Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 312 of 427
Found at i:90862488 original size:14 final size:14
Alignment explanation
Indices: 90862469--90862496 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90862459 ATGTTATGTT
90862469 TATTTTTTTAAAAA
1 TATTTTTTTAAAAA
90862483 TATTTTTTTAAAAA
1 TATTTTTTTAAAAA
90862497 CGATTTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTTTTTAAAAA
Found at i:90862503 original size:14 final size:14
Alignment explanation
Indices: 90862470--90862503 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
90862460 TGTTATGTTT
*
90862470 ATTTTTTTAAAAAT
1 ATTTTTTTAAAAAG
90862484 ATTTTTTTAAAAACG
1 ATTTTTTTAAAAA-G
90862499 ATTTT
1 ATTTT
90862504 AGAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
ATTTTTTTAAAAAG
Found at i:90862979 original size:3 final size:3
Alignment explanation
Indices: 90862971--90862999 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
90862961 CACATAAATA
90862971 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
90863000 AAGATCACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90863891 original size:16 final size:18
Alignment explanation
Indices: 90863870--90863914 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
90863860 TGAGATAGTT
90863870 TTTAAAAATAA-TTAT-A
1 TTTAAAAATAAGTTATGA
90863886 TTTAAAAA-AAGTTATGA
1 TTTAAAAATAAGTTATGA
90863903 TTTCAAAAATAA
1 TTT-AAAAATAA
90863915 AAGATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 4 0.16
18 5 0.20
19 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TTTAAAAATAAGTTATGA
Found at i:90865124 original size:26 final size:24
Alignment explanation
Indices: 90865095--90865149 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
90865085 AAAATTTAAA
90865095 TTATTAGTGATTTTATTTAT-TATGGT
1 TTATTAGT-ATTTT-TTTATATAT-GT
* *
90865121 TTATCAGTATTTTTTTGTATATGT
1 TTATTAGTATTTTTTTATATATGT
90865145 TTATT
1 TTATT
90865150 TTAACGGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 10 0.40
25 8 0.32
26 7 0.28
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.64
Consensus pattern (24 bp):
TTATTAGTATTTTTTTATATATGT
Found at i:90867973 original size:46 final size:46
Alignment explanation
Indices: 90867923--90868098 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
90867913 TGGTTGAGCA
90867923 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90867969 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90868014 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90868062 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90868099 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90868079 original size:93 final size:93
Alignment explanation
Indices: 90867920--90868091 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
90867910 GGATGGTTGA
* *
90867920 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90867985 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
90868013 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90868078 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
90868092 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90870104 original size:23 final size:23
Alignment explanation
Indices: 90870062--90870105 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
90870052 TATATTAGTG
*
90870062 AAAGATTTATTGATCAGAAGCGT
1 AAAGATTTATTGAGCAGAAGCGT
* *
90870085 AAAGATTTCTTGAGCTGAAGC
1 AAAGATTTATTGAGCAGAAGC
90870106 AAGGTAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (23 bp):
AAAGATTTATTGAGCAGAAGCGT
Found at i:90875502 original size:46 final size:46
Alignment explanation
Indices: 90875452--90875627 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
90875442 TGGTTGAGCA
90875452 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90875498 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90875543 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90875591 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90875628 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90875608 original size:93 final size:93
Alignment explanation
Indices: 90875449--90875620 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
90875439 GGATGGTTGA
* *
90875449 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90875514 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
90875542 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90875607 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
90875621 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90894153 original size:17 final size:17
Alignment explanation
Indices: 90894131--90894168 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
90894121 AGCAGCCTTG
*
90894131 TCGCTGCCATAAGCCCA
1 TCGCTGCCACAAGCCCA
*
90894148 TCGCTGCCACAAGCTCA
1 TCGCTGCCACAAGCCCA
90894165 TCGC
1 TCGC
90894169 CGTTGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.42, G:0.18, T:0.18
Consensus pattern (17 bp):
TCGCTGCCACAAGCCCA
Found at i:90897640 original size:57 final size:57
Alignment explanation
Indices: 90897573--90897690 Score: 236
Period size: 57 Copynumber: 2.1 Consensus size: 57
90897563 TTAATCGTAG
90897573 CAACAACAATTCCTACTCCAACACATACAATCCAAGGTGGAAACAACATCCAAATTT
1 CAACAACAATTCCTACTCCAACACATACAATCCAAGGTGGAAACAACATCCAAATTT
90897630 CAACAACAATTCCTACTCCAACACATACAATCCAAGGTGGAAACAACATCCAAATTT
1 CAACAACAATTCCTACTCCAACACATACAATCCAAGGTGGAAACAACATCCAAATTT
90897687 CAAC
1 CAAC
90897691 TGGAGTAACT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.44, C:0.31, G:0.07, T:0.19
Consensus pattern (57 bp):
CAACAACAATTCCTACTCCAACACATACAATCCAAGGTGGAAACAACATCCAAATTT
Found at i:90898788 original size:2 final size:2
Alignment explanation
Indices: 90898783--90898816 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
90898773 TAAATATGTC
90898783 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
90898817 CAATAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90899606 original size:19 final size:18
Alignment explanation
Indices: 90899584--90899628 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
90899574 ATTTTTTCCA
*
90899584 AATTTTTATTTTTTTTGAG
1 AATTTTTATTTTTTTT-AC
*
90899603 AATTTTCTCTTTTTTTTAC
1 AATTTT-TATTTTTTTTAC
90899622 AATTTTT
1 AATTTTT
90899629 TTTGTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 9 0.39
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (18 bp):
AATTTTTATTTTTTTTAC
Found at i:90899649 original size:17 final size:17
Alignment explanation
Indices: 90899627--90899665 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
90899617 TTTACAATTT
*
90899627 TTTTTGTATTTTCTCTA
1 TTTTTGTATTTTATCTA
* *
90899644 TTTTTGTGTTTTATGTA
1 TTTTTGTATTTTATCTA
90899661 TTTTT
1 TTTTT
90899666 AAAAATAAAA
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:0.10, C:0.05, G:0.10, T:0.74
Consensus pattern (17 bp):
TTTTTGTATTTTATCTA
Found at i:90906561 original size:14 final size:14
Alignment explanation
Indices: 90906542--90906569 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90906532 CTCAAAAAAT
90906542 TATAAAAAATTATA
1 TATAAAAAATTATA
90906556 TATAAAAAATTATA
1 TATAAAAAATTATA
90906570 AAAACTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAAAAAATTATA
Found at i:90910726 original size:16 final size:16
Alignment explanation
Indices: 90910707--90910740 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90910697 AAATAAATAT
*
90910707 ATGTGTAAATGTGATA
1 ATGTGCAAATGTGATA
*
90910723 ATGTGCAATTGTGATA
1 ATGTGCAAATGTGATA
90910739 AT
1 AT
90910741 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (16 bp):
ATGTGCAAATGTGATA
Found at i:90918709 original size:7 final size:7
Alignment explanation
Indices: 90918697--90918781 Score: 135
Period size: 7 Copynumber: 12.9 Consensus size: 7
90918687 TTTAGCTTTG
90918697 TTATTTA
1 TTATTTA
90918704 TTATTTA
1 TTATTTA
90918711 TTATTTA
1 TTATTTA
90918718 TTATTTA
1 TTATTTA
90918725 TTATTTA
1 TTATTTA
90918732 TTATTTA
1 TTATTTA
90918739 TTATTTA
1 TTATTTA
90918746 TTATTT-
1 TTATTTA
90918752 TTATTT-
1 TTATTTA
90918758 TTATTT-
1 TTATTTA
90918764 TTATTT-
1 TTATTTA
90918770 TTATTT-
1 TTATTTA
90918776 TTATTT
1 TTATTT
90918782 TAGAATAGGG
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
6 30 0.38
7 48 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:90933839 original size:28 final size:28
Alignment explanation
Indices: 90933791--90933848 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
90933781 ATATAATTTA
90933791 ATTAAGTTTTAATTAAGCATT-ATATATT
1 ATTAAGTTTTAATTAAGCATTGAT-TATT
90933819 ATTAAG-TTTATATATAA-CATTGATTATT
1 ATTAAGTTTTA-AT-TAAGCATTGATTATT
90933847 AT
1 AT
90933849 AAAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 4 0.15
28 18 0.67
29 5 0.19
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (28 bp):
ATTAAGTTTTAATTAAGCATTGATTATT
Found at i:90933884 original size:21 final size:19
Alignment explanation
Indices: 90933841--90933886 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
90933831 TATAACATTG
*
90933841 ATTATTATAAAATATTTTC
1 ATTATTATAAAATAATTTC
90933860 -TTATTATAAAATAAATTTC
1 ATTATTATAAAAT-AATTTC
90933879 AATTATTA
1 -ATTATTA
90933887 AAAGGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 12 0.52
19 5 0.22
21 6 0.26
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTATTATAAAATAATTTC
Found at i:90934158 original size:14 final size:14
Alignment explanation
Indices: 90934139--90934177 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
90934129 TTCTTCAAAA
90934139 AAAAATTATTTTTT
1 AAAAATTATTTTTT
90934153 AAAAATTATTTTTT
1 AAAAATTATTTTTT
90934167 -AAAATTATTTT
1 AAAAATTATTTT
90934178 AAGTCAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AAAAATTATTTTTT
Found at i:90934164 original size:13 final size:13
Alignment explanation
Indices: 90934139--90934177 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
90934129 TTCTTCAAAA
90934139 AAAAATTATTTTTT
1 AAAAATTA-TTTTT
90934153 AAAAATTATTTTT
1 AAAAATTATTTTT
*
90934166 TAAAATTATTTT
1 AAAAATTATTTT
90934178 AAGTCAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:90942142 original size:18 final size:19
Alignment explanation
Indices: 90942101--90942142 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
90942091 TAATGAGCTG
*
90942101 ATAAATATATATTATTATC
1 ATAAATATATATTATTAAC
90942120 ATAAATATACT-TTA-TAAC
1 ATAAATATA-TATTATTAAC
90942138 ATAAA
1 ATAAA
90942143 ATAAGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 12 0.57
20 1 0.05
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAATATATATTATTAAC
Found at i:90942181 original size:16 final size:15
Alignment explanation
Indices: 90942152--90942186 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
90942142 AATAAGTTTA
90942152 ATATTTAAAATAAAT
1 ATATTTAAAATAAAT
*
90942167 ATATTATAAACTAAAT
1 ATATT-TAAAATAAAT
90942183 ATAT
1 ATAT
90942187 AAACAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATTTAAAATAAAT
Found at i:90942229 original size:8 final size:8
Alignment explanation
Indices: 90942218--90942302 Score: 53
Period size: 8 Copynumber: 11.8 Consensus size: 8
90942208 TTTTTTATTT
90942218 ATTATATA
1 ATTATATA
90942226 ATTATATA
1 ATTATATA
*
90942234 ATT-TTTA
1 ATTATATA
90942241 ATTATATA
1 ATTATATA
90942249 A-TA-AT-
1 ATTATATA
90942254 -TTA-ATA
1 ATTATATA
*
90942260 AATATATA
1 ATTATATA
* *
90942268 ATT-TTTT
1 ATTATATA
*
90942275 ATTATAAA
1 ATTATATA
90942283 ATT-TAT-
1 ATTATATA
*
90942289 ATTATTTA
1 ATTATATA
90942297 ATTATA
1 ATTATA
90942303 AATAAGTAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
5 4 0.07
6 5 0.09
7 19 0.33
8 29 0.51
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATTATATA
Found at i:90942242 original size:15 final size:15
Alignment explanation
Indices: 90942224--90942299 Score: 64
Period size: 15 Copynumber: 4.9 Consensus size: 15
90942214 ATTTATTATA
90942224 TAATTATATAATTTT
1 TAATTATATAATTTT
90942239 TAATTATATAATAATTT
1 TAATTATATAAT--TTT
*
90942256 AATAAATATATAATTTT
1 --TAATTATATAATTTT
* * *
90942273 TTATTATAAAATTTA
1 TAATTATATAATTTT
*
90942288 T-ATTATTTAATT
1 TAATTATATAATT
90942300 ATAAATAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
14 9 0.18
15 24 0.48
17 6 0.12
19 11 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTATATAATTTT
Found at i:90942258 original size:23 final size:24
Alignment explanation
Indices: 90942197--90942258 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
90942187 AAACAAAAGC
* *
90942197 TATATAATAATTT-TTTTATTTAT
1 TATATAATAATTTAATTTATTAAT
* *
90942220 TATATAATTATATAATTT-TTAAT
1 TATATAATAATTTAATTTATTAAT
90942243 TATATAATAATTTAAT
1 TATATAATAATTTAAT
90942259 AAATATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 29 0.91
24 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATAATAATTTAATTTATTAAT
Found at i:90942281 original size:21 final size:23
Alignment explanation
Indices: 90942257--90942306 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
90942247 TAATAATTTA
*
90942257 ATAAATATATA-ATT-TTTTATT
1 ATAAATATATATATTATTTAATT
*
90942278 ATAAA-ATTTATATTATTTAATT
1 ATAAATATATATATTATTTAATT
90942300 ATAAATA
1 ATAAATA
90942307 AGTAGATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 11 0.46
23 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAAATATATATATTATTTAATT
Found at i:90942739 original size:20 final size:22
Alignment explanation
Indices: 90942715--90942755 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
90942705 TATACACATT
90942715 AAAAATCA-AAATAAATATATA
1 AAAAATCAGAAATAAATATATA
*
90942736 AAAAATCAGAAATATATATA
1 AAAAATCAGAAATAAATATA
90942756 ATGTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAATCAGAAATAAATATATA
Found at i:90942756 original size:20 final size:20
Alignment explanation
Indices: 90942715--90942756 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
90942705 TATACACATT
90942715 AAAAATCAAAATAAATATATA
1 AAAAATCAAAAT-AATATATA
90942736 AAAAATCAGAAAT-ATATATA
1 AAAAATCA-AAATAATATATA
90942756 A
1 A
90942757 TGTAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 8 0.40
22 4 0.20
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAATCAAAATAATATATA
Found at i:90943052 original size:20 final size:20
Alignment explanation
Indices: 90943008--90943054 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
90942998 AAATTTAAGT
90943008 ACTTTTTATAATATTTTTCG
1 ACTTTTTATAATATTTTTCG
*
90943028 A-TTTTTAT-ATATTATTTTG
1 ACTTTTTATAATATT-TTTCG
90943047 ACTTTTTA
1 ACTTTTTA
90943055 AAATTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (20 bp):
ACTTTTTATAATATTTTTCG
Found at i:90958661 original size:21 final size:21
Alignment explanation
Indices: 90958637--90958692 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
90958627 GTAGAACAGA
*
90958637 GAGTTCTATCGATACAACTCT-
1 GAGTTCTATCAATACAAC-CTG
* *
90958658 GAGTTATACCAATACAACCTG
1 GAGTTCTATCAATACAACCTG
*
90958679 GACTTCTATCAATA
1 GAGTTCTATCAATA
90958693 TAACGCACTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (21 bp):
GAGTTCTATCAATACAACCTG
Found at i:90959588 original size:22 final size:21
Alignment explanation
Indices: 90959536--90959589 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
90959526 TCATGACAAT
*
90959536 TATACAATTCACAAACAAATAA
1 TATACAATTTA-AAACAAATAA
*
90959558 T-T-CAATTTAAAACATATAAA
1 TATACAATTTAAAACAAAT-AA
90959578 TATACAATTTAA
1 TATACAATTTAA
90959590 TTACACGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 7 0.26
20 9 0.33
21 2 0.07
22 9 0.33
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (21 bp):
TATACAATTTAAAACAAATAA
Found at i:90967582 original size:20 final size:19
Alignment explanation
Indices: 90967552--90967589 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
90967542 AAAGTAGTGG
*
90967552 AAATTTATTTTCTTAGAAC
1 AAATTTATTTTCTAAGAAC
90967571 AAATTCTATTTTCTAAGAA
1 AAATT-TATTTTCTAAGAA
90967590 TAATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (19 bp):
AAATTTATTTTCTAAGAAC
Found at i:90970675 original size:71 final size:71
Alignment explanation
Indices: 90970591--90970753 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
90970581 CGATTTGTCT
90970591 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
90970656 CTTTCA
66 CTTTCA
* *
90970662 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
90970727 CTTTCA
66 CTTTCA
90970733 CGTAGCT-TCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
90970754 GATACATCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
70 14 0.16
71 76 0.84
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:90978259 original size:71 final size:71
Alignment explanation
Indices: 90978143--90978306 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
90978133 GCATTGTTCT
90978143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90978208 CTTTCA
66 CTTTCA
90978214 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90978279 CTTTCA
66 CTTTCA
90978285 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
90978307 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:90978344 original size:71 final size:70
Alignment explanation
Indices: 90978143--90978340 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
90978133 GCATTGTTCT
* * * *
90978143 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90978208 CTTTCA
65 CTTTCA
* * * *
90978214 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90978279 CTTTCA
65 CTTTCA
* *
90978285 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
90978341 TACAGTGTCT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:90981051 original size:20 final size:19
Alignment explanation
Indices: 90981021--90981058 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
90981011 AAAGTAGTGG
*
90981021 AAATTTATTTTCTTAGAAC
1 AAATTTATTTTCTAAGAAC
90981040 AAATTCTATTTTCTAAGAA
1 AAATT-TATTTTCTAAGAA
90981059 TAATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (19 bp):
AAATTTATTTTCTAAGAAC
Found at i:90986980 original size:20 final size:19
Alignment explanation
Indices: 90986950--90986987 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
90986940 AAAGTAGTGG
*
90986950 AAATTTATTTTCTTAGAAC
1 AAATTTATTTTCTAAGAAC
90986969 AAATTCTATTTTCTAAGAA
1 AAATT-TATTTTCTAAGAA
90986988 TAATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (19 bp):
AAATTTATTTTCTAAGAAC
Found at i:90990070 original size:70 final size:71
Alignment explanation
Indices: 90989987--90990149 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
90989977 CGATTTGTCT
90989987 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90990051 CTTTCA
66 CTTTCA
90990057 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90990122 CTTTCA
66 CTTTCA
90990128 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
90990150 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:90990187 original size:71 final size:70
Alignment explanation
Indices: 90989987--90990183 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
90989977 CGATTTGTCT
* * * *
90989987 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90990051 CTTTCA
65 CTTTCA
* * * *
90990057 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90990122 CTTTCA
65 CTTTCA
* *
90990128 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
90990184 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 53 0.45
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:90997603 original size:70 final size:71
Alignment explanation
Indices: 90997520--90997682 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
90997510 CGATTTGTCT
90997520 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90997584 CTTTCA
66 CTTTCA
90997590 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90997655 CTTTCA
66 CTTTCA
90997661 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
90997683 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:90997720 original size:71 final size:70
Alignment explanation
Indices: 90997520--90997716 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
90997510 CGATTTGTCT
* * * *
90997520 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90997584 CTTTCA
65 CTTTCA
* * * *
90997590 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90997655 CTTTCA
65 CTTTCA
* *
90997661 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
90997717 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 53 0.45
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:91000889 original size:46 final size:44
Alignment explanation
Indices: 91000839--91000961 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 44
91000829 GACCAGTGCT
* * *
91000839 AGTGTAAGACATATCTGGGACATGCTTCGGCCT-TGAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGT--GTC
* * *
91000885 AGTGTAAGACATGGCTGGGACATGCATCGGCTACGAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGTC
91000929 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
91000962 ACAAATATGC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
44 11 0.16
45 15 0.22
46 41 0.61
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGTC
Found at i:91001674 original size:17 final size:17
Alignment explanation
Indices: 91001652--91001685 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
91001642 TTTTATTTAG
91001652 ATTATATATATT-ATTAT
1 ATTATATA-ATTGATTAT
91001669 ATTATATAATTGATTAT
1 ATTATATAATTGATTAT
91001686 TATAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTATATAATTGATTAT
Found at i:91001686 original size:20 final size:20
Alignment explanation
Indices: 91001661--91001700 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
91001651 GATTATATAT
91001661 ATTATTAT-ATTATATAATTG
1 ATTATTATAATTAT-TAATTG
91001681 ATTATTATAATTATTAATTG
1 ATTATTATAATTATTAATTG
91001701 CTATGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTATTATAATTATTAATTG
Found at i:91003329 original size:45 final size:45
Alignment explanation
Indices: 91003269--91003384 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 45
91003259 CAGGCACTTA
* * *
91003269 TGTGCCGACTACTGTTACTGTTACTGTTATC-GATTC-GACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTA-CAAATTCAG-CACTTTG
*
91003314 TGTGTCGAATACTGTTACCGTTACTGTTACAAATTCAGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAAATTCAGCACTTTG
* *
91003359 TGTGTTGAATACTGTTATTGTTACTG
1 TGTGTCGAATACTGTTACTGTTACTG
91003385 CTACTGCTAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.02
45 60 0.97
46 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (45 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACAAATTCAGCACTTTG
Found at i:91005951 original size:38 final size:38
Alignment explanation
Indices: 91005909--91005990 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
91005899 TAGTCTACAG
** * * *
91005909 GCTCTATGGAGTGACACCGTGAAAATGATTATCTATAA
1 GCTCTATAAAGTGACACCCTAAAAAGGATTATCTATAA
*
91005947 GCTCTATAAAGTGACACCCTAAAAAGGGTTATCTATAA
1 GCTCTATAAAGTGACACCCTAAAAAGGATTATCTATAA
91005985 GCTCTA
1 GCTCTA
91005991 CGAAGCAGCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (38 bp):
GCTCTATAAAGTGACACCCTAAAAAGGATTATCTATAA
Found at i:91009389 original size:2 final size:2
Alignment explanation
Indices: 91009382--91009409 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
91009372 GCACTTATGA
91009382 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
91009410 GGTATTTTAA
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:91010083 original size:40 final size:40
Alignment explanation
Indices: 91010001--91010102 Score: 118
Period size: 40 Copynumber: 2.6 Consensus size: 40
91009991 ATTCGGATTG
* * *
91010001 ATAACAGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGAGCGAGCTACT
*
91010041 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGA-CTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGAGCGAGCTA-CT
* **
91010081 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
91010103 TACTTGGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 16 0.30
40 38 0.70
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGAGCGAGCTACT
Found at i:91016987 original size:13 final size:13
Alignment explanation
Indices: 91016969--91016994 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91016959 AAGCAATTGA
91016969 ACACGGGCGTGTC
1 ACACGGGCGTGTC
91016982 ACACGGGCGTGTC
1 ACACGGGCGTGTC
91016995 TCTGCCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:91023697 original size:30 final size:30
Alignment explanation
Indices: 91023663--91023729 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
91023653 CTATCTATTT
*
91023663 TTAATTTATGCTATTGTACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
91023693 TTAATTTATGCTATTATACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
*
91023723 TTGATTT
1 TTAATTT
91023730 TTAATTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (30 bp):
TTAATTTATGCTATTATACTATTATATTAA
Found at i:91029524 original size:13 final size:13
Alignment explanation
Indices: 91029506--91029530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91029496 AATGAAGACA
91029506 GACACGGCCGTGC
1 GACACGGCCGTGC
91029519 GACACGGCCGTG
1 GACACGGCCGTG
91029531 TGCACCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:91036096 original size:2 final size:2
Alignment explanation
Indices: 91036089--91036123 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
91036079 ACATGGATAC
91036089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91036124 TCTACTTAGC
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:91037790 original size:43 final size:43
Alignment explanation
Indices: 91037652--91037794 Score: 114
Period size: 43 Copynumber: 3.4 Consensus size: 43
91037642 ATATCGTACA
* * * * *
91037652 ATGCCAACGTCACAGACGTGGTCTTACATGCT-ATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-TAATCACATATCG
* ** * * * * *
91037695 ATGCCACTG-CTTAGATAGGGTTTTACACG-AATCAAATA-CA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
**
91037735 ATGCTGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
91037778 ATGCCAATGTCCCAGAC
1 ATGCCAATGTCCCAGAC
91037795 CAGACGTGGT
Statistics
Matches: 72, Mismatches: 24, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
40 6 0.08
41 22 0.31
42 21 0.29
43 23 0.32
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:91039054 original size:19 final size:19
Alignment explanation
Indices: 91039030--91039067 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
91039020 TAGTCCTGAA
* *
91039030 ACCACCGTTCTGAATAGGG
1 ACCACCGCTCTAAATAGGG
91039049 ACCACCGCTCTAAATAGGG
1 ACCACCGCTCTAAATAGGG
91039068 GACTTTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (19 bp):
ACCACCGCTCTAAATAGGG
Found at i:91041256 original size:14 final size:15
Alignment explanation
Indices: 91041237--91041273 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
91041227 ATAATTTAAA
91041237 ATATAATAATAAT-G
1 ATATAATAATAATAG
91041251 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
91041265 TTATAATAA
1 ATATAATAA
91041274 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:91042169 original size:6 final size:6
Alignment explanation
Indices: 91042160--91042197 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
91042150 CCTGACTATG
* *
91042160 ACTGTT ACTGTT ACTATT ACTGTT ATTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
91042198 CCTACGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (6 bp):
ACTGTT
Found at i:91042181 original size:18 final size:18
Alignment explanation
Indices: 91042154--91042197 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
91042144 CTTCTACCTG
*
91042154 ACTATGACTGTTACTGTT
1 ACTATTACTGTTACTGTT
*
91042172 ACTATTACTGTTATTGTT
1 ACTATTACTGTTACTGTT
*
91042190 ACTGTTAC
1 ACTATTAC
91042198 CCTACGGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.48
Consensus pattern (18 bp):
ACTATTACTGTTACTGTT
Found at i:91042398 original size:2 final size:2
Alignment explanation
Indices: 91042385--91042420 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
91042375 GTGATAAGAA
* *
91042385 AT AT AT AA AT AT AT AC 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
91042421 GAATGGCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:91052459 original size:13 final size:13
Alignment explanation
Indices: 91052441--91052479 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
91052431 CGTCACACGA
*
91052441 CCGTGTTATGCGC
1 CCGTGTCATGCGC
91052454 CCGTGTCATGCGC
1 CCGTGTCATGCGC
* *
91052467 CCATGTCTTGCGC
1 CCGTGTCATGCGC
91052480 GCATGGCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.08, C:0.36, G:0.28, T:0.28
Consensus pattern (13 bp):
CCGTGTCATGCGC
Found at i:91059186 original size:14 final size:15
Alignment explanation
Indices: 91059167--91059195 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
91059157 ATAGTTTAAA
91059167 TTAATTAA-TTATAG
1 TTAATTAACTTATAG
91059181 TTAATTAACTTATAG
1 TTAATTAACTTATAG
91059196 ATAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (15 bp):
TTAATTAACTTATAG
Found at i:91061599 original size:28 final size:28
Alignment explanation
Indices: 91061526--91061602 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
91061516 TATATATATG
* *
91061526 TGGCACTTAGTGTGCGAAATATTGAGAA
1 TGGCACTTAGTGTGCGAGATATTAAGAA
* * *
91061554 TGGAACTTGGTGTACGAGATATTAAGTAA
1 TGGCACTTAGTGTGCGAGATATTAAG-AA
91061583 -GGCACTTAGTGTGCGAGATA
1 TGGCACTTAGTGTGCGAGATA
91061603 GCGAAGATGC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAGATATTAAGAA
Found at i:91063804 original size:20 final size:20
Alignment explanation
Indices: 91063766--91063804 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
91063756 TCTCTTCACC
* *
91063766 AACCATCAATCATATCATAA
1 AACCATCAATCACACCATAA
91063786 AACCATCAATCACACCATA
1 AACCATCAATCACACCATA
91063805 CAAATAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCATCAATCACACCATAA
Found at i:91071694 original size:26 final size:26
Alignment explanation
Indices: 91071665--91071716 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
91071655 TCGTACCAGA
91071665 AAACCAACCAAAAGTAGCAACCATTT
1 AAACCAACCAAAAGTAGCAACCATTT
91071691 AAACCAACCAAAAGTAGCAACCATTT
1 AAACCAACCAAAAGTAGCAACCATTT
91071717 GACAATCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.08, T:0.15
Consensus pattern (26 bp):
AAACCAACCAAAAGTAGCAACCATTT
Found at i:91083364 original size:39 final size:38
Alignment explanation
Indices: 91083297--91083375 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 38
91083287 GCCAATTAAT
91083297 TAATTTTATAAAATTTAAAAATTCAAAAAAATATAAAAA
1 TAATTTTATAAAATTTAAAAATTCAAAAAAAT-TAAAAA
* *
91083336 TAATTTTAT-AAATTATAAATTATT-AAAAATATTAAAAA
1 TAATTTTATAAAATT-TAAA-AATTCAAAAAAATTAAAAA
91083374 TA
1 TA
91083376 TGTTTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
38 13 0.36
39 20 0.56
40 3 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (38 bp):
TAATTTTATAAAATTTAAAAATTCAAAAAAATTAAAAA
Found at i:91085826 original size:39 final size:40
Alignment explanation
Indices: 91085766--91085847 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 40
91085756 ATCATGAATA
* * * * *
91085766 TGCTATTAGGAGCATCGTAGTGTTAACAAGAGTACAAATG
1 TGCTATTAGGAGCACCATAGTGCTAACAAAAGCACAAATG
91085806 TGCTA-TAGGAGCACCATAGTGCTAACAAAAGCACAAATG
1 TGCTATTAGGAGCACCATAGTGCTAACAAAAGCACAAATG
91085845 TGC
1 TGC
91085848 AGTACAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 32 0.86
40 5 0.14
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTATTAGGAGCACCATAGTGCTAACAAAAGCACAAATG
Found at i:91087568 original size:40 final size:40
Alignment explanation
Indices: 91087523--91087695 Score: 176
Period size: 40 Copynumber: 4.4 Consensus size: 40
91087513 CAAATCATTT
* *
91087523 TCGGTTTATCTGACTAGTTCTGGGCACACATTTGATATCG
1 TCGGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
* * ** * *
91087563 TCGGTTTATCCGACTAGCGCTAGGTTCA-A-ATCAT-T-G
1 TCGGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
*
91087599 -CTGGTTTATCCAACTAGTGCTGGGCACACATTTGATATCG
1 TC-GGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
* * *
91087639 TCAGTTTATCCGACTAGTGTTGGGCACACATTTGATATTG
1 TCGGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
**
91087679 TCAATTTATCCGACTAG
1 TCGGTTTATCCGACTAG
91087696 CACTGGACGC
Statistics
Matches: 107, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
35 1 0.01
36 22 0.21
37 2 0.02
38 6 0.06
39 2 0.02
40 73 0.68
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (40 bp):
TCGGTTTATCCGACTAGTGCTGGGCACACATTTGATATCG
Found at i:91087615 original size:76 final size:76
Alignment explanation
Indices: 91087489--91087655 Score: 228
Period size: 76 Copynumber: 2.2 Consensus size: 76
91087479 TGTATTTGTT
* * * * ** *
91087489 GGTTTATCCAACTAGCATTGGGTGCAAATCATTTTCGGTTTATCTGACTAGTTCTGGGCACACAT
1 GGTTTATCCGACTAGCACTAGGTGCAAATCATTCTCGGTTTATCCAACTAGTGCTGGGCACACAT
91087554 TTGATATCGTC
66 TTGATATCGTC
* *
91087565 GGTTTATCCGACTAGCGCTAGGTTCAAATCATTGCT-GGTTTATCCAACTAGTGCTGGGCACACA
1 GGTTTATCCGACTAGCACTAGGTGCAAATCATT-CTCGGTTTATCCAACTAGTGCTGGGCACACA
91087629 TTTGATATCGTC
65 TTTGATATCGTC
*
91087641 AGTTTATCCGACTAG
1 GGTTTATCCGACTAG
91087656 TGTTGGGCAC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 79 0.99
77 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
GGTTTATCCGACTAGCACTAGGTGCAAATCATTCTCGGTTTATCCAACTAGTGCTGGGCACACAT
TTGATATCGTC
Found at i:91087721 original size:116 final size:116
Alignment explanation
Indices: 91087526--91087743 Score: 282
Period size: 116 Copynumber: 1.9 Consensus size: 116
91087516 ATCATTTTCG
* ** * **
91087526 GTTTATCTGACTAGTTCTGGGCACACATTTGATATCGTCGGTTTATCCGACTAGCGCTAGGTTCA
1 GTTTATCCGACTAGTTCTGGGCACACATTTGATATCGTCAATTTATCCGACTAGCACTAGGCGCA
*
91087591 AATCATTGCTGGTTTATCCAACTAGTGCTGGGCACACATTTGATATCGTCA
66 AATCATTGCTGGTTTATCCAACTAGTGCAGGGCACACATTTGATATCGTCA
*
91087642 GTTTATCCGACTAGTGT-TGGGCACACATTTGATATTGTCAATTTATCCGACTAGCACT-GGACG
1 GTTTATCCGACTAGT-TCTGGGCACACATTTGATATCGTCAATTTATCCGACTAGCACTAGG-CG
**
91087705 CAAAAT-ATTG-TCGGTTTATCTGACTAGTGCAGGGCACAC
64 C-AAATCATTGCT-GGTTTATCCAACTAGTGCAGGGCACAC
91087744 CTATCGTCGG
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
115 3 0.03
116 80 0.91
117 5 0.06
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (116 bp):
GTTTATCCGACTAGTTCTGGGCACACATTTGATATCGTCAATTTATCCGACTAGCACTAGGCGCA
AATCATTGCTGGTTTATCCAACTAGTGCAGGGCACACATTTGATATCGTCA
Found at i:91087914 original size:24 final size:24
Alignment explanation
Indices: 91087864--91087917 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
91087854 TCCATCAAAG
* * *
91087864 AAGGTTGAAAATGATATAAATGAA
1 AAGGTCGAAAAGGATATAAACGAA
* *
91087888 AAGGTCGAAAAGGATATCAACGTA
1 AAGGTCGAAAAGGATATAAACGAA
91087912 AAGGTC
1 AAGGTC
91087918 AATATCTCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.20
Consensus pattern (24 bp):
AAGGTCGAAAAGGATATAAACGAA
Found at i:91089557 original size:18 final size:18
Alignment explanation
Indices: 91089514--91089560 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
91089504 ATGTTATCAA
91089514 ATGTTAATATATAAATTTC
1 ATGTTAA-ATATAAATTTC
*
91089533 ATG-TAAAT-TATATTTC
1 ATGTTAAATATAAATTTC
91089549 GATGTTAAATAT
1 -ATGTTAAATAT
91089561 TCTGTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 7 0.29
17 5 0.21
18 8 0.33
19 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (18 bp):
ATGTTAAATATAAATTTC
Found at i:91090159 original size:18 final size:18
Alignment explanation
Indices: 91090136--91090172 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
91090126 TCCTTATACT
91090136 CATGTCAATTTCAATATC
1 CATGTCAATTTCAATATC
91090154 CATGTCAATTTCAATATC
1 CATGTCAATTTCAATATC
91090172 C
1 C
91090173 TTATACTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.38
Consensus pattern (18 bp):
CATGTCAATTTCAATATC
Found at i:91091373 original size:2 final size:2
Alignment explanation
Indices: 91091361--91091395 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
91091351 TTAATGTTAT
91091361 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91091396 AACAAAACAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:91091474 original size:9 final size:9
Alignment explanation
Indices: 91091460--91091484 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
91091450 AAAGCAGGGG
91091460 AAGGAAAGA
1 AAGGAAAGA
91091469 AAGGAAAGA
1 AAGGAAAGA
91091478 AAGGAAA
1 AAGGAAA
91091485 AAGGAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
AAGGAAAGA
Found at i:91092207 original size:30 final size:29
Alignment explanation
Indices: 91092124--91092207 Score: 70
Period size: 30 Copynumber: 3.0 Consensus size: 29
91092114 TTGAGATGAT
* *
91092124 TGTTTGAATTGGATTGAATATTGAT-T-A
1 TGTTTGAATTGAAATGAATATTGATGTGA
* *
91092151 T-ATTGAATTGATTTATGAATA-T-ATGTGAA
1 TGTTTGAATTGA--AATGAATATTGATGTG-A
91092180 TGTTTGAATTGAAATGAATATTGATGTG
1 TGTTTGAATTGAAATGAATATTGATGTG
91092208 GAAATTGAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
26 10 0.23
27 3 0.07
28 13 0.30
29 3 0.07
30 14 0.33
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (29 bp):
TGTTTGAATTGAAATGAATATTGATGTGA
Found at i:91092813 original size:18 final size:18
Alignment explanation
Indices: 91092755--91092934 Score: 103
Period size: 18 Copynumber: 9.6 Consensus size: 18
91092745 AGATCGACTA
*
91092755 TTACTGAATAATTTAATTG
1 TTACTGAATAA-TTGATTG
* *
91092774 TTACTGTAT-ATCTGATTT
1 TTACTGAATAAT-TGATTG
*
91092792 TTACTGAATAATTGACTG
1 TTACTGAATAATTGATTG
91092810 TTACTGGATAATCGATCAATTGATTG
1 TTACT-G---A---AT-AATTGATTG
* * *
91092836 ATACTGAATAACTGATTA
1 TTACTGAATAATTGATTG
*
91092854 TTATTGAATAATTGATTG
1 TTACTGAATAATTGATTG
* * *
91092872 TTACCGAATAACTGACTG
1 TTACTGAATAATTGATTG
* *
91092890 TTACTGAATAAATAATTG
1 TTACTGAATAATTGATTG
* * *
91092908 TT-CTGATTGACTGATTG
1 TTACTGAATAATTGATTG
*
91092925 TTAATGAATA
1 TTACTGAATA
91092935 TTACTGATTG
Statistics
Matches: 121, Mismatches: 29, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
17 14 0.12
18 77 0.64
19 13 0.11
22 2 0.02
25 3 0.02
26 12 0.10
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:91095552 original size:78 final size:79
Alignment explanation
Indices: 91095445--91095595 Score: 218
Period size: 78 Copynumber: 1.9 Consensus size: 79
91095435 ATAAAGTATG
*
91095445 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAA-T-GATTTTAATTAATAACGAAAACAAA
1 GTTTGAATTAATAATAAAAACAAAATAGTATGGGGAAGTAG-TTTTAATTAATAA-GAAAACAAA
*
91095508 ATAATATGGGAGAATA
64 ATAACATGGGAGAATA
* * *
91095524 GTTTGAATTAATAAT-AAAACAAAATAGTATGGGGGAGTAGTTTTAATTAATAATAAAACAAAGT
1 GTTTGAATTAATAATAAAAACAAAATAGTATGGGGAAGTAGTTTTAATTAATAAGAAAACAAAAT
91095588 AACATGGG
66 AACATGGG
91095596 GGAGTGGAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
78 36 0.55
79 28 0.43
80 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (79 bp):
GTTTGAATTAATAATAAAAACAAAATAGTATGGGGAAGTAGTTTTAATTAATAAGAAAACAAAAT
AACATGGGAGAATA
Found at i:91095600 original size:39 final size:39
Alignment explanation
Indices: 91095445--91095598 Score: 195
Period size: 39 Copynumber: 3.9 Consensus size: 39
91095435 ATAAAGTATG
*
91095445 GTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGAAT-
1 GTTTTAATTAATAAT-AAAACAAAATAATATGGGGGAATA
* *
91095483 GATTTTAATTAATAACGAAAACAAAATAATATGGGAGAATA
1 G-TTTTAATTAATAA-TAAAACAAAATAATATGGGGGAATA
* * *
91095524 GTTTGAATTAATAATAAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAATATGGGGGAATA
* *
91095563 GTTTTAATTAATAATAAAACAAAGTAACATGGGGGA
1 GTTTTAATTAATAATAAAACAAAATAATATGGGGGA
91095599 GTGGAATCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 80 0.80
40 18 0.18
41 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAATATGGGGGAATA
Found at i:91100061 original size:15 final size:15
Alignment explanation
Indices: 91100041--91100071 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91100031 TTTACTTTCC
91100041 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
91100056 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
91100071 A
1 A
91100072 AAATCTGGAA
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:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:91108363 original size:205 final size:205
Alignment explanation
Indices: 91107983--91108564 Score: 1008
Period size: 205 Copynumber: 2.8 Consensus size: 205
91107973 TAGGCCGCAG
* * * *
91107983 CATAACAGATCTGGCCTTCAGATG-TTAT-ACTGAAGCAGATCCAAAATGGTTTGGCATCCTTTT
1 CATAGCAGATCTCGCCTTCAGATGATT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
* * *
91108046 GTTTACAATGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-GAGCAAAT
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAAT
91108110 CTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
129 CTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
91108175 GGAGAGCAGACA
194 GGAGAGCAGACA
91108187 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
91108252 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
91108317 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
91108382 AGAGCAGACA
196 AGAGCAGACA
91108392 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * *
91108457 TTTACAAGGAACAAATCAAAGACATTGTTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* * *
91108522 AAGATGATTTGTCGTCTCTGTATCGTCAGGGAACAAATCGAAG
131 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAG
91108565 AAATAGATTT
Statistics
Matches: 362, Mismatches: 13, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
204 24 0.07
205 338 0.93
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
AGAGCAGACA
Found at i:91108748 original size:13 final size:13
Alignment explanation
Indices: 91108730--91108754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91108720 TTATAGGGAA
91108730 CAGATCGAAGAAG
1 CAGATCGAAGAAG
91108743 CAGATCGAAGAA
1 CAGATCGAAGAA
91108755 CTCAAAACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (13 bp):
CAGATCGAAGAAG
Found at i:91109899 original size:39 final size:39
Alignment explanation
Indices: 91109855--91109994 Score: 205
Period size: 39 Copynumber: 3.6 Consensus size: 39
91109845 ATAAAGTATG
91109855 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATGA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGAATGA
*
91109895 -TTTTAATTAATAATGAAAACAAAATAATATGGGGAAT-A
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGAATGA
* *
91109933 GTTTGAATTAATAATAAAACAAAATAGTATGGGGGA-GTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATG-A
91109972 GTTTTAATTAATAATAAAACAAA
1 GTTTTAATTAATAATAAAACAAA
91109995 GTAACATGGG
Statistics
Matches: 91, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
38 20 0.22
39 71 0.78
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.31
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATGA
Found at i:91110007 original size:78 final size:78
Alignment explanation
Indices: 91109855--91110005 Score: 227
Period size: 77 Copynumber: 1.9 Consensus size: 78
91109845 ATAAAGTATG
*
91109855 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATGATTTTAATTAATAATGAAAACAAAAT
1 GTTTGAATTAATAATAAAAACAAAATAGTATGGGGAATGATTTTAATTAATAATGAAAACAAAAT
*
91109920 AATATGGGGAATA
66 AACATGGGGAATA
*
91109933 GTTTGAATTAATAAT-AAAACAAAATAGTATGGGGGA-GTAGTTTTAATTAATAAT-AAAACAAA
1 GTTTGAATTAATAATAAAAACAAAATAGTATGGGGAATG-A-TTTTAATTAATAATGAAAACAAA
*
91109995 GTAACATGGGG
64 ATAACATGGGG
91110006 GAGTGGAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
76 1 0.01
77 38 0.57
78 28 0.42
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.30
Consensus pattern (78 bp):
GTTTGAATTAATAATAAAAACAAAATAGTATGGGGAATGATTTTAATTAATAATGAAAACAAAAT
AACATGGGGAATA
Found at i:91114498 original size:15 final size:15
Alignment explanation
Indices: 91114478--91114508 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91114468 TTTACTTTCC
91114478 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
91114493 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
91114508 A
1 A
91114509 AAATCTGGAA
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:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:91115035 original size:14 final size:15
Alignment explanation
Indices: 91115006--91115040 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
91114996 TGGTTAGAGG
91115006 AGAAGTTTAGGGTTTT
1 AGAAGTTTA-GGTTTT
91115022 AGAAGTTT-GGTTTT
1 AGAAGTTTAGGTTTT
91115036 AGAAG
1 AGAAG
91115041 GCGCTGGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
16 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (15 bp):
AGAAGTTTAGGTTTT
Found at i:91115130 original size:2 final size:2
Alignment explanation
Indices: 91115103--91115149 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
91115093 AAATATTTTA
* *
91115103 AT AT -T AT AT -T AT GT AT AC AT -T 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
91115142 AT AT AT AT
1 AT AT AT AT
91115150 CTTTTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:91116894 original size:93 final size:93
Alignment explanation
Indices: 91116786--91116956 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
91116776 GCCCATAAGT
** * *
91116786 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGAAACCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGAAACCATAAGTGAACTCGGACTCAACTCAA
91116851 CGAGCTCGGATGCCTAGTTACATCTTAC
66 CGAGCTCGGATGCCTAGTTACATCTTAC
* * * * *
91116879 GAACTTGGACTCAACTCAACGAGTTCGAACATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGAAACCATAAGTGAACTCGGACTCAACTCAA
*
91116944 CGAGTTCGGATGC
66 CGAGCTCGGATGC
91116957 TCAACCATCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGAAACCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTTAC
Found at i:91116951 original size:46 final size:45
Alignment explanation
Indices: 91116780--91116947 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
91116770 TAACCCGCCC
** * * * *
91116780 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGAAACC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAAC-ATTGCATCT
* *
91116826 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA--AC-A-TTGCATCT
* * *
91116876 -T-A-CGAACTTGGACTCAACTCAACGAGTTCGAACATTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATT-GCATCT
91116919 ATAAGTGAACTCGGACTCAACTCAACGAG
1 ATAAGTGAACTCGGACTCAACTCAACGAG
91116948 TTCGGATGCT
Statistics
Matches: 99, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 2 0.02
45 1 0.01
46 56 0.57
47 25 0.25
48 1 0.01
49 2 0.02
50 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (45 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTGCATCT
Found at i:91116972 original size:46 final size:44
Alignment explanation
Indices: 91116778--91116964 Score: 137
Period size: 46 Copynumber: 4.1 Consensus size: 44
91116768 TGTAACCCGC
** * *
91116778 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGAAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CT-CAA
91116824 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---A
* * * * * * * *
91116871 -CATCTTA-CGAACTTGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCG--GATGCTCAA
* *
91116917 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAA
91116961 CCAT
1 CCAT
91116965 CCTAGTGACA
Statistics
Matches: 110, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 65 0.59
47 27 0.25
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAA
Found at i:91119108 original size:18 final size:17
Alignment explanation
Indices: 91119079--91119175 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 17
91119069 TAGATATTAA
*
91119079 AAAATAGAAAAAAATAT
1 AAAATAGTAAAAAATAT
91119096 AATAATAGTAAAAAATAT
1 AA-AATAGTAAAAAATAT
**
91119114 AAAATTTTATAAAAATATT
1 AAAATAGTA-AAAAATA-T
*
91119133 AAAATACTATAAAATATAT
1 AAAATAGTA-AAAA-ATAT
91119152 AGAAATA-TATAAAATATAT
1 A-AAATAGTA-AAAA-ATAT
91119171 AAAAT
1 AAAAT
91119176 TTTACAAAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
17 7 0.10
18 27 0.39
19 28 0.40
20 8 0.11
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAATAGTAAAAAATAT
Found at i:91119112 original size:10 final size:9
Alignment explanation
Indices: 91119076--91119174 Score: 58
Period size: 10 Copynumber: 10.6 Consensus size: 9
91119066 ATTTAGATAT
91119076 TAAAAAATA
1 TAAAAAATA
*
91119085 GAAAAAA-A
1 TAAAAAATA
*
91119093 TATAATAATA
1 TA-AAAAATA
91119103 GTAAAAAATA
1 -TAAAAAATA
* *
91119113 T-AAAATTT
1 TAAAAAATA
91119121 TATAAAAATA
1 TA-AAAAATA
*
91119131 TTAAAATACTA
1 -TAAAA-AATA
*
91119142 TAAAATATA
1 TAAAAAATA
*
91119151 TAGAAATATA
1 TA-AAAAATA
*
91119161 TAAAATATA
1 TAAAAAATA
91119170 TAAAA
1 TAAAA
91119175 TTTTACAAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
8 8 0.11
9 27 0.38
10 29 0.41
11 7 0.10
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (9 bp):
TAAAAAATA
Found at i:91119124 original size:28 final size:26
Alignment explanation
Indices: 91119093--91119179 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 26
91119083 TAGAAAAAAA
91119093 TATAATAATAGTAAAAAATATAAAATTT
1 TATAA-AATA-TAAAAAATATAAAATTT
* *
91119121 TATAAAAATATTAAAATACTATAAAA-TA
1 TAT-AAAATA-TAAAA-AATATAAAATTT
91119149 TATAGAAATATATAAAATATATAAAATTT
1 TATA-AAATATA-AAAA-ATATAAAATTT
91119178 TA
1 TA
91119180 CAAAGTCGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
27 4 0.08
28 31 0.65
29 13 0.27
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAAATATAAAAAATATAAAATTT
Found at i:91119175 original size:9 final size:9
Alignment explanation
Indices: 91119087--91119175 Score: 85
Period size: 10 Copynumber: 9.6 Consensus size: 9
91119077 AAAAAATAGA
*
91119087 AAAAAATAT
1 AAAATATAT
91119096 AATAATAGTA-
1 AA-AATA-TAT
91119106 AAAA-ATAT
1 AAAATATAT
*
91119114 AAAATTTTAT
1 AAAA-TATAT
91119124 AAAA-ATATT
1 AAAATATA-T
91119133 AAAATACTAT
1 AAAATA-TAT
91119143 AAAATATAT
1 AAAATATAT
91119152 AGAAATATAT
1 A-AAATATAT
91119162 AAAATATAT
1 AAAATATAT
91119171 AAAAT
1 AAAAT
91119176 TTTACAAAGT
Statistics
Matches: 68, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
7 2 0.03
8 7 0.10
9 26 0.38
10 29 0.43
11 4 0.06
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAATATAT
Found at i:91119241 original size:20 final size:20
Alignment explanation
Indices: 91119171--91119244 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
91119161 TAAAATATAT
* * *
91119171 AAAATTTTACAAAGTCGTAAG
1 AAAATTATA-AAAATCGTAAA
91119192 AAAATTATACAAAAT-GTAAA
1 AAAATTATA-AAAATCGTAAA
* **
91119212 GAAA-TATAAATTTCGTAAA
1 AAAATTATAAAAATCGTAAA
91119231 AAAATTATAAAAAT
1 AAAATTATAAAAAT
91119245 TATCATATCA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 3 0.07
19 12 0.29
20 14 0.33
21 13 0.31
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAATCGTAAA
Found at i:91119430 original size:30 final size:33
Alignment explanation
Indices: 91119379--91119449 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 33
91119369 GCCATTAATT
*
91119379 TTTTTATGATTTTTATAAAATTTTACATTTTT-A
1 TTTTTATGA-TTTTATAAAATTCTACATTTTTAA
**
91119412 TTTTTATGA-TTT-TAAAATTCTATTTTTTTAA
1 TTTTTATGATTTTATAAAATTCTACATTTTTAA
91119443 TTTTTAT
1 TTTTTAT
91119450 TAAAAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.41
31 11 0.32
33 9 0.26
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (33 bp):
TTTTTATGATTTTATAAAATTCTACATTTTTAA
Found at i:91119483 original size:27 final size:27
Alignment explanation
Indices: 91119423--91119485 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
91119413 TTTTATGATT
*
91119423 TTAAAATTCTATTTTTT-TAATTTTTA
1 TTAAAATTTTATTTTTTATAATTTTTA
91119449 TTAAAAATTATTATTTTTTAT-ATTTTTA
1 TT-AAAATT-TTATTTTTTATAATTTTTA
91119477 TTAAAATTT
1 TTAAAATTT
91119486 AACAATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.09
27 12 0.36
28 17 0.52
29 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (27 bp):
TTAAAATTTTATTTTTTATAATTTTTA
Found at i:91119494 original size:28 final size:27
Alignment explanation
Indices: 91119436--91119495 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
91119426 AAATTCTATT
** *
91119436 TTTTTAATTTTTATTAAAAATTATTAT
1 TTTTTAATTTTTATTAAAAATTAACAA
*
91119463 TTTTTATATTTTTATTAAAATTTAACAA
1 TTTTTA-ATTTTTATTAAAAATTAACAA
91119491 TTTTT
1 TTTTT
91119496 CTAAAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTTAATTTTTATTAAAAATTAACAA
Found at i:91119693 original size:89 final size:89
Alignment explanation
Indices: 91119543--91119775 Score: 324
Period size: 91 Copynumber: 2.6 Consensus size: 89
91119533 TTTTAATAAG
* * * *
91119543 AGCAGGGGCTTCATTACTTTTTTGAAAAAATTTGACGGTCTTTTTGATGCATTTTGAAAGTTCAA
1 AGCAGGGGCTTAATTACTTTTTTCAAAAAGTTTGACGGCCTTTTTGATGCATTTTGAAAGTTCAA
91119608 GTACCCAATTGAATG-AAAAAAAA
66 GTACCCAATTGAATGAAAAAAAAA
* *
91119631 AGCAGGGGCTTAATTGCTTTTTTCAAAGAAGTTTGATGGCCTTTTTGATGCATTTTGAAAGTTCA
1 AGCAGGGGCTTAATTACTTTTTTCAAA-AAGTTTGACGGCCTTTTTGATGCATTTTGAAAGTTCA
*
91119696 AGTACCCAATTGAGTGAAAAAAAAAA
65 AGTACCCAATTGAATG-AAAAAAAAA
** * * *
91119722 AGCAATGGCTTAATTACTTTTATCGAATAAGTTTGAGGGCCTTTTTGATGCATT
1 AGCAGGGGCTTAATTACTTTTTTC-AAAAAGTTTGACGGCCTTTTTGATGCATT
91119776 AGTGCTCAAT
Statistics
Matches: 128, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
88 24 0.19
89 49 0.38
91 53 0.41
92 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (89 bp):
AGCAGGGGCTTAATTACTTTTTTCAAAAAGTTTGACGGCCTTTTTGATGCATTTTGAAAGTTCAA
GTACCCAATTGAATGAAAAAAAAA
Found at i:91119773 original size:91 final size:88
Alignment explanation
Indices: 91119543--91119775 Score: 306
Period size: 89 Copynumber: 2.6 Consensus size: 88
91119533 TTTTAATAAG
* * * * *
91119543 AGCAGGGGCTTCATTACTTTTTTGAAAAAATTTGACGGTCTTTTTGATGCATTTTGAAAGTTCAA
1 AGCAAGGGCTTAATTACTTTTTCGAAAAAGTTTGACGGCCTTTTTGATGCATTTTGAAAGTTCAA
91119608 GTACCCAATTGAATGAAAAAAAA
66 GTACCCAATTGAATGAAAAAAAA
* * *
91119631 AGCAGGGGCTTAATTGCTTTTTTC-AAAGAAGTTTGATGGCCTTTTTGATGCATTTTGAAAGTTC
1 AGCAAGGGCTTAATTAC-TTTTTCGAAA-AAGTTTGACGGCCTTTTTGATGCATTTTGAAAGTTC
*
91119695 AAGTACCCAATTGAGTGAAAAAAAAAA
64 AAGTACCCAATTGAATG--AAAAAAAA
* * *
91119722 AGCAATGGCTTAATTACTTTTATCGAATAAGTTTGAGGGCCTTTTTGATGCATT
1 AGCAAGGGCTTAATTACTTTT-TCGAAAAAGTTTGACGGCCTTTTTGATGCATT
91119776 AGTGCTCAAT
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
88 18 0.14
89 54 0.43
90 4 0.03
91 49 0.39
92 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (88 bp):
AGCAAGGGCTTAATTACTTTTTCGAAAAAGTTTGACGGCCTTTTTGATGCATTTTGAAAGTTCAA
GTACCCAATTGAATGAAAAAAAA
Found at i:91119888 original size:2 final size:2
Alignment explanation
Indices: 91119881--91119912 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
91119871 TTAAGCCTAC
91119881 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
91119913 TTAATTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91124378 original size:28 final size:28
Alignment explanation
Indices: 91124344--91124408 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
91124334 TCAGTGTACG
* *
91124344 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
91124372 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
91124400 AAATATTGA
1 AAATATTGA
91124409 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:91124525 original size:39 final size:39
Alignment explanation
Indices: 91124481--91124738 Score: 391
Period size: 39 Copynumber: 6.7 Consensus size: 39
91124471 GACTTTATAA
*
91124481 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
91124520 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
91124559 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
91124598 TGGTGTTATAT-CGGGC-AAGT-CCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
91124634 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
91124673 TGGTGTTATATCCGGGCTAAAGTCCCGCAGG--TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
91124711 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
91124739 CATGCTTTGT
Statistics
Matches: 204, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
36 27 0.13
37 9 0.04
38 30 0.15
39 128 0.63
40 10 0.05
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:91124640 original size:114 final size:116
Alignment explanation
Indices: 91124481--91124738 Score: 389
Period size: 114 Copynumber: 2.2 Consensus size: 116
91124471 GACTTTATAA
* * *
91124481 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTATATCCGGGCTAAGTCCTG
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCG
91124546 AAGGCATTCATGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
66 AAGGCATTCATGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGG--TTCGTGC
91124598 TGGTGTTATAT-CGGGC-AAGT-CCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCG
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCG
* * *
91124660 AAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGCAGGTTTGTGC
66 AAGGCATTCATGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGTTCGTGC
*
91124711 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
91124739 CATGCTTTGT
Statistics
Matches: 128, Mismatches: 7, Indels: 11
0.88 0.05 0.08
Matches are distributed among these distances:
113 16 0.12
114 74 0.58
115 15 0.12
116 5 0.04
117 15 0.12
118 3 0.02
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (116 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCG
AAGGCATTCATGCTGGTGTTATATCCGGGCTAAAGTCCCGAAGGTTCGTGC
Found at i:91124668 original size:75 final size:77
Alignment explanation
Indices: 91124481--91124738 Score: 389
Period size: 75 Copynumber: 3.3 Consensus size: 77
91124471 GACTTTATAA
*
91124481 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTATATCCGGGCTAAGTCCTG
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCC-G
*
91124546 AAGGCATTCATGC
65 AAGGCATTCGTGC
91124559 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATAT-CGGGC-AAGTCCGA
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCGA
91124622 AGGCATTCGTGC
66 AGGCATTCGTGC
*
91124634 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCT-AAGT-CC
* *
91124699 GCAGG--TTTGTGC
64 GAAGGCATTCGTGC
*
91124711 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
91124739 CATGCTTTGT
Statistics
Matches: 167, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
75 62 0.37
76 11 0.07
77 27 0.16
78 54 0.32
79 13 0.08
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (77 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCGA
AGGCATTCGTGC
Found at i:91129246 original size:137 final size:136
Alignment explanation
Indices: 91128997--91129282 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
91128987 CATTGGGCCT
** *
91128997 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTAAGATTACAATAAACTGGGCCTT
*
91129062 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
91129127 CATATGC
130 CATATGC
*
91129134 AATCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTAAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTAAGATTACAATAAACTGGGCCTT
* *
91129199 AGCCCCTTATTTAGATAACAGTATGGCCCATAGGCCTATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
91129264 ATATGC
131 ATATGC
91129270 AAGCCCATTTGGG
1 AAGCCCATTTGGG
91129283 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 21 0.15
137 120 0.85
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTAAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:91131091 original size:26 final size:26
Alignment explanation
Indices: 91131055--91131164 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
91131045 CATGTAATTC
91131055 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91131081 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
91131107 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91131133 TTGTCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91131159 TTATCA
1 TTATCA
91131165 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91134069 original size:28 final size:28
Alignment explanation
Indices: 91134024--91134088 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
91134014 TCAGTGTACG
*
91134024 AAATATTGAGAATAACACCTAATGTGCG
1 AAATATTGAGAATAACACCTAATGTGCA
* * * *
91134052 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATAACACCTAATGTGCA
91134080 AAATATTGA
1 AAATATTGA
91134089 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.28
Consensus pattern (28 bp):
AAATATTGAGAATAACACCTAATGTGCA
Found at i:91134205 original size:39 final size:39
Alignment explanation
Indices: 91134161--91134382 Score: 277
Period size: 39 Copynumber: 5.7 Consensus size: 39
91134151 GACTTTATAA
*
91134161 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
** *
91134200 TGGTGTTATATCCGGGCTAAGTCCTAAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
91134239 TGATGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
91134278 TGGTATTATATCCGGGCTAAG-CCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * * * *
91134316 TAGTGTTATATCCAGGCTAAAGTCCCGCAGG-GTTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
* *
91134355 TGGTATTATATCTGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
91134383 CATGCTTTGT
Statistics
Matches: 160, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
38 31 0.19
39 112 0.70
40 17 0.11
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:91140246 original size:13 final size:13
Alignment explanation
Indices: 91140228--91140279 Score: 95
Period size: 13 Copynumber: 4.0 Consensus size: 13
91140218 AAATCCATAG
91140228 TTGGCTGAAGTAA
1 TTGGCTGAAGTAA
91140241 TTGGCTGAAGTAA
1 TTGGCTGAAGTAA
*
91140254 CTGGCTGAAGTAA
1 TTGGCTGAAGTAA
91140267 TTGGCTGAAGTAA
1 TTGGCTGAAGTAA
91140280 CCCCGAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (13 bp):
TTGGCTGAAGTAA
Found at i:91140265 original size:26 final size:26
Alignment explanation
Indices: 91140229--91140305 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
91140219 AATCCATAGT
91140229 TGGCTGAAGTAATTGGCTGAAGTAAC
1 TGGCTGAAGTAATTGGCTGAAGTAAC
91140255 TGGCTGAAGTAATTGGCTGAAGTAAC
1 TGGCTGAAGTAATTGGCTGAAGTAAC
* *
91140281 --CCCGAAAGTAATTGGCTGAAGTAAC
1 TGGCTG-AAGTAATTGGCTGAAGTAAC
91140306 CCCGAAAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
24 2 0.04
25 20 0.42
26 26 0.54
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (26 bp):
TGGCTGAAGTAATTGGCTGAAGTAAC
Found at i:91140295 original size:25 final size:25
Alignment explanation
Indices: 91140235--91140315 Score: 119
Period size: 25 Copynumber: 3.2 Consensus size: 25
91140225 TAGTTGGCTG
* *
91140235 AAGTAATTGGCTGAAGTAACTGGCTG-
1 AAGTAATTGGCTGAAGTAAC--CCCGA
91140261 AAGTAATTGGCTGAAGTAACCCCGA
1 AAGTAATTGGCTGAAGTAACCCCGA
91140286 AAGTAATTGGCTGAAGTAACCCCGA
1 AAGTAATTGGCTGAAGTAACCCCGA
91140311 AAGTA
1 AAGTA
91140316 CCTGATGTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
24 2 0.04
25 30 0.58
26 20 0.38
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (25 bp):
AAGTAATTGGCTGAAGTAACCCCGA
Found at i:91146728 original size:12 final size:12
Alignment explanation
Indices: 91146711--91146742 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
91146701 GTTTTTACCC
91146711 AATTCCTTCAAT
1 AATTCCTTCAAT
91146723 AATTCCTTCAAT
1 AATTCCTTCAAT
91146735 AATTCCTT
1 AATTCCTT
91146743 TTTTTCTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (12 bp):
AATTCCTTCAAT
Found at i:91147852 original size:40 final size:40
Alignment explanation
Indices: 91147780--91147876 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
91147770 ATAGGAAAAT
* * * * * *
91147780 GAATATGCTATCAAGAGCACTGTAGTGTTAACA-AGAGCAC
1 GAATGTGCGATCAGGAGCACTGCAATGCTAACAGA-AGCAC
*
91147820 GGATGTGCGATCAGGAGCACTGCAATGCTAACAGAAGCAC
1 GAATGTGCGATCAGGAGCACTGCAATGCTAACAGAAGCAC
* *
91147860 GAATGTGCTATAAGGAG
1 GAATGTGCGATCAGGAG
91147877 TACAAAAGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
40 45 0.98
41 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.20
Consensus pattern (40 bp):
GAATGTGCGATCAGGAGCACTGCAATGCTAACAGAAGCAC
Found at i:91159869 original size:20 final size:19
Alignment explanation
Indices: 91159807--91159859 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 19
91159797 AAAAATGTAT
91159807 TAAAAATTAG-AAAAAAATA
1 TAAAAATT-GTAAAAAAATA
91159826 TAAAAATTGTAAAAAAATA
1 TAAAAATTGTAAAAAAATA
91159845 TAAAAGATTGTAAAA
1 TAAAA-ATTGTAAAA
91159860 TTTTATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 1 0.03
19 22 0.69
20 9 0.28
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (19 bp):
TAAAAATTGTAAAAAAATA
Found at i:91159869 original size:28 final size:29
Alignment explanation
Indices: 91159807--91159896 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 29
91159797 AAAAATGTAT
* * *
91159807 TAAAAATTAGAAAAAAATATAAAAATTGTA
1 TAAAAATCATAAAAAAATAT-AAAATTTTA
* * * *
91159837 AAAAAAT-ATAAAAGATTGTAAAATTTTA
1 TAAAAATCATAAAAAAATATAAAATTTTA
*
91159865 T-AAAATCATAAAAAAATATATAATTTTA
1 TAAAAATCATAAAAAAATATAAAATTTTA
91159893 TAAA
1 TAAA
91159897 GTCGTAAGAA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
27 5 0.11
28 26 0.55
29 10 0.21
30 6 0.13
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (29 bp):
TAAAAATCATAAAAAAATATAAAATTTTA
Found at i:91159908 original size:28 final size:27
Alignment explanation
Indices: 91159858--91159913 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
91159848 AAGATTGTAA
91159858 AATTTTATAAAATCATAAAAAAATATAT
1 AATTTTATAAAATCATAAAAAAAT-TAT
* * *
91159886 AATTTTATAAAGTCGTAAGAAAATTAT
1 AATTTTATAAAATCATAAAAAAATTAT
91159913 A
1 A
91159914 CAAAATGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (27 bp):
AATTTTATAAAATCATAAAAAAATTAT
Found at i:91159961 original size:21 final size:20
Alignment explanation
Indices: 91159797--91159961 Score: 74
Period size: 19 Copynumber: 7.9 Consensus size: 20
91159787 ATCAAATATT
91159797 AAAAATGTATTAAAAATTAG-AA
1 AAAAAT-TA-TAAAAATT-GTAA
91159819 AAAAA-TATAAAAATTGTAA
1 AAAAATTATAAAAATTGTAA
91159838 AAAAA-TATAAAAGATTGT-A
1 AAAAATTATAAAA-ATTGTAA
** **
91159857 AAATTTTAT-AAAATCATAA
1 AAAAATTATAAAAATTGTAA
*
91159876 AAAAATATATAATTTTATAAAGTCGTAA
1 AAAAAT-TAT-A----A-AAA-TTGTAA
*
91159904 GAAAATTATACAAAA-TGTAA
1 AAAAATTATA-AAAATTGTAA
* **
91159924 AGAAA-TATAAATTTTGTAAA
1 AAAAATTATAAAAATTGT-AA
91159944 AAAAATTATAAAAATTGT
1 AAAAATTATAAAAATTGT
91159962 CGTACCAAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 33
0.69 0.11 0.21
Matches are distributed among these distances:
18 6 0.05
19 41 0.37
20 26 0.24
21 10 0.09
22 8 0.07
23 1 0.01
26 2 0.02
27 6 0.05
28 10 0.09
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAAATTATAAAAATTGTAA
Found at i:91160231 original size:18 final size:18
Alignment explanation
Indices: 91160183--91160233 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
91160173 ACTTAAAATT
*
91160183 TTTATATTTTTAT-TAAAA
1 TTTA-ATTTTTTTCTAAAA
***
91160201 TTTAATAAATTTCTAAAA
1 TTTAATTTTTTTCTAAAA
91160219 TTTAATTTTTTTCTA
1 TTTAATTTTTTTCTA
91160234 CTTTTTAATA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATTTTTTTCTAAAA
Found at i:91160401 original size:90 final size:90
Alignment explanation
Indices: 91160246--91160558 Score: 393
Period size: 90 Copynumber: 3.5 Consensus size: 90
91160236 TTTTAATAAC
* *
91160246 AGCAGGGGCTTAATTGCTTTTTT-GAAAAATTTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCA
1 AGCAGGGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCA
91160310 AGTACCCAATTAAGTGAAAAAAAAA
66 AGTACCCAATTAAGTGAAAAAAAAA
* * * * * *
91160335 AGCAGGGGCTTAATTGCTTTTGTCGAAGAAGTTTGAGGATCTTTTTGATACATTTTAAAATTTCA
1 AGCAGGGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCA
*
91160400 AGTACCCAATTTAGTGAAAAAAAAA
66 AGTACCCAATTAAGTGAAAAAAAAA
* * *
91160425 GGTAGGGGCTTAATAGCTTTTTTC-AAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTC
1 AGCAGGGGCTTAATTGCTTTTTTCGAAA-AAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTC
* * * **
91160489 AAGTGCTCAATTGAGTG-TGAAAAAA
65 AAGTACCCAATTAAGTGAAAAAAAAA
* * *
91160514 AG-AGAGGGTTTAATTACTTTTTTTGAAAAAGTTTGAGGG-CTTTTT
1 AGCAG-GGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGTCTTTTT
91160559 ACACCATTAA
Statistics
Matches: 192, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
88 8 0.04
89 57 0.30
90 127 0.66
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (90 bp):
AGCAGGGGCTTAATTGCTTTTTTCGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCA
AGTACCCAATTAAGTGAAAAAAAAA
Done.