignment explanation
Indices: 92368468--92368505 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
92368458 CACAGCTGAG
*
92368468 ACACGCGCCTGTGTCTCT
1 ACACGCGCCCGTGTCTCT
92368486 ACACGCGCCCGTGTCTCT
1 ACACGCGCCCGTGTCTCT
92368504 AC
1 AC
92368506 CCTTGTGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.42, G:0.21, T:0.24
Consensus pattern (18 bp):
ACACGCGCCCGTGTCTCT
Found at i:92370389 original size:26 final size:25
Alignment explanation
Indices: 92370333--92370391 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
92370323 TTTGTTCCAC
* * *
92370333 TTTTTTTTCCTTTTTCTATTTTGTT
1 TTTTATTTCCTTTTTCTATTTTATG
*
92370358 TCTTTATTTCCTTTTATTTATTTTATG
1 T-TTTATTTCCTTTT-TCTATTTTATG
92370385 TTTTATT
1 TTTTATT
92370392 ATATTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.04
26 18 0.64
27 9 0.32
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.76
Consensus pattern (25 bp):
TTTTATTTCCTTTTTCTATTTTATG
Found at i:92377344 original size:16 final size:16
Alignment explanation
Indices: 92377323--92377360 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92377313 CTTTATTTCC
*
92377323 TTTTATT-TATTTTAT
1 TTTTATTATATTATAT
92377338 GTTTTATTATATTATAT
1 -TTTTATTATATTATAT
92377355 TTTTAT
1 TTTTAT
92377361 ATTAATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTATTATATTATAT
Found at i:92378183 original size:33 final size:33
Alignment explanation
Indices: 92378135--92378197 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
92378125 TGTAGTACGC
*
92378135 CACTTGTCTTAGGCAAACGTTTGGAGCATCTGT
1 CACTTGTCCTAGGCAAACGTTTGGAGCATCTGT
* *
92378168 CACTTGTCCTGGGCAAATGTTTGGAGCATC
1 CACTTGTCCTAGGCAAACGTTTGGAGCATC
92378198 CGATCTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (33 bp):
CACTTGTCCTAGGCAAACGTTTGGAGCATCTGT
Found at i:92389225 original size:26 final size:22
Alignment explanation
Indices: 92389196--92389243 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
92389186 AGTTGTAAAG
92389196 AGAAAATTCTCTGAATAGATTATTTC
1 AGAAAATT-TCT-AA-AGA-TATTTC
92389222 AGAAAATTTCTAAAGATATTTC
1 AGAAAATTTCTAAAGATATTTC
92389244 TATGATGCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
24 2 0.09
25 3 0.14
26 8 0.36
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (22 bp):
AGAAAATTTCTAAAGATATTTC
Found at i:92390379 original size:20 final size:20
Alignment explanation
Indices: 92390356--92390393 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
92390346 GTAACATTGT
* *
92390356 TAAACATTATAATTAAAATG
1 TAAACATGAAAATTAAAATG
92390376 TAAACATGAAAATTAAAA
1 TAAACATGAAAATTAAAA
92390394 ATTATAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAACATGAAAATTAAAATG
Found at i:92390421 original size:21 final size:20
Alignment explanation
Indices: 92390384--92390425 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
92390374 TGTAAACATG
*
92390384 AAAATTAAAAATTATAATATA
1 AAAATTAAAAATAATAA-ATA
92390405 AAAATTAATAAA-AATAAATA
1 AAAATTAA-AAATAATAAATA
92390425 A
1 A
92390426 TTTAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 12 0.63
22 3 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATTAAAAATAATAAATA
Found at i:92390425 original size:25 final size:25
Alignment explanation
Indices: 92390389--92390449 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
92390379 ACATGAAAAT
*
92390389 TAAAAAT-TATAATATAAAAATTAA
1 TAAAAATAAATAATATAAAAATTAA
* * *
92390413 TAAAAATAAATAATTTAATAATTTA
1 TAAAAATAAATAATATAAAAATTAA
*
92390438 TATACAATAAAT
1 TA-AAAATAAAT
92390450 TAACAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 7 0.23
25 15 0.50
26 8 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TAAAAATAAATAATATAAAAATTAA
Found at i:92391099 original size:5 final size:5
Alignment explanation
Indices: 92391089--92391124 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
92391079 CATTCATAAA
92391089 AAAAT AAAAT AAAAT AAAAT AAAAAT AATAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAA
92391125 CTGATTACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:92391104 original size:10 final size:10
Alignment explanation
Indices: 92391089--92391124 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
92391079 CATTCATAAA
92391089 AAAATAAAAT
1 AAAATAAAAT
92391099 AAAATAAAAT
1 AAAATAAAAT
92391109 AAAAATAATAAT
1 -AAAATAA-AAT
92391121 AAAA
1 AAAA
92391125 CTGATTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 11 0.46
12 3 0.12
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:92391700 original size:16 final size:16
Alignment explanation
Indices: 92391679--92391711 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
92391669 CCTTTTAATC
*
92391679 ATAAATATAATTTTAA
1 ATAAATATAACTTTAA
92391695 ATAAATATAACTTTAA
1 ATAAATATAACTTTAA
92391711 A
1 A
92391712 AGATTTATGA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAAATATAACTTTAA
Found at i:92394163 original size:7 final size:6
Alignment explanation
Indices: 92394133--92394161 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
92394123 CCAACAAGTA
92394133 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
92394162 ATCAGCTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:92398633 original size:22 final size:22
Alignment explanation
Indices: 92398608--92398664 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
92398598 TTAACACTAT
92398608 TTTTGTATATTTTTAA-ACTGTC
1 TTTT-TATATTTTTAAGACTGTC
*
92398630 TTTTT-TATTATTTAAGACTTTC
1 TTTTTATATT-TTTAAGACTGTC
92398652 TTTTATATATTTT
1 TTTT-TATATTTT
92398665 ATTTTAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (22 bp):
TTTTTATATTTTTAAGACTGTC
Found at i:92398662 original size:21 final size:20
Alignment explanation
Indices: 92398613--92398663 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
92398603 ACTATTTTTG
*
92398613 TATATTTTTAAACTGTCTTT
1 TATATATTTAAACTGTCTTT
* *
92398633 TTTATTATTTAAGACTTTCTTT
1 TATA-TATTTAA-ACTGTCTTT
92398655 TATATATTT
1 TATATATTT
92398664 TATTTTAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 11 0.44
22 11 0.44
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (20 bp):
TATATATTTAAACTGTCTTT
Found at i:92411080 original size:44 final size:44
Alignment explanation
Indices: 92411005--92411577 Score: 402
Period size: 44 Copynumber: 13.3 Consensus size: 44
92410995 ATAGCAGGTA
* *
92411005 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAGATGCAGATCTTG
* *
92411048 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGA--AAGTAT-TTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAGATGCAG-ATCTTG
* * * * * *
92411090 TCTTCATGTATTGG-CGTGAAGTGGATCGAAGAT-AAGAT-TTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAGATGCAGATCTTG
* *
92411131 TCTTCCCATATTGGT-GCGAAGTAGATCGAAGAAAGCAGATC-T-
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAG-ATGCAGATCTTG
* * ***
92411173 TC-TCATGTA-TGG-CATGAAGT--ATCGATAGATGCAGATCTTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCGA-AGATGCAGATCTTG
* *
92411213 TCTTCCCATATTGGTGGCGAA-TAGATCGAAGAAAGC-GATCTTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAG-ATGCAGATCTTG
* * * * * * *
92411256 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAGAT-GCAGATCTTG
* *
92411300 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAGATGCAGATCTTG
* * *
92411343 TCTTCCCATATTGGTGGCGAAGTAGATCGCATA-AAGTAGATCTTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCG-A-AGATGCAGATCTTG
* * * * * * *
92411388 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTA
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAGAT-GCAGATCTTG
* * * * *
92411432 TCTTCCTATATTGATAG-GAAGTTGATCCAAGATACA-ATCTTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAGATGCAGATCTTG
* * * *
92411474 TCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAG-ATGCAGATCTTG
* * * * * *
92411519 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTA
1 TCTTCCTATATTGGTGGCGAAGTAGATCGAAGAT-GCAGATCTTG
*
92411563 CCTTCCTATATTGGT
1 TCTTCCTATATTGGT
92411578 AGGAAGTGGA
Statistics
Matches: 408, Mismatches: 90, Indels: 62
0.73 0.16 0.11
Matches are distributed among these distances:
38 13 0.03
39 3 0.01
40 10 0.02
41 53 0.13
42 47 0.12
43 97 0.24
44 144 0.35
45 40 0.10
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (44 bp):
TCTTCCTATATTGGTGGCGAAGTAGATCGAAGATGCAGATCTTG
Found at i:92411311 original size:87 final size:89
Alignment explanation
Indices: 92411022--92411601 Score: 555
Period size: 87 Copynumber: 6.8 Consensus size: 89
92411012 ATATTGGTAG
*
92411022 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG--
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
*
92411084 TAT-TTGTCTTCATGTATTGGCGT
66 GATCTTGTCTTCATGTATTGGCGT
*
92411107 GAAGTGGATCGAAGATA--AGAT-TTGTCTTCCCATATTGGT-GCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
*
92411168 GATC-T-TC-TCATGTA-TGGCAT
66 GATCTTGTCTTCATGTATTGGCGT
92411188 GAAGT--ATCGATAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAA-TAGATCGAAGAAAGC
1 GAAGTAGATCGA-AGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
92411249 -GATCTTGTCTTCATGTATTGGCGT
65 AGATCTTGTCTTCATGTATTGGCGT
* * * * * * *
92411273 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
*** * *
92411336 GATCTTGTCTTCCCATATTGGTGGC
66 GATCTTGTCTTCATGTATTGG-CGT
* * * * *** * * *
92411361 GAAGTAGATCGCATAAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
* * * * * **
92411425 GGTCCTATCTTCCTATATTGATAG-
66 GATCTTGTCTTCATGTATTG-GCGT
* * * *
92411449 GAAGTTGATCCAAGATA-CA-ATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
92411512 GATCTTGTCTTCATGTATTGGCGT
66 GATCTTGTCTTCATGTATTGGCGT
* ** * * * *
92411536 GAAGTAGATCGAAGATAGCAGATCCTACCTTCCTATATTGGTAG-GAAGTGGATTGAA-AAA-CA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
92411598 GATC
66 GATC
92411602 CTATCTCCCT
Statistics
Matches: 406, Mismatches: 63, Indels: 51
0.78 0.12 0.10
Matches are distributed among these distances:
79 5 0.01
80 4 0.01
81 18 0.04
82 61 0.15
83 27 0.07
84 14 0.03
85 26 0.06
86 32 0.08
87 111 0.27
88 71 0.17
89 37 0.09
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (89 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
GATCTTGTCTTCATGTATTGGCGT
Found at i:92411550 original size:131 final size:132
Alignment explanation
Indices: 92411022--92411588 Score: 646
Period size: 131 Copynumber: 4.4 Consensus size: 132
92411012 ATATTGGTAG
* * * * * * *
92411022 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA-A-AG
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCCAAGATACAG
*** * * * * ***
92411084 TAT-TTGTCTTCATGTATTGG-CGTGAAGTGGATCGAAGATA--AGAT-TTGTCTTCCCATATTG
65 -ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
* *
92411144 GTGC
129 GCGT
* * * * * * *
92411148 GAAGTAGATCGAAGAAAGCAGAT-CT-TC-TCATGTA-TGGCATGAAGT--ATCGATAGATGCAG
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCCA-AGATACAG
92411207 ATCTTGTCTTCCCATATTGGTGGCGAA-TAGATCGAAGAAAGC-GATCTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
92411270 CGT
130 CGT
* * *
92411273 GAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCCAAGATACAGA
* * *
92411338 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCATAAAGTAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
92411403 GT
131 GT
* * *
92411405 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTTGATCCAAGATACA-A
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCCAAGATACAGA
* *
92411469 TCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
92411534 GT
131 GT
*
92411536 GAAGTAGATCGAAGATAGCAGATCCTACCTTCCTATATTGGTAGGAAGTGGAT
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGAT
92411589 TGAAAAACAG
Statistics
Matches: 378, Mismatches: 46, Indels: 29
0.83 0.10 0.06
Matches are distributed among these distances:
120 5 0.01
121 3 0.01
122 7 0.02
123 30 0.08
124 11 0.03
125 38 0.10
126 17 0.04
127 8 0.02
128 5 0.01
129 9 0.02
130 35 0.09
131 129 0.34
132 81 0.21
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCCAAGATACAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:92413176 original size:22 final size:22
Alignment explanation
Indices: 92413151--92413206 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
92413141 TTAACACTAT
92413151 TTTTGTATATTTTTAA-ACTGTC
1 TTTT-TATATTTTTAAGACTGTC
* *
92413173 TTTTTAT-TATTTAAGACTTTC
1 TTTTTATATTTTTAAGACTGTC
92413194 TTTTATATATTTT
1 TTTT-TATATTTT
92413207 ATTTTAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 12 0.43
22 7 0.25
23 3 0.11
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTTATATTTTTAAGACTGTC
Found at i:92413197 original size:21 final size:19
Alignment explanation
Indices: 92413158--92413205 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
92413148 TATTTTTGTA
92413158 TATT-TTTAAACTGTCTTTT
1 TATTATTTAAACTGTC-TTT
*
92413177 TATTATTTAAGACTTTCTTT
1 TATTATTTAA-ACTGTCTTT
92413197 TATATATTT
1 TAT-TATTT
92413206 TATTTTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (19 bp):
TATTATTTAAACTGTCTTT
Found at i:92413534 original size:39 final size:37
Alignment explanation
Indices: 92413491--92413585 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 37
92413481 TATATACGTA
* *
92413491 CTTATACATACTTAAATATATTTTTCATATTTCATA-ATT
1 CTTATACATACTTAAATATATTATACATATTT--TACA-T
*
92413530 CTTAT--ATACTTACATATATTATACATATTTTACAT
1 CTTATACATACTTAAATATATTATACATATTTTACAT
* *
92413565 CATATACATACTTATATATAT
1 CTTATACATACTTAAATATAT
92413586 ATTCTTTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
35 7 0.15
36 1 0.02
37 35 0.73
39 5 0.10
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (37 bp):
CTTATACATACTTAAATATATTATACATATTTTACAT
Found at i:92422409 original size:21 final size:20
Alignment explanation
Indices: 92422385--92422423 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
92422375 ATCAAATTCC
*
92422385 ACCTTTCAGTCCCTAAAATGG
1 ACCTATCAGTCCC-AAAATGG
*
92422406 ACCTATGAGTCCCAAAAT
1 ACCTATCAGTCCCAAAAT
92422424 AAGTTTAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
ACCTATCAGTCCCAAAATGG
Found at i:92424729 original size:3 final size:3
Alignment explanation
Indices: 92424721--92424748 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
92424711 TTTGTAAATT
92424721 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
92424749 GTAAATATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:92436492 original size:42 final size:41
Alignment explanation
Indices: 92436446--92436582 Score: 141
Period size: 42 Copynumber: 3.3 Consensus size: 41
92436436 TGAGTTTGCG
*
92436446 TGTAAAACCATATATGGGATATGGCATCGTTATGAGATTTCA
1 TGTAAAACCATAT-TGGGATATGGCATCGATATGAGATTTCA
* * * * *
92436488 TGTAAAACCATGTCTGGGACATGGCATCGACATGAGA-ATCG
1 TGTAAAACCATAT-TGGGATATGGCATCGATATGAGATTTCA
* * * *
92436529 TGTAAGACTATAGTTGGGCTATTGGCATCGATATGAGATCTCA
1 TGTAAAACCATA-TTGGGATA-TGGCATCGATATGAGATTTCA
92436572 TGTAAAACCAT
1 TGTAAAACCAT
92436583 GTCTAAGATA
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
41 16 0.21
42 48 0.64
43 11 0.15
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (41 bp):
TGTAAAACCATATTGGGATATGGCATCGATATGAGATTTCA
Found at i:92443874 original size:29 final size:29
Alignment explanation
Indices: 92443841--92443898 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
92443831 TGAAAACATG
92443841 TTAGTTGTTTTTGAAGTTAAATGGAAGAA
1 TTAGTTGTTTTTGAAGTTAAATGGAAGAA
92443870 TTAGTTGTTTTTGAAGTTAAATGGAAGAA
1 TTAGTTGTTTTTGAAGTTAAATGGAAGAA
92443899 AATGAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (29 bp):
TTAGTTGTTTTTGAAGTTAAATGGAAGAA
Found at i:92445600 original size:24 final size:23
Alignment explanation
Indices: 92445566--92445613 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
92445556 GGGACGAAAC
92445566 AAAGAGAAAAGAAAAAGAAAGAA
1 AAAGAGAAAAGAAAAAGAAAGAA
*
92445589 AAAGAGAGAAAGAAAAAGAAGGAA
1 AAAGAGA-AAAGAAAAAGAAAGAA
92445613 A
1 A
92445614 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (23 bp):
AAAGAGAAAAGAAAAAGAAAGAA
Found at i:92445613 original size:14 final size:14
Alignment explanation
Indices: 92445581--92445607 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92445571 GAAAAGAAAA
92445581 AGAAAGAAAAAGAG
1 AGAAAGAAAAAGAG
92445595 AGAAAGAAAAAGA
1 AGAAAGAAAAAGA
92445608 AGGAAATTAG
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAG
Found at i:92463141 original size:16 final size:18
Alignment explanation
Indices: 92463102--92463135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92463092 GAAGTTTATA
92463102 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
92463119 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
92463136 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:92473216 original size:41 final size:42
Alignment explanation
Indices: 92473146--92473267 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
92473136 AGTTAACTCA
* * * *
92473146 TATGAGTTTCTGTTTAACCCTAATGGGTTTTTGTTTAGCT-C
1 TATGAGCTTCAGTTTAACCATAATGGGTTTCTGTTTAGCTCC
* * *
92473187 TTTCGAGCTTCAGTTTAACCAT-ATGGGTTTCCGTTCAGCTCC
1 TAT-GAGCTTCAGTTTAACCATAATGGGTTTCTGTTTAGCTCC
* * * *
92473229 TATGAGCTTCCGTTCAACCTTCATGGGTTTCTGTTTAGC
1 TATGAGCTTCAGTTTAACCATAATGGGTTTCTGTTTAGC
92473268 ACTCATGTGC
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
41 32 0.49
42 33 0.51
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCATAATGGGTTTCTGTTTAGCTCC
Found at i:92478670 original size:28 final size:29
Alignment explanation
Indices: 92478624--92478685 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
92478614 TTGATTTATG
*
92478624 TTATAAAAATATT-ATTTAA-TTAAAATA
1 TTATAAAAATATTAATTAAAGTTAAAATA
* *
92478651 TTATAAATTATATTAATTAAAGTTAAGATA
1 TTATAAA-AATATTAATTAAAGTTAAAATA
92478681 TTATA
1 TTATA
92478686 TTATAGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 5 0.17
29 5 0.17
30 12 0.41
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
TTATAAAAATATTAATTAAAGTTAAAATA
Found at i:92478829 original size:35 final size:34
Alignment explanation
Indices: 92478790--92478859 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 34
92478780 TATTTTTTAT
* *
92478790 TTAAGTAAAAAGATATTTATTATTTATTATAATTA
1 TTAAGTAAAAAGATATTTATTAATTA-AATAATTA
*
92478825 TTAAGTTAAAAGATATTTATTAATTAAATAATTA
1 TTAAGTAAAAAGATATTTATTAATTAAATAATTA
92478859 T
1 T
92478860 ATTATAAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 8 0.25
35 24 0.75
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (34 bp):
TTAAGTAAAAAGATATTTATTAATTAAATAATTA
Found at i:92478863 original size:36 final size:37
Alignment explanation
Indices: 92478786--92478863 Score: 101
Period size: 35 Copynumber: 2.2 Consensus size: 37
92478776 TAATTATTTT
* *
92478786 TTAT-TTAAGTAAAAAGATATTTATTATTTATTATAA
1 TTATATTAAGTAAAAAGATATTTATTAATTATAATAA
*
92478822 -T-TATTAAGTTAAAAGATATTTATTAATTA-AATAA
1 TTATATTAAGTAAAAAGATATTTATTAATTATAATAA
92478856 TTATATTA
1 TTATATTA
92478864 TAAGATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
34 5 0.14
35 26 0.72
36 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (37 bp):
TTATATTAAGTAAAAAGATATTTATTAATTATAATAA
Found at i:92479040 original size:9 final size:9
Alignment explanation
Indices: 92478995--92479042 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
92478985 TATTATAGTG
92478995 TATT-ATTA
1 TATTAATTA
92479003 TTATTAATT-
1 -TATTAATTA
92479012 TATTAATT-
1 TATTAATTA
92479020 TA-TAATTTA
1 TATTAA-TTA
92479029 TATTAATTA
1 TATTAATTA
92479038 TATTA
1 TATTA
92479043 TGAGATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.09
8 12 0.34
9 14 0.40
10 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTAATTA
Found at i:92480056 original size:33 final size:34
Alignment explanation
Indices: 92480013--92480090 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 34
92480003 ATGGATAAGT
* *
92480013 ATTGATATTGAATT-GTATATTAA-TGAAAAGTGAA
1 ATTGA-ATTGAATTCGTAAATGAATTG-AAAGTGAA
*
92480047 ATTGAATTG-ATTCGTAAATGAATTGAAAGTGAT
1 ATTGAATTGAATTCGTAAATGAATTGAAAGTGAA
92480080 ATTGAATTGAA
1 ATTGAATTGAA
92480091 AAAGTGAACC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 3 0.08
33 27 0.71
34 8 0.21
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.37
Consensus pattern (34 bp):
ATTGAATTGAATTCGTAAATGAATTGAAAGTGAA
Found at i:92483480 original size:15 final size:14
Alignment explanation
Indices: 92483441--92483480 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
92483431 GTTAAACTTT
*
92483441 AATGTTAAATGTTA
1 AATGATAAATGTTA
*
92483455 AATGTTAAATGTTA
1 AATGATAAATGTTA
92483469 AATTGATAAATG
1 AA-TGATAAATG
92483481 ATATTATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (14 bp):
AATGATAAATGTTA
Found at i:92483483 original size:7 final size:7
Alignment explanation
Indices: 92483441--92483471 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
92483431 GTTAAACTTT
92483441 AATGTTA
1 AATGTTA
92483448 AATGTTA
1 AATGTTA
92483455 AATGTTA
1 AATGTTA
92483462 AATGTTA
1 AATGTTA
92483469 AAT
1 AAT
92483472 TGATAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (7 bp):
AATGTTA
Found at i:92490090 original size:27 final size:28
Alignment explanation
Indices: 92490049--92490101 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
92490039 AAAACTGTTG
92490049 TTTTTTTACTGTTTTGTTACTATTTTTC
1 TTTTTTTACTGTTTTGTTACTATTTTTC
* * *
92490077 TTTTTTT-CTTTTTTTTTGCTATTTT
1 TTTTTTTACTGTTTTGTTACTATTTT
92490102 GCTATCATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.08, C:0.09, G:0.06, T:0.77
Consensus pattern (28 bp):
TTTTTTTACTGTTTTGTTACTATTTTTC
Found at i:92492816 original size:16 final size:17
Alignment explanation
Indices: 92492784--92492816 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92492774 TATATAAACA
92492784 ATTTATCAAATATTTTG
1 ATTTATCAAATATTTTG
92492801 ATTTATCAAA-ATTTTG
1 ATTTATCAAATATTTTG
92492817 CAATATGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
ATTTATCAAATATTTTG
Found at i:92496437 original size:33 final size:33
Alignment explanation
Indices: 92496395--92496462 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
92496385 CTATGCACAT
92496395 TCTCATCATACCCATAAACAACATTATTTGCAA
1 TCTCATCATACCCATAAACAACATTATTTGCAA
92496428 TCTCATCATACCCATAAACAACATTATTTGCAA
1 TCTCATCATACCCATAAACAACATTATTTGCAA
92496461 TC
1 TC
92496463 ATATGTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (33 bp):
TCTCATCATACCCATAAACAACATTATTTGCAA
Found at i:92498698 original size:8 final size:9
Alignment explanation
Indices: 92498638--92498697 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
92498628 AAGTGGCAAG
92498638 AAAATTATA
1 AAAATTATA
* *
92498647 AAAAATGTA
1 AAAATTATA
*
92498656 AAGAAATAT-
1 AA-AATTATA
92498665 AAAATTCATAAA
1 AAAATT-AT--A
92498677 AAAATTATA
1 AAAATTATA
92498686 AAAATTATA
1 AAAATTATA
92498695 AAA
1 AAA
92498698 TGCTTCTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 3 0.07
9 26 0.62
10 5 0.12
11 2 0.05
12 6 0.14
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAATTATA
Found at i:92498825 original size:18 final size:18
Alignment explanation
Indices: 92498802--92498847 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
92498792 ACTGTCATTG
92498802 ATTTTTATAAAATTTACT
1 ATTTTTATAAAATTTACT
**
92498820 ATTTTT-TATATTTTTACT
1 ATTTTTATA-AAATTTACT
92498838 ATTTTTATAA
1 ATTTTTATAA
92498848 TTATTCTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTATAAAATTTACT
Found at i:92498856 original size:17 final size:17
Alignment explanation
Indices: 92498815--92498860 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
92498805 TTTATAAAAT
*
92498815 TTACTATTTTTTATATTT
1 TTACTA-TTTTTATATTA
92498833 TTACTATTTTTATAATTA
1 TTACTATTTTTAT-ATTA
92498851 TT-CTATTTTT
1 TTACTATTTTT
92498861 CTTTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
TTACTATTTTTATATTA
Found at i:92498860 original size:18 final size:18
Alignment explanation
Indices: 92498815--92498860 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
92498805 TTTATAAAAT
*
92498815 TTACTATTTTTTATATTT
1 TTACTATTTTTTATATTA
92498833 TTACTA-TTTTTATAATTA
1 TTACTATTTTTTAT-ATTA
92498851 TT-CTATTTTT
1 TTACTATTTTT
92498861 CTTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTACTATTTTTTATATTA
Found at i:92498883 original size:10 final size:10
Alignment explanation
Indices: 92498865--92498912 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
92498855 ATTTTTCTTT
*
92498865 TAAAATTTAA
1 TAAATTTTAA
92498875 TAAATTTTAA
1 TAAATTTTAA
* *
92498885 -ATATTTTAT
1 TAAATTTTAA
*
92498894 TAAAATTTAA
1 TAAATTTTAA
92498904 TAAATTTTA
1 TAAATTTTA
92498913 TAACTCTTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TAAATTTTAA
Found at i:92499759 original size:16 final size:15
Alignment explanation
Indices: 92499719--92499766 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
92499709 TTCTAAATTA
92499719 AAATATATTATAAAAGT
1 AAATATATTA-AAAA-T
*
92499736 AATTATATTAAAAAT
1 AAATATATTAAAAAT
92499751 AAATA-ATATAAAAAT
1 AAATATAT-TAAAAAT
92499766 A
1 A
92499767 TTAAATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 13 0.46
16 4 0.14
17 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAATATATTAAAAAT
Found at i:92508688 original size:18 final size:18
Alignment explanation
Indices: 92508665--92508699 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
92508655 AATCTCACGA
92508665 CAATCTTTGTTTATTTTT
1 CAATCTTTGTTTATTTTT
92508683 CAATCTTTGTTTATTTT
1 CAATCTTTGTTTATTTT
92508700 GTTGTATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (18 bp):
CAATCTTTGTTTATTTTT
Found at i:92512884 original size:21 final size:20
Alignment explanation
Indices: 92512850--92512903 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
92512840 GTTAAACAGA
*
92512850 AGCTGAACGAAAACTCAT-ATG
1 AGCTAAACG-AAACTCATGA-G
*
92512871 AGCTAAACAGAAACTCGTGAG
1 AGCTAAAC-GAAACTCATGAG
92512892 AGCTAAACGAAA
1 AGCTAAACGAAA
92512904 AGTAAACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 23 0.79
22 2 0.07
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (20 bp):
AGCTAAACGAAACTCATGAG
Found at i:92513554 original size:17 final size:18
Alignment explanation
Indices: 92513528--92513563 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
92513518 GACCTAATTG
*
92513528 TAAAAGTTTCAA-AAAAA
1 TAAAAATTTCAAGAAAAA
92513545 TAAAAATTTCAAGAAAAA
1 TAAAAATTTCAAGAAAAA
92513563 T
1 T
92513564 GTAAGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (18 bp):
TAAAAATTTCAAGAAAAA
Found at i:92518870 original size:2 final size:2
Alignment explanation
Indices: 92518865--92518905 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
92518855 AATGAATATA
92518865 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
92518906 AAATGTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:92519627 original size:23 final size:23
Alignment explanation
Indices: 92519599--92519645 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
92519589 AATGGAATGG
*
92519599 AAAGTAAGTAAAGGAAGTTATTC
1 AAAGTAAGTAAAAGAAGTTATTC
92519622 AAAGTAAGTAAAAGAAGTTATTC
1 AAAGTAAGTAAAAGAAGTTATTC
92519645 A
1 A
92519646 TAGTTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (23 bp):
AAAGTAAGTAAAAGAAGTTATTC
Found at i:92519924 original size:17 final size:16
Alignment explanation
Indices: 92519902--92519933 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
92519892 TTACAGATTA
92519902 TTGGAAGCTCGATTGGG
1 TTGGAAGCTCG-TTGGG
92519919 TTGGAAGCTCGTTGG
1 TTGGAAGCTCGTTGG
92519934 AGATCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.12, G:0.41, T:0.31
Consensus pattern (16 bp):
TTGGAAGCTCGTTGGG
Found at i:92522753 original size:31 final size:31
Alignment explanation
Indices: 92522718--92522777 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
92522708 GTTTACCCTT
* *
92522718 TTAAAAATCATATTTGACTT-ACTCTTTGAAA
1 TTAAAAATCAAATTTAACTTCA-TCTTTGAAA
92522749 TTAAAAATCAAATTTAACTTCATCTTTGA
1 TTAAAAATCAAATTTAACTTCATCTTTGA
92522778 TCTTTCTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (31 bp):
TTAAAAATCAAATTTAACTTCATCTTTGAAA
Found at i:92531538 original size:7 final size:7
Alignment explanation
Indices: 92531526--92531559 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
92531516 AATCCCCCTC
92531526 CCCTCCT
1 CCCTCCT
92531533 CCCTCCT
1 CCCTCCT
92531540 CCCTCCT
1 CCCTCCT
**
92531547 CCCGGCT
1 CCCTCCT
92531554 CCCTCC
1 CCCTCC
92531560 CCCCCTAGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.71, G:0.06, T:0.24
Consensus pattern (7 bp):
CCCTCCT
Found at i:92531542 original size:21 final size:20
Alignment explanation
Indices: 92531518--92531565 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
92531508 CCCCGTCCAA
*
92531518 TCCCCCTCCCCTCCTCCCTCC
1 TCCCCCT-CCCGCCTCCCTCC
*
92531539 TCCCTCCTCCCGGCTCCCTCC
1 TCCC-CCTCCCGCCTCCCTCC
92531560 -CCCCCT
1 TCCCCCT
92531566 AGCGCCACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
21 15 0.62
22 3 0.12
ACGTcount: A:0.00, C:0.73, G:0.04, T:0.23
Consensus pattern (20 bp):
TCCCCCTCCCGCCTCCCTCC
Found at i:92532499 original size:24 final size:23
Alignment explanation
Indices: 92532472--92532517 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
92532462 CGCATAGAAT
* *
92532472 TAATAACATAATTAACATAATTTG
1 TAATAACACAACT-ACATAATTTG
*
92532496 TAATTACACAACTACATAATTT
1 TAATAACACAACTACATAATTT
92532518 TAAAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (23 bp):
TAATAACACAACTACATAATTTG
Found at i:92548359 original size:36 final size:36
Alignment explanation
Indices: 92548316--92548440 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 36
92548306 TAAATATTGC
*
92548316 AAATTATTATATAAAATCAAACAAAAACTAAATAAA
1 AAATTATTACATAAAATCAAACAAAAACTAAATAAA
* * * *
92548352 AAATTATTACAAAAAAGCACAAGGGAAAATAAACAAAATATAA
1 AAATTATTACATAAAA--TCAA---ACAA-AAACTAAATA-AA
* * * *
92548395 AAATTGTGAACATAAAATCAAACCAAAACTGAATAAA
1 AAATTAT-TACATAAAATCAAACAAAAACTAAATAAA
92548432 AAATTATTA
1 AAATTATTA
92548441 TAAAGTAAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 16
0.68 0.15 0.16
Matches are distributed among these distances:
36 15 0.23
37 8 0.12
38 11 0.17
39 2 0.03
41 3 0.05
42 12 0.18
43 8 0.12
44 7 0.11
ACGTcount: A:0.63, C:0.10, G:0.06, T:0.22
Consensus pattern (36 bp):
AAATTATTACATAAAATCAAACAAAAACTAAATAAA
Found at i:92548440 original size:80 final size:82
Alignment explanation
Indices: 92548326--92548488 Score: 224
Period size: 80 Copynumber: 2.0 Consensus size: 82
92548316 AAATTATTAT
*
92548326 ATAAAATCAAACAAAAACTAAATAAAAAATTATTA-CAA-AAAAGCACAAGGGAAAATAAACAAA
1 ATAAAATCAAACAAAAACTAAATAAAAAATTATTATAAAGAAAAGCACAA-GGAAAATAAACAAA
92548389 ATATAAAAATT-GTGAAC
65 ATATAAAAATTGGTGAAC
* * * * **
92548406 ATAAAATCAAACCAAAACTGAATAAAAAATTATTATAAAGTAAAAGCTCAAGGTAAATAAATTAA
1 ATAAAATCAAACAAAAACTAAATAAAAAATTATTATAAAG-AAAAGCACAAGGAAAATAAACAAA
92548471 ATATAAAAATTGGTGAAC
65 ATATAAAAATTGGTGAAC
92548489 TATACTTGGA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
80 33 0.46
81 2 0.03
82 22 0.31
83 15 0.21
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (82 bp):
ATAAAATCAAACAAAAACTAAATAAAAAATTATTATAAAGAAAAGCACAAGGAAAATAAACAAAA
TATAAAAATTGGTGAAC
Found at i:92548845 original size:18 final size:19
Alignment explanation
Indices: 92548810--92548847 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
92548800 ACTGTATATG
*
92548810 TGAATTAATTTGTTTAATT
1 TGAATTAATTTATTTAATT
92548829 TGAATTAA-TTATTTAATT
1 TGAATTAATTTATTTAATT
92548847 T
1 T
92548848 AATATTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TGAATTAATTTATTTAATT
Found at i:92556483 original size:40 final size:40
Alignment explanation
Indices: 92556399--92556484 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
92556389 CGCTAGGACC
* * * *
92556399 AAAAACGCCGCTATAAATCGAGTATTAGCGACACATTTTG
1 AAAAATGCCGCTATAAATCGAGCATCAGCGACACATTTTA
* * *
92556439 AAAAATGCCGCTATAGATCGAGCATCAGCGACGCTTTTTA
1 AAAAATGCCGCTATAAATCGAGCATCAGCGACACATTTTA
92556479 AAAAAT
1 AAAAAT
92556485 ACCACAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (40 bp):
AAAAATGCCGCTATAAATCGAGCATCAGCGACACATTTTA
Found at i:92556699 original size:39 final size:40
Alignment explanation
Indices: 92556535--92556723 Score: 263
Period size: 40 Copynumber: 4.8 Consensus size: 40
92556525 AGCTTCAGTG
*
92556535 GCATTAGTGGCGCTTTTTGAAAAATGCCGCTATAGATCGA
1 GCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * *
92556575 GCACTAGTGGTGCTTTTTGAAAAACGCCGTTATAGATCGA
1 GCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
*
92556615 GCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGGTCGA
1 GCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * * * *
92556655 CCATTAGCGGCGCTTTTTGAAAAAC-ACGCTATAAATCAA
1 GCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* *
92556694 GCATTAGCGGCGCTTTTTAAAAAACGCCGC
1 GCATTAGTGGCGCTTTTTGAAAAACGCCGC
92556724 AAAAAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
39 33 0.25
40 98 0.75
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (40 bp):
GCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:92556882 original size:21 final size:21
Alignment explanation
Indices: 92556813--92556901 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
92556803 AATCAATTTA
* *
92556813 GTTTATGGGTTATGGTTTAGG
1 GTTTATAGTTTATGGTTTAGG
** * *
92556834 GTTTAGGGTTTATAGTTTAGT
1 GTTTATAGTTTATGGTTTAGG
* *
92556855 GCTTATAGTTTATGTTTTAGG
1 GTTTATAGTTTATGGTTTAGG
* * *
92556876 GTTTATAATTTAGGGTTTGGG
1 GTTTATAGTTTATGGTTTAGG
92556897 GTTTA
1 GTTTA
92556902 GAAGTTAGGG
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.51
Consensus pattern (21 bp):
GTTTATAGTTTATGGTTTAGG
Found at i:92556909 original size:21 final size:21
Alignment explanation
Indices: 92556874--92556914 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92556864 TTATGTTTTA
* *
92556874 GGGTTTATAATTTAGGGTTTG
1 GGGTTTAGAAGTTAGGGTTTG
92556895 GGGTTTAGAAGTTAGGGTTT
1 GGGTTTAGAAGTTAGGGTTT
92556915 AAGGGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.44
Consensus pattern (21 bp):
GGGTTTAGAAGTTAGGGTTTG
Found at i:92557464 original size:43 final size:43
Alignment explanation
Indices: 92557413--92557531 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
92557403 TATAGGTTGT
*
92557413 GATATAATGTTTATTATTTTAGGGTTTAGGGTTTATGATTTAA
1 GATATAATGTTTATTATTTTAGGGTTTAGGGTTTAGGATTTAA
* * * * *
92557456 GATTTAATGTTTA--ATGTCTATGGTTTAGGGGTTTAGGGTTTAT
1 GATATAATGTTTATTAT-TTTAGGGTTTA-GGGTTTAGGATTTAA
*
92557499 GATATAATGTTTATTATTTT-GGGTTTAGAGTTT
1 GATATAATGTTTATTATTTTAGGGTTTAGGGTTT
92557532 TTAGTTTAGG
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.03
42 14 0.23
43 42 0.68
44 2 0.03
45 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.24, T:0.51
Consensus pattern (43 bp):
GATATAATGTTTATTATTTTAGGGTTTAGGGTTTAGGATTTAA
Found at i:92557566 original size:14 final size:14
Alignment explanation
Indices: 92557521--92557566 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
92557511 ATTATTTTGG
*
92557521 GTTTAGAGTTTTTA
1 GTTTAGAGTTTATA
* *
92557535 GTTTAGGGTTTATG
1 GTTTAGAGTTTATA
*
92557549 GTTTAGAGTTTGTA
1 GTTTAGAGTTTATA
92557563 GTTT
1 GTTT
92557567 TTTGTTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.54
Consensus pattern (14 bp):
GTTTAGAGTTTATA
Found at i:92557762 original size:20 final size:20
Alignment explanation
Indices: 92557734--92557784 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
92557724 AATATATATA
92557734 TTTAAGGTTTAGGGTGT-AGG
1 TTTAAGGTTTAGGGT-TAAGG
* *
92557754 TTTATGGTTTGGGGTTAAGG
1 TTTAAGGTTTAGGGTTAAGG
*
92557774 TTTAGGGTTTA
1 TTTAAGGTTTA
92557785 CTATTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (20 bp):
TTTAAGGTTTAGGGTTAAGG
Found at i:92558008 original size:17 final size:18
Alignment explanation
Indices: 92557986--92558019 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92557976 TATTTAATTT
92557986 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
92558003 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
92558020 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:92561442 original size:42 final size:42
Alignment explanation
Indices: 92561379--92561489 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
92561369 AAATATTTTT
* **
92561379 TTAAAGGTCATGTTTTTTAGCGGCATTTATGGGAAAAGCGTCG
1 TTAAAGGTC-TGTTTTCTAGCGGCATTTATGGGAAAAGCACCG
* * *
92561422 TTAAAGTTCTGTTTTCTAGCGGCGTTTGTGGGAAAAGCACCG
1 TTAAAGGTCTGTTTTCTAGCGGCATTTATGGGAAAAGCACCG
* *
92561464 CTAAAGGTCTGTTCTCTAGCGGCATT
1 TTAAAGGTCTGTTTTCTAGCGGCATT
92561490 GTCTTTAGCG
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
42 50 0.86
43 8 0.14
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (42 bp):
TTAAAGGTCTGTTTTCTAGCGGCATTTATGGGAAAAGCACCG
Found at i:92565945 original size:21 final size:20
Alignment explanation
Indices: 92565911--92565949 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
92565901 TATACAAATG
92565911 AATTTAACTCAATTTAATAT
1 AATTTAACTCAATTTAATAT
*
92565931 AATTTATATTCAATTTAAT
1 AATTTA-ACTCAATTTAAT
92565950 CCAACACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTAACTCAATTTAATAT
Found at i:92566632 original size:16 final size:15
Alignment explanation
Indices: 92566591--92566632 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
92566581 GATGTATTAA
*
92566591 TAAAGTTTAAAATAG
1 TAAAGATTAAAATAG
92566606 TAAA-ATATAAAATAAG
1 TAAAGAT-TAAAAT-AG
92566622 TAAAGATTAAA
1 TAAAGATTAAA
92566633 TAAAACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 10 0.43
16 10 0.43
17 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
TAAAGATTAAAATAG
Found at i:92575403 original size:17 final size:18
Alignment explanation
Indices: 92575357--92575403 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
92575347 ATACTCATGC
92575357 ATATATATATTATAGATAG
1 ATATATAT-TTATAGATAG
* *
92575376 ATAGAGA-TTATAGATA-
1 ATATATATTTATAGATAG
92575392 ATATATATTTAT
1 ATATATATTTAT
92575404 TTTGTTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.22
17 13 0.57
19 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
ATATATATTTATAGATAG
Found at i:92585356 original size:17 final size:17
Alignment explanation
Indices: 92585334--92585372 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
92585324 TATTACCCTC
* *
92585334 AAAATTATTTTTTAACT
1 AAAATTATATTCTAACT
*
92585351 AAAATTATATTCTAATT
1 AAAATTATATTCTAACT
92585368 AAAAT
1 AAAAT
92585373 GAAGCATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATTATATTCTAACT
Found at i:92586227 original size:13 final size:12
Alignment explanation
Indices: 92586209--92586240 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
92586199 CGGCTTAAGG
92586209 TTTTTTTTCTTT
1 TTTTTTTTCTTT
92586221 TTTTTTTTCTTT
1 TTTTTTTTCTTT
92586233 TTTATTTT
1 TTT-TTTT
92586241 ATTATTCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:92587315 original size:2 final size:2
Alignment explanation
Indices: 92587308--92587389 Score: 59
Period size: 2 Copynumber: 43.5 Consensus size: 2
92587298 GTGTATGTAT
* * *
92587308 TA TA TA TA TT TT TA -A TA CTA TA T- TA TG TA TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * *
92587347 TA TA TA TA TA T- TA TA TA TA TA TC TA T- TA TA TT TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92587387 TA T
1 TA T
92587390 TTTTAATATC
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
1 6 0.10
2 55 0.87
3 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:92587342 original size:11 final size:11
Alignment explanation
Indices: 92587326--92587390 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 11
92587316 TTTTTAATAC
92587326 TATATTATGTA
1 TATATTATGTA
*
92587337 TATATTATATTA
1 TATATTAT-GTA
92587349 TATATATAT-TA
1 TATAT-TATGTA
*
92587360 TATATATATCTA
1 TATAT-TATGTA
92587372 TTATATTTATGTA
1 -TATA-TTATGTA
92587385 TATATT
1 TATATT
92587391 TTTAATATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
11 21 0.45
12 13 0.28
13 12 0.26
14 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
TATATTATGTA
Found at i:92587354 original size:9 final size:9
Alignment explanation
Indices: 92587326--92587389 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
92587316 TTTTTAATAC
*
92587326 TATATTATG
1 TATATTATA
92587335 TATA-TAT-
1 TATATTATA
92587342 TATATTATA
1 TATATTATA
92587351 TATA-TAT-
1 TATATTATA
92587358 TATATATATA
1 TATAT-TATA
*
92587368 TCTATTATA
1 TATATTATA
*
92587377 TTTATGTATA
1 TATAT-TATA
92587387 TAT
1 TAT
92587390 TTTTAATATC
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 8 0.17
8 9 0.20
9 19 0.41
10 10 0.22
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (9 bp):
TATATTATA
Found at i:92587574 original size:3 final size:3
Alignment explanation
Indices: 92587568--92587623 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
92587558 TAAATTCATA
* *
92587568 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
92587615 TAT TAT TAT
1 TAT TAT TAT
92587624 CATCATCATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 2 0.04
3 39 0.87
4 1 0.02
5 2 0.04
6 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:92600104 original size:44 final size:44
Alignment explanation
Indices: 92599992--92600478 Score: 729
Period size: 44 Copynumber: 11.2 Consensus size: 44
92599982 TCCTTGAAAC
92599992 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
92600036 AGAT---A-ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
92600076 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
92600120 AGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
92600164 AGAT----GATTTGGCATCTCTGTAGCTGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
92600204 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
92600248 AGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATTGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
92600292 AGATAACAGAGTTGGCGTCTCCGTAGCGGTGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * * *
92600336 AGATAACAGATTTGGCATCTTTGTAGCGACGGAAAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
92600380 AGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGACCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
92600424 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
92600468 AAATAACAGAT
1 AGATAACAGAT
92600479 CGGTGTTCCT
Statistics
Matches: 399, Mismatches: 36, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
40 75 0.19
41 1 0.00
43 1 0.00
44 322 0.81
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.21
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:92600225 original size:128 final size:129
Alignment explanation
Indices: 92599992--92600478 Score: 726
Period size: 128 Copynumber: 3.7 Consensus size: 129
92599982 TCCTTGAAAC
92599992 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATA-ATTTGGCATCTCTGT
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGT
92600056 AGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
66 AGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
*
92600120 AGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-GATTTGGCATCTCTGT
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGT
* *
92600184 AGCTGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
66 AGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* * * * *
92600248 AGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATTGAAGATAACAGAGTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTC
* * * * * *
92600313 CGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCATCTTTGTAGCGACGGAAAACAGATC
63 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATC
92600378 GA
128 GA
* * * *
92600380 AGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGACCGAAGATAACAGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTC
* *
92600445 TGTAGCGGCAGAGAGCAGATCGAAAATAACAGAT
63 TGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
92600479 CGGTGTTCCT
Statistics
Matches: 326, Mismatches: 28, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
128 168 0.52
132 158 0.48
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.21
Consensus pattern (129 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGT
AGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:92601144 original size:11 final size:11
Alignment explanation
Indices: 92601128--92601154 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
92601118 CTTAAGGTTT
92601128 TTTTTCTTTTC
1 TTTTTCTTTTC
92601139 TTTTTCTTTTC
1 TTTTTCTTTTC
92601150 TTTTT
1 TTTTT
92601155 TATTTTATTA
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:92602199 original size:12 final size:12
Alignment explanation
Indices: 92602182--92602216 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
92602172 ATTTTTAACA
92602182 TATATATATATG
1 TATATATATATG
92602194 TATATATATATG
1 TATATATATATG
*
92602206 TATGTATATAT
1 TATATATATAT
92602217 TTATGAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (12 bp):
TATATATATATG
Found at i:92602221 original size:12 final size:12
Alignment explanation
Indices: 92602186--92602221 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
92602176 TTAACATATA
*
92602186 TATATATGTATA
1 TATATATGTATG
92602198 TATATATGTATG
1 TATATATGTATG
*
92602210 TATATATTTATG
1 TATATATGTATG
92602222 AAGTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (12 bp):
TATATATGTATG
Found at i:92602221 original size:16 final size:16
Alignment explanation
Indices: 92602181--92602221 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
92602171 TATTTTTAAC
*
92602181 ATATATATATATGTAT
1 ATATATATGTATGTAT
92602197 ATATATATGTATGTAT
1 ATATATATGTATGTAT
*
92602213 ATATTTATG
1 ATATATATG
92602222 AAGTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (16 bp):
ATATATATGTATGTAT
Found at i:92602303 original size:14 final size:15
Alignment explanation
Indices: 92602280--92602357 Score: 74
Period size: 16 Copynumber: 5.3 Consensus size: 15
92602270 GTGTATGTAT
92602280 TATA-TATATTTTTA
1 TATATTATATTTTTA
* *
92602294 -ATACTATATTATGTA
1 TATATTATATT-TTTA
*
92602309 TATATTATATTATATA
1 TATATTATATT-TTTA
92602325 TATATTATATTTTTA
1 TATATTATATTTTTA
*
92602340 TGTA-TATATTTTTA
1 TATATTATATTTTTA
92602354 -ATAT
1 TATAT
92602358 CAATTATTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.09
14 16 0.30
15 9 0.17
16 24 0.44
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (15 bp):
TATATTATATTTTTA
Found at i:92602345 original size:23 final size:23
Alignment explanation
Indices: 92602271--92602349 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
92602261 ATTTCTAATG
*
92602271 TGTATGTATTATATATATTTTTA
1 TGTATATATTATATATATTTTTA
* * *
92602294 -ATACTATATTATGTATATATTATA
1 TGTA-TATATTATATATAT-TTTTA
92602318 T-TATATA-TATATTATATTTTTA
1 TGTATATATTATA-TATATTTTTA
92602340 TGTATATATT
1 TGTATATATT
92602350 TTTAATATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
22 10 0.23
23 27 0.61
24 7 0.16
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.58
Consensus pattern (23 bp):
TGTATATATTATATATATTTTTA
Found at i:92604947 original size:14 final size:14
Alignment explanation
Indices: 92604920--92604950 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
92604910 AATGAATTAT
92604920 CAAAAAATTAAAAA
1 CAAAAAATTAAAAA
92604934 CAAAATAATTAAAAA
1 CAAAA-AATTAAAAA
92604949 CA
1 CA
92604951 TGAAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (14 bp):
CAAAAAATTAAAAA
Found at i:92612849 original size:12 final size:11
Alignment explanation
Indices: 92612823--92612848 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
92612813 AAGGTTTTAT
92612823 AAAATAAAAAA
1 AAAATAAAAAA
92612834 AAAATAAAAAA
1 AAAATAAAAAA
92612845 AAAA
1 AAAA
92612849 AGTTTAAAGA
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:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:92615934 original size:22 final size:22
Alignment explanation
Indices: 92615908--92615949 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
92615898 AAATATTATT
92615908 TTATTAATATTTTACTTAGATA
1 TTATTAATATTTTACTTAGATA
* *
92615930 TTATTATTATTTTATTTAGA
1 TTATTAATATTTTACTTAGA
92615950 AAATGGTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
TTATTAATATTTTACTTAGATA
Found at i:92620311 original size:6 final size:6
Alignment explanation
Indices: 92620293--92620329 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
92620283 ATTTTGGCAT
*
92620293 ATCTGA TATCTGA ATCTGA ATCTGA ATCTGA AACTGA
1 ATCTGA -ATCTGA ATCTGA ATCTGA ATCTGA ATCTGA
92620330 GTCGGTATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (6 bp):
ATCTGA
Found at i:92621197 original size:22 final size:22
Alignment explanation
Indices: 92621172--92621217 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
92621162 TAAAAGCATG
92621172 TCTAAACAT-TCATT-TAACTATT
1 TCTAAAC-TCTCATTCTAAC-ATT
92621194 TCTAAACTCTCATTCTAACATT
1 TCTAAACTCTCATTCTAACATT
92621216 TC
1 TC
92621218 CACAAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.05
22 17 0.77
23 4 0.18
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (22 bp):
TCTAAACTCTCATTCTAACATT
Found at i:92625844 original size:55 final size:55
Alignment explanation
Indices: 92625760--92625880 Score: 170
Period size: 55 Copynumber: 2.2 Consensus size: 55
92625750 CGGGTGTGTC
* * * *
92625760 ACACGCCCGTGTCTTGAAGCAGTAGTTGAAATTGAGAATTTAACATGAGCGTGCG
1 ACACGCCCGTGTCTTGAAGCAGTAGTTGAAACTAAGAATTCAACACGAGCGTGCG
* * *
92625815 ACACGCCCGTGTCTTGAAGCAGTGGTTGAAACTAAGAATTCAACACGGGTGTGCG
1 ACACGCCCGTGTCTTGAAGCAGTAGTTGAAACTAAGAATTCAACACGAGCGTGCG
*
92625870 ACATGCCCGTG
1 ACACGCCCGTG
92625881 CCCACCACCC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (55 bp):
ACACGCCCGTGTCTTGAAGCAGTAGTTGAAACTAAGAATTCAACACGAGCGTGCG
Found at i:92627465 original size:3 final size:3
Alignment explanation
Indices: 92627459--92627508 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
92627449 GAGAGAAATG
* *
92627459 AGA AGA A-A AAA AGA AGA CGA AG- AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
92627505 AGA A
1 AGA A
92627509 AGAAAAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:92627465 original size:10 final size:10
Alignment explanation
Indices: 92627433--92627523 Score: 51
Period size: 11 Copynumber: 8.5 Consensus size: 10
92627423 TCCACACACC
92627433 GAAAGAGAGAA
1 GAAA-AGAGAA
*
92627444 AAAAAGAG-A
1 GAAAAGAGAA
*
92627453 GAAATGAGAA
1 GAAAAGAGAA
*
92627463 GAAAAAAAGAA
1 G-AAAAGAGAA
*
92627474 GACGAAGAGAA
1 GA-AAAGAGAA
92627485 GAAGAAGAAGAA
1 GAA-AAG-AGAA
92627497 GAAGAAGAAGAAA
1 GAA-AAG-AG-AA
*
92627510 GAAAAAAGAA
1 GAAAAGAGAA
92627520 -AAAA
1 GAAAA
92627524 AAAAGGTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
9 11 0.17
10 9 0.14
11 24 0.37
12 16 0.25
13 5 0.08
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.01
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:92627466 original size:22 final size:20
Alignment explanation
Indices: 92627433--92627472 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
92627423 TCCACACACC
92627433 GAAAGAGAGAAAAAAAGAGA
1 GAAAGAGAGAAAAAAAGAGA
92627453 GAAATGAGAAGAAAAAAAGA
1 GAAA-GAG-AGAAAAAAAGA
92627473 AGACGAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 3 0.17
22 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (20 bp):
GAAAGAGAGAAAAAAAGAGA
Done.