Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 176 of 187
Found at i:53819452 original size:3 final size:3
Alignment explanation
Indices: 53819446--53819471 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
53819436 TTTGTTGTTG
53819446 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
53819472 CAATCCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:53820037 original size:56 final size:56
Alignment explanation
Indices: 53819967--53820080 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
53819957 CACAAACAAA
* ** *
53819967 CTACAACATTCTTAAAAATGCCTTGCTAATTTCATAACATTAGGAATATAGTTCCG
1 CTACAACATCCTTAAAAATGCCTTGCTAATTTCATAACACCAGGAATATAGTTACG
* * *
53820023 CTACAACATCCTTAAAAATGCTTTGCTAATTTTATAACACCAGGAATCTAGTTACG
1 CTACAACATCCTTAAAAATGCCTTGCTAATTTCATAACACCAGGAATATAGTTACG
53820079 CT
1 CT
53820081 GGCACGACAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (56 bp):
CTACAACATCCTTAAAAATGCCTTGCTAATTTCATAACACCAGGAATATAGTTACG
Found at i:53822608 original size:61 final size:62
Alignment explanation
Indices: 53822540--53822659 Score: 172
Period size: 62 Copynumber: 2.0 Consensus size: 62
53822530 GTATTAGTTA
* *
53822540 TTATTTATAAGTATTTTGCTAAGT-AATTTTGATGAATTTACCGA-CTAGGGACTAAATTTTG
1 TTATTTATAAGTATTCTGCTAAGTGAATTTTGATGAATTTAACGATC-AGGGACTAAATTTTG
* * *
53822601 TTATTTATAAGTATTCTGTTAAGTGATTTTTGATGAATTTAACGATCAGGGATTAAATT
1 TTATTTATAAGTATTCTGCTAAGTGAATTTTGATGAATTTAACGATCAGGGACTAAATT
53822660 GTTGAAATAG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
61 22 0.42
62 29 0.56
63 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (62 bp):
TTATTTATAAGTATTCTGCTAAGTGAATTTTGATGAATTTAACGATCAGGGACTAAATTTTG
Found at i:53825235 original size:20 final size:21
Alignment explanation
Indices: 53825207--53825247 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
53825197 CCTGCAGTTC
* *
53825207 AAATTTTCCAACT-TTTTCTT
1 AAATGTTCCAAATGTTTTCTT
53825227 AAATGTTCCAAATGTTTTCTT
1 AAATGTTCCAAATGTTTTCTT
53825248 TTTGGCCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (21 bp):
AAATGTTCCAAATGTTTTCTT
Found at i:53830059 original size:23 final size:23
Alignment explanation
Indices: 53830033--53830086 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
53830023 ACCTACTTTC
*
53830033 TTACAGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
53830056 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
53830079 TTACAGTA
1 TTACAGTA
53830087 ACATATTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:53835983 original size:6 final size:6
Alignment explanation
Indices: 53835972--53836017 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
53835962 GGTTTTCTCA
* *
53835972 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGAG AAAT-G AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATGG AAAT
53836018 CTTTTAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 5 0.14
6 28 0.76
7 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:53835999 original size:18 final size:19
Alignment explanation
Indices: 53835972--53836016 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
53835962 GGTTTTCTCA
* *
53835972 AAATGGAAATGGAAATG-G
1 AAATGAAAATGAAAATGAG
53835990 AAATGAAAATGAAAATGAG
1 AAATGAAAATGAAAATGAG
53836009 AAATGAAA
1 AAATGAAA
53836017 TCTTTTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (19 bp):
AAATGAAAATGAAAATGAG
Found at i:53836049 original size:50 final size:49
Alignment explanation
Indices: 53835995--53836105 Score: 129
Period size: 51 Copynumber: 2.3 Consensus size: 49
53835985 AATGGAAATG
* **
53835995 AAAATGAAAATGAGAAATGAAA-TCTTTTAGAAATGAACATGGATTTCTCA
1 AAAATGAAAATGAGAAA-CAAATTCTTTTAGAAATGAACAAAGATTTCT-A
**
53836045 AAAATGATCGATGAGAAACAAATTCTTTTAGAAATGAACAAAGATTTCTA
1 AAAATGA-AAATGAGAAACAAATTCTTTTAGAAATGAACAAAGATTTCTA
53836095 AAAA--AAAATGA
1 AAAATGAAAATGA
53836106 TCAAGAAGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
47 4 0.08
48 1 0.02
50 15 0.29
51 32 0.62
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.26
Consensus pattern (49 bp):
AAAATGAAAATGAGAAACAAATTCTTTTAGAAATGAACAAAGATTTCTA
Found at i:53850004 original size:27 final size:27
Alignment explanation
Indices: 53849973--53850107 Score: 189
Period size: 27 Copynumber: 5.0 Consensus size: 27
53849963 CATCGAGCTC
*
53849973 CGAAATACCCGTATAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGAT
* *
53850000 TGAAATACCCCTATAGGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGAT
* * *
53850027 CAAAATACCCTCTATTGTGTAAAATGAT
1 CGAAATACCC-CTATAGGGTAAAATGAT
*
53850055 CGAAATACCCCCATAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGAT
*
53850082 CGAAATACCCCAATAGGGTAAAATGA
1 CGAAATACCCCTATAGGGTAAAATGA
53850108 CTGTTATACC
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 71 0.76
28 23 0.24
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (27 bp):
CGAAATACCCCTATAGGGTAAAATGAT
Found at i:53850531 original size:33 final size:31
Alignment explanation
Indices: 53850494--53850585 Score: 93
Period size: 28 Copynumber: 2.9 Consensus size: 31
53850484 TGTATTATTG
53850494 CACTGTATTGATACTGTAATGGGCTAAGGCCCA
1 CACTGTA-TG-TACTGTAATGGGCTAAGGCCCA
*
53850527 CACTG--T-TACTGTATTGGGCTAAGGCCCA
1 CACTGTATGTACTGTAATGGGCTAAGGCCCA
*
53850555 CACTGTACTGCTACTG-AATAGGGCTCAGGCC
1 CACTGTA-TG-TACTGTAAT-GGGCTAAGGCC
53850586 TAGACTGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
28 26 0.52
30 1 0.02
31 1 0.02
32 2 0.04
33 20 0.40
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (31 bp):
CACTGTATGTACTGTAATGGGCTAAGGCCCA
Found at i:53850545 original size:28 final size:27
Alignment explanation
Indices: 53850505--53850564 Score: 102
Period size: 28 Copynumber: 2.2 Consensus size: 27
53850495 ACTGTATTGA
53850505 TACTGTAATGGGCTAAGGCCCACACTG
1 TACTGTAATGGGCTAAGGCCCACACTG
*
53850532 TTACTGTATTGGGCTAAGGCCCACACTG
1 -TACTGTAATGGGCTAAGGCCCACACTG
53850560 TACTG
1 TACTG
53850565 CTACTGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (27 bp):
TACTGTAATGGGCTAAGGCCCACACTG
Found at i:53852186 original size:26 final size:26
Alignment explanation
Indices: 53852157--53852213 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
53852147 TAATTGTAAG
53852157 CAAAGCAACAGTTTGTCGCGGCATTA
1 CAAAGCAACAGTTTGTCGCGGCATTA
*
53852183 CAAAGCAACAGTTTGTTGCGGCATTA
1 CAAAGCAACAGTTTGTCGCGGCATTA
53852209 CAAAG
1 CAAAG
53852214 AAACGTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (26 bp):
CAAAGCAACAGTTTGTCGCGGCATTA
Found at i:53854303 original size:20 final size:23
Alignment explanation
Indices: 53854278--53854318 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
53854268 GTACTCAAGT
53854278 ACATTTT-GTT-GCA-TTTTAGG
1 ACATTTTAGTTAGCAGTTTTAGG
53854298 ACATTTTAGTTAGCAGTTTTA
1 ACATTTTAGTTAGCAGTTTTA
53854319 ATATTGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 3 0.17
23 5 0.28
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (23 bp):
ACATTTTAGTTAGCAGTTTTAGG
Found at i:53863957 original size:17 final size:17
Alignment explanation
Indices: 53863935--53863979 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
53863925 GAGTGAGATG
53863935 AAGTGAAAAAGATCA-AA
1 AAGTGAAAAAG-TCACAA
*
53863952 AAGTGACAAAGTCACAA
1 AAGTGAAAAAGTCACAA
53863969 AAGTAGAAAAA
1 AAGT-GAAAAA
53863980 CTCAGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 16 0.67
18 5 0.21
ACGTcount: A:0.62, C:0.09, G:0.18, T:0.11
Consensus pattern (17 bp):
AAGTGAAAAAGTCACAA
Found at i:53869981 original size:12 final size:12
Alignment explanation
Indices: 53869963--53869996 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
53869953 TAAGTTTCCA
53869963 AAAATGGAAAT-
1 AAAATGGAAATG
53869974 AGAAATGGAAATG
1 A-AAATGGAAATG
53869987 AAAATGGAAA
1 AAAATGGAAA
53869997 CTTGCAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 19 0.90
13 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:53873294 original size:50 final size:49
Alignment explanation
Indices: 53873104--53873660 Score: 920
Period size: 50 Copynumber: 11.1 Consensus size: 49
53873094 CCAAGAGAGT
* *
53873104 GTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATA
1 GTATATATGT-ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873154 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGT-ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
53873205 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGT-ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * *
53873256 -TATGTGTGATAAGAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 GTATATATG-T-ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873306 TGTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873356 TGTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873406 TGTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873456 TGTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873506 TGTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873556 TGTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873606 TGTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 -GTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
53873656 -TATAT
1 GTATAT
53873661 GTGACAGGGC
Statistics
Matches: 491, Mismatches: 12, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
48 5 0.01
49 6 0.01
50 376 0.77
51 98 0.20
52 6 0.01
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (49 bp):
GTATATATGTATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:53873890 original size:37 final size:37
Alignment explanation
Indices: 53873834--53873912 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53873824 CCGAGCTCTA
* *
53873834 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
53873871 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53873908 AAGAC
1 AAGAC
53873913 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53877365 original size:137 final size:136
Alignment explanation
Indices: 53877115--53877386 Score: 361
Period size: 137 Copynumber: 2.0 Consensus size: 136
53877105 ACTCGAGCCA
*
53877115 TAAATGGGTCTGCTCACACAAGCTGACAGTCGAAATGTAGCTACACGATGCCACTCACACAACTT
1 TAAATGGGTCTACTCACACAAGCTGACAGTCGAAATGTAGCTACACGATGCCACTCACACAACTT
* *
53877180 GAAGAGTATCCACAACAAATGTCAAAACTCAGCCATCGATAGGACATTCAGGACCAGCACCTTGA
66 GAAGAGTATCCACAACAAATGCCAAAACTCAGCCATCGATAGGACATTCAGGACCAGCACCTAGA
53877245 ACATGG
131 ACATGG
* * **
53877251 TAAACTGGGTCTACTCACACAAGCTGACGGTC-AGAATGTAAGCTACGC-ATGCTGCTCACACAA
1 TAAA-TGGGTCTACTCACACAAGCTGACAGTCGA-AATGT-AGCTACACGATGCCACTCACACAA
* * ** ** *
53877314 GTTGACGAGTATCTGCAACAAATGCCTGACCTCAGCCATC-AGTAGGACATTCAGGACCAGCACC
63 CTTGAAGAGTATCCACAACAAATGCCAAAACTCAGCCATCGA-TAGGACATTCAGGACCAGCACC
53877378 TAGAACATG
127 TAGAACATG
53877387 AAAACCCTAA
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
136 6 0.05
137 105 0.89
138 7 0.06
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.19
Consensus pattern (136 bp):
TAAATGGGTCTACTCACACAAGCTGACAGTCGAAATGTAGCTACACGATGCCACTCACACAACTT
GAAGAGTATCCACAACAAATGCCAAAACTCAGCCATCGATAGGACATTCAGGACCAGCACCTAGA
ACATGG
Found at i:53885011 original size:42 final size:42
Alignment explanation
Indices: 53884955--53885051 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
53884945 CTATATGAAC
53884955 GGCACTAAGTGTGCGAAACTAAAATCACGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATCACGATGTTGAATAATG
* * *
53884997 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATCACGATGTTGAATAATG
53885039 GGCACTAAGTGTG
1 GGCACTAAGTGTG
53885052 TGATACCAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATCACGATGTTGAATAATG
Found at i:53899467 original size:100 final size:100
Alignment explanation
Indices: 53899294--53899493 Score: 328
Period size: 100 Copynumber: 2.0 Consensus size: 100
53899284 AAAGAAAGTG
* * *
53899294 TGCCTGTATCATATTAAATTATTATACCTCTTAGGATTTTGCCTCAAGAAAGTTACTAAGTCAAT
1 TGCCTATATCATATTAAATTATTATACCTCCTAGGATTTTGCCTCAAGAAAGTTAATAAGTCAAT
*
53899359 TTTAAAGACTTAAACCTTCGTACATGTCTATTTCT
66 TTTAAAGACTTAAACCTTCATACATGTCTATTTCT
* *
53899394 TGCCTATATCATATTAAATTCTTATTCCTCCTAGGATTTTGCCTCAAGAAAGTTAATAAGTCAAT
1 TGCCTATATCATATTAAATTATTATACCTCCTAGGATTTTGCCTCAAGAAAGTTAATAAGTCAAT
**
53899459 TTTAAAGACTTAAACCTTCATGTATGTCTATTTCT
66 TTTAAAGACTTAAACCTTCATACATGTCTATTTCT
53899494 AAAGAAAATG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (100 bp):
TGCCTATATCATATTAAATTATTATACCTCCTAGGATTTTGCCTCAAGAAAGTTAATAAGTCAAT
TTTAAAGACTTAAACCTTCATACATGTCTATTTCT
Found at i:53906102 original size:40 final size:37
Alignment explanation
Indices: 53906045--53906348 Score: 295
Period size: 40 Copynumber: 7.7 Consensus size: 37
53906035 TTGAATGATG
* * *
53906045 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTA-A
53906085 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACTAA
* *
53906124 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
53906164 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACTAA
* *
53906203 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
53906243 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACT-AA
** *
53906283 TCCGGGTTAAGTGCCGAAGGCATTTGTGCGAATTACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCG-AGTACTA-A
* * *
53906323 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
53906349 AACGAGGAGC
Statistics
Matches: 231, Mismatches: 21, Indels: 24
0.84 0.08 0.09
Matches are distributed among these distances:
39 71 0.31
40 150 0.65
41 10 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (37 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTACTAA
Found at i:53906177 original size:79 final size:80
Alignment explanation
Indices: 53906045--53906348 Score: 447
Period size: 79 Copynumber: 3.8 Consensus size: 80
53906035 TTGAATGATG
* * * *
53906045 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
53906109 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAT
53906125 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
53906189 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
53906204 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
* *
53906268 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAT
* * * * *
53906283 TCCGGGTTAAGTGCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCAT
53906346 TTG
64 TTG
53906349 AACGAGGAGC
Statistics
Matches: 209, Mismatches: 11, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
79 144 0.69
80 63 0.30
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAT
Found at i:53906262 original size:119 final size:119
Alignment explanation
Indices: 53906045--53906348 Score: 377
Period size: 119 Copynumber: 2.6 Consensus size: 119
53906035 TTGAATGATG
* * * * * * *
53906045 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTGCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
53906108 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAATCCGGACTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53906164 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TGCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
* *
53906225 TTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAATCCGGACTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
** *
53906283 TCCGGGTTAAGTGCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTGCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
53906348 G
66 G
53906349 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 19
0.84 0.07 0.10
Matches are distributed among these distances:
118 38 0.23
119 99 0.61
120 24 0.15
121 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGACTAAGTGCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53914168 original size:23 final size:23
Alignment explanation
Indices: 53914137--53914187 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
53914127 ACCTACTTTC
* *
53914137 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
53914160 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
53914183 TTACA
1 TTACA
53914188 TTTCTCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:53915799 original size:50 final size:50
Alignment explanation
Indices: 53915672--53915958 Score: 245
Period size: 50 Copynumber: 5.6 Consensus size: 50
53915662 GATAATAACA
* * * ** * * *
53915672 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGAGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
53915721 TGCCAATGTCATATCCCAGATATAGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * **
53915771 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCCCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
53915821 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATTTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
53915871 TGCGAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
53915927 TGCCAATGTCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
53915959 CTAGCTCACA
Statistics
Matches: 189, Mismatches: 41, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 35 0.19
50 121 0.64
53 2 0.01
56 30 0.16
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:53915864 original size:100 final size:103
Alignment explanation
Indices: 53915745--53916004 Score: 262
Period size: 100 Copynumber: 2.5 Consensus size: 103
53915735 CCCAGATATA
* * * *
53915745 GTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC
1 GTCTTACATGAGA-CTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACC
*
53915810 TCT-T-ATC-C-CGGTGCCAACGCCATGTCCCAAACATG
65 TCTATAATCTCACGATGCCAACGCCATGTCCCAAACATG
* * * *
53915845 GTCTTACATGAGACCTCTCATTTCGGTGCGAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 GTCTTACATGAGA-CTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACC
* * * *
53915910 TCTCATAATCTCAATGATGCCAATGTCATGTCCCAGACATG
65 TCT-ATAATCTC-ACGATGCCAACGCCATGTCCCAAACATG
* * * * * *
53915951 GTCTTACACT-AG-CTCACATATTGATGTCGATGCCATGTCCCAAACATGGTCTTA
1 GTCTTACA-TGAGACTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTA
53916005 TACGAGATCG
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
100 59 0.45
102 1 0.01
103 3 0.02
104 34 0.26
106 32 0.25
107 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (103 bp):
GTCTTACATGAGACTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCT
CTATAATCTCACGATGCCAACGCCATGTCCCAAACATG
Found at i:53917057 original size:25 final size:24
Alignment explanation
Indices: 53917021--53917076 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
53917011 TTAAAGCTTC
53917021 ATTT-TCATTTCATTCAATTC-A-CA
1 ATTTCTCATTTCA--CAATTCAATCA
53917044 ATTTCTCATGTTCACAATTCAATCA
1 ATTTCTCAT-TTCACAATTCAATCA
53917069 ATTTCTCA
1 ATTTCTCA
53917077 ATCCAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.34
24 5 0.17
25 14 0.48
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTCTCATTTCACAATTCAATCA
Found at i:53918180 original size:20 final size:20
Alignment explanation
Indices: 53918149--53918199 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
53918139 TATTCACTAA
53918149 TATATCAAGAACATAAGATCT
1 TATAT-AAGAACATAAGATCT
53918170 TATATAAGAACATAAGATCT
1 TATATAAGAACATAAGATCT
*
53918190 CATATAAGAA
1 TATATAAGAA
53918200 AACTCTACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (20 bp):
TATATAAGAACATAAGATCT
Found at i:53919097 original size:23 final size:23
Alignment explanation
Indices: 53919070--53919119 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
53919060 ACCTACTTTC
*
53919070 TTACTGTAGTAATTTTCGGGGTA
1 TTACTGTAGTAATTTTCGGGATA
53919093 TTACTGTAGTAATTTTCGGGATA
1 TTACTGTAGTAATTTTCGGGATA
53919116 TTAC
1 TTAC
53919120 ACAAACAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (23 bp):
TTACTGTAGTAATTTTCGGGATA
Found at i:53920297 original size:43 final size:42
Alignment explanation
Indices: 53920234--53920347 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 42
53920224 AAGTCGTGCA
* *
53920234 ATGCCATATCCTGGATATGGTCTTACATGTTAACGCATAT-CG
1 ATGCCATATCCTAGACATGGTCTTACATGTTAA-GCATATACG
* * *
53920276 ATGCCACTATCCTAGACATGGTCTTATACG--AATCATATACG
1 ATGCCA-TATCCTAGACATGGTCTTACATGTTAAGCATATACG
* *
53920317 ATGCCAATGTCCCA-ACATGGTCTTACATGTT
1 ATGCC-ATATCCTAGACATGGTCTTACATGTT
53920348 TTCACACTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
40 18 0.31
41 14 0.24
42 7 0.12
43 19 0.33
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGACATGGTCTTACATGTTAAGCATATACG
Found at i:53920397 original size:43 final size:42
Alignment explanation
Indices: 53920274--53920390 Score: 121
Period size: 41 Copynumber: 2.8 Consensus size: 42
53920264 TAACGCATAT
* * * * *
53920274 CGATGCCACTATCCTAGACATGGTCTTATACGAATCATA-TA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAATCACACTA
* ** *
53920315 CGATGCCAATGTCCCA-ACATGGTCTTACATGTTTTCACACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACG-AATCACACTA
*
53920357 CGATGTCAATGTCCCAGACATGGTCTTACACGAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAA
53920391 ACCACACCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
40 13 0.22
41 17 0.28
42 16 0.27
43 14 0.23
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAATCACACTA
Found at i:53920657 original size:31 final size:31
Alignment explanation
Indices: 53920511--53920645 Score: 182
Period size: 31 Copynumber: 4.4 Consensus size: 31
53920501 ACCCAATGCT
** * *
53920511 CAAATC-AATTCAACAATATATATCCATGTA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
53920541 CGAATCAAATTCGGTAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
53920572 CAAATCAAATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
53920603 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
53920634 CAAATCAAATTC
1 CAAATCAAATTC
53920646 AACAATCTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
30 5 0.05
31 86 0.95
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:53921252 original size:11 final size:10
Alignment explanation
Indices: 53921230--53921259 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
53921220 CACAAAAACA
53921230 TAAAAATAAT
1 TAAAAATAAT
53921240 TAAAAATAGAT
1 TAAAAATA-AT
53921251 TAAAAATAA
1 TAAAAATAA
53921260 ATTCCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:53923112 original size:40 final size:40
Alignment explanation
Indices: 53922990--53923326 Score: 286
Period size: 40 Copynumber: 8.5 Consensus size: 40
53922980 AATTATTGTA
* * * * * *
53922990 TGAATGCACATGCATACCCCTGTTTGTACTTCGGCACCCT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * ** *
53923030 TGATTACACATACCTGCCTCGGTTTGCACTTCGGGT---CC
1 TGAATGCACATACGTGCCCCTATTTGTACTTC-GGTACCCC
***
53923068 TGAATGCACATACGCT-CCCCTATTTGTACTTTAATACCCC
1 TGAATGCACATACG-TGCCCCTATTTGTACTTCGGTACCCC
* * *
53923108 TGAATGCACATACGTTCCCCTATTTGTACTTCGATACCCG
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
53923148 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* ** * * *
53923188 TGATTGCACATTTGTGCCTCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
53923228 TGATTACACATTCGTGCCCCTGTTTATACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
53923268 TGAATGCACATGCATTCCCCTATTTATACTTCGGTACCCT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
53923308 TGAATGCACTTACGTGCCC
1 TGAATGCACATACGTGCCC
53923327 TGTTTATACT
Statistics
Matches: 243, Mismatches: 48, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
37 1 0.00
38 23 0.09
39 2 0.01
40 215 0.88
41 2 0.01
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:53923174 original size:80 final size:80
Alignment explanation
Indices: 53923066--53923351 Score: 315
Period size: 80 Copynumber: 3.6 Consensus size: 80
53923056 CACTTCGGGT
* * **
53923066 CCTGAATGCACATACGCT-CCCCTATTTGTACTTTAATACCCCTGAATGCACATACGTTCCCCTA
1 CCTGAATGCACATACG-TGCCCCTGTTTATACTTTGGTACCCCTGAATGCACATACGTTCCCCTA
*
53923130 TTTGTACTTCGATACC
65 TTTGTACTTCGGTACC
* * * ** * * *
53923146 CGTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGATTGCACATTTGTGCCTCTGT
1 CCTGAATGCACATACGTGCCCCTGTTTATACTTTGGTACCCCTGAATGCACATACGTTCCCCTAT
*
53923211 TTGTACTTTGGTACC
66 TTGTACTTCGGTACC
* * * * * *
53923226 CCTGATTACACATTCGTGCCCCTGTTTATACTTCGGTACCCCTGAATGCACATGCATTCCCCTAT
1 CCTGAATGCACATACGTGCCCCTGTTTATACTTTGGTACCCCTGAATGCACATACGTTCCCCTAT
*
53923291 TTATACTTCGGTACC
66 TTGTACTTCGGTACC
* * * * *
53923306 CTTGAATGCACTTACGTG-CCCTGTTTATACTCTGGTAACTCTGAAT
1 CCTGAATGCACATACGTGCCCCTGTTTATACTTTGGTACCCCTGAAT
53923352 TATATAATAT
Statistics
Matches: 169, Mismatches: 36, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
79 25 0.15
80 144 0.85
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (80 bp):
CCTGAATGCACATACGTGCCCCTGTTTATACTTTGGTACCCCTGAATGCACATACGTTCCCCTAT
TTGTACTTCGGTACC
Found at i:53923189 original size:20 final size:20
Alignment explanation
Indices: 53923164--53923269 Score: 88
Period size: 20 Copynumber: 5.3 Consensus size: 20
53923154 CACATACGTG
53923164 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
* * *
53923184 CCCCTGATTGCACATTT-GTG
1 CCCCTGTTTGTAC-TTTGGTA
*
53923204 CCTCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
* ** * * *
53923224 CCCCTGATTACACATTCGTG
1 CCCCTGTTTGTACTTTGGTA
* *
53923244 CCCCTGTTTATACTTCGGTA
1 CCCCTGTTTGTACTTTGGTA
53923264 CCCCTG
1 CCCCTG
53923270 AATGCACATG
Statistics
Matches: 64, Mismatches: 20, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
19 3 0.05
20 58 0.91
21 3 0.05
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.39
Consensus pattern (20 bp):
CCCCTGTTTGTACTTTGGTA
Found at i:53938976 original size:30 final size:30
Alignment explanation
Indices: 53938942--53939198 Score: 164
Period size: 30 Copynumber: 8.6 Consensus size: 30
53938932 AGCATTGGCT
53938942 ATCGAATTATGAAAAGGGATGG-TGACGACC
1 ATCGAATTATGAAAAGGGATGGCT-ACGACC
* * * * *
53938972 ATCGAATTATTAACAGAGATGGCTTC-AGCT
1 ATCGAATTATGAAAAGGGATGGCTACGA-CC
* ** ***
53939002 GTCGAATTATGAAAAGGGATGGCTTTGGTT
1 ATCGAATTATGAAAAGGGATGGCTACGACC
* * * * *
53939032 ATCAAATTATGAAAAGGGACGGCTTCGGCT
1 ATCGAATTATGAAAAGGGATGGCTACGACC
*
53939062 ATCAAATTATGAAAAGGGATGG-TGACGACC
1 ATCGAATTATGAAAAGGGATGGCT-ACGACC
**
53939092 ATC-AACAATGAAAAGGGATGG-TGACGACC
1 ATCGAATTATGAAAAGGGATGGCT-ACGACC
* * *
53939121 ATCGAATTATGAAAAGGGATGGCTTCAACT
1 ATCGAATTATGAAAAGGGATGGCTACGACC
* * * * * * *
53939151 ATCAAAATATGGAAAGGGATAGCTTCGGCT
1 ATCGAATTATGAAAAGGGATGGCTACGACC
* *
53939181 ATTGAAATATGAAAAGGG
1 ATCGAATTATGAAAAGGG
53939199 GTGGTAACAA
Statistics
Matches: 184, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
29 29 0.16
30 153 0.83
31 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.24
Consensus pattern (30 bp):
ATCGAATTATGAAAAGGGATGGCTACGACC
Found at i:53939083 original size:90 final size:90
Alignment explanation
Indices: 53938890--53939083 Score: 210
Period size: 90 Copynumber: 2.2 Consensus size: 90
53938880 TCATTGTCCA
** * *
53938890 ATGAAAAGGTTTGGCTTCAGCTATCAAAATATGGAAAGGGATAGCATTGGCTATCGAATTATGAA
1 ATGAAAAGGGATGGCTTCAGCTATCAAAATATGAAAAGGGATAGCATTGGCTATCAAATTATGAA
* *
53938955 AAGGGATGGTGACGACCATCGAATT
66 AAGGGACGGTGACGACCATCAAATT
* * * * * * * * *
53938980 ATTAACAGAGATGGCTTCAGCTGTCGAATTATGAAAAGGGATGGCTTTGGTTATCAAATTATGAA
1 ATGAAAAGGGATGGCTTCAGCTATCAAAATATGAAAAGGGATAGCATTGGCTATCAAATTATGAA
* * *
53939045 AAGGGACGGCT-TCGGCTATCAAATT
66 AAGGGACGG-TGACGACCATCAAATT
53939070 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
53939084 TGACGACCAT
Statistics
Matches: 82, Mismatches: 21, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
90 81 0.99
91 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (90 bp):
ATGAAAAGGGATGGCTTCAGCTATCAAAATATGAAAAGGGATAGCATTGGCTATCAAATTATGAA
AAGGGACGGTGACGACCATCAAATT
Found at i:53939110 original size:29 final size:30
Alignment explanation
Indices: 53939070--53939142 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 30
53939060 CTATCAAATT
53939070 ATGAAAAGGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTGACGACCATCGAACA
**
53939099 ATGAAAAGGGATGGTGACGACCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATCGAACA
53939129 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
53939143 CTTCAACTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 25 0.61
30 16 0.39
ACGTcount: A:0.40, C:0.12, G:0.32, T:0.16
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCGAACA
Found at i:53939198 original size:60 final size:60
Alignment explanation
Indices: 53938890--53939198 Score: 252
Period size: 60 Copynumber: 5.2 Consensus size: 60
53938880 TCATTGTCCA
** *
53938890 ATGAAAAGGTTTGGCTTC-AGCTATCAAAATATGGAAAGGGATAGCATT-GGCTATCGAATT
1 ATGAAAAGGGATGGCTTCGA-CTATCAAAATATGAAAAGGGATAGC-TTCGGCTATCGAATT
* * * * * * * * * *
53938950 ATGAAAAGGGATGG-TGACGACCATCGAATTATTAACAGAGATGGCTTCAGCTGTCGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAAATATGAAAAGGGATAGCTTCGGCTATCGAATT
* ** * ** *
53939010 ATGAAAAGGGATGGCTTTGGTTATCAAATTATGAAAAGGGACGGCTTCGGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAAATATGAAAAGGGATAGCTTCGGCTATCGAATT
* * * * * * *
53939070 ATGAAAAGGGATGG-TGACGACCATCAACA-ATGAAAAGGGAT-GGTGACGACCATCGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAAATATGAAAAGGGATAGCT-TCGGCTATCGAATT
* * * *
53939129 ATGAAAAGGGATGGCTTCAACTATCAAAATATGGAAAGGGATAGCTTCGGCTATTGAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAAATATGAAAAGGGATAGCTTCGGCTATCGAATT
53939189 ATGAAAAGGG
1 ATGAAAAGGG
53939199 GTGGTAACAA
Statistics
Matches: 190, Mismatches: 50, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
58 2 0.01
59 48 0.25
60 136 0.72
61 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (60 bp):
ATGAAAAGGGATGGCTTCGACTATCAAAATATGAAAAGGGATAGCTTCGGCTATCGAATT
Found at i:53941120 original size:42 final size:42
Alignment explanation
Indices: 53940988--53941180 Score: 223
Period size: 41 Copynumber: 4.7 Consensus size: 42
53940978 TACCCAGTGT
* * *
53940988 AAACAGGGGCACATATGTGCAATTCAGGGG-AACTAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTATCTGAAGTAC
* * *
53941029 AAA-ATGGGAACATATGTGCAATTCAGGGGTATC-GAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTATCTGAAGTAC
* * *
53941069 AAATAGGGGCACGTTTGTGCAATTCAGGGGTTTCTGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTATCTGAAGTAC
* *
53941111 AAACAGGGGCATGTATGTGCAGTTCAGGGGTAT-TGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTATCTGAAGTAC
* * * *
53941152 AAACACGGGCATGTATGTGGAATTTAGGG
1 AAACAGGGGCACGTATGTGCAATTCAGGG
53941181 AATAATTGAG
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
40 33 0.25
41 63 0.48
42 35 0.27
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (42 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTATCTGAAGTAC
Found at i:53941162 original size:83 final size:81
Alignment explanation
Indices: 53940988--53941180 Score: 224
Period size: 83 Copynumber: 2.4 Consensus size: 81
53940978 TACCCAGTGT
* *
53940988 AAACAGGGGCACATATGTGCAATTCAGGGGAACTAAAGTACAAAATGGGAACATATGTGCAATTC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGAACTAAAGTACAAAAGGGGAACATATGTGCAATTC
53941053 AGGGGTATCGAAGTAC
66 AGGGGTATCGAAGTAC
* * ** * * ** *
53941069 AAATAGGGGCACGTTTGTGCAATTCAGGGGTTTCTGAAGTACAAACAGGGGCATGTATGTGCAGT
1 AAACAGGGGCACGTATGTGCAATTCAGGGG-AACTAAAGTACAAA-AGGGGAACATATGTGCAAT
*
53941134 TCAGGGGTATTGAAGTAC
64 TCAGGGGTATCGAAGTAC
* * * *
53941152 AAACACGGGCATGTATGTGGAATTTAGGG
1 AAACAGGGGCACGTATGTGCAATTCAGGG
53941181 AATAATTGAG
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 27 0.29
82 11 0.12
83 54 0.59
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (81 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGAACTAAAGTACAAAAGGGGAACATATGTGCAATTC
AGGGGTATCGAAGTAC
Found at i:53942737 original size:107 final size:107
Alignment explanation
Indices: 53942578--53942793 Score: 351
Period size: 107 Copynumber: 2.0 Consensus size: 107
53942568 GGCTCACACT
** *
53942578 ATCCGTCTAAACTGGTTGTTTTTGTATCTCTTAGGGTAGTGGCGTGTATATATATATTTATATAG
1 ATCCGTCTAAACTGGTTGTTTTTGTATCTCTTAAAGTAGTGGCATGTATATATATATTTATATAG
* * * *
53942643 ATGAATTTGTGGTTGAAATTCTTAGGATGTTATGTAATGGTG
66 ATGAATTTGTAGTTGAAATGCTTAGCATGTTATGTAATAGTG
*
53942685 ATCCGTCTAAATTGGTTGTTTTTGTATCTCTTAAAGTAGTGGCATGTATATATATATTTATATAG
1 ATCCGTCTAAACTGGTTGTTTTTGTATCTCTTAAAGTAGTGGCATGTATATATATATTTATATAG
*
53942750 ATGAATTTGTAGTTGAAATGGTTAGCATGTTATGTAATAGTG
66 ATGAATTTGTAGTTGAAATGCTTAGCATGTTATGTAATAGTG
53942792 AT
1 AT
53942794 TTGGATGTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 100 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (107 bp):
ATCCGTCTAAACTGGTTGTTTTTGTATCTCTTAAAGTAGTGGCATGTATATATATATTTATATAG
ATGAATTTGTAGTTGAAATGCTTAGCATGTTATGTAATAGTG
Found at i:53948903 original size:50 final size:50
Alignment explanation
Indices: 53948800--53948987 Score: 205
Period size: 50 Copynumber: 3.6 Consensus size: 50
53948790 AAAGAGATCT
53948800 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCA---AG---ATGAGAGGTCC
* *
53948856 CATGTAATACCATGTCTGGGACATGGCGTTGGCATCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGAGAGGTCC
* * * * * **
53948906 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGAGAGGTCC
* * * *
53948956 CATGTAAGACCATATTTTGGATATGGCATTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
53948988 AAGCATAGAA
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
50 78 0.68
53 2 0.02
56 35 0.30
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGAGAGGTCC
Found at i:53948982 original size:100 final size:103
Alignment explanation
Indices: 53948802--53948987 Score: 234
Period size: 100 Copynumber: 1.8 Consensus size: 103
53948792 AGAGATCTCA
* ** *
53948802 TGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAATACC
1 TGTAAGACCATGTCTGGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACC
* *
53948867 ATGTCTGGGACATGGCGTTGGCATCAAGATGAGAGGTCCCC
63 ATATCTGGGACATGGCATTGGCATCAAGATGAGAGGTCCCC
*
53948908 TGTAAGACCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAAGACCATA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATA
* * *
53948970 TTTTGGATATGGCATTGG
66 TCTGGGACATGGCATTGG
53948988 AAGCATAGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
100 36 0.51
101 2 0.03
105 1 0.01
106 31 0.44
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (103 bp):
TGTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGACATGGCATTGGCATCAAGATGAGAGGTCCCC
Found at i:53949031 original size:49 final size:50
Alignment explanation
Indices: 53948903--53949031 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 50
53948893 AGATGAGAGG
* * * * *
53948903 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATTTCTAGGACATGGCATGGGAACCGATATGAAAAC
* * * *
53948953 TCCCATGTAAGACCATATT-TTGGATATGGCATTGGAAGC-ATA-GAAAAC
1 TCCCATGTAAGACCAT-TTCTAGGACATGGCATGGGAACCGATATGAAAAC
*
53949001 ATCCCATTTAAGACCATTTCTAGGACATGGC
1 -TCCCATGTAAGACCATTTCTAGGACATGGC
53949032 TTGTAACACC
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
48 7 0.11
49 27 0.42
50 30 0.46
51 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATTTCTAGGACATGGCATGGGAACCGATATGAAAAC
Found at i:53955564 original size:25 final size:25
Alignment explanation
Indices: 53955528--53955591 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
53955518 CCTGTACATG
*
53955528 TATGCTCATACGAGCTATGAATCGA
1 TATGCTCATACGAGCTATAAATCGA
* *
53955553 TATGCTCTTACGAGCTGTAAATCGA
1 TATGCTCATACGAGCTATAAATCGA
* *
53955578 TAAGCTTATACGAG
1 TATGCTCATACGAG
53955592 TTGAGAATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (25 bp):
TATGCTCATACGAGCTATAAATCGA
Found at i:53955600 original size:25 final size:26
Alignment explanation
Indices: 53955531--53955619 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 26
53955521 GTACATGTAT
* * *
53955531 GCTCATACGAGCTAT-GAATCGATAT
1 GCTCTTACGAGCTGTAGAATCGATAA
53955556 GCTCTTACGAGCTGTA-AATCGATAA
1 GCTCTTACGAGCTGTAGAATCGATAA
*
53955581 GCT-TATACGAGTTG-AGAATCTG-TAA
1 GCTCT-TACGAGCTGTAGAATC-GATAA
* *
53955606 ACTCTCACGAGCTG
1 GCTCTTACGAGCTG
53955620 CAATCAGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
24 2 0.04
25 48 0.92
26 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (26 bp):
GCTCTTACGAGCTGTAGAATCGATAA
Found at i:53958798 original size:34 final size:34
Alignment explanation
Indices: 53958741--53958815 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
53958731 AATCTAAAAA
* *
53958741 AACCCTAAACCCTACTTTAAATAAATAAAA-CCT
1 AACCCTAAACCCTAATTTAAATAAACAAAACCCT
* *
53958774 GAACCCTAAATCCTAATTTCAATAAACAAAACCCT
1 -AACCCTAAACCCTAATTTAAATAAACAAAACCCT
53958809 AACCCTA
1 AACCCTA
53958816 TTAAAAACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 33 0.92
35 3 0.08
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (34 bp):
AACCCTAAACCCTAATTTAAATAAACAAAACCCT
Found at i:53959291 original size:24 final size:25
Alignment explanation
Indices: 53959243--53959291 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
53959233 AGACCGAACA
* *
53959243 GTTGAAAAGCAATTGAAAGATAAAT
1 GTTGAAAAGCAACTGAAAGACAAAT
*
53959268 GTTGAAGAGCAACTG-AAGACAAAT
1 GTTGAAAAGCAACTGAAAGACAAAT
53959292 TAATGAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.20
Consensus pattern (25 bp):
GTTGAAAAGCAACTGAAAGACAAAT
Found at i:53960755 original size:4 final size:4
Alignment explanation
Indices: 53960742--53960807 Score: 123
Period size: 4 Copynumber: 16.5 Consensus size: 4
53960732 GCTAATATAT
*
53960742 ATAC ACAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
53960790 ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC AT
53960808 GCATGCATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:53961640 original size:65 final size:65
Alignment explanation
Indices: 53961536--53961657 Score: 208
Period size: 65 Copynumber: 1.9 Consensus size: 65
53961526 GTTTGTTAAA
* *
53961536 AAGAAAGAAAATGTCAAAACACAAGCATGTCATTGAGGACTGCTTGTAGAGAAGACAACAACAGC
1 AAGAAAGAAAATGTCAAAACACAAGCATGTCATTAAGGACTGCTTGTAGAAAAGACAACAACAGC
**
53961601 AAGAAAGAAGCTGTCAAAACACAAGCATGTCATTAAGGACTGCTTGTAGAAAAGACA
1 AAGAAAGAAAATGTCAAAACACAAGCATGTCATTAAGGACTGCTTGTAGAAAAGACA
53961658 GCATCAACTC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.16
Consensus pattern (65 bp):
AAGAAAGAAAATGTCAAAACACAAGCATGTCATTAAGGACTGCTTGTAGAAAAGACAACAACAGC
Found at i:53961769 original size:26 final size:25
Alignment explanation
Indices: 53961740--53961809 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
53961730 TGAGCTTTCC
53961740 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTCAGC-AA
*
53961766 AATGTGCAAGCTGCAAGCTTAGCAA
1 AATGTGCAAGCTGCAAGCTCAGCAA
*
53961791 GATGT-CAAAGCTGCAAGCT
1 AATGTGC-AAGCTGCAAGCT
53961810 TAGCGAGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.02
25 18 0.44
26 22 0.54
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (25 bp):
AATGTGCAAGCTGCAAGCTCAGCAA
Found at i:53961801 original size:25 final size:26
Alignment explanation
Indices: 53961740--53961813 Score: 107
Period size: 25 Copynumber: 2.9 Consensus size: 26
53961730 TGAGCTTTCC
*
53961740 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
53961766 AATGTGCAAGCTGCAAGCTTAGC-AA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
*
53961791 GATGT-CAAAGCTGCAAGCTTAGC
1 AATGTGC-AAGCTGCAAGCTTAGC
53961814 GAGAAGTGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 1 0.02
25 22 0.49
26 22 0.49
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
AATGTGCAAGCTGCAAGCTTAGCAAA
Found at i:53961827 original size:25 final size:24
Alignment explanation
Indices: 53961747--53961827 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
53961737 TCCAATGTGC
* *
53961747 AAGCTGCAAGCTCAGCAAAAATGTG
1 AAGCTGCAAGCTTAGCAAGAA-GTG
* *
53961772 CAAGCTGCAAGCTTAGCAAGATGTCA
1 -AAGCTGCAAGCTTAGCAAGAAGT-G
*
53961798 AAGCTGCAAGCTTAGCGAGAAGTG
1 AAGCTGCAAGCTTAGCAAGAAGTG
53961822 AGAGCT
1 A-AGCT
53961828 ATGAGCTCAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.02
25 27 0.59
26 18 0.39
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (24 bp):
AAGCTGCAAGCTTAGCAAGAAGTG
Found at i:53962007 original size:16 final size:16
Alignment explanation
Indices: 53961986--53962018 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
53961976 AGACAGTAAG
53961986 CAAAGTGCGAGCCTGT
1 CAAAGTGCGAGCCTGT
*
53962002 CAAAGTGTGAGCCTGT
1 CAAAGTGCGAGCCTGT
53962018 C
1 C
53962019 GAATTGCAAG
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:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (16 bp):
CAAAGTGCGAGCCTGT
Found at i:53965959 original size:52 final size:52
Alignment explanation
Indices: 53965879--53965980 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
53965869 AGTTTTAGCT
* *
53965879 TGATTGATATGAGTATTGTTGTCAATGTAAAAAGACCTAAGTTCAAGTGTAC
1 TGATTGACATGAGCATTGTTGTCAATGTAAAAAGACCTAAGTTCAAGTGTAC
* * * *
53965931 TGATTGACATGGGCATTGTTGTCGATGTAAAAAGACCTGAGTTTAAGTGT
1 TGATTGACATGAGCATTGTTGTCAATGTAAAAAGACCTAAGTTCAAGTGT
53965981 GCTAAAGCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (52 bp):
TGATTGACATGAGCATTGTTGTCAATGTAAAAAGACCTAAGTTCAAGTGTAC
Found at i:53968472 original size:18 final size:18
Alignment explanation
Indices: 53968449--53968485 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
53968439 AAATAAAAAG
53968449 ATAGGATTGAGTTGTCAA
1 ATAGGATTGAGTTGTCAA
53968467 ATAGGATTGAGTTGTCAA
1 ATAGGATTGAGTTGTCAA
53968485 A
1 A
53968486 GAACACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (18 bp):
ATAGGATTGAGTTGTCAA
Found at i:53975972 original size:50 final size:50
Alignment explanation
Indices: 53975913--53976244 Score: 475
Period size: 50 Copynumber: 6.6 Consensus size: 50
53975903 CGATCTCGTA
53975913 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
* * *
53975963 TAAGACCATGTCTGGGGACATGGCGTTGGCACCGATATGAGAGATCCCTTG
1 TAAGACCATGTCT-GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
53976014 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
* * *
53976064 TAAGACCATGTCTGGGGACATGGCGTTGGCACCGATATGAGAGATCCCTTG
1 TAAGACCATGTCT-GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
**
53976115 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
* * * * ** *
53976165 TAAGACCATGTCTGGGACATGGCATGGGCACCCATATGAGACCTCCCACG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
* * * *
53976215 TAAGACCATATCTGCGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCGTTGGCA
53976245 GTACAGAAAA
Statistics
Matches: 256, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
50 162 0.63
51 94 0.37
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
Found at i:53976088 original size:101 final size:101
Alignment explanation
Indices: 53975913--53976244 Score: 540
Period size: 101 Copynumber: 3.3 Consensus size: 101
53975903 CGATCTCGTA
53975913 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
53975978 GGACATGGCGTTGGCACCGATATGAGAGATCCCTTG
66 GGACATGGCGTTGGCACCGATATGAGAGATCCCTTG
53976014 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
53976079 GGACATGGCGTTGGCACCGATATGAGAGATCCCTTG
66 GGACATGGCGTTGGCACCGATATGAGAGATCCCTTG
**
53976115 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCT-G
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
* * * ** **
53976179 GGACATGGCATGGGCACCCATATGAGACCTCCCACG
66 GGACATGGCGTTGGCACCGATATGAGAGATCCCTTG
* * * *
53976215 TAAGACCATATCTGCGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCGTTGGCA
53976245 GTACAGAAAA
Statistics
Matches: 218, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
100 56 0.26
101 162 0.74
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (101 bp):
TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
GGACATGGCGTTGGCACCGATATGAGAGATCCCTTG
Found at i:53976187 original size:151 final size:152
Alignment explanation
Indices: 53975913--53976228 Score: 483
Period size: 151 Copynumber: 2.1 Consensus size: 152
53975903 CGATCTCGTA
*
53975913 TAAGACCATGTCT-GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTG
1 TAAGACCATGTCTGGGGACATGGCGTTGGCACCGAGATGAGAGATCCCATGTAAGACCATGTCTG
* ** * *
53975977 GGGACATGGCGTTGGCACCGATATGAGAGATCCCTTGTAAGACCATGTCTGGGACATGGCGTTGG
66 GGGACATGGCGTTGGCACCGAGATGAGAGATCCCCCGTAAGACCATGTCTGGGACATGGCATGGG
* ** *
53976042 CACCGAGATGAGAGGTCCCATG
131 CACCCAGATGAGACCTCCCACG
* *
53976064 TAAGACCATGTCTGGGGACATGGCGTTGGCACCGATATGAGAGATCCCTTGTAAGACCATGTCT-
1 TAAGACCATGTCTGGGGACATGGCGTTGGCACCGAGATGAGAGATCCCATGTAAGACCATGTCTG
*
53976128 GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGG
66 GGGACATGGCGTTGGCACCGAGATGAGAGATCCCCCGTAAGACCATGTCTGGGACATGGCATGGG
*
53976193 CACCCATATGAGACCTCCCACG
131 CACCCAGATGAGACCTCCCACG
*
53976215 TAAGACCATATCTG
1 TAAGACCATGTCTG
53976229 CGATATGGCA
Statistics
Matches: 149, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
151 102 0.68
152 47 0.32
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (152 bp):
TAAGACCATGTCTGGGGACATGGCGTTGGCACCGAGATGAGAGATCCCATGTAAGACCATGTCTG
GGGACATGGCGTTGGCACCGAGATGAGAGATCCCCCGTAAGACCATGTCTGGGACATGGCATGGG
CACCCAGATGAGACCTCCCACG
Found at i:53985754 original size:16 final size:16
Alignment explanation
Indices: 53985733--53985764 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
53985723 TTGATTTGTA
*
53985733 AAATTTTCAAACTTTT
1 AAATTTTCAAAATTTT
53985749 AAATTTTCAAAATTTT
1 AAATTTTCAAAATTTT
53985765 GTATCAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATTTTCAAAATTTT
Found at i:53986306 original size:9 final size:9
Alignment explanation
Indices: 53986289--53986320 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
53986279 CAATTAGACT
53986289 CCATATTAA
1 CCATATTAA
*
53986298 CCTTATTAA
1 CCATATTAA
53986307 CCATATTAA
1 CCATATTAA
53986316 CCATA
1 CCATA
53986321 CTAAACCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (9 bp):
CCATATTAA
Found at i:53999706 original size:40 final size:40
Alignment explanation
Indices: 53999612--53999756 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
53999602 TACTCGAATG
*
53999612 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
53999653 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
53999693 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
53999733 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
53999757 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:54013987 original size:16 final size:16
Alignment explanation
Indices: 54013966--54013999 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54013956 ATTTCCTTTC
*
54013966 TTAGGTTATGTTAGGA
1 TTAGGTTATATTAGGA
*
54013982 TTAGGTTCTATTAGGA
1 TTAGGTTATATTAGGA
54013998 TT
1 TT
54014000 TTTGTTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (16 bp):
TTAGGTTATATTAGGA
Found at i:54014826 original size:20 final size:20
Alignment explanation
Indices: 54014798--54014841 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
54014788 GAATGCTCAT
*
54014798 GAAAGAAAAAGAGAAGAA-AA
1 GAAA-AAAAAAAGAAGAAGAA
*
54014818 GAAAAAAAAATGAAGAAGAA
1 GAAAAAAAAAAGAAGAAGAA
54014838 GAAA
1 GAAA
54014842 TAACATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (20 bp):
GAAAAAAAAAAGAAGAAGAA
Found at i:54017014 original size:5 final size:5
Alignment explanation
Indices: 54017000--54017035 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
54016990 GCATTGGTAC
54017000 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
54017036 GTTAGTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:54028366 original size:18 final size:18
Alignment explanation
Indices: 54028342--54028389 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
54028332 AAAATATGAG
* *
54028342 AAATGATGTTCATATTTT
1 AAATGATGTTCACATTTC
*
54028360 AAGTGATGTTCACATTTC
1 AAATGATGTTCACATTTC
54028378 AAATGATGTTCA
1 AAATGATGTTCA
54028390 AATTGATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:54028839 original size:72 final size:72
Alignment explanation
Indices: 54028744--54028910 Score: 239
Period size: 72 Copynumber: 2.3 Consensus size: 72
54028734 CAATGCTAAA
*
54028744 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGACATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTGGACATTGAATTTATGTTCTACTTATTTAT
54028809 GTGTAAT
66 GTGTAAT
* * *
54028816 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTGGACATTGAATTTATGTTCTACTTATTTAT
* *
54028881 ACT-AAAT
66 -GTGTAAT
* *
54028888 -TATTTTTATCAATAGTTTTTTAT
1 CTAGTTTTATCAATAGTTATTTAT
54028911 ATATGATTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
71 20 0.24
72 64 0.75
73 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.56
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTGGACATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:54030776 original size:30 final size:28
Alignment explanation
Indices: 54030736--54030801 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 28
54030726 TTAAATTTTA
54030736 TAAATAATTAATATTA-ATTACTTAGAAATAT
1 TAAA-AATTAATATTATA-TA-TTA-AAATAT
*
54030767 TTAAAATTAATATTATATATTAAAATAT
1 TAAAAATTAATATTATATATTAAAATAT
54030795 TAAAAAT
1 TAAAAAT
54030802 AAGTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 12 0.38
29 3 0.09
30 13 0.41
31 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
TAAAAATTAATATTATATATTAAAATAT
Found at i:54030800 original size:28 final size:30
Alignment explanation
Indices: 54030736--54030801 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 30
54030726 TTAAATTTTA
54030736 TAAATAATTAATATTAATTACTTAGAAATAT
1 TAAA-AATTAATATTAATTACTTAGAAATAT
*
54030767 TTAAAATTAATATT-ATATA-TTA-AAATAT
1 TAAAAATTAATATTAAT-TACTTAGAAATAT
54030795 TAAAAAT
1 TAAAAAT
54030802 AAGTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 12 0.38
29 5 0.16
30 12 0.38
31 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
TAAAAATTAATATTAATTACTTAGAAATAT
Found at i:54030982 original size:13 final size:13
Alignment explanation
Indices: 54030964--54031001 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
54030954 AGACTCAAAT
54030964 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
54030977 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
54030990 TTCTCAAAAGCA
1 TTCTCAAAAGCA
54031002 ATAAAGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:54034949 original size:15 final size:16
Alignment explanation
Indices: 54034914--54034949 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
54034904 ACTCTTGCCT
*
54034914 TTCTTTTCTTTCAATG
1 TTCTTTTCTTTCAACG
54034930 TTCTTTTCTTTC-ACG
1 TTCTTTTCTTTCAACG
54034945 TTCTT
1 TTCTT
54034950 ATTACAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.08, C:0.22, G:0.06, T:0.64
Consensus pattern (16 bp):
TTCTTTTCTTTCAACG
Found at i:54035242 original size:21 final size:21
Alignment explanation
Indices: 54035217--54035334 Score: 157
Period size: 21 Copynumber: 5.6 Consensus size: 21
54035207 AGGAAGACGA
54035217 ACTCCTTGACGATGACGATGG
1 ACTCCTTGACGATGACGATGG
* *
54035238 ACTCCTTGATGATGATGATGG
1 ACTCCTTGACGATGACGATGG
*
54035259 AGTCCTTGACGATGACGATGG
1 ACTCCTTGACGATGACGATGG
** *
54035280 ACTCCTTGAAAATAACTG-TGG
1 ACTCCTTGACGATGAC-GATGG
*
54035301 ACTCCTTGATGATGACGATGG
1 ACTCCTTGACGATGACGATGG
54035322 ACTCCTTGACGAT
1 ACTCCTTGACGAT
54035335 CTTGTTTTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.01
21 80 0.98
22 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (21 bp):
ACTCCTTGACGATGACGATGG
Found at i:54035887 original size:13 final size:13
Alignment explanation
Indices: 54035869--54035894 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54035859 ATCAAACTCC
54035869 CACTTTTGTATTT
1 CACTTTTGTATTT
54035882 CACTTTTGTATTT
1 CACTTTTGTATTT
54035895 TTCCAACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
CACTTTTGTATTT
Found at i:54047141 original size:5 final size:5
Alignment explanation
Indices: 54047131--54047176 Score: 65
Period size: 5 Copynumber: 9.2 Consensus size: 5
54047121 TTATCCTCTA
* * *
54047131 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TATTT TATTT TATTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
54047177 ATCTTTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:54047177 original size:5 final size:5
Alignment explanation
Indices: 54047133--54047190 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
54047123 ATCCTCTATC
* * * * *
54047133 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTA TTTTA TTTTA TTTTA TCTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA --TTTTA
54047185 TTTTA T
1 TTTTA T
54047191 CTTTTATTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
5 45 0.90
7 5 0.10
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:54047184 original size:22 final size:23
Alignment explanation
Indices: 54047136--54047199 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 23
54047126 CTCTATCTTT
* *
54047136 TCTTTTCTTTT-CTTTT-CTTT-
1 TCTTTTATTTTACTTTTATTTTA
*
54047156 TCTTTTATTTTAT-TTTATTTTA
1 TCTTTTATTTTACTTTTATTTTA
54047178 TCTTTTATTTTATCTTTTATTT
1 TCTTTTATTTTA-CTTTTATTT
54047200 GCCTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 13 0.37
21 3 0.09
22 12 0.34
24 7 0.20
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (23 bp):
TCTTTTATTTTACTTTTATTTTA
Found at i:54047185 original size:12 final size:12
Alignment explanation
Indices: 54047156--54047199 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
54047146 TCTTTTCTTT
54047156 TCTTTTATTTTA
1 TCTTTTATTTTA
54047168 --TTTTATTTTA
1 TCTTTTATTTTA
54047178 TCTTTTATTTTA
1 TCTTTTATTTTA
54047190 TCTTTTATTT
1 TCTTTTATTT
54047200 GCCTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.33
12 20 0.67
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (12 bp):
TCTTTTATTTTA
Found at i:54048645 original size:18 final size:17
Alignment explanation
Indices: 54048576--54048651 Score: 80
Period size: 18 Copynumber: 4.2 Consensus size: 17
54048566 CCTAGTTTTA
*
54048576 TTTTGTTTTTGTTTTTGT
1 TTTTGTTTTT-CTTTTGT
*
54048594 TTTTGTTTTTGTTTTTGT
1 TTTTGTTTTT-CTTTTGT
54048612 TTTTGTTTTTCTTTTTGT
1 TTTTGTTTTTC-TTTTGT
* *
54048630 TTTTCTTTTTACTTTTAT
1 TTTTGTTTTT-CTTTTGT
54048648 TTTT
1 TTTT
54048652 ATTGTTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 52 0.98
19 1 0.02
ACGTcount: A:0.03, C:0.04, G:0.11, T:0.83
Consensus pattern (17 bp):
TTTTGTTTTTCTTTTGT
Found at i:54048654 original size:6 final size:6
Alignment explanation
Indices: 54048576--54048639 Score: 110
Period size: 6 Copynumber: 10.7 Consensus size: 6
54048566 CCTAGTTTTA
*
54048576 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTCT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
*
54048624 TTTTGT TTTTCT TTTT
1 TTTTGT TTTTGT TTTT
54048640 ACTTTTATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.84
Consensus pattern (6 bp):
TTTTGT
Found at i:54051634 original size:21 final size:21
Alignment explanation
Indices: 54051604--54051644 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
54051594 TCTCTTACAT
*
54051604 AGATATAACTATTAAAGTAAG
1 AGATACAACTATTAAAGTAAG
*
54051625 AGATACAACTATTCAAGTAA
1 AGATACAACTATTAAAGTAA
54051645 TATCTCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (21 bp):
AGATACAACTATTAAAGTAAG
Found at i:54053146 original size:3 final size:3
Alignment explanation
Indices: 54053140--54053168 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
54053130 AGAAGAAGAA
54053140 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
54053169 AGGAGGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:54055081 original size:14 final size:14
Alignment explanation
Indices: 54055062--54055095 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
54055052 TGTTTGTTGC
54055062 ACCAACACAGCAAA
1 ACCAACACAGCAAA
*
54055076 ACCAACACAGCAAC
1 ACCAACACAGCAAA
54055090 ACCAAC
1 ACCAAC
54055096 CTAGACTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.41, G:0.06, T:0.00
Consensus pattern (14 bp):
ACCAACACAGCAAA
Found at i:54055628 original size:29 final size:29
Alignment explanation
Indices: 54055586--54055641 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
54055576 CGGTCGTCCC
* *
54055586 TTTATAATTTTCATAT-TTTTATATTTTG
1 TTTATAATTATCATATATTTTAGATTTTG
54055614 TTTATAAATTATCATATATTTTAGATTT
1 TTTAT-AATTATCATATATTTTAGATTT
54055642 ATTATAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 10 0.42
30 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTATAATTATCATATATTTTAGATTTTG
Found at i:54056678 original size:54 final size:54
Alignment explanation
Indices: 54056620--54056738 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
54056610 TCCTCACCCG
* * ** * *
54056620 TGTAACCCACTGAGTTGCC-CTACACGCCCGTGTGTCAGGCCGTGTGCTAGGCCA
1 TGTAACTCACTGAGTTGCCACT-CACGCCAGTGTACCACGCCATGTGCTAGGCCA
* *
54056674 TGTAACTCTCTGAGTTGCCACTCACGCTAGTGTACCACGCCATGTGCTAGGCCA
1 TGTAACTCACTGAGTTGCCACTCACGCCAGTGTACCACGCCATGTGCTAGGCCA
54056728 TGTAACTCACT
1 TGTAACTCACT
54056739 AACTTGAACC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 53 0.96
55 2 0.04
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.25
Consensus pattern (54 bp):
TGTAACTCACTGAGTTGCCACTCACGCCAGTGTACCACGCCATGTGCTAGGCCA
Found at i:54059611 original size:569 final size:569
Alignment explanation
Indices: 54058533--54059670 Score: 2213
Period size: 569 Copynumber: 2.0 Consensus size: 569
54058523 ATATATTATT
54058533 TCATAGATTTTATGTTTGACTAGTATAATTTGTACACATTTTATGATTTTTTTTAAAACCATATA
1 TCATAGATTTTATGTTTGACTAGTATAATTTGTACACATTTTATGATTTTTTTTAAAACCATATA
54058598 TGTGTATATTTTTAACTTTAAAAAATTTTATACAATAATATTTCATAATTCTAATTCTATTTTAT
66 TGTGTATATTTTTAACTTTAAAAAATTTTATACAATAATATTTCATAATTCTAATTCTATTTTAT
54058663 ATGTGTATATACAATTTATACTAAAATTTTTTACGTATGTATATAATATACCACTAATTTCAAAT
131 ATGTGTATATACAATTTATACTAAAATTTTTTACGTATGTATATAATATACCACTAATTTCAAAT
54058728 TGTAAATTTTTACTTATTTTCTCTATATAAATATTTTATTATTATTTTACTTATTTCAACCTCTT
196 TGTAAATTTTTACTTATTTTCTCTATATAAATATTTTATTATTATTTTACTTATTTCAACCTCTT
*
54058793 TTACATATATTGTTATTTAAATACGTATATTAAATATTTCATTTCATATATTCCTTATTTAATTT
261 TTACATATATTGTTATATAAATACGTATATTAAATATTTCATTTCATATATTCCTTATTTAATTT
54058858 AAAACATATACTAATTTTGTGATTTATTCATTTTATTTATTTATTTTTATTTCCTTCTTATAATT
326 AAAACATATACTAATTTTGTGATTTATTCATTTTATTTATTTATTTTTATTTCCTTCTTATAATT
*
54058923 CTTTCTTTAGAATTCATTTAAACATTTTTATTCATTTTTTATTACAAAATTATTTCAAATCTTCG
391 CTTTCTTTAGAATTCATTTAAACATTTTTATTCATTTTTTATTACAAAATTATTTCAAATCTTCA
* *
54058988 TAAATTATCCTTTTTTTAAAATGTACAATTTTGTGTAAATACTTTGCTAAATTCAAATTTCTTTT
456 TAAATTACCCTTTTTTTAAAAGGTACAATTTTGTGTAAATACTTTGCTAAATTCAAATTTCTTTT
* *
54059053 CTCACTTGTTTTCTCTTTTTAAATTAGTTACATTGCACCTTCCTTTTAA
521 CTCACTTCTTTTCTCTTTTTAAATTAGTTACATTGCAACTTCCTTTTAA
54059102 TCATAGATTTTATGTTTGACTAGTATAATTTGTACACATTTTATGATTTTTTTTAAAACCATATA
1 TCATAGATTTTATGTTTGACTAGTATAATTTGTACACATTTTATGATTTTTTTTAAAACCATATA
54059167 TGTGTATATTTTTAACTTTAAAAAATTTTATACAATAATATTTCATAATTCTAATTCTATTTTAT
66 TGTGTATATTTTTAACTTTAAAAAATTTTATACAATAATATTTCATAATTCTAATTCTATTTTAT
54059232 ATGTGTATATACAATTTATACTAAAATTTTTTACGTATGTATATAATATACCACTAATTTCAAAT
131 ATGTGTATATACAATTTATACTAAAATTTTTTACGTATGTATATAATATACCACTAATTTCAAAT
54059297 TGTAAATTTTTACTTATTTTCTCTATATAAATATTTTATTATTATTTTACTTATTTCAACCTCTT
196 TGTAAATTTTTACTTATTTTCTCTATATAAATATTTTATTATTATTTTACTTATTTCAACCTCTT
54059362 TTACATATATTGTTATATAAATACGTATATTAAATATTTCATTTCATATATTCCTTATTTAATTT
261 TTACATATATTGTTATATAAATACGTATATTAAATATTTCATTTCATATATTCCTTATTTAATTT
54059427 AAAACATATACTAATTTTGTGATTTATTCATTTTATTTATTTATTTTTATTTCCTTCTTATAATT
326 AAAACATATACTAATTTTGTGATTTATTCATTTTATTTATTTATTTTTATTTCCTTCTTATAATT
54059492 CTTTCTTTAGAATTCATTTAAACATTTTTATTCATTTTTTATTACAAAATTATTTCAAATCTTCA
391 CTTTCTTTAGAATTCATTTAAACATTTTTATTCATTTTTTATTACAAAATTATTTCAAATCTTCA
*
54059557 TAAATTACCCTTTTTTTAAAAGGTACAATTTTGTTTAAATACTTTGCTAAATTCAAATTTCTTTT
456 TAAATTACCCTTTTTTTAAAAGGTACAATTTTGTGTAAATACTTTGCTAAATTCAAATTTCTTTT
54059622 CTCACTTCTTTTCTCTTTTTAAATTAGTTACATTGCAACTTCCTTTTAA
521 CTCACTTCTTTTCTCTTTTTAAATTAGTTACATTGCAACTTCCTTTTAA
54059671 ATTAATAACT
Statistics
Matches: 562, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
569 562 1.00
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (569 bp):
TCATAGATTTTATGTTTGACTAGTATAATTTGTACACATTTTATGATTTTTTTTAAAACCATATA
TGTGTATATTTTTAACTTTAAAAAATTTTATACAATAATATTTCATAATTCTAATTCTATTTTAT
ATGTGTATATACAATTTATACTAAAATTTTTTACGTATGTATATAATATACCACTAATTTCAAAT
TGTAAATTTTTACTTATTTTCTCTATATAAATATTTTATTATTATTTTACTTATTTCAACCTCTT
TTACATATATTGTTATATAAATACGTATATTAAATATTTCATTTCATATATTCCTTATTTAATTT
AAAACATATACTAATTTTGTGATTTATTCATTTTATTTATTTATTTTTATTTCCTTCTTATAATT
CTTTCTTTAGAATTCATTTAAACATTTTTATTCATTTTTTATTACAAAATTATTTCAAATCTTCA
TAAATTACCCTTTTTTTAAAAGGTACAATTTTGTGTAAATACTTTGCTAAATTCAAATTTCTTTT
CTCACTTCTTTTCTCTTTTTAAATTAGTTACATTGCAACTTCCTTTTAA
Found at i:54060114 original size:129 final size:129
Alignment explanation
Indices: 54059900--54060139 Score: 480
Period size: 129 Copynumber: 1.9 Consensus size: 129
54059890 AGGATTCTCG
54059900 AGAGAATTGTGCCCTAACTTACTGGGCCTCAATTTCTCCGATGAATTTAGATAGCCGAGTATCTC
1 AGAGAATTGTGCCCTAACTTACTGGGCCTCAATTTCTCCGATGAATTTAGATAGCCGAGTATCTC
54059965 TTTTGTAATAAAACCTATGATTTCCAAATAAGCTCATTTTTGGGAACGCTATTCATGATTCTAA
66 TTTTGTAATAAAACCTATGATTTCCAAATAAGCTCATTTTTGGGAACGCTATTCATGATTCTAA
54060029 AGAGAATTGTGCCCTAACTTACTGGGCCTCAATTTCTCCGATGAATTTAGATAGCCGAGTATCTC
1 AGAGAATTGTGCCCTAACTTACTGGGCCTCAATTTCTCCGATGAATTTAGATAGCCGAGTATCTC
54060094 TTTTGTAATAAAACCTATGATTTCCAAATAAGCTCATTTTTGGGAA
66 TTTTGTAATAAAACCTATGATTTCCAAATAAGCTCATTTTTGGGAA
54060140 TTCGATAGAT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 111 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (129 bp):
AGAGAATTGTGCCCTAACTTACTGGGCCTCAATTTCTCCGATGAATTTAGATAGCCGAGTATCTC
TTTTGTAATAAAACCTATGATTTCCAAATAAGCTCATTTTTGGGAACGCTATTCATGATTCTAA
Found at i:54065732 original size:50 final size:50
Alignment explanation
Indices: 54065651--54066533 Score: 293
Period size: 50 Copynumber: 17.7 Consensus size: 50
54065641 GCAACGAAAC
* ** *
54065651 AGATTAAAGCCACAATGGTGAATCTTGCTTCCCTGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
* * * * * * ** **
54065701 AGATTGAAGCCACAACGACGAGTCTTACTTCCCTGGCAATGCAATGGAGT
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
* ** * *
54065751 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
* * * ** * *** *
54065801 AGATTAAAGCTACAAC-AGCGAATCTTACTTCTC-AAGCGGTGCAGCGGAAC
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCCTGA-CATTACAGTTAAAA
* ** * * * *
54065851 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTTCATTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
* * * * * ** **
54065901 AGATTAAAGCTACAAC-AGCAAATCTTACTCCCCAGGCGA-TACAGTGGATC
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCCTGAC-ATTACAGTTAAAA
* ** * * *
54065951 AGATTAAAGCCACATCGGTGAATCTTGCTT-CCTCGATATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCT-GACATTACAGTTAAAA
* * * * * * * ** **
54066001 AGATTAAAGCCACAGCGGCGAATCCTACTGCCCTGGCGA-TGCCGTGGAGC
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGAC-ATTACAGTTAAAA
* * ** * * *
54066051 AGATTAAGGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
* * ** * * ** **
54066101 AGATTAAAGCCACAGCGGCGAATCTTACTTCTTTGGCGA-TGCAGTGGAGC
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGAC-ATTACAGTTAAAA
* * ** * **
54066151 AGATTAAAGCCACATC-AGTGAATCTCGCTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCCTGACATTACAGTTAAAA
* * * * * * ** ** *
54066201 AGACTAAAGCTATAACGGCGAATCTTA-TTCCCCAGGCGGTACAGTGGAAC
1 AGATTAAAGCCACAACGACGAATCTTACTT-CCCTGACATTACAGTTAAAA
* ** * * * *
54066251 AGATTAAAGCCACATCGGTGAATATTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
* * * ** **
54066301 AGATTGAAGCCACAAC-AGCGAATCTTAC-TCCTCTGGCGA-TGCAGTGGAGT
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCC-CTGAC-ATTACAGTTAAAA
* * * * * ** *
54066351 AGATTAAAGCCACGATGGCGAACCTTGCTTCCCCAACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
* * * * * * ** *
54066401 ATATTAAAGCTACAAC-AGCGAATCTTACTT-CTTAAGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCCTGA-CATTACAGTTAAAA
* * * * * * *
54066451 AGATTAACGCCATAACGGCGAATCTTGCTTCCCTGATATTGCAGTTAGAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
* *
54066501 AGATTAAAGCTACAAC-AGTGAATCTTACTTCCC
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCC
54066534 AGGCAGTGTA
Statistics
Matches: 575, Mismatches: 229, Indels: 58
0.67 0.27 0.07
Matches are distributed among these distances:
49 15 0.03
50 544 0.95
51 16 0.03
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACGACGAATCTTACTTCCCTGACATTACAGTTAAAA
Found at i:54065771 original size:100 final size:100
Alignment explanation
Indices: 54065648--54066589 Score: 1092
Period size: 100 Copynumber: 9.4 Consensus size: 100
54065638 AATGCAACGA
* * * *
54065648 AACAGATTAAAGCCACAAT-GGTGAATCTTGCTTCCCTGACATTACAGTTAAAAAGATTGAAGCC
1 AACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* * *
54065712 ACAAC-GACGAGTCTTACTTCCCTGGCAATGCAATGG
65 ACAACAG-CGAATCTTACTTCCCTGGCGATGCAGTGG
** *
54065748 AGTAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTA
1 AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTA
* ** * *
54065813 CAACAGCGAATCTTACTTCTCAAGCGGTGCAGCGG
66 CAACAGCGAATCTTACTTCCCTGGCGATGCAGTGG
* *
54065848 AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTTCATTTAAAAAGATTAAAGCTA
1 AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTA
* * * *
54065913 CAACAGCAAATCTTACTCCCCAGGCGATACAGTGG
66 CAACAGCGAATCTTACTTCCCTGGCGATGCAGTGG
* * * *
54065948 ATCAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGATATTGCAGTTAAAAAGATTAAAGCCA
1 AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTA
* * * * *
54066013 CAGCGGCGAATCCTACTGCCCTGGCGATGCCGTGG
66 CAACAGCGAATCTTACTTCCCTGGCGATGCAGTGG
* * *
54066048 AGCAGATTAAGGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCA
1 AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTA
* * **
54066113 CAGCGGCGAATCTTACTTCTTTGGCGATGCAGTGG
66 CAACAGCGAATCTTACTTCCCTGGCGATGCAGTGG
* * * * *
54066148 AGCAGATTAAAGCCACATCAGTGAATCTCGCTTCCCCGACATTGTAGTTAAAAAGACTAAAGCTA
1 AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTA
* * * * *
54066213 TAACGGCGAATCTTA-TTCCCCAGGCGGTACAGTGG
66 CAACAGCGAATCTTACTT-CCCTGGCGATGCAGTGG
* * *
54066248 AACAGATTAAAGCCACATCGGTGAATATTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCCA
1 AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTA
54066313 CAACAGCGAATCTTAC-TCCTCTGGCGATGCAGTGG
66 CAACAGCGAATCTTACTTCC-CTGGCGATGCAGTGG
** * * * *
54066348 AGTAGATTAAAGCCACGAT-GGCGAACCTTGCTTCCCCAACATTGCAGTTAAAAATATTAAAGCT
1 AACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCT
* *
54066412 ACAACAGCGAATCTTACTT-CTTAAGC-AGTGCAGTGG
65 ACAACAGCGAATCTTACTTCCCT-GGCGA-TGCAGTGG
* * * * * * *
54066448 AACAGATTAACGCCATAACGGCGAATCTTGCTTCCCTGATATTGCAGTTAGAAAGATTAAAGCTA
1 AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTA
* * *
54066513 CAACAGTGAATCTTACTTCCCAGGC-AGTGTAGTGG
66 CAACAGCGAATCTTACTTCCCTGGCGA-TGCAGTGG
* * * *
54066548 AACAGATTGAAGCCACAAT-GGCGAACCTTGCTTCCTCGACAT
1 AACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACAT
54066590 CACCTTGCTT
Statistics
Matches: 722, Mismatches: 108, Indels: 24
0.85 0.13 0.03
Matches are distributed among these distances:
99 9 0.01
100 707 0.98
101 6 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (100 bp):
AACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTA
CAACAGCGAATCTTACTTCCCTGGCGATGCAGTGG
Found at i:54066201 original size:300 final size:299
Alignment explanation
Indices: 54065648--54066589 Score: 1259
Period size: 300 Copynumber: 3.1 Consensus size: 299
54065638 AATGCAACGA
*
54065648 AACAGATTAAAGCCACAATGGTGAATCTTGCTTCC-CTGACATTACAGTTAAAAAGATTGAAGCC
1 AACAGATTAAAGCCACAATGGTGAATCTTGCTTCCTC-GACATTGCAGTTAAAAAGATTGAAGCC
* * * *
54065712 ACAACGACGAGTCTTACTTCCCTGGCAATGCAATGGAGTAGATTAAAGCCACATCGGTGAATCTT
65 ACAACGGCGAATCTTAC-TCCCTGGCGATGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTT
* * *
54065777 GCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTG
129 GCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTTAAGCGATG
* *
54065842 CAGCGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATT-TCATTTAAAAAGATT
194 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGT-AGTTAAAAAGATT
*
54065906 AAAGCTACAACAGCAAATCTTACTCCCCAGGCGATACAGTGG
258 AAAGCTACAACAGCGAATCTTACTCCCCAGGCGATACAGTGG
* * *
54065948 ATCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCTCGATATTGCAGTTAAAAAGATTAAAGCC
1 AACAGATTAAAGCCACAAT-GGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTGAAGCC
* * * * *
54066012 ACAGCGGCGAATCCTACTGCCCTGGCGATGCCGTGGAGCAGATTAAGGCCACATCGGTGAATCTT
65 ACAACGGCGAATCTTACT-CCCTGGCGATGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTT
* * * **
54066077 GCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCGAATCTTACTTCTTTGGCGATG
129 GCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTTAAGCGATG
* * * *
54066142 CAGTGGAGCAGATTAAAGCCACATCAGTGAATCTCGCTTCCCCGACATTGTAGTTAAAAAGACTA
194 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTA
* * * *
54066207 AAGCTATAACGGCGAATCTTATTCCCCAGGCGGTACAGTGG
259 AAGCTACAACAGCGAATCTTACTCCCCAGGCGATACAGTGG
* *
54066248 AACAGATTAAAGCCAC-ATCGGTGAATATTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCC
1 AACAGATTAAAGCCACAAT-GGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTGAAGCC
* * *
54066312 ACAACAGCGAATCTTACTCCTCTGGCGATGCAGTGGAGTAGATTAAAGCCACGAT-GGCGAACCT
65 ACAACGGCGAATCTTACTCC-CTGGCGATGCAGTGGAGTAGATTAAAGCCAC-ATCGGTGAATCT
* *
54066376 TGCTTCCCCAACATTGCAGTTAAAAATATTAAAGCTACAACAGCGAATCTTACTTCTTAAGC-AG
128 TGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTTAAGCGA-
* * * * * * * *
54066440 TGCAGTGGAACAGATTAACGCCATAACGGCGAATCTTGCTTCCCTGATATTGCAGTTAGAAAGAT
192 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGAT
* * **
54066505 TAAAGCTACAACAGTGAATCTTACTTCCCAGGC-AGTGTAGTGG
257 TAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA-TACAGTGG
* * *
54066548 AACAGATTGAAGCCACAATGGCGAACCTTGCTTCCTCGACAT
1 AACAGATTAAAGCCACAATGGTGAATCTTGCTTCCTCGACAT
54066590 CACCTTGCTT
Statistics
Matches: 556, Mismatches: 77, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
299 6 0.01
300 544 0.98
301 6 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (299 bp):
AACAGATTAAAGCCACAATGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTGAAGCCA
CAACGGCGAATCTTACTCCCTGGCGATGCAGTGGAGTAGATTAAAGCCACATCGGTGAATCTTGC
TTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTTAAGCGATGCA
GTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTAAA
GCTACAACAGCGAATCTTACTCCCCAGGCGATACAGTGG
Found at i:54066596 original size:19 final size:19
Alignment explanation
Indices: 54066572--54066611 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
54066562 ACAATGGCGA
54066572 ACCTTGCTTCCTCGACATC
1 ACCTTGCTTCCTCGACATC
54066591 ACCTTGCTTCCTCGACATC
1 ACCTTGCTTCCTCGACATC
54066610 AC
1 AC
54066612 AGTTAAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.42, G:0.10, T:0.30
Consensus pattern (19 bp):
ACCTTGCTTCCTCGACATC
Found at i:54072411 original size:30 final size:30
Alignment explanation
Indices: 54072377--54072451 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
54072367 TACACAGTCT
54072377 GGCCACACGAGCGTGTGAGACACACGGCCC
1 GGCCACACGAGCGTGTGAGACACACGGCCC
* * * * *
54072407 GGCCATACGAGCTTCTGAGGCACACGGCCT
1 GGCCACACGAGCGTGTGAGACACACGGCCC
*
54072437 GACCACAC-AG-GTGTG
1 GGCCACACGAGCGTGTG
54072452 TGATCTCTGC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 3 0.08
29 2 0.06
30 31 0.86
ACGTcount: A:0.23, C:0.33, G:0.32, T:0.12
Consensus pattern (30 bp):
GGCCACACGAGCGTGTGAGACACACGGCCC
Found at i:54085079 original size:24 final size:24
Alignment explanation
Indices: 54085052--54085103 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
54085042 AATACTTAGT
* *
54085052 ATTTATTAGCCTAATATATTTGTC
1 ATTTATTAGCATAAAATATTTGTC
*
54085076 ATTTATTAGCATAAAATATTTGTT
1 ATTTATTAGCATAAAATATTTGTC
54085100 ATTT
1 ATTT
54085104 CTTTCCTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTATTAGCATAAAATATTTGTC
Found at i:54108515 original size:22 final size:22
Alignment explanation
Indices: 54108476--54108596 Score: 116
Period size: 22 Copynumber: 5.5 Consensus size: 22
54108466 CAGAGATAAG
* *
54108476 AACAGTAGGCACCGAAGTGCAA
1 AACAGTAAGCACCAAAGTGCAA
* *
54108498 ATCACTAAGCACCAAAGTGCAA
1 AACAGTAAGCACCAAAGTGCAA
* * *
54108520 AACAGTAGGTACCGAAGTGCAA
1 AACAGTAAGCACCAAAGTGCAA
* * *
54108542 AACGGTAAGCAACAAAGTGCGA
1 AACAGTAAGCACCAAAGTGCAA
* * *
54108564 AACAGTAAGCGCAAAAGCGCAA
1 AACAGTAAGCACCAAAGTGCAA
*
54108586 GACAGTAAGCA
1 AACAGTAAGCA
54108597 TGCTAAATTT
Statistics
Matches: 76, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (22 bp):
AACAGTAAGCACCAAAGTGCAA
Found at i:54108539 original size:44 final size:44
Alignment explanation
Indices: 54108476--54108570 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 44
54108466 CAGAGATAAG
* *
54108476 AACAGTAGGCACCGAAGTGCAAATCACTAAGCACCAAAGTGCAA
1 AACAGTAGGCACCGAAGTGCAAAACACTAAGCAACAAAGTGCAA
* ** *
54108520 AACAGTAGGTACCGAAGTGCAAAACGGTAAGCAACAAAGTGCGA
1 AACAGTAGGCACCGAAGTGCAAAACACTAAGCAACAAAGTGCAA
54108564 AACAGTA
1 AACAGTA
54108571 AGCGCAAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (44 bp):
AACAGTAGGCACCGAAGTGCAAAACACTAAGCAACAAAGTGCAA
Found at i:54109109 original size:19 final size:19
Alignment explanation
Indices: 54109073--54109127 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
54109063 GACTAATATA
54109073 TTCATATATTCTTGTATTT
1 TTCATATATTCTTGTATTT
54109092 TTCACTATATTCTT-TATTT
1 TTCA-TATATTCTTGTATTT
* *
54109111 ATCAATATTTTCTTGTA
1 TTC-ATATATTCTTGTA
54109128 AATTTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.24, C:0.13, G:0.04, T:0.60
Consensus pattern (19 bp):
TTCATATATTCTTGTATTT
Found at i:54124536 original size:11 final size:11
Alignment explanation
Indices: 54124478--54124536 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
54124468 CCTTCCTTAT
54124478 ATATTAACTAAA
1 ATATTAA-TAAA
54124490 A-ATTAATAAA
1 ATATTAATAAA
*
54124500 ATATAAAT-AA
1 ATATTAATAAA
54124510 AT-TTCAAGTCAAA
1 ATATT-AA-T-AAA
54124523 ATATTAATAAA
1 ATATTAATAAA
54124534 ATA
1 ATA
54124537 ATATTTATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
9 1 0.03
10 11 0.28
11 17 0.44
12 2 0.05
13 6 0.15
14 2 0.05
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (11 bp):
ATATTAATAAA
Found at i:54129511 original size:25 final size:25
Alignment explanation
Indices: 54129483--54129563 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
54129473 TGTTCTCACA
*
54129483 AGCTGTAAATTGGTAAGCTCATC-TG
1 AGCTG-AAATTGGTAAGCTCATCAAG
*
54129508 AGCTGAGAATCGGTAAGCTC-TCAAG
1 AGCTGA-AATTGGTAAGCTCATCAAG
* *
54129533 AGCTACAAATTGGTAAGCTCAT-AAA
1 AGCT-GAAATTGGTAAGCTCATCAAG
54129558 AGCTGA
1 AGCTGA
54129564 GAATCGATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 4 0.09
25 40 0.87
26 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (25 bp):
AGCTGAAATTGGTAAGCTCATCAAG
Found at i:54141941 original size:13 final size:13
Alignment explanation
Indices: 54141923--54141981 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
54141913 GACCATTAAG
*
54141923 TTTATTTTTTTCT
1 TTTATTTTTTTAT
54141936 TTTATTTTCTTTTAT
1 TTTA-TTT-TTTTAT
54141951 TGTTA-TTTTTTAT
1 T-TTATTTTTTTAT
*
54141964 TTT-TTATTTTAT
1 TTTATTTTTTTAT
54141976 GTTTAT
1 -TTTAT
54141982 ATTTATTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
12 9 0.24
13 14 0.37
14 6 0.16
15 6 0.16
16 3 0.08
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:54141965 original size:7 final size:7
Alignment explanation
Indices: 54141923--54141973 Score: 52
Period size: 7 Copynumber: 7.1 Consensus size: 7
54141913 GACCATTAAG
54141923 TTTATTT
1 TTTATTT
*
54141930 TTT-TCT
1 TTTATTT
54141936 TTTATTT
1 TTTATTT
54141943 TCTT-TTAT
1 T-TTATT-T
54141951 TGTTATTT
1 T-TTATTT
54141959 TTTATTT
1 TTTATTT
54141966 TTTATTT
1 TTTATTT
54141973 T
1 T
54141974 ATGTTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
6 5 0.14
7 22 0.59
8 8 0.22
9 2 0.05
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:54141981 original size:25 final size:24
Alignment explanation
Indices: 54141940--54141990 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
54141930 TTTTCTTTTA
* *
54141940 TTTTCTTTTATTGTTATTTTTTATT
1 TTTTATTTTATTGTTA-TATTTATT
54141965 TTTTATTTTA-TGTTTATATTTATT
1 TTTTATTTTATTG-TTATATTTATT
54141989 TT
1 TT
54141991 CTAAGACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (24 bp):
TTTTATTTTATTGTTATATTTATT
Found at i:54142967 original size:12 final size:13
Alignment explanation
Indices: 54142950--54142979 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
54142940 TCATGTTCAA
54142950 AAAAAAAG-AAAG
1 AAAAAAAGAAAAG
54142962 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
54142975 AAAAA
1 AAAAA
54142980 TATATCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:54146270 original size:25 final size:25
Alignment explanation
Indices: 54146213--54146271 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
54146203 ACATGTATGT
* * *
54146213 TCATACGAGCTATGAATCGATATGC
1 TCATACGAGCTATAAATCAATAAGC
54146238 TC-TCACGAGCTATAAATCAATAAGC
1 TCAT-ACGAGCTATAAATCAATAAGC
54146263 TCATACGAG
1 TCATACGAG
54146272 TTGAGAATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (25 bp):
TCATACGAGCTATAAATCAATAAGC
Found at i:54146334 original size:25 final size:25
Alignment explanation
Indices: 54146258--54146335 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
54146248 TATAAATCAA
54146258 TAAGCTCATACGAGTTGAGAATCGG
1 TAAGCTCATACGAGTTGAGAATCGG
** * *
54146283 TAAGCTCGCAAGAGTTGCA-AATTGG
1 TAAGCTCATACGAGTTG-AGAATCGG
* *
54146308 TAAGCTCATACGAGCTGAGAGTCGG
1 TAAGCTCATACGAGTTGAGAATCGG
54146333 TAA
1 TAA
54146336 CCCTAATGAC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (25 bp):
TAAGCTCATACGAGTTGAGAATCGG
Found at i:54154440 original size:48 final size:48
Alignment explanation
Indices: 54154369--54154463 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
54154359 GGGGGGAGTT
* * *
54154369 TAGTGATAAATTTGGCACAAAGAATCTACCAATGCAATGAACCATGAA
1 TAGTGATAAATTTGGAACAAAGAACCTACCAATACAATGAACCATGAA
*
54154417 TAGTGATAAATTTGGAACAAAGAACCTGCCAATACAATGAACCATGA
1 TAGTGATAAATTTGGAACAAAGAACCTACCAATACAATGAACCATGA
54154464 GTTTTCTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (48 bp):
TAGTGATAAATTTGGAACAAAGAACCTACCAATACAATGAACCATGAA
Found at i:54155770 original size:50 final size:50
Alignment explanation
Indices: 54155695--54155887 Score: 305
Period size: 50 Copynumber: 3.8 Consensus size: 50
54155685 ATTTGGGTAA
54155695 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
54155745 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * *
54155795 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
54155845 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
54155888 TGTTATTATC
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 97 0.74
51 34 0.26
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:54163508 original size:9 final size:9
Alignment explanation
Indices: 54163494--54163529 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
54163484 AAAATTATAA
54163494 TTATAATTT
1 TTATAATTT
54163503 TTATAA--T
1 TTATAATTT
54163510 TTAT-ATTT
1 TTATAATTT
54163518 TTATAATTT
1 TTATAATTT
54163527 TTA
1 TTA
54163530 AAAAGTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
6 1 0.04
7 5 0.21
8 5 0.21
9 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTATAATTT
Found at i:54163508 original size:15 final size:15
Alignment explanation
Indices: 54163488--54163526 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
54163478 TGTTGTAAAA
54163488 TTATAA-TTATAATTT
1 TTATAATTTAT-ATTT
54163503 TTATAATTTATATTT
1 TTATAATTTATATTT
54163518 TTATAATTT
1 TTATAATTT
54163527 TTAAAAAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATAATTTATATTT
Found at i:54164842 original size:19 final size:20
Alignment explanation
Indices: 54164818--54164856 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
54164808 GATTTTCGAA
*
54164818 GATATGTAATCTTA-AATAT
1 GATATGTAATATTAGAATAT
54164837 GATATGTAATATTAGAATAT
1 GATATGTAATATTAGAATAT
54164857 ATGATTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
GATATGTAATATTAGAATAT
Found at i:54164861 original size:22 final size:22
Alignment explanation
Indices: 54164818--54164888 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
54164808 GATTTTCGAA
54164818 GATATGTAATCTT--AA-ATAT
1 GATATGTAATCTTAGAATATAT
*
54164837 GATATGTAATATTAGAATATAT
1 GATATGTAATCTTAGAATATAT
* *
54164859 GATTTTGTAATCTTAG-ATATTT
1 GA-TATGTAATCTTAGAATATAT
*
54164881 GATTTGTA
1 GATATGTA
54164889 GATAGCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 12 0.27
21 8 0.18
22 13 0.30
23 11 0.25
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (22 bp):
GATATGTAATCTTAGAATATAT
Found at i:54167571 original size:50 final size:50
Alignment explanation
Indices: 54167450--54167640 Score: 285
Period size: 50 Copynumber: 3.8 Consensus size: 50
54167440 GATCATAACA
* * ** *
54167450 TGCCAAAGCCATGTCCCAGACGTGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTA-TCATCTCGG
* *
54167501 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCATCTCGG
54167551 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCA-CATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-ATCATCTCGG
*
54167601 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
54167641 CTTTACCCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 93 0.72
51 36 0.28
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTATCATCTCGG
Found at i:54169474 original size:24 final size:25
Alignment explanation
Indices: 54169447--54169496 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
54169437 ATATCAGGTA
* *
54169447 GCTCTGAAGAGTAC-TTAACAAGAG
1 GCTCCGAAGAGCACTTTAACAAGAG
*
54169471 GCTCCGAAGAGCACTTTAACAGGAG
1 GCTCCGAAGAGCACTTTAACAAGAG
54169496 G
1 G
54169497 TTCACAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (25 bp):
GCTCCGAAGAGCACTTTAACAAGAG
Found at i:54171843 original size:20 final size:19
Alignment explanation
Indices: 54171805--54171843 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54171795 AATTTTAAAA
**
54171805 TATTTTTAAAATACTTTTT
1 TATTTTTAAAATAAATTTT
*
54171824 TATTTTTAAAATAAAATTT
1 TATTTTTAAAATAAATTTT
54171843 T
1 T
54171844 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTAAAATAAATTTT
Found at i:54172398 original size:12 final size:12
Alignment explanation
Indices: 54172381--54172421 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
54172371 TATATAAAAG
54172381 ATTAATAAATAA
1 ATTAATAAATAA
*
54172393 ATTAATATATAAA
1 ATTAATAAAT-AA
*
54172406 AGTAATAAATAA
1 ATTAATAAATAA
54172418 ATTA
1 ATTA
54172422 TGAGGGGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
ATTAATAAATAA
Found at i:54172400 original size:25 final size:25
Alignment explanation
Indices: 54172370--54172421 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
54172360 AAACTAACAC
54172370 ATATATAAAAGATTAATAAATAAATTA
1 ATATATAAAAG--TAATAAATAAATTA
54172397 ATATATAAAAGTAATAAATAAATTA
1 ATATATAAAAGTAATAAATAAATTA
54172422 TGAGGGGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 14 0.56
27 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
ATATATAAAAGTAATAAATAAATTA
Found at i:54172465 original size:19 final size:19
Alignment explanation
Indices: 54172441--54172479 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
54172431 AAAAGTTAAT
54172441 AACAAATTTGATTACAGTG
1 AACAAATTTGATTACAGTG
*
54172460 AACAAATTTGATTACGGTG
1 AACAAATTTGATTACAGTG
54172479 A
1 A
54172480 GTGACAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (19 bp):
AACAAATTTGATTACAGTG
Found at i:54172841 original size:5 final size:5
Alignment explanation
Indices: 54172773--54172837 Score: 94
Period size: 5 Copynumber: 13.0 Consensus size: 5
54172763 TCATCCCAGC
*
54172773 CTATT CTATT CTATT CTATT CTATT CTATT CTATT CTATT CTATT ATATT
1 CTATT CTATT CTATT CTATT CTATT CTATT CTATT CTATT CTATT CTATT
* * *
54172823 ATATT ATATT ATATT
1 CTATT CTATT CTATT
54172838 ATATCAGTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 59 1.00
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (5 bp):
CTATT
Found at i:54177007 original size:71 final size:71
Alignment explanation
Indices: 54176891--54177027 Score: 238
Period size: 71 Copynumber: 1.9 Consensus size: 71
54176881 TTTGTGACGA
54176891 GCTCTCTTAGCACCATAAAAAATTTTCATGGTTTCATCCCTATTTAGGGCGTTTTCATATGGAGT
1 GCTCTCTTAGCACCATAAAAAATTTTCATGGTTTCATCCCTATTTAGGGCGTTTTCATATGGAGT
54176956 AATGAT
66 AATGAT
* * * *
54176962 GCTCTCTTAGCACCATAGAAATTTTTTATGGTTTCATCCCTATTTAGGGTGTTTTCATATGGAGT
1 GCTCTCTTAGCACCATAAAAAATTTTCATGGTTTCATCCCTATTTAGGGCGTTTTCATATGGAGT
54177027 A
66 A
54177028 GTGAAAGTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (71 bp):
GCTCTCTTAGCACCATAAAAAATTTTCATGGTTTCATCCCTATTTAGGGCGTTTTCATATGGAGT
AATGAT
Found at i:54178672 original size:12 final size:12
Alignment explanation
Indices: 54178655--54178679 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54178645 TATCCATAAG
54178655 TAGCTTATTGAT
1 TAGCTTATTGAT
54178667 TAGCTTATTGAT
1 TAGCTTATTGAT
54178679 T
1 T
54178680 TGGTGGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TAGCTTATTGAT
Done.