Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 115 of 295
Found at i:34579987 original size:12 final size:12
Alignment explanation
Indices: 34579970--34580004 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
34579960 TTGGCCTGCC
34579970 TATATTAATTTT
1 TATATTAATTTT
34579982 TATATTAATTTT
1 TATATTAATTTT
34579994 TATA-TAATTTT
1 TATATTAATTTT
34580005 AAAAATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:34580164 original size:30 final size:30
Alignment explanation
Indices: 34580130--34580192 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
34580120 ACTTAACAAG
34580130 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
34580160 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
34580190 CAA
1 CAA
34580193 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:34580871 original size:16 final size:16
Alignment explanation
Indices: 34580850--34580882 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34580840 TCCAACACCC
34580850 AAAAAATATTTTTTTA
1 AAAAAATATTTTTTTA
34580866 AAAAAATATTTTTTTA
1 AAAAAATATTTTTTTA
34580882 A
1 A
34580883 CCCTAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAAAATATTTTTTTA
Found at i:34582726 original size:29 final size:30
Alignment explanation
Indices: 34582679--34582742 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
34582669 TAAACTTAGG
* *
34582679 ATTTAGTTCATGTA-TTTTTATTTTTAAAA
1 ATTTAGTTCATGTACTTTTCATATTTAAAA
* *
34582708 ATTTAGTTCATTTACTTTTCATATTTCAAA
1 ATTTAGTTCATGTACTTTTCATATTTAAAA
34582738 ATTTA
1 ATTTA
34582743 AATCCAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (30 bp):
ATTTAGTTCATGTACTTTTCATATTTAAAA
Found at i:34584622 original size:46 final size:46
Alignment explanation
Indices: 34584553--34584656 Score: 147
Period size: 46 Copynumber: 2.3 Consensus size: 46
34584543 AACCTTATTG
* * *
34584553 TTGGGCTTTGAGGTAGTGTAAGCCCATCACA-TCTATGGGTCTAAAA
1 TTGGGCCTTGAGGTAATGAAAGCCCATCACATTC-ATGGGTCTAAAA
*
34584599 TTGGGCCTTGAGGTAATGAAAGCCCATCATATTCATGGGTCTAAAA
1 TTGGGCCTTGAGGTAATGAAAGCCCATCACATTCATGGGTCTAAAA
*
34584645 TTGGACCTTGAG
1 TTGGGCCTTGAG
34584657 ACTTACACCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
46 50 0.96
47 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (46 bp):
TTGGGCCTTGAGGTAATGAAAGCCCATCACATTCATGGGTCTAAAA
Found at i:34584996 original size:20 final size:20
Alignment explanation
Indices: 34584971--34585008 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34584961 AACTTTAGCC
*
34584971 TAGTTTAATTGGTTTTTAAA
1 TAGTTTAATCGGTTTTTAAA
*
34584991 TAGTTTGATCGGTTTTTA
1 TAGTTTAATCGGTTTTTA
34585009 GCGGTTCAAC
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:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (20 bp):
TAGTTTAATCGGTTTTTAAA
Found at i:34586037 original size:6 final size:7
Alignment explanation
Indices: 34586022--34586046 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34586012 CTAAAAAGAG
34586022 AAAATAA
1 AAAATAA
34586029 AAAATAA
1 AAAATAA
34586036 AAAATAA
1 AAAATAA
34586043 AAAA
1 AAAA
34586047 GCCTTTGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:34587298 original size:19 final size:20
Alignment explanation
Indices: 34587262--34587299 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
34587252 AACATAATCG
34587262 AGTAAGCATTATACATGCTT
1 AGTAAGCATTATACATGCTT
*
34587282 AGTAAGC-TTATAGATGCT
1 AGTAAGCATTATACATGCT
34587300 AAACCCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTAAGCATTATACATGCTT
Found at i:34595389 original size:35 final size:35
Alignment explanation
Indices: 34595350--34595420 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
34595340 CGTCGTGCCC
*
34595350 AGCGTCGTGCCCACGACTCCAGCC-GTGACAGAATA
1 AGCGTCGTGCCCACGACT-CAACCTGTGACAGAATA
*
34595385 AGCGTCGTGCCCACGACTCAACCTGTGATAGAATA
1 AGCGTCGTGCCCACGACTCAACCTGTGACAGAATA
34595420 A
1 A
34595421 AAAGAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.28, C:0.31, G:0.24, T:0.17
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCAACCTGTGACAGAATA
Found at i:34596207 original size:13 final size:12
Alignment explanation
Indices: 34596190--34596219 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
34596180 TTTTGAACTC
34596190 TTTTTTTTTCTT
1 TTTTTTTTTCTT
34596202 TCTTTTTTTTCTT
1 T-TTTTTTTTCTT
34596215 TTTTT
1 TTTTT
34596220 AGAAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:34596209 original size:29 final size:29
Alignment explanation
Indices: 34596144--34596211 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
34596134 AATCATCAAA
34596144 CTTTTTTTTTCGAATTATTTTTTTTATTT
1 CTTTTTTTTTCGAATTATTTTTTTTATTT
* *
34596173 -TTTATTTTTTTGAACTCT-TTTTTTTTCTTT
1 CTTT-TTTTTTCGAA-T-TATTTTTTTTATTT
34596203 CTTTTTTTT
1 CTTTTTTTT
34596212 CTTTTTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 3 0.09
29 9 0.27
30 17 0.52
31 4 0.12
ACGTcount: A:0.10, C:0.09, G:0.03, T:0.78
Consensus pattern (29 bp):
CTTTTTTTTTCGAATTATTTTTTTTATTT
Found at i:34596232 original size:36 final size:35
Alignment explanation
Indices: 34596170--34596256 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 35
34596160 ATTTTTTTTA
* * * * *
34596170 TTTTTTATTTTTTTGAACTCTTTTTTTTTCTTTCTT
1 TTTTTTCTTTTTTTGAAATCTATTTTTTT-GTGCTT
34596206 TTTTTTCTTTTTTTAGAAAT-TATTTTTTTGTGCTT
1 TTTTTTCTTTTTTT-GAAATCTATTTTTTTGTGCTT
34596241 TTTTTGTCTCTTTTTT
1 TTTTT-TCT-TTTTTT
34596257 TTTGTTGAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 9 0.21
36 24 0.56
37 10 0.23
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (35 bp):
TTTTTTCTTTTTTTGAAATCTATTTTTTTGTGCTT
Found at i:34602992 original size:35 final size:35
Alignment explanation
Indices: 34602953--34603022 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
34602943 TCGTGCCCAG
* *
34602953 CGTCGTGCCCACGACTCCAGCCGTGACAGAATAAA
1 CGTCGTGCCCACGACTCCAACCGTGAAAGAATAAA
34602988 CGTCGTGCCCACGACTCCAACCGTGAAAGAATAAA
1 CGTCGTGCCCACGACTCCAACCGTGAAAGAATAAA
34603023 AAGAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.14
Consensus pattern (35 bp):
CGTCGTGCCCACGACTCCAACCGTGAAAGAATAAA
Found at i:34604391 original size:50 final size:50
Alignment explanation
Indices: 34604326--34604670 Score: 309
Period size: 50 Copynumber: 6.9 Consensus size: 50
34604316 ACCGAAGCTC
* * * *
34604326 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
34604376 TCTGGTACACGTAGTAGACTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * ** *
34604426 TCTGATACATGTAGTAACCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * * * * *
34604478 -CGGGTACGCATAGTAGCTTGCACTTAGTACTAAACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * * *
34604527 TCTGGTACACGTAATAGCTTGCACTTAGTACCACACACGTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * ** *
34604577 TCTGATACATGTAGTAGCCTGCACTAAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* *
34604629 -CGGGTACGCAG-AGTAGCCTGCACTTAGTACTACACACGTGAC
1 TCTGGTACAC-GTAGTAGCCTGCACTTAGTACTACACACGTGAC
34604671 TCACAATGGA
Statistics
Matches: 232, Mismatches: 57, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
49 3 0.01
50 157 0.68
51 69 0.30
52 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:34604530 original size:101 final size:101
Alignment explanation
Indices: 34604387--34604568 Score: 240
Period size: 101 Copynumber: 1.8 Consensus size: 101
34604377 CTGGTACACG
* * * * * *
34604387 TAGTAGACTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTT
1 TAGTAGACTGCACTTAGTACTAAACACGCGACCTAACAATCTGATACACGTAATAACCTGCACTT
*
34604452 AGTACTACACACGTGATCGAAGTTAACGGGTACGCA
66 AGTACCACACACGTGATCGAAGTTAACGGGTACGCA
* * * * *
34604488 TAGTAG-CTTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAGCTTGCACT
1 TAGTAGAC-TGCACTTAGTACTAAACACGCGACCTAACAATCTGATACACGTAATAACCTGCACT
34604552 TAGTACCACACACGTGA
65 TAGTACCACACACGTGA
34604569 CTTAACCATC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
100 1 0.01
101 67 0.99
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (101 bp):
TAGTAGACTGCACTTAGTACTAAACACGCGACCTAACAATCTGATACACGTAATAACCTGCACTT
AGTACCACACACGTGATCGAAGTTAACGGGTACGCA
Found at i:34604592 original size:151 final size:151
Alignment explanation
Indices: 34604329--34604660 Score: 585
Period size: 151 Copynumber: 2.2 Consensus size: 151
34604319 GAAGCTCTCT
* *
34604329 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGA
1 GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAGA
* *
34604394 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTTAGTACTA
66 CTGCACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTAAGTACTA
34604459 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACG
*
34604480 GGTACGCATAGTAGCTTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAG-
1 GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAGA
*
34604544 CTTGCACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAGCCTGCACTAAGTACT
66 C-TGCACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTAAGTACT
34604609 ACACACGTGATCGAAGTTAACG
130 ACACACGTGATCGAAGTTAACG
*
34604631 GGTACGCAGAGTAGCCTGCACTTAGTACTA
1 GGTACGCATAGTAGCCTGCACTTAGTACTA
34604661 CACACGTGAC
Statistics
Matches: 172, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
150 1 0.01
151 171 0.99
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCTATCAATCTGGTACACGTAATAGA
CTGCACTTAGTACCACACACGTGACTTAACCATCTGATACATGTAGTAACCTGCACTAAGTACTA
CACACGTGATCGAAGTTAACG
Found at i:34608426 original size:26 final size:26
Alignment explanation
Indices: 34608397--34608504 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
34608387 TGGTACAAAT
34608397 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
34608423 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
34608449 TGATAATGGGTTAGGTAAGTGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
34608475 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
34608501 TGAT
1 TGAT
34608505 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
26 73 0.97
27 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:34610897 original size:79 final size:82
Alignment explanation
Indices: 34610776--34610960 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 82
34610766 GCTACTCGTT
* * * * *
34610776 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCCCACAAATGCCTTC-GGATCTTAACCC
* * *
34610839 GGATTTAGTAAC-TCGCG
65 GGATATAGTAACTTAGCA
* **
34610856 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGCATCTCCCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCCCACAAATGCCTTCGGATCTTAACCCG
* *
34610919 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
34610936 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34610961 CATCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.59
80 33 0.38
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGCAACTCCCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:34610899 original size:39 final size:40
Alignment explanation
Indices: 34610776--34610960 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
34610766 GCTACTCGTT
*
34610776 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
34610816 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
34610856 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGCATCTCCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34610895 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34610936 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34610961 CATCATTCAA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 75 0.63
41 12 0.10
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34613302 original size:27 final size:27
Alignment explanation
Indices: 34613262--34613402 Score: 157
Period size: 27 Copynumber: 5.2 Consensus size: 27
34613252 AGGAAGCGTC
*
34613262 CTGGTGGCTATGCCACAATTATCTGAGT
1 CTGGTGGCTCTGCCACAATTATCTGA-T
*
34613290 -TGGTGGCTCTGCCAC-ATATATTTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
34613315 CTTGGTGGCTATGCCACAATTATCTGAT
1 C-TGGTGGCTCTGCCACAATTATCTGAT
*
34613343 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
34613370 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
34613397 CTGGTG
1 CTGGTG
34613403 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 8, Indels: 17
0.80 0.07 0.14
Matches are distributed among these distances:
25 1 0.01
26 10 0.10
27 81 0.84
28 5 0.05
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:34613348 original size:54 final size:54
Alignment explanation
Indices: 34613262--34613402 Score: 207
Period size: 54 Copynumber: 2.6 Consensus size: 54
34613252 AGGAAGCGTC
*
34613262 CTGGTGGCTATGCCACAATTATCTGAGT-TGGTGGCTCTGCCACATATATTTG-T
1 CTGGTGGCTATGCCACAATTATCTGA-TCTGGTGGCTCTGCCACATATATCTGTT
34613315 CTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 C-TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
34613370 CTGGTGGCTCTACCACAA-TATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
34613403 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
53 8 0.10
54 71 0.88
55 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:34613413 original size:27 final size:26
Alignment explanation
Indices: 34613329--34613420 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 26
34613319 GTGGCTATGC
*
34613329 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
34613356 CACATATATCTGT-TCTGGTGGCTC-T
1 CACA-ATATCTGTATCTGGTGGCTCGT
*
34613381 ACCACAATATCTGTATCTGGTGACTTCGT
1 --CACAATATCTGTATCTGGTGGC-TCGT
34613410 CACAATATCTG
1 CACAATATCTG
34613421 GCAGCCTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
26 8 0.14
27 44 0.79
28 3 0.05
29 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTCGT
Found at i:34613414 original size:81 final size:80
Alignment explanation
Indices: 34613262--34613420 Score: 182
Period size: 81 Copynumber: 2.0 Consensus size: 80
34613252 AGGAAGCGTC
* * * *
34613262 CTGGTGGCTATGCCACAATTATCTGAGTTGGTGGCTCTGCCACATATATTTGTCTTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGAGTTGGTGGCTCTACCACATATATCTGTATTGGTGACTAT
34613327 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
34613343 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTCTACCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGAGT-TGGTGGCTCTACCACATATATCTGTAT-TGGTGAC
*
34613405 T-TCGTCACAATATCTG
63 TAT-GCCACAATATCTG
34613421 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
80 18 0.27
81 49 0.73
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGAGTTGGTGGCTCTACCACATATATCTGTATTGGTGACTAT
GCCACAATATCTGAT
Found at i:34614909 original size:15 final size:15
Alignment explanation
Indices: 34614889--34614918 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34614879 TAGTGAAAGG
34614889 AAAAATGTTAAGGGA
1 AAAAATGTTAAGGGA
*
34614904 AAAAATTTTAAGGGA
1 AAAAATGTTAAGGGA
34614919 TTTTTTAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (15 bp):
AAAAATGTTAAGGGA
Found at i:34618588 original size:20 final size:20
Alignment explanation
Indices: 34618529--34619007 Score: 155
Period size: 20 Copynumber: 24.1 Consensus size: 20
34618519 AATTATTGAA
*
34618529 TGATTGCACTTACGTGCCCT
1 TGATTGCACTTACGTGCCCC
* * *
34618549 TGTTTGTACTT-CGGTACCCC
1 TGATTGCACTTAC-GTGCCCC
34618569 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
*
34618589 T-ATTTGTACTT-CGGTGCCCC
1 TGA-TTGCACTTAC-GTGCCCC
34618609 TGATTGCACTTACGTG-CCC
1 TGATTGCACTTACGTGCCCC
* ** * * *
34618628 TTATTTGTC-CTTTGGTACACT
1 TGA-TTG-CACTTACGTGCCCC
* *
34618649 TGATTGCACTAATGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * ** * *
34618669 TGTTTGTACTTGGGTACCCT
1 TGATTGCACTTACGTGCCCC
*
34618689 TGATTGCAGTTACGTG-CCC
1 TGATTGCACTTACGTGCCCC
* * ** * * *
34618708 TTATTTGTACTTTGGTACACT
1 TGA-TTGCACTTACGTGCCCC
* *
34618729 TGATTGCACTTATGTGCCTC
1 TGATTGCACTTACGTGCCCC
* * ** *
34618749 TGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCC
*
34618769 TGATTGCACTTATGTG-CCC
1 TGATTGCACTTACGTGCCCC
* * * * *
34618788 TTATTTGTA-TTTCGGTACCCT
1 TGA-TTGCACTTAC-GTGCCCC
* *
34618809 TGATTGCACCTACGTGCCCA
1 TGATTGCACTTACGTGCCCC
* * * *
34618829 TGTTTGTACTT-CG-GAACCT
1 TGATTGCACTTACGTG-CCCC
34618848 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * *
34618868 TGTTTGTACTT-CG-GTACCC
1 TGATTGCACTTACGTG-CCCC
34618887 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * * *
34618907 TGTTTGTACTT-CAGTACCCT
1 TGATTGCACTTAC-GTGCCCC
* * *
34618927 TAAATGCACAT-CTGTGCCCC
1 TGATTGCACTTAC-GTGCCCC
* *
34618947 TGTTTGCACTT-CGATACCCC
1 TGATTGCACTTACG-TGCCCC
* *
34618967 TGATTGCACATT-TGTGCTCC
1 TGATTGCAC-TTACGTGCCCC
* *
34618987 TGATTACACTT-GGTGCCCC
1 TGATTGCACTTACGTGCCCC
34619006 TG
1 TG
34619008 TTATGCATCT
Statistics
Matches: 320, Mismatches: 114, Indels: 51
0.66 0.24 0.11
Matches are distributed among these distances:
18 2 0.01
19 59 0.18
20 238 0.74
21 21 0.07
ACGTcount: A:0.15, C:0.28, G:0.19, T:0.38
Consensus pattern (20 bp):
TGATTGCACTTACGTGCCCC
Found at i:34618983 original size:40 final size:40
Alignment explanation
Indices: 34618529--34618975 Score: 540
Period size: 40 Copynumber: 11.2 Consensus size: 40
34618519 AATTATTGAA
* *
34618529 TGATTGCACTTACGTGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * *
34618569 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTGCCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
34618609 TGATTGCACTTACGTGCCCTTATTTGTCCTTTGGTACACT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * *
34618649 TGATTGCACTAATGTGCCCCTGTTTGTACTTGGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
34618689 TGATTGCAGTTACGTGCCCTTATTTGTACTTTGGTACACT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * *
34618729 TGATTGCACTTATGTGCCTCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * *
34618769 TGATTGCACTTATGTGCCCTTATTTGTATTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * *
34618809 TGATTGCACCTACGTGCCCATGTTTGTACTTCGG-AACCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
34618848 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCC-
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
*
34618887 TGATTGCACTTACGTGCCCCTGTTTGTACTTCAGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * * *
34618927 TAAATGCACAT-CTGTGCCCCTGTTTGCACTTCGATACCCC
1 TGATTGCACTTAC-GTGCCCCTGTTTGTACTTCGGTACCCT
34618967 TGATTGCAC
1 TGATTGCAC
34618976 ATTTGTGCTC
Statistics
Matches: 349, Mismatches: 55, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
39 75 0.21
40 274 0.79
ACGTcount: A:0.15, C:0.28, G:0.19, T:0.38
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:34619789 original size:20 final size:19
Alignment explanation
Indices: 34619746--34619801 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
34619736 AAGTTTATGT
* *
34619746 TAAGTAAATGACATGTAAAG
1 TAAGTAAATGA-ATGGAAAA
34619766 TAAGTAAATAGAATGGAAAA
1 TAAGTAAAT-GAATGGAAAA
*
34619786 TAAGCAAATGGAATGG
1 TAAGTAAAT-GAATGG
34619802 TTCATGATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.23, T:0.21
Consensus pattern (19 bp):
TAAGTAAATGAATGGAAAA
Found at i:34624974 original size:21 final size:21
Alignment explanation
Indices: 34624931--34624975 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34624921 ATTTTGATGA
**
34624931 TTGATGATAGATTATAATTTT
1 TTGATGATAGATTATAAAGTT
34624952 TTGATGATAG-TTATACAAGTT
1 TTGATGATAGATTATA-AAGTT
34624973 TTG
1 TTG
34624976 TTAAGTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (21 bp):
TTGATGATAGATTATAAAGTT
Found at i:34626859 original size:27 final size:28
Alignment explanation
Indices: 34626811--34626868 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
34626801 GCGAGGCTGC
*
34626811 CAGATATTGTGACGAAGTCACCAGA-TA
1 CAGATATTGTGACGAAGCCACCAGATTA
* * *
34626838 CAGATATTGTGGCTAGGCCACCAGATTA
1 CAGATATTGTGACGAAGCCACCAGATTA
34626866 CAG
1 CAG
34626869 CGAGGCTGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (28 bp):
CAGATATTGTGACGAAGCCACCAGATTA
Found at i:34626924 original size:66 final size:67
Alignment explanation
Indices: 34626799--34626947 Score: 250
Period size: 66 Copynumber: 2.2 Consensus size: 67
34626789 ACAGAAATTG
34626799 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCAGAT
1 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCAGAT
34626864 TA
66 TA
34626866 CAGCGAGGCTGCCAGATATTGTGA-GAAGTCACCAGA-ACAGATATATGTGG-TGAGGCCACCAG
1 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCT-AGGCCACCAG
*
34626928 ATTG
64 ATTA
34626932 CAGCGAGGCTGCCAGA
1 CAGCGAGGCTGCCAGA
34626948 ACGCTTCCTT
Statistics
Matches: 79, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
65 9 0.11
66 46 0.58
67 24 0.30
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.19
Consensus pattern (67 bp):
CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCAGAT
TA
Found at i:34627573 original size:27 final size:26
Alignment explanation
Indices: 34627526--34627579 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
34627516 ATCACACAAG
* *
34627526 TTAGTCATTTACGCACGAGGGGCAAA
1 TTAGTCATTTACCCACCAGGGGCAAA
* *
34627552 TTAGTCATTTTACCCTCCAGGGGTAAA
1 TTAGTCA-TTTACCCACCAGGGGCAAA
34627579 T
1 T
34627580 CGGTAGTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (26 bp):
TTAGTCATTTACCCACCAGGGGCAAA
Found at i:34628759 original size:12 final size:12
Alignment explanation
Indices: 34628744--34628806 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
34628734 TGTTATCAAT
34628744 TTATTATTATAA
1 TTATTATTATAA
**
34628756 TTATTATTATGGT
1 TTATTATTAT-AA
*
34628769 TTTTTATT-TAA
1 TTATTATTATAA
*
34628780 ATATTATTATTAA
1 TTATTATTA-TAA
34628793 -TATTATTAT-A
1 TTATTATTATAA
34628803 TTAT
1 TTAT
34628807 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 10 0.25
12 19 0.47
13 10 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:34629071 original size:3 final size:3
Alignment explanation
Indices: 34629065--34629141 Score: 56
Period size: 3 Copynumber: 27.0 Consensus size: 3
34629055 AAATAGATAT
* * *
34629065 TTA TTA TAA TTA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA -AA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * *
34629106 TTA TGA TTA TGA TTA TGA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34629142 AAATAAATTA
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
2 8 0.14
3 47 0.84
4 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:34629076 original size:24 final size:23
Alignment explanation
Indices: 34629049--34629106 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
34629039 ATATGCATTT
34629049 ATTATTAAATAGATATT-TATTATA
1 ATTATTAAATAG-TATTATATTA-A
* *
34629073 ATTATTATTATAGTTTTATATTAA
1 ATTATTA-AATAGTATTATATTAA
34629097 ATTATTAAAT
1 ATTATTAAAT
34629107 TATGATTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.07
24 18 0.62
25 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (23 bp):
ATTATTAAATAGTATTATATTAA
Found at i:34629082 original size:12 final size:12
Alignment explanation
Indices: 34629065--34629141 Score: 66
Period size: 12 Copynumber: 6.2 Consensus size: 12
34629055 AAATAGATAT
34629065 TTATTATAATTA
1 TTATTATAATTA
* *
34629077 TTATTATAGTTT
1 TTATTATAATTA
34629089 TATATTA-AATTA
1 T-TATTATAATTA
*
34629101 TTAAATTATGATTA
1 TT--ATTATAATTA
* *
34629115 TGATTATGATTA
1 TTATTATAATTA
*
34629127 TTATTATTATTA
1 TTATTATAATTA
34629139 TTA
1 TTA
34629142 AAATAAATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
11 1 0.02
12 38 0.72
13 9 0.17
14 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:34629275 original size:3 final size:3
Alignment explanation
Indices: 34629267--34629312 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
34629257 GTGAATTAAA
* *
34629267 TAT TAT TA- TAT TA- TAT TAT TAT AAT GTAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
34629311 TA
1 TA
34629313 ACTAATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:34629284 original size:13 final size:13
Alignment explanation
Indices: 34629266--34629312 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
34629256 TGTGAATTAA
34629266 ATATTATTATATT
1 ATATTATTATATT
*
34629279 ATATTATTATAAT
1 ATATTATTATATT
* *
34629292 GTATTATTAT-TA
1 ATATTATTATATT
34629304 ATATTATTA
1 ATATTATTA
34629313 ACTAATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:34630556 original size:18 final size:18
Alignment explanation
Indices: 34630485--34630573 Score: 73
Period size: 18 Copynumber: 5.1 Consensus size: 18
34630475 AGAAAGTGGA
*
34630485 AAAGTGAATTTG-AATTG
1 AAAGTGAAATTGAAATTG
34630502 -AA-TGAGAATTG-AATTG
1 AAAGTGA-AATTGAAATTG
* *
34630518 AATTGTG-AATTTAAATTG
1 AA-AGTGAAATTGAAATTG
34630536 AAAGTGAAATTGAAATTG
1 AAAGTGAAATTGAAATTG
*
34630554 AAAGTG-ATTTGAAATGTG
1 AAAGTGAAATTGAAAT-TG
34630572 AA
1 AA
34630574 TTTGGAGACC
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
15 3 0.05
16 11 0.19
17 16 0.27
18 27 0.46
19 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.34
Consensus pattern (18 bp):
AAAGTGAAATTGAAATTG
Found at i:34630567 original size:11 final size:13
Alignment explanation
Indices: 34630483--34630577 Score: 59
Period size: 12 Copynumber: 8.1 Consensus size: 13
34630473 CTAGAAAGTG
*
34630483 GAAAAGTGAATTT
1 GAAATGTGAATTT
34630496 G-AAT-TGAA--T
1 GAAATGTGAATTT
34630505 GAGAAT-TGAA-TT
1 GA-AATGTGAATTT
*
34630517 GAATTGTGAATTT
1 GAAATGTGAATTT
**
34630530 -AAAT-TGAAAGT
1 GAAATGTGAATTT
*
34630541 GAAAT-TGAAATT
1 GAAATGTGAATTT
34630553 GAAA-GTG-ATTT
1 GAAATGTGAATTT
34630564 GAAATGTGAATTT
1 GAAATGTGAATTT
34630577 G
1 G
34630578 GAGACCCTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
9 2 0.03
11 25 0.38
12 31 0.47
13 8 0.12
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (13 bp):
GAAATGTGAATTT
Found at i:34631901 original size:69 final size:70
Alignment explanation
Indices: 34631769--34631901 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 70
34631759 TAGTTTATTA
* * * *
34631769 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
34631834 CTTAG
66 CTTAG
34631839 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
34631902 GTTATGTGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:34633019 original size:119 final size:117
Alignment explanation
Indices: 34632677--34633068 Score: 491
Period size: 119 Copynumber: 3.3 Consensus size: 117
34632667 ACTTAAGGTT
* * * * * *
34632677 CGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATC
1 CGCAGGCTTCGTGCTGGAATTATATCTGGGCTTAAAGACCGCAGGCTTCGTGCTGGAATTGTATC
* *
34632742 CGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACC
66 CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGA-C
* *
34632795 CGCAGGCTAT-ATGCTGGAATTATAT-TCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGT
1 CGCAGGCT-TCGTGCTGGAATTATATCT-GGGCTTAAAGA-CCGCAGGCTTCGTGCTGGAATTGT
*
34632858 ATCCAGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGAC
63 ATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGAC
* *
34632913 CTACAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCTGCAGGCTTCGTGCTGGAATTGTA
1 C-GCAGGCTTCGTGCTGGAATTATATCTGGGCTTAAAGACC-GCAGGCTTCGTGCTGGAATTGTA
* * * * * * * *
34632978 TCCGGACTTAAGATCCGTAGGCTTCGTGCTGGTACTATATTCGGACTTAAGGTC
64 TCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGAC
* * * *
34633032 CGCAGGCTTCGTACTGGTACTATATCTGAGCTTAAAG
1 CGCAGGCTTCGTGCTGGAATTATATCTGGGCTTAAAG
34633069 TCCCGTAGGG
Statistics
Matches: 237, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
118 64 0.27
119 172 0.73
120 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (117 bp):
CGCAGGCTTCGTGCTGGAATTATATCTGGGCTTAAAGACCGCAGGCTTCGTGCTGGAATTGTATC
CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGAC
Found at i:34633056 original size:39 final size:39
Alignment explanation
Indices: 34632660--34633048 Score: 456
Period size: 39 Copynumber: 9.9 Consensus size: 39
34632650 ATTTGATGTA
*
34632660 TATCCGGACTTAAGGTTCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
*
34632699 TATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
*
34632738 TATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* ** * *
34632777 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGACTT-AAGGTCCGCAGGCT-TCGTGCTGGAATTG
* * ** *
34632817 TATTCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
*
34632857 TATCCAGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * * * *
34632896 TATTCGGGCTTAAAGACCTACAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCC-GCAGGCTTCGTGCTGGAATTG
* * * *
34632936 TATCTGGGCTTAAAGACCTGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCC-GCAGGCTTCGTGCTGGAATTG
* * * * *
34632976 TATCCGGACTTAAGATCCGTAGGCTTCGTGCTGGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* *
34633015 TATTCGGACTTAAGGTCCGCAGGCTTCGTACTGG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGG
34633049 TACTATATCT
Statistics
Matches: 307, Mismatches: 39, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
39 172 0.56
40 134 0.44
41 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
Found at i:34639772 original size:12 final size:13
Alignment explanation
Indices: 34639756--34639790 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
34639746 TAAATTGAGC
34639756 CATAAATATTTTT
1 CATAAATATTTTT
34639769 -ATAAAT-TTTTT
1 CATAAATATTTTT
34639780 CATAAATATTT
1 CATAAATATTT
34639791 AAGGAGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.25
12 12 0.60
13 3 0.15
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (13 bp):
CATAAATATTTTT
Found at i:34640080 original size:22 final size:20
Alignment explanation
Indices: 34640036--34640080 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
34640026 AATTTTATTA
* *
34640036 TTAAAATAAAAGAAAAAAGG
1 TTAAAAAAAAAGAAAAAAAG
34640056 TTAAAAAAATAAGAAACAAAAG
1 TTAAAAAAA-AAGAAA-AAAAG
34640078 TTA
1 TTA
34640081 TCTTCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (20 bp):
TTAAAAAAAAAGAAAAAAAG
Found at i:34640856 original size:40 final size:39
Alignment explanation
Indices: 34640799--34641017 Score: 226
Period size: 40 Copynumber: 5.5 Consensus size: 39
34640789 AATTATTGAA
* * *
34640799 TGATTGCATTTATGTGCCCCTGTTTGTACTTTGGTACCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCC
* *
34640838 TTGATTGCACTTACGTGCCCCTATTTATACTTCGGTACCAC
1 -TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACC-C
* *
34640879 TGATTGCACTTACGTGCCCCCGTTTGTACTTCGGTACCTT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACC-C
* * * *
34640919 TAATTGCACTTATGTGCCCTTGTTTGTACTTCAGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCC
* * *
34640959 TGAATGCACAT-CTTTGCCCCTGTTTGTACTTCGGTACTCC
1 TGATTGCACTTAC-GTGCCCCTGTTTGTACTTCGGTAC-CC
* *
34640999 TAATTGCACTT-GGTGCCCC
1 TGATTGCACTTACGTGCCCC
34641018 AGTTATGCAT
Statistics
Matches: 147, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
39 7 0.05
40 137 0.93
41 3 0.02
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (39 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:34642722 original size:43 final size:42
Alignment explanation
Indices: 34642623--34642724 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 42
34642613 AACGGCCTAA
* * * * *
34642623 GACACGGATGTGTGTCTCAGCTGTGTGTGACACATGGCCATGC
1 GACACGG-TGTGTGTCTCAACCGTGTATCACACACGGCCATGC
* *
34642666 GACATGGTCGTGTGTCTCAACCGTGTATCACACACGGCCATGT
1 GACACGGT-GTGTGTCTCAACCGTGTATCACACACGGCCATGC
34642709 GACACGGCTGTGTGTC
1 GACACGG-TGTGTGTC
34642725 CCTTGTAGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.02
43 47 0.96
44 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.25
Consensus pattern (42 bp):
GACACGGTGTGTGTCTCAACCGTGTATCACACACGGCCATGC
Found at i:34669346 original size:19 final size:17
Alignment explanation
Indices: 34669319--34669365 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
34669309 ACAAAGCCCG
*
34669319 ATAAGTGATAATGCCTGAA
1 ATAAATGATAATG-CT-AA
*
34669338 ATAAATGATAATGCTCA
1 ATAAATGATAATGCTAA
34669355 ATAAATGATAA
1 ATAAATGATAA
34669366 ATGATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 12 0.46
18 2 0.08
19 12 0.46
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.28
Consensus pattern (17 bp):
ATAAATGATAATGCTAA
Found at i:34670321 original size:21 final size:21
Alignment explanation
Indices: 34670297--34670368 Score: 54
Period size: 23 Copynumber: 3.2 Consensus size: 21
34670287 AAGTTCTGAT
34670297 ATGAAATAATCAGAACTCGAG
1 ATGAAATAATCAGAACTCGAG
* * * * * *
34670318 ATGAATTATTATGAAAATATATGAT
1 ATGAA--ATAATCAGAA-CT-CGAG
34670343 ATGAAATAATCAGAACTCGAG
1 ATGAAATAATCAGAACTCGAG
34670364 ATGAA
1 ATGAA
34670369 TTATTATGAA
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
21 12 0.34
22 1 0.03
23 14 0.40
24 1 0.03
25 7 0.20
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (21 bp):
ATGAAATAATCAGAACTCGAG
Found at i:34670343 original size:46 final size:46
Alignment explanation
Indices: 34670293--34670384 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
34670283 AGTAAAGTTC
34670293 TGATATGAAATAATCAGAACTCGAGATGAATTATTATGAAAATATA
1 TGATATGAAATAATCAGAACTCGAGATGAATTATTATGAAAATATA
34670339 TGATATGAAATAATCAGAACTCGAGATGAATTATTATGAAAATATA
1 TGATATGAAATAATCAGAACTCGAGATGAATTATTATGAAAATATA
34670385 CTTGTAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (46 bp):
TGATATGAAATAATCAGAACTCGAGATGAATTATTATGAAAATATA
Found at i:34675407 original size:13 final size:13
Alignment explanation
Indices: 34675391--34675419 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34675381 CACAAATATC
34675391 TCATATCATAATA
1 TCATATCATAATA
34675404 TCATATCATAATA
1 TCATATCATAATA
34675417 TCA
1 TCA
34675420 ATCTACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (13 bp):
TCATATCATAATA
Found at i:34689987 original size:23 final size:23
Alignment explanation
Indices: 34689957--34690003 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34689947 TGTAACTTAG
34689957 TTTAATATGCTATTTTTGGAATA
1 TTTAATATGCTATTTTTGGAATA
34689980 TTTAATATGCTATTTTTGGAATA
1 TTTAATATGCTATTTTTGGAATA
34690003 T
1 T
34690004 CTGAAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (23 bp):
TTTAATATGCTATTTTTGGAATA
Found at i:34694994 original size:23 final size:22
Alignment explanation
Indices: 34694967--34695015 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
34694957 TAATGAGTAC
34694967 AATAAAAAATGATGAAATAAAA
1 AATAAAAAATGATGAAATAAAA
*
34694989 TAATAAAAAATGATTAAATAAAA
1 -AATAAAAAATGATGAAATAAAA
34695012 AATA
1 AATA
34695016 TTCAATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (22 bp):
AATAAAAAATGATGAAATAAAA
Found at i:34695757 original size:26 final size:24
Alignment explanation
Indices: 34695723--34695771 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
34695713 TAAATAAAAA
* *
34695723 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
34695749 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
34695772 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:34697575 original size:44 final size:44
Alignment explanation
Indices: 34697523--34697621 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
34697513 AGATTTGTTG
** *
34697523 TTGTAGTTTCAATCCATTCCACTACAACTTCAGGGATATAAGAT
1 TTGTAGTTTCAATCCAAACAACTACAACTTCAGGGATATAAGAT
* * * *
34697567 TTTTAGTTTCATTCCAAACAACTACAACTTCAGGGGTATAGGAT
1 TTGTAGTTTCAATCCAAACAACTACAACTTCAGGGATATAAGAT
*
34697611 TTGTAGCTTCA
1 TTGTAGTTTCA
34697622 TCTTGTTCCA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (44 bp):
TTGTAGTTTCAATCCAAACAACTACAACTTCAGGGATATAAGAT
Found at i:34697702 original size:94 final size:94
Alignment explanation
Indices: 34697587--34697816 Score: 259
Period size: 94 Copynumber: 2.4 Consensus size: 94
34697577 ATTCCAAACA
* *
34697587 ACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTG-TTCCACTGAAACTTCAAGG-AGAT
1 ACTACATCTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTT-CACTGAAACTT-AAGGTAGAT
* * *
34697650 AAGAGTT-ACTATGGTAGCTTCGATCTAATCC
64 AAGAGTTGA-TATGATAACTTCGATCCAATCC
* * * * * *
34697681 ACTACATCTTCAGGAATATAGGATTTGTGGCTTAATCTTGCTTCACTGCATCTTTAGGTAGATAA
1 ACTACATCTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTTCACTGAAACTTAAGGTAGATAA
* * *
34697746 GATTTGATATTATAACTTTGATCCAATCC
66 GAGTTGATATGATAACTTCGATCCAATCC
* * *
34697775 ACTGCATCTTCAGGGATATAGGATTTATAGCTTCATATTGCT
1 ACTACATCTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
34697817 CTACTCAATT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
93 3 0.03
94 107 0.95
95 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (94 bp):
ACTACATCTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTTCACTGAAACTTAAGGTAGATAA
GAGTTGATATGATAACTTCGATCCAATCC
Found at i:34697919 original size:231 final size:232
Alignment explanation
Indices: 34697483--34698155 Score: 756
Period size: 231 Copynumber: 2.9 Consensus size: 232
34697473 TTATAGCTTC
* * * * * * * * * *
34697483 ATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTTGT-AGTTTCAATCCATTCCACTA
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGATATTATAACTTT-GATCCAATCCACTG
* * * * * ** * * * *
34697547 CAACTTCAGGGATATAAGATTTTTAGTTTCAT-TCCAAACAACTAC-AACTTCAGGG-GTATAGG
65 CATCTTCAGGGATATAGGATTTATAGCTTCATAT-TACTCCACTGCAAATTTCAGGGAG-ATAAG
* * * *
34697609 ATTTGTAGCTTCATCTTGTTCCACTGAAACTTCA-AGGAGATAAGAGTTACTATGGTAGCTTCGA
128 ATTTGTAGCTTCATCTTGTTCCACTGCAACTTCAGA-GAGATAAGA-TTACTATTGTAACTTTGA
**
34697673 TCTAATCCACTACATCTTCAG-GAATATAGGATTTGT-GGCTTA
191 TCCGATCCACTACATCTTCAGAG-ATATAGGATTTGTAGG-TTA
* * *
34697715 ATCTTGCTTCACTGCATCTTTAGGTAGATAAGATTTGATATTATAACTTTGATCCAATCCACTGC
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGATATTATAACTTTGATCCAATCCACTGC
* *
34697780 ATCTTCAGGGATATAGGATTTATAGCTTCATATTGCTCTACT-C-AATTTCAGGGAGATAAGATT
66 ATCTTCAGGGATATAGGATTTATAGCTTCATATTACTCCACTGCAAATTTCAGGGAGATAAGATT
* * * * *
34697843 TGTAGCTTCGTCTTGCTCCACTGCAACCTCAGAGAGATAAGATTCGCGATTGTAACTTTGATCCG
131 TGTAGCTTCATCTTGTTCCACTGCAACTTCAGAGAGATAAGATT-ACTATTGTAACTTTGATCCG
*
34697908 AT-CAGCTACATCTTCAGAGATATAGGATTTGTAGGTTT
195 ATCCA-CTACATCTTCAGAGATATAGGATTTGTAGGTTA
**
34697946 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGATATTATAACTTTGATCTGATCCACTGC
1 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGATATTATAACTTTGATCCAATCCACTGC
*
34698011 ATCTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCACTGCAAATTT-AGGGAGATAAGATT
66 ATCTTCAGGGATATAGGATTTATAGCTTCATATTACTCCACTGCAAATTTCAGGGAGATAAGATT
* * * * *
34698075 CGTAGCTTCATCTTGTTCCATTGCAACTTTAGAGAGATAATATTTTCTATTGTAACTTTGATCCG
131 TGTAGCTTCATCTTGTTCCACTGCAACTTCAGAGAGATAAGA-TTACTATTGTAACTTTGATCCG
*
34698140 ATCCACTGCATCTTCA
195 ATCCACTACATCTTCA
34698156 AGGATATGGG
Statistics
Matches: 375, Mismatches: 54, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
230 4 0.01
231 194 0.52
232 163 0.43
233 14 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (232 bp):
ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGATATTATAACTTTGATCCAATCCACTGC
ATCTTCAGGGATATAGGATTTATAGCTTCATATTACTCCACTGCAAATTTCAGGGAGATAAGATT
TGTAGCTTCATCTTGTTCCACTGCAACTTCAGAGAGATAAGATTACTATTGTAACTTTGATCCGA
TCCACTACATCTTCAGAGATATAGGATTTGTAGGTTA
Found at i:34697953 original size:94 final size:94
Alignment explanation
Indices: 34697832--34698076 Score: 316
Period size: 94 Copynumber: 2.6 Consensus size: 94
34697822 CAATTTCAGG
* * * * * *
34697832 GAGATA-A-GATTTGTAGCTTCGTCTTGCTCCACTGCAACCTCAGAGAGATAAGATTCGCGATTG
1 GAGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGAGATTA
34697895 TAACTTTGATCCGAT-CAGCTACATCTTCA
66 TAACTTTGATCCGATCCA-CTACATCTTCA
* * * *
34697924 GAGATATAGGATTTGTAGGTTTATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGATATTA
1 GAGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGAGATTA
* *
34697989 TAACTTTGATCTGATCCACTGCATCTTCA
66 TAACTTTGATCCGATCCACTACATCTTCA
* * * *
34698018 GGGATATAGGATTTATAGCTTCATCTTACTCCACTGCAAATTTAGGGAGATAAGATTCG
1 GAGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCG
34698077 TAGCTTCATC
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
92 6 0.05
93 1 0.01
94 122 0.93
95 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (94 bp):
GAGATATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGAGATTA
TAACTTTGATCCGATCCACTACATCTTCA
Found at i:34697981 original size:44 final size:44
Alignment explanation
Indices: 34697919--34698119 Score: 134
Period size: 44 Copynumber: 4.4 Consensus size: 44
34697909 TCAGCTACAT
* * * * *
34697919 CTTCAGAGATATAGGATTTGTAGGTTTATCTTGCTCCACTGCAA
1 CTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAA
* * * * *
34697963 CTTTAGGGAGATAAGATTTGATATTATAACTTTGATC-TGATCCACTGCAT
1 CTTCAGGGAGATAAGATTTG------TAGC-TTCATCTTGCTCCACTGCAA
* * * *
34698013 CTTCAGGGATATAGGATTTATAGCTTCATCTTACTCCACTGCAA
1 CTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAA
* * * * *
34698057 ATTTAGGGAGATAAGATTCGTAGCTTCATCTTGTTCCATTGCAA
1 CTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAA
* * *
34698101 CTTTAGAGAGATAATATTT
1 CTTCAGGGAGATAAGATTT
34698120 TCTATTGTAA
Statistics
Matches: 118, Mismatches: 31, Indels: 16
0.72 0.19 0.10
Matches are distributed among these distances:
43 5 0.04
44 79 0.67
50 29 0.25
51 5 0.04
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (44 bp):
CTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAA
Found at i:34701479 original size:6 final size:6
Alignment explanation
Indices: 34701468--34701502 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
34701458 TTGTCTAGAT
* *
34701468 CAATCG CAATCG CAATCG CAATCC CAATCC CAATC
1 CAATCG CAATCG CAATCG CAATCG CAATCG CAATC
34701503 CCTTTCTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.40, G:0.09, T:0.17
Consensus pattern (6 bp):
CAATCG
Found at i:34705354 original size:45 final size:45
Alignment explanation
Indices: 34705285--34705559 Score: 311
Period size: 45 Copynumber: 6.0 Consensus size: 45
34705275 GACATTTGGG
* *
34705285 TGACATGTGAGCCAGTGAAAGACCATATTGGACATGGCATCGGCAT
1 TGAC-TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCAT
* * *
34705331 TGACTGTGAACCAGTGTAAGACCATGTTGGACAAGGCATTC-ACAT
1 TGACTGTGAGCCAGTGTAAGACCATGTTGGACATGGCA-TCGGCAT
* ** * *
34705376 TGATTACGAGCTAGTGTAGGACCATGTTGGACATGGCATCGGCAT
1 TGACTGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCAT
* * * *
34705421 GGATTGTGAACCAGTGTAAGACCATATTGGACATGGCATCGG-AGT
1 TGACTGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCA-T
* * *
34705466 TGATTGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
1 TGACTGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCAT
34705513 TGACATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 TGAC-TGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCA
34705560 ATTCACCCTC
Statistics
Matches: 194, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
44 3 0.02
45 126 0.65
46 7 0.04
47 18 0.09
48 40 0.21
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
TGACTGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCAT
Found at i:34707559 original size:11 final size:11
Alignment explanation
Indices: 34707543--34707568 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34707533 GTCACTTGTA
34707543 TCCTAAACTAT
1 TCCTAAACTAT
34707554 TCCTAAACTAT
1 TCCTAAACTAT
34707565 TCCT
1 TCCT
34707569 CAGGTTCAAA
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:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (11 bp):
TCCTAAACTAT
Found at i:34720693 original size:25 final size:25
Alignment explanation
Indices: 34720660--34720707 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
34720650 GAGTAAAATA
*
34720660 AAAAATGATGAAATAAAATAATAAT
1 AAAAATGATGAAATAAAAAAATAAT
*
34720685 AAAAATGATGGAATAAAAAAATA
1 AAAAATGATGAAATAAAAAAATA
34720708 TTCAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (25 bp):
AAAAATGATGAAATAAAAAAATAAT
Found at i:34720860 original size:9 final size:9
Alignment explanation
Indices: 34720846--34720871 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34720836 CGATGATCAC
34720846 TTAATAATA
1 TTAATAATA
34720855 TTAATAATA
1 TTAATAATA
34720864 TTAATAAT
1 TTAATAAT
34720872 TAAGAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAATAATA
Found at i:34731183 original size:40 final size:40
Alignment explanation
Indices: 34731134--34731210 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
34731124 TTACAATACC
*
34731134 ACTTGGTGTGTAGGACTGGATGGGTCGATTTTATCCCTAT
1 ACTTAGTGTGTAGGACTGGATGGGTCGATTTTATCCCTAT
* *
34731174 ACTTAGTGTGTAGGGCTGGGTGGGTCGATTTTATCCC
1 ACTTAGTGTGTAGGACTGGATGGGTCGATTTTATCCC
34731211 CACATGGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (40 bp):
ACTTAGTGTGTAGGACTGGATGGGTCGATTTTATCCCTAT
Found at i:34733340 original size:16 final size:17
Alignment explanation
Indices: 34733321--34733357 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
34733311 ATATGAAGAA
*
34733321 TATTATTTAACA-TTAT
1 TATTATTTAAAATTTAT
34733337 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
34733353 TATTA
1 TATTA
34733358 AAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:34733870 original size:20 final size:21
Alignment explanation
Indices: 34733845--34733892 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
34733835 AACCCAAAAT
*
34733845 CCTAAACCTTGAA-CTCGAAC
1 CCTAAACCTTGAACCTCAAAC
*
34733865 CCTAAACCTTGAACCTCAAAT
1 CCTAAACCTTGAACCTCAAAC
34733886 CCTAAAC
1 CCTAAAC
34733893 TTTAAATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.38, C:0.35, G:0.06, T:0.21
Consensus pattern (21 bp):
CCTAAACCTTGAACCTCAAAC
Found at i:34734023 original size:35 final size:34
Alignment explanation
Indices: 34733946--34734033 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 34
34733936 ACCCTAAATA
* * *
34733946 TTAAACCATAAACTTTAAATCTAGAATCTCAAACC
1 TTAAACCCTAAAC-TTAAATCTAAAATATCAAACC
34733981 TTAAACCCTAAACTCTAAATCTAAAATATCAAACC
1 TTAAACCCTAAACT-TAAATCTAAAATATCAAACC
*
34734016 -TAGAACCCAAAACTTAAA
1 TTA-AACCCTAAACTTAAA
34734034 AGCCCAAACC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 7 0.15
35 40 0.85
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.25
Consensus pattern (34 bp):
TTAAACCCTAAACTTAAATCTAAAATATCAAACC
Found at i:34734098 original size:21 final size:21
Alignment explanation
Indices: 34734060--34734105 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
34734050 TCGAAACTAT
*
34734060 AACCATAAACCTAAAATCTTA
1 AACCATAAACCTAAAATCTCA
** *
34734081 AACCATAAATTTAGAATCTCA
1 AACCATAAACCTAAAATCTCA
34734102 AACC
1 AACC
34734106 TTGAACCCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (21 bp):
AACCATAAACCTAAAATCTCA
Found at i:34734137 original size:20 final size:19
Alignment explanation
Indices: 34734109--34734166 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
34734099 TCAAACCTTG
*
34734109 AACCCTAAACCATAAGCCCA-
1 AACCTTAAACCA-AA-CCCAT
34734129 AACCTTAAACTCAAACCCAT
1 AACCTTAAAC-CAAACCCAT
*
34734149 AACCTTGAACCCAAACCC
1 AACCTT-AAACCAAACCC
34734167 TAAATTCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.12
20 24 0.73
21 5 0.15
ACGTcount: A:0.43, C:0.40, G:0.03, T:0.14
Consensus pattern (19 bp):
AACCTTAAACCAAACCCAT
Found at i:34734194 original size:34 final size:33
Alignment explanation
Indices: 34734125--34734206 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 33
34734115 AAACCATAAG
* * *
34734125 CCCAAACCTTAAACTCAAACCCATAACCTTGAA
1 CCCAAACCCTAAATTCAAACCCATAACCGTGAA
*
34734158 CCCAAACCCTAAATTCCAAACTCATAACTCGT-AA
1 CCCAAACCCTAAATT-CAAACCCATAAC-CGTGAA
*
34734192 CCCGAACCCTTAAAT
1 CCCAAACCC-TAAAT
34734207 CTTTAACCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 13 0.32
34 21 0.51
35 7 0.17
ACGTcount: A:0.40, C:0.37, G:0.04, T:0.20
Consensus pattern (33 bp):
CCCAAACCCTAAATTCAAACCCATAACCGTGAA
Found at i:34736848 original size:7 final size:7
Alignment explanation
Indices: 34736836--34736876 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
34736826 ATAATAAAAT
34736836 ATATAAA
1 ATATAAA
*
34736843 ATATAAT
1 ATATAAA
34736850 ATATAAA
1 ATATAAA
34736857 ATATTAAA
1 ATA-TAAA
34736865 ATATCAAA
1 ATAT-AAA
34736873 ATAT
1 ATAT
34736877 TAGAATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (7 bp):
ATATAAA
Found at i:34736850 original size:14 final size:14
Alignment explanation
Indices: 34736828--34736876 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
34736818 TGATGCGAAT
*
34736828 AATAAAATATATAA
1 AATATAATATATAA
34736842 AATATAATATATAA
1 AATATAATATATAA
*
34736856 AATATTAAAATATCAA
1 AATA-TAATATAT-AA
34736872 AATAT
1 AATAT
34736877 TAGAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 17 0.55
15 8 0.26
16 6 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATAATATATAA
Found at i:34736866 original size:8 final size:8
Alignment explanation
Indices: 34736825--34736883 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
34736815 TAATGATGCG
*
34736825 AATAATAA
1 AATATTAA
34736833 AATATATAA
1 AATAT-TAA
34736842 AATA-TAA
1 AATATTAA
*
34736849 TATA-TAA
1 AATATTAA
34736856 AATATTAA
1 AATATTAA
*
34736864 AATATCAA
1 AATATTAA
*
34736872 AATATTAG
1 AATATTAA
34736880 AATA
1 AATA
34736884 ATATTAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
7 12 0.28
8 24 0.56
9 7 0.16
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:34737115 original size:24 final size:25
Alignment explanation
Indices: 34737010--34737201 Score: 155
Period size: 27 Copynumber: 7.7 Consensus size: 25
34737000 ATGTACATAT
34737010 ATATTAAAAATA-AGTACAT-A-ATA
1 ATATTAAAAATATA-TACATAAGATA
* * *
34737033 ATATTAAAAGTATGTACATAATATA
1 ATATTAAAAATATATACATAAGATA
* * *
34737058 GTGTTAAAAATATATACATAATATA
1 ATATTAAAAATATATACATAAGATA
* *
34737083 GTTATTAAAAATATATATATAAGATA
1 -ATATTAAAAATATATACATAAGATA
34737109 ATA-TAAAAATATATACAT--GA-A
1 ATATTAAAAATATATACATAAGATA
* * * *
34737130 ATAGTATAAATATATATATAACTAATA
1 ATATTAAAAATATATACATAA--GATA
*
34737157 ATATTAAAAATATATACATAATATA
1 ATATTAAAAATATATACATAAGATA
*
34737182 TATATATAAAAACATATACA
1 -ATAT-TAAAAATATATACA
34737202 ATATATATAT
Statistics
Matches: 137, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
21 4 0.03
22 15 0.11
23 16 0.12
24 15 0.11
25 29 0.21
26 26 0.19
27 32 0.23
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (25 bp):
ATATTAAAAATATATACATAAGATA
Found at i:34737120 original size:50 final size:52
Alignment explanation
Indices: 34737010--34737199 Score: 172
Period size: 48 Copynumber: 3.8 Consensus size: 52
34737000 ATGTACATAT
* * * *
34737010 ATATTAAAAATA-AGTACATAATA-A--TATTAAAAGTATGTACATAA-TATA
1 ATATTAAAAATATA-TACATAATATAGTTATTAAAAATATATATATAACAATA
* * *
34737058 GTGTTAAAAATATATACATAATATAGTTATTAAAAATATATATATAA-GATA
1 ATATTAAAAATATATACATAATATAGTTATTAAAAATATATATATAACAATA
34737109 ATA-TAAAAATATATACATGAA-ATAG-TA-T--AAATATATATATAACTAATA
1 ATATTAAAAATATATACAT-AATATAGTTATTAAAAATATATATATAAC-AATA
*
34737157 ATATTAAAAATATATACATAATATA-TATATATAAAAACATATA
1 ATATTAAAAATATATACATAATATAGT-TAT-TAAAAATATATA
34737200 CAATATATAT
Statistics
Matches: 117, Mismatches: 10, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
46 14 0.12
48 28 0.24
49 22 0.19
50 21 0.18
51 23 0.20
52 1 0.01
54 8 0.07
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.35
Consensus pattern (52 bp):
ATATTAAAAATATATACATAATATAGTTATTAAAAATATATATATAACAATA
Found at i:34737210 original size:25 final size:25
Alignment explanation
Indices: 34737006--34737213 Score: 80
Period size: 25 Copynumber: 8.4 Consensus size: 25
34736996 AAATATGTAC
* *
34737006 ATATATATTAAAAATA-AGTACATA-
1 ATATATATTAAAAACATA-TACAAAT
** *
34737030 ATA-ATATTAAAAGTATGTACATAAT
1 ATATATATTAAAAACATATACA-AAT
* * *
34737055 ATA-GTGTTAAAAATATATACATAAT
1 ATATATATTAAAAACATATACA-AAT
* * *
34737080 ATAGT-TATTAAAAATATATATATAAG
1 ATA-TATATTAAAAACATATACA-AAT
*
34737106 ATA-ATA-TAAAAATATATACATGAA-
1 ATATATATTAAAAACATATACA--AAT
* * * * *
34737130 ATA-GTA-TAAATATATATATAACT
1 ATATATATTAAAAACATATACAAAT
*
34737153 A-ATAATATTAAAAATATATACATAAT
1 ATAT-ATATTAAAAACATATACA-AAT
34737179 ATATATATATAAAAACATATAC-AAT
1 ATATATAT-TAAAAACATATACAAAT
34737204 ATATATATTA
1 ATATATATTA
34737214 GAAATGATAA
Statistics
Matches: 149, Mismatches: 21, Indels: 28
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.01
23 16 0.11
24 38 0.26
25 51 0.34
26 28 0.19
27 14 0.09
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (25 bp):
ATATATATTAAAAACATATACAAAT
Found at i:34737335 original size:18 final size:18
Alignment explanation
Indices: 34737312--34737355 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
34737302 ATTAGTACTA
34737312 ATAATATTAATAATAAAT
1 ATAATATTAATAATAAAT
*
34737330 ATAATAATAATAATAAAT
1 ATAATATTAATAATAAAT
34737348 ATATATAT
1 ATA-ATAT
34737356 ATATGCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATATTAATAATAAAT
Found at i:34737430 original size:15 final size:16
Alignment explanation
Indices: 34737402--34737466 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 16
34737392 AATATATCTA
* *
34737402 AATATAATATAATAAT
1 AATATAACAGAATAAT
34737418 AATATAA-AGAATAAT
1 AATATAACAGAATAAT
*
34737433 AGTGATAAC--AATAAT
1 AAT-ATAACAGAATAAT
34737448 ATATATAACATGAATAAT
1 A-ATATAACA-GAATAAT
34737466 A
1 A
34737467 TTTAAAGCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 21 0.52
16 12 0.30
18 7 0.17
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
AATATAACAGAATAAT
Found at i:34741834 original size:49 final size:50
Alignment explanation
Indices: 34741760--34741917 Score: 180
Period size: 49 Copynumber: 3.2 Consensus size: 50
34741750 GAGATATGAA
34741760 AAGACCATGTCTGGGACATGGCATCGGCAC-CGACAGATGAGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGC-CTCGACAGATGAGAGCCAGTGT
* * * *
34741810 AAGACCAT-TCTGGGACATGACATCGGCCTCGATATATGAGAGTCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCCTCGACAGATGAGAGCCAGTGT
* ** * * * *
34741859 AAGACCATGTCTAGGACATGGCATCAACTTTGA-TG-TGTGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCCTCGACAGATGAGAGCCAGTGT
34741907 AAGACCATGTC
1 AAGACCATGTC
34741918 CGGCACATAG
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
48 23 0.25
49 43 0.47
50 26 0.28
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AAGACCATGTCTGGGACATGGCATCGGCCTCGACAGATGAGAGCCAGTGT
Found at i:34741839 original size:90 final size:88
Alignment explanation
Indices: 34741672--34741848 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 88
34741662 AAGCCAGTGT
* ** *
34741672 AAGACCATGTTTGGGACATGGCTCGGCATTGAGATGAGAGCTAGCATAAGACCATGTCTGGGACA
1 AAGACCATGTCTGGGACATGGCTCGGCACCGAGATGAGAGCCAGCATAAGACCATGTCTGGGACA
*
34741737 TGGCATCGGCCTCGAGATATGAA
66 TGACATCGGCCTCGAGATATGAA
**
34741760 AAGACCATGTCTGGGACATGGCATCGGCACCGACAGATGAGAGCCAGTGTAAGACCAT-TCTGGG
1 AAGACCATGTCTGGGACATGGC-TCGGCACCG--AGATGAGAGCCAGCATAAGACCATGTCTGGG
*
34741824 ACATGACATCGGCCTCGATATATGA
63 ACATGACATCGGCCTCGAGATATGA
34741849 GAGTCAGTGT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 21 0.27
89 7 0.09
90 29 0.37
91 21 0.27
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.20
Consensus pattern (88 bp):
AAGACCATGTCTGGGACATGGCTCGGCACCGAGATGAGAGCCAGCATAAGACCATGTCTGGGACA
TGACATCGGCCTCGAGATATGAA
Found at i:34744909 original size:46 final size:46
Alignment explanation
Indices: 34744849--34745076 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
34744839 TTTGACATGA
* * * * * * *
34744849 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
34744895 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
34744941 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
34744987 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
34745033 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
34745077 AGAGCACACT
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 164 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:34746856 original size:29 final size:29
Alignment explanation
Indices: 34746824--34746885 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
34746814 TGAATTTCTA
34746824 TCAATTTAACCCTTATTTCATCATTTTAC
1 TCAATTTAACCCTTATTTCATCATTTTAC
34746853 TCAATTTAACCCTTATTTCATCATTTTAC
1 TCAATTTAACCCTTATTTCATCATTTTAC
34746882 TCAA
1 TCAA
34746886 CATGAACAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (29 bp):
TCAATTTAACCCTTATTTCATCATTTTAC
Found at i:34747143 original size:9 final size:10
Alignment explanation
Indices: 34747122--34747155 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
34747112 CCTTTATTTC
*
34747122 TTTTTCCTTT
1 TTTTTCCCTT
34747132 TTTTTCCCTT
1 TTTTTCCCTT
34747142 TTTTTCCCTT
1 TTTTTCCCTT
34747152 TTTT
1 TTTT
34747156 ATATATACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCCCTT
Found at i:34747455 original size:14 final size:15
Alignment explanation
Indices: 34747431--34747479 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
34747421 ATAAATATCT
34747431 TATAATATAATTATAA
1 TATAAT-TAATTATAA
34747447 TA-AATTAATT-TAA
1 TATAATTAATTATAA
*
34747460 TATAATTTATTACTAA
1 TATAATTAATTA-TAA
34747476 TATA
1 TATA
34747480 TATATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 5 0.17
14 12 0.41
15 3 0.10
16 9 0.31
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATTAATTATAA
Found at i:34748567 original size:16 final size:16
Alignment explanation
Indices: 34748548--34748580 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34748538 TTCATGTTAC
*
34748548 TTTGGTTATCCTTTGT
1 TTTGCTTATCCTTTGT
34748564 TTTGCTTATCCTTTGT
1 TTTGCTTATCCTTTGT
34748580 T
1 T
34748581 ATATTGTATC
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:0.06, C:0.15, G:0.15, T:0.64
Consensus pattern (16 bp):
TTTGCTTATCCTTTGT
Found at i:34750860 original size:33 final size:33
Alignment explanation
Indices: 34750823--34750891 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
34750813 TTTAAATTAT
* * *
34750823 ATTTTATAGTATTATGTATTATGATTTTAGTAA
1 ATTTTATAGTATCATATATTATGATTTGAGTAA
34750856 ATTTTATAGTATCATATATTATGATTTGAGTAA
1 ATTTTATAGTATCATATATTATGATTTGAGTAA
34750889 ATT
1 ATT
34750892 CATATAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (33 bp):
ATTTTATAGTATCATATATTATGATTTGAGTAA
Found at i:34750951 original size:16 final size:16
Alignment explanation
Indices: 34750930--34750971 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
34750920 TTATTAAATT
*
34750930 ATATATTTTAATTATA
1 ATATATTTTAATAATA
34750946 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
34750961 AT-TATGTTTAA
1 ATATAT-TTTAA
34750972 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:34750956 original size:15 final size:15
Alignment explanation
Indices: 34750921--34750962 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34750911 TTAAGAATTT
*
34750921 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34750935 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34750949 TATTTAATAATAAT
1 TATTTAATTATAAT
34750963 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34751206 original size:16 final size:16
Alignment explanation
Indices: 34751185--34751244 Score: 93
Period size: 16 Copynumber: 3.8 Consensus size: 16
34751175 TTGATTTGCT
34751185 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
34751201 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
34751217 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
34751233 TTTACGCCTCTA
1 ATTACACCTCTA
34751245 ATCTAATACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.25, C:0.37, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:34751226 original size:32 final size:32
Alignment explanation
Indices: 34751185--34751247 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
34751175 TTGATTTGCT
34751185 ATTACACCTCTATTCCATTACACCTCTAATCC
1 ATTACACCTCTATTCCATTACACCTCTAATCC
* *
34751217 ATTACACCTCTATTCCTTTACGCCTCTAATC
1 ATTACACCTCTATTCCATTACACCTCTAATC
34751248 TAATACAGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.37, G:0.02, T:0.37
Consensus pattern (32 bp):
ATTACACCTCTATTCCATTACACCTCTAATCC
Found at i:34756181 original size:50 final size:50
Alignment explanation
Indices: 34756012--34756333 Score: 296
Period size: 50 Copynumber: 6.7 Consensus size: 50
34756002 GTGACAGTGT
* *
34756012 GCTAGTGTAAGA-CATTTCTGGGACAT-GCATCGGCCAT--A-TTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCGAGATATGAGA
* * * * * *
34756058 GCCATTGTATGACCATGTCTGGGACATGGCATCGACATTGAG--ATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* * * * *
34756106 GCTAGTTTAAAACCATGTCTAGGACATGGCATCGACCTCGAGATATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* * *
34756156 GCTAGTGTAAGACCATGTCTGGGACATGGCAT-GGGCT--TGATATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
* * * *
34756202 TC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-CGACAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATATGAGA
* * *
34756251 GCCAGTGTAAGACCAT-TCTGGGACATGACATCGGCCTCGATATATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
*
34756300 GAC-AGTGTAAGACCATGTCTGGGACATAGCATCG
1 G-CTAGTGTAAGACCATGTCTGGGACATGGCATCG
34756334 ATTTTGATGC
Statistics
Matches: 223, Mismatches: 37, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
45 28 0.13
46 12 0.05
47 21 0.09
48 53 0.24
49 46 0.21
50 63 0.28
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATATGAGA
Found at i:34756258 original size:95 final size:95
Alignment explanation
Indices: 34756052--34756334 Score: 300
Period size: 95 Copynumber: 2.9 Consensus size: 95
34756042 CGGCCATATT
* * * * * *
34756052 ATGAGAGCCATTGTATGACCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTTTAAA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATGGAC-TTGATATGAGA-C-AGTGTAAG
* *
34756117 ACCATGTCTAGGACATGGCATCGACCTCGAGAT
63 ACCATGTCTAGGACATGGCATCGACCTCGACAG
* * * * *
34756150 ATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATGGGCTTGATATGTGTCAGTGTAAGACC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATGGACTTGATATGAGACAGTGTAAGACC
*
34756215 ATGTCTAGGACATGGCATCGGCAC-CGACAG
66 ATGTCTAGGACATGGCATCGAC-CTCGACAG
* * *
34756245 ATGAGAGCCAGTGTAAGACCAT-TCTGGGACATGACATCGGCCTCGATATATGAGAGACAGTGTA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT-GGACTTG--ATAT--GAGACAGTGTA
* *
34756309 AGACCATGTCTGGGACATAGCATCGA
61 AGACCATGTCTAGGACATGGCATCGA
34756335 TTTTGATGCG
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
94 14 0.09
95 59 0.38
96 2 0.01
97 12 0.08
98 36 0.23
99 32 0.21
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (95 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATGGACTTGATATGAGACAGTGTAAGACC
ATGTCTAGGACATGGCATCGACCTCGACAG
Found at i:34756289 original size:144 final size:143
Alignment explanation
Indices: 34756063--34756331 Score: 371
Period size: 144 Copynumber: 1.9 Consensus size: 143
34756053 TGAGAGCCAT
* * ** * *
34756063 TGTATGACCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTTTAAAACCATGTCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGACACCGAGATGAGAGCCAGTGTAAAACCATGTCTAG
* *
34756128 GACATGGCATCGACCTCGAGATATGAAAG-CTAGTGTAAGACCATGTCTGGGACATGGCATGGGC
66 GACATGACATCGACCTCGAGATATGAAAGAC-AGTGTAAGACCATGTCTGGGACATAGCATGGGC
34756192 TTGATATGTGTCAG
130 TTGATATGTGTCAG
* *
34756206 TGTAAGACCATGTCTAGGACATGGCATCGGCACCGACAGATGAGAGCCAGTGTAAGACCAT-TCT
1 TGTAAGACCATGTCTAGGACATGGCATCGACACCG--AGATGAGAGCCAGTGTAAAACCATGTCT
* * * *
34756270 GGGACATGACATCGGCCTCGATATATGAGAGACAGTGTAAGACCATGTCTGGGACATAGCAT
64 AGGACATGACATCGACCTCGAGATATGAAAGACAGTGTAAGACCATGTCTGGGACATAGCAT
34756332 CGATTTTGAT
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
143 30 0.28
144 57 0.52
145 22 0.20
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (143 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACACCGAGATGAGAGCCAGTGTAAAACCATGTCTAG
GACATGACATCGACCTCGAGATATGAAAGACAGTGTAAGACCATGTCTGGGACATAGCATGGGCT
TGATATGTGTCAG
Found at i:34762352 original size:49 final size:47
Alignment explanation
Indices: 34762273--34763069 Score: 1252
Period size: 47 Copynumber: 16.6 Consensus size: 47
34762263 TATTTGAATA
*
34762273 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34762320 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34762369 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34762416 AATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
34762465 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
34762514 AATGTGAAAGTGTATATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG------TATATATGTGATAAGGCCTAATGGCCGATGTGATG
34762567 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
34762616 AATGTGAAAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34762663 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
34762712 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34762759 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34762808 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34762855 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34762902 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34762949 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
34762996 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34763043 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
34763070 TCCCGAAGGG
Statistics
Matches: 706, Mismatches: 32, Indels: 24
0.93 0.04 0.03
Matches are distributed among these distances:
47 382 0.54
49 275 0.39
53 49 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34762381 original size:96 final size:94
Alignment explanation
Indices: 34762273--34763069 Score: 1252
Period size: 96 Copynumber: 8.3 Consensus size: 94
34762263 TATTTGAATA
*
34762273 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
34762338 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34762369 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
34762434 TATGTGATAAGGCCCAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
34762465 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----
34762530 TATATATATGTGATAAGGCCTAATGGCCGATGTGATG
60 --TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34762567 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
34762632 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
34762663 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
34762728 TATGTGATAAGGCCGAATGACCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
34762759 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
34762824 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
34762855 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
34762920 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
34762949 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
34763014 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
34763043 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
34763070 TCCCGAAGGG
Statistics
Matches: 668, Mismatches: 27, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
94 194 0.29
96 332 0.50
98 45 0.07
102 97 0.15
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34763325 original size:37 final size:37
Alignment explanation
Indices: 34763187--34763325 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
34763177 CCGAGCTCTA
* *
34763187 AAGACCCGATGACTACGTGTGGAGATTGTGTTCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
34763224 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
34763261 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
34763298 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
34763326 CGTCTGAGCT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:34768063 original size:29 final size:28
Alignment explanation
Indices: 34767997--34768116 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 28
34767987 AAGTCTACAT
* * *
34767997 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCAAATC
*
34768025 TCATTCATATGGCCCATTAGGCCAAAATC
1 ACATTCATATGGCCCATTAGGCC-AAATC
34768054 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGG-CCAAATC
* * * *
34768083 ACGTTCATATTGCCCATCTAGCCCGAATC
1 ACATTCATATGGCCCAT-TAGGCCAAATC
34768112 A-ATTC
1 ACATTC
34768117 CAAGCCATGT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
28 23 0.29
29 51 0.65
30 5 0.06
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCAAATC
Found at i:34783805 original size:22 final size:21
Alignment explanation
Indices: 34783765--34783807 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34783755 TATTTATTGT
*
34783765 TATTTAAAAAATTATATATAA
1 TATTTAAAAAATTAAATATAA
*
34783786 TATTTATAAATATTAAATATAA
1 TATTTA-AAAAATTAAATATAA
34783808 AATATTAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTTAAAAAATTAAATATAA
Found at i:34789823 original size:7 final size:7
Alignment explanation
Indices: 34789811--34789925 Score: 90
Period size: 7 Copynumber: 16.1 Consensus size: 7
34789801 GCTAATTAAT
34789811 CTAAACC
1 CTAAACC
34789818 CTAAACC
1 CTAAACC
*
34789825 TCTTAACCC
1 -C-TAAACC
*
34789834 CT-ATCC
1 CTAAACC
*
34789840 CATAAACA
1 C-TAAACC
34789848 CTAAACC
1 CTAAACC
34789855 CTAAACC
1 CTAAACC
34789862 CTAAACC
1 CTAAACC
34789869 CTAAACGC
1 CTAAAC-C
* *
34789877 TTACACC
1 CTAAACC
* *
34789884 TTAAACT
1 CTAAACC
34789891 CT-AACC
1 CTAAACC
34789897 CTAAACC
1 CTAAACC
34789904 CTAAACC
1 CTAAACC
* * *
34789911 ATAATCT
1 CTAAACC
34789918 CTAAACC
1 CTAAACC
34789925 C
1 C
34789926 ATAATTCATC
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
6 9 0.11
7 61 0.72
8 10 0.12
9 5 0.06
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:34789975 original size:7 final size:7
Alignment explanation
Indices: 34789963--34790009 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
34789953 AATTAACTCC
34789963 TAAACCT
1 TAAACCT
34789970 TAAACCT
1 TAAACCT
*
34789977 TAAACCA
1 TAAACCT
* *
34789984 TATATCT
1 TAAACCT
*
34789991 TAAACCA
1 TAAACCT
34789998 TAAACCT
1 TAAACCT
34790005 TAAAC
1 TAAAC
34790010 TATAATGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAACCT
Found at i:34789980 original size:14 final size:14
Alignment explanation
Indices: 34789963--34790014 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
34789953 AATTAACTCC
*
34789963 TAAACCTTAAACCT
1 TAAACCATAAACCT
* *
34789977 TAAACCATATATCT
1 TAAACCATAAACCT
34789991 TAAACCATAAACCT
1 TAAACCATAAACCT
*
34790005 TAAACTATAA
1 TAAACCATAA
34790015 TGATAATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:34796493 original size:42 final size:42
Alignment explanation
Indices: 34796428--34796583 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
34796418 AAATCGTACA
*
34796428 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
34796470 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
34796512 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
34796556 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
34796584 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:34803823 original size:42 final size:42
Alignment explanation
Indices: 34803758--34803913 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
34803748 AAATCGTACA
*
34803758 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
34803800 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
34803842 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
34803886 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
34803914 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:34810750 original size:47 final size:48
Alignment explanation
Indices: 34810680--34810772 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 48
34810670 TTCCCGTTAC
* * *
34810680 ATGGCTCTTTGTGAGCTTCCTGA-TA-GACTCTTCGTGAGCTTCCCAAT
1 ATGGCTCTTTGTAAACTTCCTGATTATGACTCTT-ATGAGCTTCCCAAT
* * *
34810727 ATGGTTCTTTGTAAACTTTCTGATTATGGCTCTTATGAGCTTCCCA
1 ATGGCTCTTTGTAAACTTCCTGATTATGACTCTTATGAGCTTCCCA
34810773 TTATATAGCC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
47 19 0.50
48 13 0.34
49 6 0.16
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (48 bp):
ATGGCTCTTTGTAAACTTCCTGATTATGACTCTTATGAGCTTCCCAAT
Found at i:34813334 original size:18 final size:18
Alignment explanation
Indices: 34813311--34813371 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
34813301 AATTTGGAAA
34813311 ATTAATACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
* *
34813329 ATTAATACAAG-TCACCAA
1 ATTAATAC-AGTTCGCCAT
*
34813347 ATTAACACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
*
34813365 AATAATA
1 ATTAATA
34813372 TAATTCACCA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.88
19 2 0.06
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (18 bp):
ATTAATACAGTTCGCCAT
Found at i:34813350 original size:36 final size:36
Alignment explanation
Indices: 34813309--34813389 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
34813299 ACAATTTGGA
* *
34813309 AAATTAATACAGTTCGCCATATTAATACAAGTCACC
1 AAATTAACACAGTTCGCCATAATAATACAAGTCACC
* *
34813345 AAATTAACACAGTTCGCCATAATAATATAATTCACC
1 AAATTAACACAGTTCGCCATAATAATACAAGTCACC
*
34813381 AAGTTAACA
1 AAATTAACA
34813390 TGGTTCACAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.27
Consensus pattern (36 bp):
AAATTAACACAGTTCGCCATAATAATACAAGTCACC
Found at i:34813682 original size:29 final size:28
Alignment explanation
Indices: 34813640--34813717 Score: 113
Period size: 29 Copynumber: 2.8 Consensus size: 28
34813630 ATATATGAAT
34813640 ATATATAATATATATAACAAAGCC-CATGC
1 ATATATAATATATATAACAAAGCCACA--C
34813669 ATATATAATATATATAACAAAGCCACAC
1 ATATATAATATATATAACAAAGCCACAC
* *
34813697 CTATATTATATATATAACAAA
1 ATATATAATATATATAACAAA
34813718 ACCCCTATAC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 20 0.43
29 24 0.52
30 2 0.04
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.29
Consensus pattern (28 bp):
ATATATAATATATATAACAAAGCCACAC
Found at i:34815298 original size:23 final size:24
Alignment explanation
Indices: 34815265--34815315 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
34815255 ATTAATCCCA
*
34815265 TTATTATTTAATTTAATT-ATTATT
1 TTATTATTTAA-CTAATTAATTATT
*
34815289 TTATTA-TTAACTAGTTAATTATT
1 TTATTATTTAACTAATTAATTATT
34815312 TTAT
1 TTAT
34815316 CTTATTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 14 0.58
24 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TTATTATTTAACTAATTAATTATT
Found at i:34826052 original size:58 final size:58
Alignment explanation
Indices: 34825959--34826075 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
34825949 AGAGATGCAT
* *
34825959 ATGCCACAACCTTTCCTCTTTGCATAAGCATACATCCTAACTCACTAAGGGATACGTC
1 ATGCCACAACCTTTCCTCTTTGCATAAGCACACATCCTAACCCACTAAGGGATACGTC
34826017 ATGCCACAACCTTTCCTCTTTGCATAAGCACACATCCTAACCCACTAAGGGATACGTC
1 ATGCCACAACCTTTCCTCTTTGCATAAGCACACATCCTAACCCACTAAGGGATACGTC
34826075 A
1 A
34826076 ATGTACACAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (58 bp):
ATGCCACAACCTTTCCTCTTTGCATAAGCACACATCCTAACCCACTAAGGGATACGTC
Found at i:34836747 original size:20 final size:20
Alignment explanation
Indices: 34836714--34836752 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34836704 AATGGCTTCT
*
34836714 TAAATTTTTTTTA-TAAAAG
1 TAAATTTTTATTATTAAAAG
34836733 TAAATATTTTATTATTAAAA
1 TAAAT-TTTTATTATTAAAA
34836753 TATTCCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TAAATTTTTATTATTAAAAG
Found at i:34839888 original size:33 final size:33
Alignment explanation
Indices: 34839755--34839897 Score: 103
Period size: 33 Copynumber: 4.3 Consensus size: 33
34839745 AATTGACAGA
* * *
34839755 TAAGACCATGGCTGGGCCATGACAATATATGTG
1 TAAGACCATAGCTAGGCCATGACAATACATGTG
* * ** *
34839788 TAAGACCACAGCTAGGCTATG-GTAT-CCTGATG
1 TAAGACCATAGCTAGGCCATGACAATACATG-TG
* ** **
34839820 ATAAGACCATATCTAGGATATGACACCACGA-GTG
1 -TAAGACCATAGCTAGGCCATGACAATAC-ATGTG
* *
34839854 TAAGACCATGGCTAGGCCATGGCAATACATGTG
1 TAAGACCATAGCTAGGCCATGACAATACATGTG
34839887 TAAGACCATAG
1 TAAGACCATAG
34839898 TTAGATTATG
Statistics
Matches: 80, Mismatches: 24, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
31 2 0.03
32 5 0.06
33 69 0.86
34 2 0.03
35 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCCATGACAATACATGTG
Found at i:34840036 original size:45 final size:45
Alignment explanation
Indices: 34839920--34840045 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
34839910 ATCATACCAG
*
34839920 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
* *
34839965 AAACGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTT
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
* * * * *
34840010 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
1 AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCA
34840046 ACATGATGGC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTC
Found at i:34840118 original size:46 final size:46
Alignment explanation
Indices: 34840051--34840160 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
34840041 TGGCAACATG
* * *
34840051 ATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATACC
1 ATGGCAACATGACAAGAAATGAATAAAACCATGATTGAAAGATACC
* * * *
34840097 ATGGCAACGTGATAAGAAATGAATAAAACCATGATTGAAAGTTGCC
1 ATGGCAACATGACAAGAAATGAATAAAACCATGATTGAAAGATACC
*
34840143 ATGGTAACATGAC-AGAAA
1 ATGGCAACATGACAAGAAA
34840161 ATGAGTAAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 5 0.09
46 49 0.91
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.19
Consensus pattern (46 bp):
ATGGCAACATGACAAGAAATGAATAAAACCATGATTGAAAGATACC
Found at i:34845516 original size:18 final size:18
Alignment explanation
Indices: 34845493--34845530 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
34845483 CGTCTCATCT
34845493 CTAATAATATTATATTTG
1 CTAATAATATTATATTTG
34845511 C---TAATATTATATTTG
1 CTAATAATATTATATTTG
34845526 CTAAT
1 CTAAT
34845531 GAAATTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 6
0.74 0.00 0.26
Matches are distributed among these distances:
15 15 0.88
18 2 0.12
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (18 bp):
CTAATAATATTATATTTG
Found at i:34845517 original size:15 final size:15
Alignment explanation
Indices: 34845497--34845530 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
34845487 TCATCTCTAA
34845497 TAATATTATATTTGC
1 TAATATTATATTTGC
34845512 TAATATTATATTTGC
1 TAATATTATATTTGC
34845527 TAAT
1 TAAT
34845531 GAAATTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
TAATATTATATTTGC
Found at i:34866942 original size:20 final size:21
Alignment explanation
Indices: 34866917--34866956 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34866907 CCCCTGAAAT
*
34866917 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACAAGCCCGTGTGGA
34866937 AGGGCAACAAGCCCGTGTGG
1 AGGGCAACAAGCCCGTGTGG
34866957 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.25, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACAAGCCCGTGTGGA
Found at i:34867130 original size:28 final size:28
Alignment explanation
Indices: 34867075--34867130 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
34867065 ACAGGGGTTT
* *
34867075 TCACATGGCCTGACACATACCCGTGTCCC
1 TCACACGGCCTGACACA-ACCCATGTCCC
34867104 TCACACGGCCATGACAC-ACCCATGTCC
1 TCACACGGCC-TGACACAACCCATGTCC
34867131 TAGCCCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.23, C:0.43, G:0.16, T:0.18
Consensus pattern (28 bp):
TCACACGGCCTGACACAACCCATGTCCC
Found at i:34867473 original size:30 final size:30
Alignment explanation
Indices: 34867439--34867500 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
34867429 CCTGAAACAC
34867439 AATCTAACACAAAAAAACATAACAAAGCCT
1 AATCTAACACAAAAAAACATAACAAAGCCT
* *
34867469 AATCTAACACCAAACAACATAACAAAGCCT
1 AATCTAACACAAAAAAACATAACAAAGCCT
34867499 AA
1 AA
34867501 CTTAGTATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (30 bp):
AATCTAACACAAAAAAACATAACAAAGCCT
Found at i:34868311 original size:50 final size:49
Alignment explanation
Indices: 34868190--34868318 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
34868180 CCATCAAGTT
34868190 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCC
* ** * * * *
34868239 GACGCCATGTGTCAGACATGGTCTTACACTAGCTCTCATATATCCG-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-AAAT-CGAGGCC
* *
34868289 GATGTCATATCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
34868319 GACACCTCTA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 33 0.50
50 31 0.47
51 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAAATCGAGGCC
Found at i:34873578 original size:6 final size:6
Alignment explanation
Indices: 34873567--34873600 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
34873557 AATTCGACAG
*
34873567 CTGTAT CTGTAT CTGTAT TTGTAT CTGTAT CTGT
1 CTGTAT CTGTAT CTGTAT CTGTAT CTGTAT CTGT
34873601 TTGACTCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.53
Consensus pattern (6 bp):
CTGTAT
Done.