Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 64 of 130
Found at i:13425232 original size:41 final size:41
Alignment explanation
Indices: 13425187--13425461 Score: 319
Period size: 41 Copynumber: 6.8 Consensus size: 41
13425177 TATTTGCATG
13425187 ATTGCATGATTATATATTTAATTGCATGTTTTATATT-TTCA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTT-A
* * *
13425228 ATTGCTTTATTATATATTTATTTGCATGTTTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
** * * *
13425269 ACCGCATGA-TA-ATATATATTTGCATGTTTTATATT-TCTG
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGT-TA
*
13425308 ATTGCTTGATTATATATTTAATTGCAT-TATTTATATAT-TTA
1 ATTGCATGATTATATATTTAATTGCATGT-TTTATAT-TGTTA
* * *
13425349 ATTGCATGATCATATATTTAATTGCATGTTTTACATTATTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
* * *
13425390 ATTGCATGATTAGATATTTAATGGCATGTTTTACATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
* *
13425431 ATTGCTTGATAATATATTTAATTGCATGTTT
1 ATTGCATGATTATATATTTAATTGCATGTTT
13425462 ATTTACATGA
Statistics
Matches: 200, Mismatches: 26, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
38 1 0.00
39 30 0.15
40 6 0.03
41 158 0.79
42 5 0.03
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (41 bp):
ATTGCATGATTATATATTTAATTGCATGTTTTATATTGTTA
Found at i:13425529 original size:32 final size:32
Alignment explanation
Indices: 13425440--13425542 Score: 98
Period size: 32 Copynumber: 3.1 Consensus size: 32
13425430 AATTGCTTGA
* *
13425440 TAATATATTTAATTGCATGTTTATTTACATGATTAT
1 TAATATATTTATTTGCATG---ATTT-TATGATTAT
* ***
13425476 TAATTTATTTATTTATGTGATTTTATGATTAT
1 TAATATATTTATTTGCATGATTTTATGATTAT
*
13425508 TAATATATTTATTTGCATGATTATTATTATTAT
1 TAATATATTTATTTGCATGATT-TTATGATTAT
13425541 TA
1 TA
13425543 CATGATTTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
32 26 0.47
33 15 0.27
36 14 0.25
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (32 bp):
TAATATATTTATTTGCATGATTTTATGATTAT
Found at i:13425535 original size:19 final size:20
Alignment explanation
Indices: 13425510--13425576 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 20
13425500 ATGATTATTA
13425510 ATATATTTATTTGCATGATT
1 ATATATTTATTTGCATGATT
*
13425530 AT-TA-TTATTATTACATGATT
1 ATATATTTA-T-TTGCATGATT
*
13425550 TTATATTTA-TTGCATGA-T
1 ATATATTTATTTGCATGATT
13425568 ATGATATTT
1 AT-ATATTT
13425577 TATTAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
18 5 0.13
19 16 0.42
20 12 0.32
21 2 0.05
22 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.55
Consensus pattern (20 bp):
ATATATTTATTTGCATGATT
Found at i:13429295 original size:23 final size:20
Alignment explanation
Indices: 13429264--13429319 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 20
13429254 TATATATCAC
13429264 AAAATTATTTTTTTAATATTT
1 AAAATTATTTTTTT-ATATTT
*
13429285 AAAACTGTATTCTTTTATATTTT
1 AAAA-T-TATTTTTTTATA-TTT
13429308 AAAATTATTTTT
1 AAAATTATTTTT
13429320 GTGATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 10 0.33
22 5 0.17
23 15 0.50
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (20 bp):
AAAATTATTTTTTTATATTT
Found at i:13429326 original size:22 final size:20
Alignment explanation
Indices: 13429264--13429329 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 20
13429254 TATATATCAC
13429264 AAAATTATTTTTT-TAATATTT
1 AAAATTATTTTTTAT-AT-TTT
13429285 AAAACTGTATTCTTTTATATTTT
1 AAAA-T-TATT-TTTTATATTTT
13429308 AAAATTATTTTTGTGATATTTT
1 AAAATTATTTTT-T-ATATTTT
13429330 TTACTTTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.08
21 9 0.23
22 9 0.23
23 11 0.28
24 6 0.15
25 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (20 bp):
AAAATTATTTTTTATATTTT
Found at i:13432822 original size:784 final size:784
Alignment explanation
Indices: 13431316--13432889 Score: 3094
Period size: 784 Copynumber: 2.0 Consensus size: 784
13431306 CCTTTAATAT
13431316 TCCACACAATTAATTTTTGGGATGATTATTGAAGGTGATTTTGGTTTAAAATGCCTTCAAAATTT
1 TCCACACAATTAATTTTTGGGATGATTATTGAAGGTGATTTTGGTTTAAAATGCCTTCAAAATTT
13431381 TCTATTAGGGATAATTCAAGGCATTTTCTTGCTAATAATGCCTTCATTAATCTCATAAAAAAAAA
66 TCTATTAGGGATAATTCAAGGCATTTTCTTGCTAATAATGCCTTCATTAATCTCATAAAAAAAAA
13431446 CATATTTGATATTGTATATGTCAAGTCAGTTGTACGTTTATGCCCAAAAAACGTTTGCTGTTAGT
131 CATATTTGATATTGTATATGTCAAGTCAGTTGTACGTTTATGCCCAAAAAACGTTTGCTGTTAGT
*
13431511 TGTATATTAATGCACAGAAAAACATTTGATTTTTATATGTGATACTATGAATTACATTTTGAAAT
196 TGTATATTAATGCACAGAAAAACATTTGATTTTTATATGTGATACTACGAATTACATTTTGAAAT
13431576 TTACATAATGAACATTATTGTATTTCAATAAATTGACCACACATCCGAAATTAAAACTAATAACG
261 TTACATAATGAACATTATTGTATTTCAATAAATTGACCACACATCCGAAATTAAAACTAATAACG
*
13431641 TTGCCATATTAATATACCTTTTTGAAATAATCGTACTTAATAATTTATTAAGTACATATAGTGTA
326 TTGCCATATTAATATACCTTTTTGAAATAATCGTACTCAATAATTTATTAAGTACATATAGTGTA
13431706 TTCATATTAAGTATAACAATAAAATTAAACAAATACCCCAATGTACAAACTTAAAGTTTCCATTC
391 TTCATATTAAGTATAACAATAAAATTAAACAAATACCCCAATGTACAAACTTAAAGTTTCCATTC
13431771 AACACGACATATTCAAAACATTATAACAATTTATTCCTTATATATTTACATTCAACCAATAACGT
456 AACACGACATATTCAAAACATTATAACAATTTATTCCTTATATATTTACATTCAACCAATAACGT
13431836 CTAACTTGAAGGTTTATCAACATTGATAAATGATAATACATAATCACACCATTCTTTATGGATTT
521 CTAACTTGAAGGTTTATCAACATTGATAAATGATAATACATAATCACACCATTCTTTATGGATTT
13431901 CATCCAGTTCCTCTTTTATAAAGCTTTCTTTACTCTCTCATTAAAAAAAATCAGAAGTAAATGCT
586 CATCCAGTTCCTCTTTTATAAAGCTTTCTTTACTCTCTCATTAAAAAAAATCAGAAGTAAATGCT
13431966 AAGAAATGAGAACATAATGTACCTTTTTTATTTTTTTGAAAATATAACAAGTTTATGAAATTTAT
651 AAGAAATGAGAACATAATGTACCTTTTTTATTTTTTTGAAAATATAACAAGTTTATGAAATTTAT
13432031 ACTAACCTTGAATGGTGTGGTTATAAAATCATGTAACACTATCTCCTGCATAAAACAAACAATAT
716 ACTAACCTTGAATGGTGTGGTTATAAAATCATGTAACACTATCTCCTGCATAAAACAAACAATAT
13432096 AGTA
781 AGTA
13432100 TCCACACAATTAATTTTTGGGATGATTATTGAAGGTGATTTTGGTTTAAAATGCCTTCAAAATTT
1 TCCACACAATTAATTTTTGGGATGATTATTGAAGGTGATTTTGGTTTAAAATGCCTTCAAAATTT
13432165 TCTATTAGGGATAATTCAAGGCATTTTCTTGCTAATAATGCCTTCATTAATCTCATAAAAAAAAA
66 TCTATTAGGGATAATTCAAGGCATTTTCTTGCTAATAATGCCTTCATTAATCTCATAAAAAAAAA
*
13432230 CATATTTGATATTGTATATGTCAAGTCAGTTGTACGTTTATGCCCAGAAAACGTTTGCTGTTAGT
131 CATATTTGATATTGTATATGTCAAGTCAGTTGTACGTTTATGCCCAAAAAACGTTTGCTGTTAGT
13432295 TGTATATTAATGCACAGAAAAACATTTGATTTTTATATGTGATACTACGAATTACATTTTGAAAT
196 TGTATATTAATGCACAGAAAAACATTTGATTTTTATATGTGATACTACGAATTACATTTTGAAAT
13432360 TTACATAATGAACATTATTGTATTTCAATAAATTGACCACACATCCGAAATTAAAACTAATAACG
261 TTACATAATGAACATTATTGTATTTCAATAAATTGACCACACATCCGAAATTAAAACTAATAACG
* *
13432425 TTGCCATATTAATATACTTTTTTGAAATATTCGTACTCAATAATTTATTAAGTACATATAGTGTA
326 TTGCCATATTAATATACCTTTTTGAAATAATCGTACTCAATAATTTATTAAGTACATATAGTGTA
13432490 TTCATATTAAGTATAACAATAAAATTAAACAAATACCCCAATGTACAAACTTAAAGTTTCCATTC
391 TTCATATTAAGTATAACAATAAAATTAAACAAATACCCCAATGTACAAACTTAAAGTTTCCATTC
13432555 AACACGACATATTCAAAACATTATAACAATTTATTCCTTATATATTTACATTCAACCAATAACGT
456 AACACGACATATTCAAAACATTATAACAATTTATTCCTTATATATTTACATTCAACCAATAACGT
13432620 CTAACTTGAAGGTTTATCAACATTGATAAATGATAATACATAATCACACCATTCTTTATGGATTT
521 CTAACTTGAAGGTTTATCAACATTGATAAATGATAATACATAATCACACCATTCTTTATGGATTT
13432685 CATCCAGTTCCTCTTTTATAAAGCTTTCTTTACTCTCTCATTAAAAAAAATCAGAAGTAAATGCT
586 CATCCAGTTCCTCTTTTATAAAGCTTTCTTTACTCTCTCATTAAAAAAAATCAGAAGTAAATGCT
13432750 AAGAAATGAGAACATAATGTACCTTTTTTATTTTTTTGAAAATATAACAAGTTTATGAAATTTAT
651 AAGAAATGAGAACATAATGTACCTTTTTTATTTTTTTGAAAATATAACAAGTTTATGAAATTTAT
*
13432815 ACTAACCTTGAATGGTGTGGTTATAAAATCATGTAACACTATCTCCTGCATAAAACAAAGAATAT
716 ACTAACCTTGAATGGTGTGGTTATAAAATCATGTAACACTATCTCCTGCATAAAACAAACAATAT
13432880 AGTA
781 AGTA
13432884 TCCACA
1 TCCACA
13432890 TTCAGTATTA
Statistics
Matches: 784, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
784 784 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (784 bp):
TCCACACAATTAATTTTTGGGATGATTATTGAAGGTGATTTTGGTTTAAAATGCCTTCAAAATTT
TCTATTAGGGATAATTCAAGGCATTTTCTTGCTAATAATGCCTTCATTAATCTCATAAAAAAAAA
CATATTTGATATTGTATATGTCAAGTCAGTTGTACGTTTATGCCCAAAAAACGTTTGCTGTTAGT
TGTATATTAATGCACAGAAAAACATTTGATTTTTATATGTGATACTACGAATTACATTTTGAAAT
TTACATAATGAACATTATTGTATTTCAATAAATTGACCACACATCCGAAATTAAAACTAATAACG
TTGCCATATTAATATACCTTTTTGAAATAATCGTACTCAATAATTTATTAAGTACATATAGTGTA
TTCATATTAAGTATAACAATAAAATTAAACAAATACCCCAATGTACAAACTTAAAGTTTCCATTC
AACACGACATATTCAAAACATTATAACAATTTATTCCTTATATATTTACATTCAACCAATAACGT
CTAACTTGAAGGTTTATCAACATTGATAAATGATAATACATAATCACACCATTCTTTATGGATTT
CATCCAGTTCCTCTTTTATAAAGCTTTCTTTACTCTCTCATTAAAAAAAATCAGAAGTAAATGCT
AAGAAATGAGAACATAATGTACCTTTTTTATTTTTTTGAAAATATAACAAGTTTATGAAATTTAT
ACTAACCTTGAATGGTGTGGTTATAAAATCATGTAACACTATCTCCTGCATAAAACAAACAATAT
AGTA
Found at i:13435686 original size:80 final size:79
Alignment explanation
Indices: 13435552--13435758 Score: 288
Period size: 80 Copynumber: 2.6 Consensus size: 79
13435542 AAAAACACAA
* * * *
13435552 TTTAGCAAACAATTCAGCATACGATTTAGCCCCCCAATATCATGCAAAATCATTCAGCAAAACAA
1 TTTAGCAAACCATTCAGCATACGATTCAG-CCCCCAATATCATACAAAACCATTCAGCAAAACAA
13435617 TATCAGACAACAAGG
65 TATCAGACAACAAGG
* * **
13435632 TTTAGCAAACCATTCAGCATATGATTCAGCTCCCCAATATCATACAATACCATTCAGCAATGCAA
1 TTTAGCAAACCATTCAGCATACGATTCAGC-CCCCAATATCATACAAAACCATTCAGCAAAACAA
*
13435697 TATCATACAACAAGG
65 TATCAGACAACAAGG
* *
13435712 TTCAGCAAACCATTCAGCATACGATTCAGCCCCCTAATATCAAACAA
1 TTTAGCAAACCATTCAGCATACGATTCAGCCCCC-AATATCATACAA
13435759 CAAGGTTCAG
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 5 0.04
80 108 0.96
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (79 bp):
TTTAGCAAACCATTCAGCATACGATTCAGCCCCCAATATCATACAAAACCATTCAGCAAAACAAT
ATCAGACAACAAGG
Found at i:13435715 original size:28 final size:28
Alignment explanation
Indices: 13435666--13435719 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
13435656 TTCAGCTCCC
* *
13435666 CAATATCATACAATACCATTCAGCAATG
1 CAATATCATACAACAACATTCAGCAATG
**
13435694 CAATATCATACAACAAGGTTCAGCAA
1 CAATATCATACAACAACATTCAGCAA
13435720 ACCATTCAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.22
Consensus pattern (28 bp):
CAATATCATACAACAACATTCAGCAATG
Found at i:13435739 original size:52 final size:52
Alignment explanation
Indices: 13435678--13435776 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
13435668 ATATCATACA
** *
13435678 ATACCATTCAGCAATGC-AATATCATACAACAAGGTTCAGCAAACCATTCAGC
1 ATACCATTCAGC-ACCCTAATATCAAACAACAAGGTTCAGCAAACCATTCAGC
* *
13435730 ATACGATTCAGCCCCCTAATATCAAACAACAAGGTTCAGCAAACCAT
1 ATACCATTCAGCACCCTAATATCAAACAACAAGGTTCAGCAAACCAT
13435777 AATATTTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 40 0.98
ACGTcount: A:0.40, C:0.28, G:0.11, T:0.20
Consensus pattern (52 bp):
ATACCATTCAGCACCCTAATATCAAACAACAAGGTTCAGCAAACCATTCAGC
Found at i:13445919 original size:33 final size:33
Alignment explanation
Indices: 13445882--13445951 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
13445872 ATATAAGACG
*
13445882 TTTTCA-TATACAAACACCT-CTAAAGTAACGGTA
1 TTTTCAGT-TACAAA-ACCTACTAAAGCAACGGTA
**
13445915 TTTTCAGTTACAAATGCTACTAAAGCAACGGTA
1 TTTTCAGTTACAAAACCTACTAAAGCAACGGTA
13445948 TTTT
1 TTTT
13445952 TCTCATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 2 0.06
33 29 0.91
34 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (33 bp):
TTTTCAGTTACAAAACCTACTAAAGCAACGGTA
Found at i:13446077 original size:134 final size:133
Alignment explanation
Indices: 13445823--13446273 Score: 424
Period size: 134 Copynumber: 3.4 Consensus size: 133
13445813 GCGTTTTTAC
* *** * * * * *
13445823 CATAAAAATACCACTAAATTAGCAACGTCTCAAATATA-AAACGCCGCTAATAT-AAGACGTTTT
1 CATAAAAAT-GCACTAAATTAGTGGCGTTTCAAAGATACAAACACCGCTAATATAAAGGCATTTT
* * * * *
13445886 CATATACAAACACCTCTAAAGTAACGGTATTTTCAGTTACAAATGCTACTAAAGCAACGGTATTT
65 CAAATATAAACGCCTCTAAAGTAACGGCATTTTCAGTTACAAACGCTACTAAAGCAACGGTATTT
13445951 TTCT
130 TTCT
*
13445955 CATAAAAATGTCACTAAATTAGTGGCGTTTCAAAGATACAGACACCGCTAATATAAAGGCATTTT
1 CATAAAAATG-CACTAAATTAGTGGCGTTTCAAAGATACAAACACCGCTAATATAAAGGCATTTT
* * * * * *
13446020 CAAATATAAATGCTTCTAAAGTAGCGGCATTTTTAGTTATAAACGCCACTAAAGCAACGGTATTT
65 CAAATATAAACGCCTCTAAAGTAACGGCATTTTCAGTTACAAACGCTACTAAAGCAACGGTATTT
*
13446085 TTTT
130 TTCT
* * * * * ** * *
13446089 CATAAAAATACCACTAAATTAGTTGCATCTCAAAGATACAAATATTGCTAATATAGAGGTATTTT
1 CATAAAAAT-GCACTAAATTAGTGGCGTTTCAAAGATACAAACACCGCTAATATAAAGGCATTTT
* * * * * * * *
13446154 TAGATATAAACGCCTATACAA-TAACGGCGTTTTCAGTTACAAAC-ATACCAAAGCAATGGCATT
65 CAAATATAAACGCCTCTA-AAGTAACGGCATTTTCAGTTACAAACGCTACTAAAGCAACGGTATT
13446217 TTTCT
129 TTTCT
* * * * *
13446222 CATAAAAAACGCAACTAATTTAGCGGCGTTTCAAATATAGAAACACCGCTAA
1 CAT-AAAAATGC-ACTAAATTAGTGGCGTTTCAAAGATACAAACACCGCTAA
13446274 AATGACGGTG
Statistics
Matches: 253, Mismatches: 59, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
132 31 0.12
133 35 0.14
134 185 0.73
135 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (133 bp):
CATAAAAATGCACTAAATTAGTGGCGTTTCAAAGATACAAACACCGCTAATATAAAGGCATTTTC
AAATATAAACGCCTCTAAAGTAACGGCATTTTCAGTTACAAACGCTACTAAAGCAACGGTATTTT
TCT
Found at i:13447433 original size:18 final size:17
Alignment explanation
Indices: 13447400--13447433 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13447390 AACCTTGCCA
*
13447400 ATTTTTAAACTAAAATC
1 ATTTTTAAACAAAAATC
13447417 ATTTTTAAACAACAAAT
1 ATTTTTAAACAA-AAAT
13447434 GGATCTGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTTTTAAACAAAAATC
Found at i:13450565 original size:2 final size:2
Alignment explanation
Indices: 13450547--13450594 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
13450537 CAATGTCTAT
*
13450547 AC AC AT AC AC AC A- AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
13450588 AC AC AC A
1 AC AC AC A
13450595 TATATATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.46, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:13461941 original size:1 final size:1
Alignment explanation
Indices: 13461935--13461965 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
13461925 GACTCAACAG
13461935 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13461966 GCAATATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13462710 original size:10 final size:10
Alignment explanation
Indices: 13462677--13462712 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
13462667 TCCCATACTC
13462677 ATATTT-TAT
1 ATATTTATAT
*
13462686 ATATATATAT
1 ATATTTATAT
13462696 ATATTTATAT
1 ATATTTATAT
13462706 ATATTTA
1 ATATTTA
13462713 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATATTTATAT
Found at i:13463517 original size:15 final size:17
Alignment explanation
Indices: 13463484--13463520 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
13463474 TTAACATTGT
13463484 AATTATTTTATATTATA
1 AATTATTTTATATTATA
*
13463501 AATT-TTTTAT-TTTTA
1 AATTATTTTATATTATA
13463516 AATTA
1 AATTA
13463521 ATATTTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTATTTTATATTATA
Found at i:13465108 original size:21 final size:21
Alignment explanation
Indices: 13465079--13465118 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13465069 AGTTCACACA
* *
13465079 AAAAGAAATCCATCCAACCTT
1 AAAACAAATCCACCCAACCTT
*
13465100 AAAACAAATGCACCCAACC
1 AAAACAAATCCACCCAACC
13465119 AAAACCTGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.33, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAACAAATCCACCCAACCTT
Found at i:13468939 original size:19 final size:20
Alignment explanation
Indices: 13468896--13468938 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13468886 TATTTTTTTT
*
13468896 TTTTATTTTTTTATATATTA
1 TTTTATTTTATTATATATTA
13468916 TTTTAGTTTTATTAT-TATTA
1 TTTTA-TTTTATTATATATTA
13468936 TTT
1 TTT
13468939 ATGCATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTATTTTATTATATATTA
Found at i:13469312 original size:28 final size:29
Alignment explanation
Indices: 13469275--13469344 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
13469265 AAAAAAACCT
*
13469275 CAAACCCTAAAACAAAACCC-CAACCCTC
1 CAAACCCTAAAACAAAACCCTAAACCCTC
* *
13469303 CAAACTCTAAAACAAAACCCTAAATCCTC
1 CAAACCCTAAAACAAAACCCTAAACCCTC
*
13469332 CAAACCCCAAAAC
1 CAAACCCTAAAAC
13469345 CAAATCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.10
Consensus pattern (29 bp):
CAAACCCTAAAACAAAACCCTAAACCCTC
Found at i:13469395 original size:15 final size:14
Alignment explanation
Indices: 13469362--13469406 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
13469352 TTAAATCCCT
* *
13469362 AACCCTTAAATTGA
1 AACCCTAAAATTCA
13469376 AACCCTAAAATCTCA
1 AACCCTAAAAT-TCA
*
13469391 AACCCCAAAATTCA
1 AACCCTAAAATTCA
13469405 AA
1 AA
13469407 AATCTAAGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.20
Consensus pattern (14 bp):
AACCCTAAAATTCA
Found at i:13469467 original size:13 final size:14
Alignment explanation
Indices: 13469449--13469478 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13469439 CATCAAAATC
13469449 CCAAACCC-TAAAA
1 CCAAACCCTTAAAA
13469462 CCAAACCCTTAAAA
1 CCAAACCCTTAAAA
13469476 CCA
1 CCA
13469479 TAGATTCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.50, C:0.40, G:0.00, T:0.10
Consensus pattern (14 bp):
CCAAACCCTTAAAA
Found at i:13469545 original size:15 final size:15
Alignment explanation
Indices: 13469527--13469570 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13469517 CTAAAATTTC
13469527 AAACCCTAAAACCCA
1 AAACCCTAAAACCCA
* **
13469542 AAACCTTAAAATTCA
1 AAACCCTAAAACCCA
*
13469557 AAACTCTAAAACCC
1 AAACCCTAAAACCC
13469571 TAAATAAAAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACCCTAAAACCCA
Found at i:13469569 original size:38 final size:35
Alignment explanation
Indices: 13469429--13469574 Score: 112
Period size: 38 Copynumber: 3.9 Consensus size: 35
13469419 AAACTCCTCT
* **
13469429 AAACCTCAAACATCAAAATCCCAAACCCTAAAACCA
1 AAACCTTAAA-ATCAAAATCTAAAACCCTAAAACCA
* * * *
13469465 AACCCTTAAAACCATAGATTCTCAAAACCCTGAAATCCA
1 AAACCTTAAAATCA-A-AATCT-AAAACCCT-AAAACCA
* * *
13469504 AAACTTTTAAAATCTAAAATTTCAAACCCTAAAACCCA
1 AAAC-CTTAAAATC-AAAATCTAAAACCCTAAAA-CCA
13469542 AAACCTTAAAATTCAAAACTCTAAAACCCTAAA
1 AAACCTTAAAA-TCAAAA-TCTAAAACCCTAAA
13469575 TAAAACCCTA
Statistics
Matches: 84, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
35 3 0.04
36 9 0.11
37 16 0.19
38 35 0.42
39 12 0.14
40 8 0.10
41 1 0.01
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (35 bp):
AAACCTTAAAATCAAAATCTAAAACCCTAAAACCA
Found at i:13469580 original size:12 final size:12
Alignment explanation
Indices: 13469563--13469587 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13469553 TTCAAAACTC
13469563 TAAAACCCTAAA
1 TAAAACCCTAAA
13469575 TAAAACCCTAAA
1 TAAAACCCTAAA
13469587 T
1 T
13469588 TTAGCACACA
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:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAACCCTAAA
Found at i:13473632 original size:41 final size:41
Alignment explanation
Indices: 13473585--13473668 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
13473575 AATATGTAAA
*
13473585 ATCAATCAGTAATTACTAACGAAATTTTGTCAATAAATTCC
1 ATCAATCAGTAATTACTAACGAAATTTTATCAATAAATTCC
13473626 ATCAATCAGTAATTACTAACGAAATTTTATCAATAAATTCC
1 ATCAATCAGTAATTACTAACGAAATTTTATCAATAAATTCC
13473667 AT
1 AT
13473669 GAGTAATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (41 bp):
ATCAATCAGTAATTACTAACGAAATTTTATCAATAAATTCC
Found at i:13473895 original size:22 final size:22
Alignment explanation
Indices: 13473870--13473921 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
13473860 TTCTGTTGAT
*
13473870 AAATCTATCAATATTTCGTCTG
1 AAATCCATCAATATTTCGTCTG
* *
13473892 AAATCCATTAGTATTTCGTCTG
1 AAATCCATCAATATTTCGTCTG
*
13473914 TAATCCAT
1 AAATCCAT
13473922 TGGTATTCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (22 bp):
AAATCCATCAATATTTCGTCTG
Found at i:13473922 original size:22 final size:22
Alignment explanation
Indices: 13473881--13473928 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
13473871 AATCTATCAA
13473881 TATTTCGTCTGAAATCCATTAG
1 TATTTCGTCTGAAATCCATTAG
* *
13473903 TATTTCGTCTGTAATCCATTGG
1 TATTTCGTCTGAAATCCATTAG
13473925 TATT
1 TATT
13473929 CTGTCCCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.46
Consensus pattern (22 bp):
TATTTCGTCTGAAATCCATTAG
Found at i:13478249 original size:15 final size:16
Alignment explanation
Indices: 13478219--13478251 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13478209 TAGTCAATAA
13478219 TTATTGATAAAAAATTT
1 TTATTGAT-AAAAATTT
13478236 TTATTGAT-AAAATTT
1 TTATTGATAAAAATTT
13478251 T
1 T
13478252 GTCAATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TTATTGATAAAAATTT
Found at i:13480142 original size:176 final size:177
Alignment explanation
Indices: 13479847--13480215 Score: 697
Period size: 176 Copynumber: 2.1 Consensus size: 177
13479837 AGAGTTAGGA
13479847 AAGAGAAAAGAAAAGGTTTTAAGTTGTTTTACTGGTGGAAAACAGGGGGCACAATCTTGGCCAAA
1 AAGAGAAAAGAAAAGGTTTTAAGTTGTTTTACTGGTGGAAAACAGGGGGCACAATCTTGGCCAAA
*
13479912 ACAGAAGAAGGTTTTACTTGGATTTCTAGACAGTGCTGAACGGCGGCGACAGTAGCAGCGATGTC
66 ACAGAAGAAGGTTTTACTTGGATTTCTAGACAGTGCTGAACGGCGGCGACAGTAGCACCGATGTC
13479977 TCGCCAAGGTTTAGGTTGCTATTGGGTTTGATTCGGGGAATAGAAGC
131 TCGCCAAGGTTTAGGTTGCTATTGGGTTTGATTCGGGGAATAGAAGC
*
13480024 AAGAGAAAAGAAAAGGTTTTACGTTGTTTTACTGGTGGAAAACA-GGGGCACAATCTTGGCCAAA
1 AAGAGAAAAGAAAAGGTTTTAAGTTGTTTTACTGGTGGAAAACAGGGGGCACAATCTTGGCCAAA
13480088 ACAGAAGAAGGTTTTACTTGGATTTCTAGACAGTGCTGAACGGCGGCGACAGTAGCACCGATGTC
66 ACAGAAGAAGGTTTTACTTGGATTTCTAGACAGTGCTGAACGGCGGCGACAGTAGCACCGATGTC
13480153 TCGCCAAGGTTTAGGTTGCTATTGGGTTTGATTCGGGGAATAGAAGC
131 TCGCCAAGGTTTAGGTTGCTATTGGGTTTGATTCGGGGAATAGAAGC
13480200 AAGAGAATAA-AAAAGG
1 AAGAGAA-AAGAAAAGG
13480216 CTTTGTTTTT
Statistics
Matches: 189, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
176 144 0.76
177 45 0.24
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (177 bp):
AAGAGAAAAGAAAAGGTTTTAAGTTGTTTTACTGGTGGAAAACAGGGGGCACAATCTTGGCCAAA
ACAGAAGAAGGTTTTACTTGGATTTCTAGACAGTGCTGAACGGCGGCGACAGTAGCACCGATGTC
TCGCCAAGGTTTAGGTTGCTATTGGGTTTGATTCGGGGAATAGAAGC
Found at i:13480466 original size:17 final size:16
Alignment explanation
Indices: 13480444--13480478 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
13480434 GGTATTTTAG
13480444 TTGATTTTTTTATTATT
1 TTGATTTTTTTATT-TT
13480461 TTGATTTTTTTATTTT
1 TTGATTTTTTTATTTT
13480477 TT
1 TT
13480479 AAGTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (16 bp):
TTGATTTTTTTATTTT
Found at i:13480498 original size:14 final size:15
Alignment explanation
Indices: 13480469--13480501 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13480459 TTTTGATTTT
13480469 TTTATTTTTTAAGTAA
1 TTTATTTTTT-AGTAA
13480485 TTTATTTTTT-GTAA
1 TTTATTTTTTAGTAA
13480499 TTT
1 TTT
13480502 TTAAAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTATTTTTTAGTAA
Found at i:13486412 original size:23 final size:23
Alignment explanation
Indices: 13486347--13486417 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
13486337 TTTAGATGTA
*
13486347 AATTTCTAAAATTTTTCAAAT-ATG
1 AATTTTTAAAATTTTT-AAATGA-G
* *
13486371 AA-TTTTCAAA-TTTTGAATGAG
1 AATTTTTAAAATTTTTAAATGAG
13486392 AATTTTTAAAATTTTTAAATGAG
1 AATTTTTAAAATTTTTAAATGAG
13486415 AAT
1 AAT
13486418 CTTTGAATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 6 0.15
22 12 0.31
23 19 0.49
24 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.45
Consensus pattern (23 bp):
AATTTTTAAAATTTTTAAATGAG
Found at i:13486760 original size:43 final size:42
Alignment explanation
Indices: 13486583--13486825 Score: 140
Period size: 42 Copynumber: 5.7 Consensus size: 42
13486573 TAAAAATCCC
* * * *
13486583 TTTTATATTTTTCAAAGTTGTTAAGCTCTGAT-AAGATGAACT
1 TTTTATATTTTTCAAAATTATTGAGCTTTGATGAA-ATGAACT
* * * * *
13486625 TTTTAAAATTTTCAAAGTTATTGAGTCTCTT-ATGAGA-GAAGT
1 TTTTATATTTTTCAAAATTATTGAG-CT-TTGATGAAATGAACT
* * * * * *
13486667 TTTTAAAATTTTT-AAAGTTGTAGAACATTTAATGAGAAGTG--CT
1 TTTT-ATATTTTTCAAAATTATTGAGC-TTTGATGA-AA-TGAACT
* *
13486710 TGTTATATTTTTCAAAACTATTGAGCTTCTGATGAAA-GAAACT
1 TTTTATATTTTTCAAAATTATTGAGCTT-TGATGAAATG-AACT
* * * *
13486753 TTTTATATTTTTCAAAATTTGTTAAACCTTTGATGAAATGAGCT
1 TTTTATATTTTTCAAAA-TTATT-GAGCTTTGATGAAATGAACT
*
13486797 TTTTATATTTTTCAAAGTTATTGAGCTTT
1 TTTTATATTTTTCAAAATTATTGAGCTTT
13486826 TGTCCATTGG
Statistics
Matches: 153, Mismatches: 31, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 59 0.39
43 52 0.34
44 32 0.21
45 6 0.04
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (42 bp):
TTTTATATTTTTCAAAATTATTGAGCTTTGATGAAATGAACT
Found at i:13486956 original size:22 final size:23
Alignment explanation
Indices: 13486899--13487013 Score: 84
Period size: 22 Copynumber: 5.2 Consensus size: 23
13486889 TCTTTGATAA
* * *
13486899 GAATATCTAAATTTTTCAAATGA
1 GAATCTCTAAAATTTTCAAATGT
*
13486922 GAATCAT-T-GAATTTT-AAATGT
1 GAATC-TCTAAAATTTTCAAATGT
*
13486943 GAATCTCTAAAATTTTTCAAATTT
1 GAATCTCTAAAA-TTTTCAAATGT
*
13486967 GAA-CT-TAGAAATTTT-AGATGT
1 GAATCTCTA-AAATTTTCAAATGT
13486988 GAATC-CT-AAATTTGTCAAATGT
1 GAATCTCTAAAATTT-TCAAATGT
13487010 GAAT
1 GAAT
13487014 ATTTGAACCT
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
20 7 0.10
21 19 0.26
22 24 0.33
23 14 0.19
24 9 0.12
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (23 bp):
GAATCTCTAAAATTTTCAAATGT
Found at i:13487163 original size:21 final size:23
Alignment explanation
Indices: 13487137--13487193 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
13487127 TTAAGACTTT
13487137 TTGAATGTGAATCTTT-GAA-TC
1 TTGAATGTGAATCTTTAGAACTC
*
13487158 TTGAATGTGAATTTTTAGAACTC
1 TTGAATGTGAATCTTTAGAACTC
*
13487181 TTCAAATGTGAAT
1 TT-GAATGTGAAT
13487194 TTATAAGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 15 0.48
22 3 0.10
23 4 0.13
24 9 0.29
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (23 bp):
TTGAATGTGAATCTTTAGAACTC
Found at i:13487325 original size:24 final size:24
Alignment explanation
Indices: 13487276--13487321 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13487266 GAATTTTAGA
**
13487276 TGTGAATCTCTAAAACTTTTTCAG
1 TGTGAATCTCTAAAACTTTTAAAG
*
13487300 TGTGAATCTCTAGAA-TTTTAAA
1 TGTGAATCTCTAAAACTTTTAAA
13487322 AGTGAACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (24 bp):
TGTGAATCTCTAAAACTTTTAAAG
Found at i:13487438 original size:22 final size:22
Alignment explanation
Indices: 13487411--13487513 Score: 72
Period size: 21 Copynumber: 4.5 Consensus size: 22
13487401 TTTCAATCAC
13487411 GAATCTTTAAAATTTTGAATGT
1 GAATCTTTAAAATTTTGAATGT
*
13487433 GAATCTTTAACAAAAAATTTTCGAATGC
1 GAATCTTT-----AAAATTTT-GAATGT
* *
13487461 AAATCTTT-AAATTTTGGATGT
1 GAATCTTTAAAATTTTGAATGT
13487482 GAA-C-TTAGAAATTTTG-ATGT
1 GAATCTTTA-AAATTTTGAATGT
13487502 GAAT-TTCTAAAA
1 GAATCTT-TAAAA
13487514 ATTATTTGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 23
0.70 0.05 0.25
Matches are distributed among these distances:
19 2 0.03
20 8 0.12
21 18 0.28
22 17 0.26
27 8 0.12
28 12 0.18
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.40
Consensus pattern (22 bp):
GAATCTTTAAAATTTTGAATGT
Found at i:13487672 original size:19 final size:19
Alignment explanation
Indices: 13487628--13487689 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
13487618 TCTTGAGTCT
13487628 TTTTTTG-AAA-CTTTGAAA
1 TTTTTTGCAAATC-TTGAAA
**
13487646 TTCGTTGCAAATCTTGAAA
1 TTTTTTGCAAATCTTGAAA
*
13487665 TTTTTTGCAAACTTTTGAATA
1 TTTTTTGCAAA-TCTTGAA-A
13487686 TTTT
1 TTTT
13487690 GTGAATCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.14
19 18 0.51
20 7 0.20
21 5 0.14
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.50
Consensus pattern (19 bp):
TTTTTTGCAAATCTTGAAA
Found at i:13487701 original size:19 final size:18
Alignment explanation
Indices: 13487678--13487741 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 18
13487668 TTTGCAAACT
13487678 TTTGAATATTTTGTGAATC
1 TTTGAAT-TTTTGTGAATC
*
13487697 CTTGAATTTGTTGTGAATC
1 TTTGAATTT-TTGTGAATC
*
13487716 TTTGAATTTTTTGAGAATC
1 TTTGAA-TTTTTGTGAATC
13487735 TTTGAAT
1 TTTGAAT
13487742 CTTACAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 3 0.08
19 34 0.85
20 3 0.08
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.52
Consensus pattern (18 bp):
TTTGAATTTTTGTGAATC
Found at i:13487705 original size:38 final size:38
Alignment explanation
Indices: 13487633--13487741 Score: 93
Period size: 38 Copynumber: 2.8 Consensus size: 38
13487623 AGTCTTTTTT
13487633 TGAAACTTTGAA-ATTCGTTGCA-AAT-CTTGAAATTT-TT-
1 TGAAACTTTGAATATT--TTG-AGAATCCTTG-AATTTGTTG
*
13487670 TGCAAACTTTTGAATATTTTGTGAATCCTTGAATTTGTTG
1 TG-AAAC-TTTGAATATTTTGAGAATCCTTGAATTTGTTG
* * *
13487710 TGAATCTTTGAATTTTTTGAGAATCTTTGAAT
1 TGAAACTTTGAATATTTTGAGAATCCTTGAAT
13487742 CTTACAAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
37 2 0.03
38 38 0.63
39 15 0.25
40 5 0.08
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (38 bp):
TGAAACTTTGAATATTTTGAGAATCCTTGAATTTGTTG
Found at i:13488088 original size:28 final size:28
Alignment explanation
Indices: 13488039--13488108 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
13488029 TCTGGTGAGG
* *
13488039 TATCTTCTTTTGCTGTCTTTTTTTTATT
1 TATCTTCTTTTGCTATCATTTTTTTATT
* *
13488067 TATCTTCTTTTGTTATCATTTTTTTGTT
1 TATCTTCTTTTGCTATCATTTTTTTATT
*
13488095 TATCTTTTTTTGCT
1 TATCTTCTTTTGCT
13488109 GTTTTTCCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.09, C:0.13, G:0.07, T:0.71
Consensus pattern (28 bp):
TATCTTCTTTTGCTATCATTTTTTTATT
Found at i:13488106 original size:14 final size:14
Alignment explanation
Indices: 13488057--13488106 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
13488047 TTTGCTGTCT
*
13488057 TTTTTTTATTTATC
1 TTTTTTTGTTTATC
*
13488071 TTCTTTTG-TTATC
1 TTTTTTTGTTTATC
13488084 ATTTTTTTGTTTATC
1 -TTTTTTTGTTTATC
13488099 TTTTTTTG
1 TTTTTTTG
13488107 CTGTTTTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 5 0.16
14 21 0.68
15 5 0.16
ACGTcount: A:0.10, C:0.08, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTTTTTGTTTATC
Found at i:13488352 original size:5 final size:5
Alignment explanation
Indices: 13488342--13488367 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13488332 CAATTCATGA
13488342 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
13488368 TTTGCCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:13491807 original size:203 final size:203
Alignment explanation
Indices: 13491446--13491826 Score: 653
Period size: 203 Copynumber: 1.9 Consensus size: 203
13491436 ATAGTTTGGT
13491446 AATAATTTAAGGTAATTTTTTCACCTTGAGAGTATTCATAGAGACTAATGTCTCATTCTGAAGAG
1 AATAATTTAAGGTAATTTTTTCACCTTGAGAGTATTCATAGAGACTAATGTCTCATTCTGAAGAG
13491511 ATTCTGTCATCGAATTTATTAACATATTTTTATTCAAAAAAATTAGTAAAATCTCCTAATAGTTT
66 ATTCTGTCATCGAATTTATTAACATATTTTTATTCAAAAAAATTAGTAAAATCTCCTAATAGTTT
13491576 GGTATGACTTAAAAATAATCCTCCAATAGTTTAGAA-GATAAAAATTATGAAAAATCGATTTATG
131 GGTATGACTTAAAAATAATCCTCCAATAGTTTA-AAGGATAAAAATTATGAAAAATCGATTTATG
13491640 AAACTTCCC
195 AAACTTCCC
* * * *
13491649 AATAGTTTAAGGTCATTTTTTCACCTTGGGAGTATTCATAGAGACTAGTGT-TCCATTCTGAAGA
1 AATAATTTAAGGTAATTTTTTCACCTTGAGAGTATTCATAGAGACTAATGTCT-CATTCTGAAGA
*
13491713 -AGTTCTGTCATCGAATTTATTAACATATTTTTATTCAAAAAAAATTAGTAAAATCTCTTAATAG
65 GA-TTCTGTCATCGAATTTATTAACATATTTTTATTC-AAAAAAATTAGTAAAATCTCCTAATAG
13491777 TTTGGTATGACTTAAAAATAATCC-CCAATAGTTTAAAGGATAAAAATTAT
128 TTTGGTATGACTTAAAAATAATCCTCCAATAGTTTAAAGGATAAAAATTAT
13491827 TTTTTTATTT
Statistics
Matches: 169, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
202 4 0.02
203 115 0.68
204 50 0.30
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (203 bp):
AATAATTTAAGGTAATTTTTTCACCTTGAGAGTATTCATAGAGACTAATGTCTCATTCTGAAGAG
ATTCTGTCATCGAATTTATTAACATATTTTTATTCAAAAAAATTAGTAAAATCTCCTAATAGTTT
GGTATGACTTAAAAATAATCCTCCAATAGTTTAAAGGATAAAAATTATGAAAAATCGATTTATGA
AACTTCCC
Found at i:13492167 original size:14 final size:13
Alignment explanation
Indices: 13492148--13492281 Score: 60
Period size: 14 Copynumber: 9.6 Consensus size: 13
13492138 TTATTTTCAG
13492148 AAATAAAATAACAA
1 AAATAAAATAA-AA
**
13492162 AAATAAAATTTCTTAA
1 AAATAAAA--T-AAAA
13492178 AAATAAAACTAAAA
1 AAATAAAA-TAAAA
13492192 AAAT--AATAAAA
1 AAATAAAATAAAA
13492203 AAATAAAACTAAAA
1 AAATAAAA-TAAAA
**
13492217 TGAGTTAAGAAATAAAATA
1 --AAAT-A-AAAT-AAA-A
* *
13492236 AAATCAAATCAAA
1 AAATAAAATAAAA
*
13492249 AAATAAAA-ATAA
1 AAATAAAATAAAA
13492261 AAATAAAATGAAAA
1 AAATAAAAT-AAAA
13492275 AAA-AAAA
1 AAATAAAA
13492282 CCTGTGATCG
Statistics
Matches: 91, Mismatches: 15, Indels: 29
0.67 0.11 0.21
Matches are distributed among these distances:
11 9 0.10
12 12 0.13
13 14 0.15
14 27 0.30
15 5 0.05
16 13 0.14
17 4 0.04
18 6 0.07
19 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.19
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:13492264 original size:47 final size:47
Alignment explanation
Indices: 13492149--13492262 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
13492139 TATTTTCAGA
* * ***
13492149 AATAAAATAACAAAAATAAAATTTCTTAAAAATAAAACTAAAAAAAT
1 AATAAAAAAATAAAAATAAAATGAGTTAAAAATAAAACTAAAAAAAT
* **
13492196 AATAAAAAAATAAAACTAAAATGAGTTAAGAAATAAAA-TAAAATCA-
1 AATAAAAAAATAAAAATAAAATGAGTTAA-AAATAAAACTAAAAAAAT
*
13492242 AATCAAAAAATAAAAATAAAA
1 AATAAAAAAATAAAAATAAAA
13492263 ATAAAATGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
46 19 0.34
47 29 0.52
48 8 0.14
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (47 bp):
AATAAAAAAATAAAAATAAAATGAGTTAAAAATAAAACTAAAAAAAT
Found at i:13493136 original size:3 final size:3
Alignment explanation
Indices: 13493130--13493211 Score: 96
Period size: 3 Copynumber: 27.3 Consensus size: 3
13493120 AAAAAATGTA
*
13493130 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
13493178 AAT GCAAT -AT AAT AAA AAT -AC AAT AAT ATT AAT A
1 AAT --AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13493212 TGATATAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
2 3 0.04
3 61 0.91
5 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13495094 original size:26 final size:24
Alignment explanation
Indices: 13495045--13495095 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
13495035 TTATATGTTG
**
13495045 TTATATAGATATTTTTAATTATTT
1 TTATATAGATATTTTTAAAAATTT
13495069 TTATATAGATATTTTAATAAAAATTT
1 TTATATAGATATTTT--TAAAAATTT
13495095 T
1 T
13495096 GACAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 15 0.65
26 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTATATAGATATTTTTAAAAATTT
Found at i:13495199 original size:22 final size:22
Alignment explanation
Indices: 13495158--13495199 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13495148 ATTTTTAATA
* *
13495158 ATATTTTTTTTACATATTATTG
1 ATATTTTTATTAAATATTATTG
*
13495180 ATATTTTTATTAAATTTTAT
1 ATATTTTTATTAAATATTAT
13495200 CAATTTATCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
ATATTTTTATTAAATATTATTG
Found at i:13496063 original size:14 final size:14
Alignment explanation
Indices: 13496044--13496073 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13496034 TTCTTTCCTT
13496044 TTTTTTTTTTAATA
1 TTTTTTTTTTAATA
*
13496058 TTTTTTTTTTATTA
1 TTTTTTTTTTAATA
13496072 TT
1 TT
13496074 ATTATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTTAATA
Found at i:13498970 original size:35 final size:35
Alignment explanation
Indices: 13498924--13498996 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
13498914 TTGGAGTTTG
*
13498924 AAATATCTAAGCTTATGCTTGAATTTAGTACGAAA
1 AAATATCTAAGCTTATGCTTGAATTTAATACGAAA
13498959 AAATATCTAAGCTTATGCTTGAATTTAATACGAAA
1 AAATATCTAAGCTTATGCTTGAATTTAATACGAAA
13498994 AAA
1 AAA
13498997 AATCATACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (35 bp):
AAATATCTAAGCTTATGCTTGAATTTAATACGAAA
Found at i:13504827 original size:29 final size:31
Alignment explanation
Indices: 13504794--13504859 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
13504784 TTTAATGATA
*
13504794 TTTTA-AGT-AAATTT-TTATATATTATTAAT
1 TTTTATAGTAAAATTTATTATATATTA-AAAT
* *
13504823 TTTTATATTAAAATTTATTATTTATTAAAAT
1 TTTTATAGTAAAATTTATTATATATTAAAAT
13504854 TTTTAT
1 TTTTAT
13504860 TAAATCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 5 0.16
30 2 0.06
31 15 0.48
32 9 0.29
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (31 bp):
TTTTATAGTAAAATTTATTATATATTAAAAT
Found at i:13504848 original size:17 final size:16
Alignment explanation
Indices: 13504802--13504860 Score: 68
Period size: 17 Copynumber: 3.7 Consensus size: 16
13504792 TATTTTAAGT
*
13504802 AAATTTTTATATATTA
1 AAATTTTTATTTATTA
*
13504818 TTAATTTTTA--TATTA
1 -AAATTTTTATTTATTA
13504833 AAATTTATTATTTATTA
1 AAATTT-TTATTTATTA
13504850 AAATTTTTATT
1 AAATTTTTATT
13504861 AAATCAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 5 0.14
17 19 0.51
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AAATTTTTATTTATTA
Found at i:13504860 original size:29 final size:29
Alignment explanation
Indices: 13504807--13504863 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
13504797 TAAGTAAATT
*
13504807 TTTATATATTATTAATTTTTATATTAAAA
1 TTTATATATTATTAAATTTTATATTAAAA
13504836 TTTAT-TATTTATTAAAATTTT-TATTAAA
1 TTTATATA-TTATT-AAATTTTATATTAAA
13504864 TCAATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 17 0.68
30 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTATATATTATTAAATTTTATATTAAAA
Found at i:13506076 original size:15 final size:15
Alignment explanation
Indices: 13506054--13506086 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
13506044 TAATTTAATA
13506054 TTTTTTATAATT-AT
1 TTTTTTATAATTCAT
13506068 TTTTATTATAATTCAT
1 TTTT-TTATAATTCAT
13506084 TTT
1 TTT
13506087 ACCATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTATAATTCAT
Found at i:13515235 original size:2 final size:2
Alignment explanation
Indices: 13515230--13515287 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
13515220 ATATCTATGT
13515230 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13515272 AG AG AG AG AG -G AG AG A
1 AG AG AG AG AG AG AG AG A
13515288 TCCACATACA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13515466 original size:4 final size:4
Alignment explanation
Indices: 13515448--13515530 Score: 62
Period size: 4 Copynumber: 21.0 Consensus size: 4
13515438 GATCCCTTTC
* * * * * *
13515448 ATAT ATCT ATCT ATAT ATAG ATAT ATAT ATAT ATCT ATAT ATAG ATAG
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
13515496 ATAT ATAG ATAG AT-T GATAT -TAT ATAG ATAT ATAT
1 ATAT ATAT ATAT ATAT -ATAT ATAT ATAT ATAT ATAT
13515531 CCCTCCTCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
3 3 0.05
4 60 0.94
5 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:13515482 original size:24 final size:24
Alignment explanation
Indices: 13515448--13515502 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
13515438 GATCCCTTTC
* *
13515448 ATATATCTATCTATATATAGATAT
1 ATATATATATCTATATATAGATAG
13515472 ATATATATATCTATATATAGATAG
1 ATATATATATCTATATATAGATAG
13515496 ATATATA
1 ATATATA
13515503 GATAGATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (24 bp):
ATATATATATCTATATATAGATAG
Found at i:13521834 original size:3 final size:3
Alignment explanation
Indices: 13521828--13521853 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13521818 TTTTTGGTGT
13521828 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
13521854 TCATAATTGG
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:13530588 original size:20 final size:21
Alignment explanation
Indices: 13530528--13530588 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 21
13530518 TATTTATATA
*
13530528 TATTTAATAA-ATAAAATT-T
1 TATTAAATAATATAAAATTAT
13530547 TATTAAATAATAT-AAATTAT
1 TATTAAATAATATAAAATTAT
13530567 TATTTTAAATTAAT-TAAAATTA
1 TA--TTAAA-TAATATAAAATTA
13530589 ATATATTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 14 0.40
20 5 0.14
22 6 0.17
23 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTAAATAATATAAAATTAT
Found at i:13531959 original size:43 final size:43
Alignment explanation
Indices: 13531894--13531979 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
13531884 TCCTGATAAT
*
13531894 TCAAGTGTGACTAGGTCGGTCATTTGGTTTAGCTGAGATGCTA
1 TCAAGTGTGACTAGGTCAGTCATTTGGTTTAGCTGAGATGCTA
*
13531937 TCAAGTGTGACTAGGTTAGTCATTTGGTTTAGCTGAGATGCTA
1 TCAAGTGTGACTAGGTCAGTCATTTGGTTTAGCTGAGATGCTA
13531980 CTGGTGTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (43 bp):
TCAAGTGTGACTAGGTCAGTCATTTGGTTTAGCTGAGATGCTA
Found at i:13533422 original size:43 final size:43
Alignment explanation
Indices: 13533361--13533447 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
13533351 GATTGAGGCA
13533361 AGGGGAGAGAAAGGAAAGGAATGGAAAGGAAACAAAAGCAAAT
1 AGGGGAGAGAAAGGAAAGGAATGGAAAGGAAACAAAAGCAAAT
* *
13533404 AGGGGAGAGAAAGGAAAGGAATGGAAAGTAAACAAAAGGAAAT
1 AGGGGAGAGAAAGGAAAGGAATGGAAAGGAAACAAAAGCAAAT
13533447 A
1 A
13533448 AGGAATCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.56, C:0.03, G:0.34, T:0.06
Consensus pattern (43 bp):
AGGGGAGAGAAAGGAAAGGAATGGAAAGGAAACAAAAGCAAAT
Found at i:13540120 original size:16 final size:16
Alignment explanation
Indices: 13540099--13540129 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13540089 TTGATCATTT
13540099 TTTTATTTTAATTAAA
1 TTTTATTTTAATTAAA
*
13540115 TTTTATTTTATTTAA
1 TTTTATTTTAATTAA
13540130 TAGAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTTTAATTAAA
Found at i:13548720 original size:20 final size:21
Alignment explanation
Indices: 13548682--13548721 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13548672 TTCCATCATT
*
13548682 TTTTATTTTAATTAGTTTTTA
1 TTTTATTTTAATAAGTTTTTA
*
13548703 TTTTA-TTTAATAATTTTTT
1 TTTTATTTTAATAAGTTTTT
13548722 GGTTAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTTTAATAAGTTTTTA
Found at i:13548743 original size:16 final size:16
Alignment explanation
Indices: 13548681--13548743 Score: 65
Period size: 16 Copynumber: 4.0 Consensus size: 16
13548671 TTTCCATCAT
* *
13548681 TTTTTATTTTAATTAG
1 TTTTTATTTTATTTAA
13548697 TTTTTATTTTATTTAA
1 TTTTTATTTTATTTAA
** **
13548713 TAATT-TTTTGGTTAA
1 TTTTTATTTTATTTAA
13548728 TTTTTATTTTATTTAA
1 TTTTTATTTTATTTAA
13548744 CAGAAAAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
15 11 0.31
16 25 0.69
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTTTATTTTATTTAA
Found at i:13551763 original size:2 final size:2
Alignment explanation
Indices: 13551758--13551795 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
13551748 TGTGTGTATG
* *
13551758 TA TA TA TA TA TA TA TA TA CA TA TA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13551796 GGAAACCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:13551771 original size:10 final size:10
Alignment explanation
Indices: 13551758--13551795 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
13551748 TGTGTGTATG
*
13551758 TATATATATA
1 TATATATACA
13551768 TATATATACA
1 TATATATACA
13551778 TATATATACA
1 TATATATACA
13551788 TATATATA
1 TATATATA
13551796 GGAAACCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (10 bp):
TATATATACA
Found at i:13553772 original size:17 final size:17
Alignment explanation
Indices: 13553750--13553783 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13553740 AAAAGTAATG
13553750 ATTTTAATTATAAAAAT
1 ATTTTAATTATAAAAAT
* *
13553767 ATTTTATTTTTAAAAAT
1 ATTTTAATTATAAAAAT
13553784 TAAAATTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATTATAAAAAT
Found at i:13556104 original size:13 final size:13
Alignment explanation
Indices: 13556086--13556110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13556076 AATAAGATAT
13556086 ATAATAAATATAA
1 ATAATAAATATAA
13556099 ATAATAAATATA
1 ATAATAAATATA
13556111 TAAAGCCCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAAATATAA
Found at i:13557407 original size:2 final size:2
Alignment explanation
Indices: 13557400--13557427 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13557390 TTACATCAAG
13557400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13557428 GGAAATGGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13557926 original size:19 final size:19
Alignment explanation
Indices: 13557904--13557940 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13557894 TTTTTTTAAG
13557904 TTTTAATCTA-TATTTGATC
1 TTTTAAT-TATTATTTGATC
13557923 TTTTAATTATTATTTGAT
1 TTTTAATTATTATTTGAT
13557941 TAAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTAATTATTATTTGATC
Found at i:13564379 original size:139 final size:138
Alignment explanation
Indices: 13564107--13564384 Score: 430
Period size: 139 Copynumber: 2.0 Consensus size: 138
13564097 CCTTCTGTAG
** * * * **
13564107 AACAAAATTGTGAGGTCAGGGTACTAGAGCGGACAATATCTCACAAGGGTGTGAACCGTGATGGT
1 AACAAAACCGTGAGGTCAGGGGACTAGAGCGGACAATACCTCACAAGGGTATGAACCGTGACAGT
* * * *
13564172 TAGGTTGATCTAGGACGTCGGATGAGTGGATGCCCGGGTCCCAGAGCCGTGCGGGTTCGGAGCTT
66 TAGGCTGATCTAAGACGTCGGATGAATGGATGCCCGGGTCCCAGAGCCGCGCGGGTTCGGAGCTT
13564237 AAGTCTCA
131 AAGTCTCA
*
13564245 AACAAAACCGTGAGGTCAGGGGGACTAGAGCGGACAATACCTCACAAGGGTATGAATCGTGACAG
1 AACAAAACCGTGAGGTCA-GGGGACTAGAGCGGACAATACCTCACAAGGGTATGAACCGTGACAG
*
13564310 TTAGGCTGATCTAAGACGTCGGATGAATGGATGCCCGGGTCCCATAGCCGCGCGGGTTCGGAGCT
65 TTAGGCTGATCTAAGACGTCGGATGAATGGATGCCCGGGTCCCAGAGCCGCGCGGGTTCGGAGCT
13564375 TAAGTCTCA
130 TAAGTCTCA
13564384 A
1 A
13564385 CCCGTGACAA
Statistics
Matches: 126, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
138 16 0.13
139 110 0.87
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (138 bp):
AACAAAACCGTGAGGTCAGGGGACTAGAGCGGACAATACCTCACAAGGGTATGAACCGTGACAGT
TAGGCTGATCTAAGACGTCGGATGAATGGATGCCCGGGTCCCAGAGCCGCGCGGGTTCGGAGCTT
AAGTCTCA
Found at i:13566728 original size:18 final size:18
Alignment explanation
Indices: 13566702--13566738 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13566692 ACAATATCAT
13566702 AATTATATTGTAATTTTA
1 AATTATATTGTAATTTTA
* *
13566720 AATTTTATTTTAATTTTA
1 AATTATATTGTAATTTTA
13566738 A
1 A
13566739 TATCATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
AATTATATTGTAATTTTA
Found at i:13570385 original size:11 final size:11
Alignment explanation
Indices: 13570373--13570429 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
13570363 GTTTTATATC
*
13570373 AAATAATTATC
1 AAATAATTATT
*
13570384 AATTAACTTATT
1 AAATAA-TTATT
13570396 AAATAATTATAT
1 AAATAATTAT-T
*
13570408 AAATTAATTTTT
1 AAA-TAATTATT
13570420 AAATAATTAT
1 AAATAATTAT
13570430 GACAAATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 15 0.39
12 17 0.45
13 6 0.16
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (11 bp):
AAATAATTATT
Found at i:13570426 original size:24 final size:25
Alignment explanation
Indices: 13570373--13570443 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
13570363 GTTTTATATC
*
13570373 AAATAATTAT--C-AATTAACTTATT
1 AAATAATTATGACAAATTAA-TTTTT
*
13570396 AAATAATTAT-ATAAATTAATTTTT
1 AAATAATTATGACAAATTAATTTTT
13570420 AAATAATTATGACAAATTAATTTT
1 AAATAATTATGACAAATTAATTTT
13570444 AAAAACTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 10 0.24
24 14 0.33
25 18 0.43
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (25 bp):
AAATAATTATGACAAATTAATTTTT
Found at i:13570444 original size:24 final size:24
Alignment explanation
Indices: 13570373--13570446 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 24
13570363 GTTTTATATC
13570373 AAATAATTAT-C-AATTAACTTATT
1 AAATAATTATACAAATTAACTT-TT
* *
13570396 AAATAATTATATAAATTAATTTTT
1 AAATAATTATACAAATTAACTTTT
13570420 AAATAATTATGACAAATTAA-TTTT
1 AAATAATTAT-ACAAATTAACTTTT
13570444 AAA
1 AAA
13570447 AACTTTAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
23 10 0.22
24 19 0.42
25 16 0.36
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (24 bp):
AAATAATTATACAAATTAACTTTT
Found at i:13570472 original size:16 final size:15
Alignment explanation
Indices: 13570453--13570499 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
13570443 TAAAAACTTT
13570453 AAATTAGAAAAAATAA
1 AAATTA-AAAAAATAA
13570469 AAATTAAATAACAA-AA
1 AAATTAAA-AA-AATAA
*
13570485 AAATTAAATAAATAA
1 AAATTAAAAAAATAA
13570500 TGAAAAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 2 0.07
15 5 0.19
16 18 0.67
17 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAATTAAAAAAATAA
Found at i:13570505 original size:20 final size:22
Alignment explanation
Indices: 13570451--13570506 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 22
13570441 TTTAAAAACT
*
13570451 TTAAATTA-GAAAAAATAAAAA
1 TTAAATAACGAAAAAATAAAAA
* *
13570472 TTAAATAACAAAAAAAT-TAAA
1 TTAAATAACGAAAAAATAAAAA
*
13570493 -TAAATAATGAAAAA
1 TTAAATAACGAAAAA
13570507 TGTCAAAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 12 0.41
21 10 0.34
22 7 0.24
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (22 bp):
TTAAATAACGAAAAAATAAAAA
Found at i:13576632 original size:6 final size:6
Alignment explanation
Indices: 13576621--13576725 Score: 113
Period size: 6 Copynumber: 17.5 Consensus size: 6
13576611 ATACACGTGC
* ** * *
13576621 ATATAT ATATAT ATATAT CTATAT ATATCC ATATAT GA-ATAC ATATAC
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT -ATATAT ATATAT
* * * *
13576669 ATATAA ATACAT ATATAT GTATAT ATATAT TTATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
13576717 ATATAT ATA
1 ATATAT ATA
13576726 ATCCCATCTT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
5 1 0.01
6 80 0.98
7 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.45
Consensus pattern (6 bp):
ATATAT
Found at i:13576636 original size:10 final size:10
Alignment explanation
Indices: 13576621--13576725 Score: 113
Period size: 10 Copynumber: 10.5 Consensus size: 10
13576611 ATACACGTGC
13576621 ATATATATAT
1 ATATATATAT
*
13576631 ATATATATCT
1 ATATATATAT
**
13576641 ATATATATCC
1 ATATATATAT
13576651 ATATATGA-AT
1 ATATAT-ATAT
* *
13576661 ACATATACAT
1 ATATATATAT
* *
13576671 ATAAATACAT
1 ATATATATAT
*
13576681 ATATATGTAT
1 ATATATATAT
*
13576691 ATATATATTT
1 ATATATATAT
13576701 ATATATATAT
1 ATATATATAT
13576711 ATATATATAT
1 ATATATATAT
13576721 ATATA
1 ATATA
13576726 ATCCCATCTT
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
9 1 0.01
10 78 0.98
11 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.45
Consensus pattern (10 bp):
ATATATATAT
Found at i:13584764 original size:36 final size:36
Alignment explanation
Indices: 13584724--13584794 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
13584714 AGCTTTCTTT
*
13584724 AAAGTGTCATAGCCTCTGGTTAGAAGAGTTCTTTTC
1 AAAGTGTCATAACCTCTGGTTAGAAGAGTTCTTTTC
* * *
13584760 AAAGTTTCATAACCTCTGGTTAGAGGAGTTTTTTT
1 AAAGTGTCATAACCTCTGGTTAGAAGAGTTCTTTT
13584795 TTTTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (36 bp):
AAAGTGTCATAACCTCTGGTTAGAAGAGTTCTTTTC
Found at i:13585151 original size:41 final size:41
Alignment explanation
Indices: 13585099--13585387 Score: 199
Period size: 41 Copynumber: 7.2 Consensus size: 41
13585089 AGATTTTTAA
* * * *
13585099 TTTAAAATTTCATTGCTTCTGGTCAGAGGAGCCTTTTAAAT
1 TTTAAAGTTTCATTGCTTCTAGTCAAAAGAGCCTTTTAAAT
* * * *
13585140 TTTAAAGTTTCATTG-TCTCTAGTTAAAGGAACTTTTTAAA-
1 TTTAAAGTTTCATTGCT-TCTAGTCAAAAGAGCCTTTTAAAT
* * * *
13585180 TTTAAAGTTTCATAGCTTTTGGTC-AAAGAAGCGTTTTAAAT
1 TTTAAAGTTTCATTGCTTCTAGTCAAAAG-AGCCTTTTAAAT
* * * *
13585221 TCTAAAGTTACATTGCCTCTAGTCAAAAGA-AC---T---T
1 TTTAAAGTTTCATTGCTTCTAGTCAAAAGAGCCTTTTAAAT
* * * *
13585255 TTTAAAGTTTCATAGCCAT-TAGTCAGATGAGCCTTTTAAAT
1 TTTAAAGTTTCATTG-CTTCTAGTCAAAAGAGCCTTTTAAAT
* * * *
13585296 TTTAAAGTTTTATTGCCTCTGGTCAAAAGAGCCTTTT-AGT
1 TTTAAAGTTTCATTGCTTCTAGTCAAAAGAGCCTTTTAAAT
* * *
13585336 TTTAAAGTTTAATTACCTCTAGTCAAAAGAG-CTTTTAAAT
1 TTTAAAGTTTCATTGCTTCTAGTCAAAAGAGCCTTTTAAAT
13585376 TTTCAAAAGTTT
1 TTT--AAAGTTT
13585388 TATAGTCTTT
Statistics
Matches: 192, Mismatches: 39, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
34 22 0.11
35 3 0.02
37 1 0.01
38 1 0.01
39 8 0.04
40 65 0.34
41 81 0.42
42 11 0.06
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (41 bp):
TTTAAAGTTTCATTGCTTCTAGTCAAAAGAGCCTTTTAAAT
Found at i:13585235 original size:81 final size:81
Alignment explanation
Indices: 13585092--13585260 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
13585082 ACCTCTTAGA
* * * * * *
13585092 TTTTT-AATTTAAAATTTCATTGCTTCTGGTCAGAGGAGCCTTTTAAATTTTAAAGTTTCATTGT
1 TTTTTAAATTTAAAATTTCATAGCTTCTGGTCAAAGAAGCCTTTTAAATTCTAAAGTTACATTGC
* *
13585156 CTCTAGTTAAAGGAAC
66 CTCTAGTCAAAAGAAC
* * *
13585172 TTTTTAAATTTAAAGTTTCATAGCTTTTGGTCAAAGAAGCGTTTTAAATTCTAAAGTTACATTGC
1 TTTTTAAATTTAAAATTTCATAGCTTCTGGTCAAAGAAGCCTTTTAAATTCTAAAGTTACATTGC
13585237 CTCTAGTCAAAAGAAC
66 CTCTAGTCAAAAGAAC
13585253 TTTTTAAA
1 TTTTTAAA
13585261 GTTTCATAGC
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 5 0.06
81 72 0.94
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (81 bp):
TTTTTAAATTTAAAATTTCATAGCTTCTGGTCAAAGAAGCCTTTTAAATTCTAAAGTTACATTGC
CTCTAGTCAAAAGAAC
Found at i:13585303 original size:75 final size:77
Alignment explanation
Indices: 13585120--13585387 Score: 233
Period size: 81 Copynumber: 3.4 Consensus size: 77
13585110 ATTGCTTCTG
* * * *
13585120 GTCAGAGGAGCCTTTTAAATTTTAAAGTTTCATTGTCTCTAGTTAAAGGAACTTTTTAAATTTAA
1 GTCAGAAGAGCCTTTTAAATTTTAAAGTTTCATTGCCTCTAGTCAAAAGAAC--TTT--ATTTAA
** *
13585185 AGTTTCATAGCTTTTG
62 AGTTTCATAGCCATTA
* * *
13585201 GTCA-AAGAAGCGTTTTAAATTCTAAAGTTACATTGCCTCTAGTCAAAAGAAC-TT-TTTAAAGT
1 GTCAGAAG-AGCCTTTTAAATTTTAAAGTTTCATTGCCTCTAGTCAAAAGAACTTTATTTAAAGT
13585263 TTCATAGCCATTA
65 TTCATAGCCATTA
* * * *
13585276 GTCAGATGAGCCTTTTAAATTTTAAAGTTTTATTGCCTCTGGTCAAAAGAGCCTTTTAGTTTTAA
1 GTCAGAAGAGCCTTTTAAATTTTAAAGTTTCATTGCCTCTAGTCAAAAGA-AC-TTTA--TTTAA
*
13585341 AGTTTAATTA-CC-TCTA
62 AGTTTCA-TAGCCAT-TA
*
13585357 GTCAAAAGAG-CTTTTAAATTTTCAAAAGTTT
1 GTCAGAAGAGCCTTTTAAATTTT--AAAGTTT
13585388 TATAGTCTTT
Statistics
Matches: 155, Mismatches: 20, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
75 59 0.38
76 3 0.02
78 4 0.03
80 15 0.10
81 65 0.42
82 9 0.06
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (77 bp):
GTCAGAAGAGCCTTTTAAATTTTAAAGTTTCATTGCCTCTAGTCAAAAGAACTTTATTTAAAGTT
TCATAGCCATTA
Found at i:13585424 original size:43 final size:41
Alignment explanation
Indices: 13585362--13585537 Score: 167
Period size: 43 Copynumber: 4.1 Consensus size: 41
13585352 CTCTAGTCAA
13585362 AAGAGCTTTTAAATTTTCAAAAGTTTTATAGTCTTTGCTTAG
1 AAGAGCTTTTAAATTTTCAAAAGTTTTATA-TCTTTGCTTAG
* * *
13585404 AAGAGACTATTAAATTTTCAAAAGTTTCATTATCTTTAG-TCAG
1 AAGAG-CTTTTAAATTTTCAAAAGTTTTA-TATCTTT-GCTTAG
* * * *
13585447 AGGAGCTTTTTAAATTTTCAAAACTTTTATATCTCTACTTAG
1 AAGAGC-TTTTAAATTTTCAAAAGTTTTATATCTTTGCTTAG
* * * *
13585489 ATGAGCCTTTTAAAATTTCAAAAGTTGTTA-AGCATTTGCTTAA
1 AAGAG-CTTTTAAATTTTCAAAAGTT-TTATATC-TTTGCTTAG
13585532 AAGAGC
1 AAGAGC
13585538 CTTCCAAATT
Statistics
Matches: 108, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
42 39 0.36
43 66 0.61
44 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (41 bp):
AAGAGCTTTTAAATTTTCAAAAGTTTTATATCTTTGCTTAG
Found at i:13585453 original size:85 final size:85
Alignment explanation
Indices: 13585339--13585514 Score: 228
Period size: 85 Copynumber: 2.1 Consensus size: 85
13585329 TTTTAGTTTT
* * *
13585339 AAAGTTTAATTACCTCTAGTCAAAAGAGC-TTTTAAATTTTCAAAAGTTTTATAGTCTTTGCTTA
1 AAAGTTTAATTACCTCTAGTCAAAAGAGCTTTTTAAATTTTCAAAACTTTTATA-TCTCTACTTA
*
13585403 GAAGAGACTATTAAATTTTCA
65 GAAGAGACTATTAAAATTTCA
* * * * *
13585424 AAAGTTTCATTATCTTTAGTCAGAGGAGCTTTTTAAATTTTCAAAACTTTTATATCTCTACTTAG
1 AAAGTTTAATTACCTCTAGTCAAAAGAGCTTTTTAAATTTTCAAAACTTTTATATCTCTACTTAG
* * *
13585489 ATGAGCCTTTTAAAATTTCA
66 AAGAGACTATTAAAATTTCA
13585509 AAAGTT
1 AAAGTT
13585515 GTTAAGCATT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 55 0.71
86 23 0.29
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (85 bp):
AAAGTTTAATTACCTCTAGTCAAAAGAGCTTTTTAAATTTTCAAAACTTTTATATCTCTACTTAG
AAGAGACTATTAAAATTTCA
Found at i:13587525 original size:53 final size:53
Alignment explanation
Indices: 13587427--13587527 Score: 121
Period size: 53 Copynumber: 1.9 Consensus size: 53
13587417 TCATCAATAA
* * ** * *
13587427 AAAATTATTTTTAAGATCTCATCAGAAAGTTGAGATGATCATAAAATCAACAT
1 AAAATTATTTTTAAGATCTCATCAAAAAATCAAAATAATCATAAAATCAACAT
* * *
13587480 AAAATTTTTTTTAAGATTTCATCAAAAAATCAAAATAATCCTAAAATC
1 AAAATTATTTTTAAGATCTCATCAAAAAATCAAAATAATCATAAAATC
13587528 TGTCTAATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
53 39 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.34
Consensus pattern (53 bp):
AAAATTATTTTTAAGATCTCATCAAAAAATCAAAATAATCATAAAATCAACAT
Found at i:13587962 original size:20 final size:20
Alignment explanation
Indices: 13587925--13587963 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13587915 CATGATTTCA
*
13587925 TAAATCTAAACTATTTTTAG
1 TAAATCTAAACTAATTTTAG
* *
13587945 TAAATCTTAATTAATTTTA
1 TAAATCTAAACTAATTTTA
13587964 AAATTTTTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
TAAATCTAAACTAATTTTAG
Found at i:13591187 original size:200 final size:200
Alignment explanation
Indices: 13590845--13591216 Score: 439
Period size: 200 Copynumber: 1.9 Consensus size: 200
13590835 AAGAAAAGAG
* ** *
13590845 AAATTTTTATTTTATTGAAATTTTTTTTATAAATATTCTAATACGCTAGTAGTATTTAAAAAAAA
1 AAATTTTTATTGTATTGAAATACTTTTTATAAATATTCTAATACGCTAGTAATATTTAAAAAAAA
* * * *
13590910 TCTTTTCACCTAAAAAATTTTGAAGGTATCATTGCTCAAAAATACCTTAAAATCTTATTACCGGG
66 TCTTTTCACCTAAAAAATTTTGAAGGCATCATTACTCAAAAATACCTTAAAATCTTACTACCGGA
*
13590975 TAAAAATTTCTTTTCCCTCATTTTTGTTATT-TTTTAATTATTTTACTCATTTTTGTTTTATTTT
131 TAAAAATTTC-TTT-CCTCATTTTTCTTATTATTTTAATTATTTTACTCATTTTTGTTTTATTTT
13591039 ATAGAAA
194 ATAGAAA
* *
13591046 AAATTTTTATTGTATTGAAA-ACTTTTTATAAAT-TCTCTAATACGTTGGTAATATTTAAAAAAA
1 AAATTTTTATTGTATTGAAATACTTTTTATAAATAT-TCTAATACGCTAGTAATATTT-AAAAAA
* * * ** *** * * **
13591109 AATCTTTTCACCT-AGAGATTTTGTAGGCATTGTTACT-TGGAATACCTTAGAATTTTACTATTG
64 AATCTTTTCACCTAAAAAATTTTGAAGGCATCATTACTCAAAAATACCTTAAAATCTTACTACCG
* *
13591172 GATAAAAATTTTCTTTCCTCTTTTTTCTTATTATTTTTATTATTT
129 GATAAAAA-TTTCTTTCCTCATTTTTCTTATTATTTTAATTATTT
13591217 ATTTATTCAA
Statistics
Matches: 142, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
198 14 0.10
199 40 0.28
200 50 0.35
201 38 0.27
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.49
Consensus pattern (200 bp):
AAATTTTTATTGTATTGAAATACTTTTTATAAATATTCTAATACGCTAGTAATATTTAAAAAAAA
TCTTTTCACCTAAAAAATTTTGAAGGCATCATTACTCAAAAATACCTTAAAATCTTACTACCGGA
TAAAAATTTCTTTCCTCATTTTTCTTATTATTTTAATTATTTTACTCATTTTTGTTTTATTTTAT
AGAAA
Found at i:13593430 original size:19 final size:19
Alignment explanation
Indices: 13593406--13593446 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
13593396 CCACTTGGCT
13593406 CCACTTGCTCCTTAAGCCA
1 CCACTTGCTCCTTAAGCCA
13593425 CCACTTGCTCCTTAAGCCA
1 CCACTTGCTCCTTAAGCCA
13593444 CCA
1 CCA
13593447 ACTACCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.44, G:0.10, T:0.24
Consensus pattern (19 bp):
CCACTTGCTCCTTAAGCCA
Found at i:13594382 original size:10 final size:10
Alignment explanation
Indices: 13594369--13594414 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
13594359 TAGGTAATTT
13594369 TATATTTTTA
1 TATATTTTTA
*
13594379 TATAGTTTTA
1 TATATTTTTA
*
13594389 TATAGTTTTA
1 TATATTTTTA
*
13594399 TAT-TTATTA
1 TATATTTTTA
13594408 T-TATTTT
1 TATATTTT
13594415 GTTATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
8 1 0.03
9 8 0.26
10 22 0.71
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (10 bp):
TATATTTTTA
Found at i:13594581 original size:17 final size:17
Alignment explanation
Indices: 13594540--13594573 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13594530 TTAAATTTGG
* *
13594540 AATAAATAAATAATAAA
1 AATAACTAAAAAATAAA
13594557 AATAACTAAAAAATAAA
1 AATAACTAAAAAATAAA
13594574 TAAAACTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAACTAAAAAATAAA
Found at i:13599096 original size:15 final size:16
Alignment explanation
Indices: 13599070--13599103 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
13599060 ATTCAAATTC
13599070 TTGTGAGTTTTTTTCT
1 TTGTGAGTTTTTTTCT
13599086 TTGTGAGTTTTTTTCT
1 TTGTGAGTTTTTTTCT
13599102 TT
1 TT
13599104 ACAGTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.18, T:0.71
Consensus pattern (16 bp):
TTGTGAGTTTTTTTCT
Found at i:13607630 original size:51 final size:51
Alignment explanation
Indices: 13607503--13607640 Score: 143
Period size: 51 Copynumber: 2.7 Consensus size: 51
13607493 TTCAAATTTT
** * *
13607503 TTAAAGTTGTCT-AGCCTTTACAAAGAGGAGCATTTTTCAAGATGAAAATTT
1 TTAAAGTTGT-TGAGCCTTTACTTAGAGGAGCATTTTTCAAAATGAAAATTC
* * * * * *
13607554 TTAAAGTTGTTGAGCATTTATTTAGAGGATCTTTTTTCAAAATTAGAATTC
1 TTAAAGTTGTTGAGCCTTTACTTAGAGGAGCATTTTTCAAAATGAAAATTC
* * *
13607605 TTAAAGTTGTTGAGCCTCTACTTAGAAGAGCCTTTT
1 TTAAAGTTGTTGAGCCTTTACTTAGAGGAGCATTTT
13607641 AAAATTTTAA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 1 0.01
51 69 0.99
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (51 bp):
TTAAAGTTGTTGAGCCTTTACTTAGAGGAGCATTTTTCAAAATGAAAATTC
Found at i:13609252 original size:8 final size:8
Alignment explanation
Indices: 13609239--13609263 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13609229 TTTAGGTAAC
13609239 TTTATATT
1 TTTATATT
13609247 TTTATATT
1 TTTATATT
13609255 TTTATATT
1 TTTATATT
13609263 T
1 T
13609264 ATTTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATATT
Found at i:13609452 original size:9 final size:9
Alignment explanation
Indices: 13609419--13609457 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
13609409 GATAAATAAG
13609419 TAATAAAAA
1 TAATAAAAA
13609428 TAACTAAAAA
1 TAA-TAAAAA
13609438 -AATAAAAA
1 TAATAAAAA
*
13609446 TATTAAAAA
1 TAATAAAAA
13609455 TAA
1 TAA
13609458 GAGAAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
8 6 0.23
9 14 0.54
10 6 0.23
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (9 bp):
TAATAAAAA
Found at i:13615188 original size:15 final size:15
Alignment explanation
Indices: 13615156--13615199 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13615146 TAACTTTCGT
*
13615156 TTTTTTTTTTCTCACC
1 TTTTTTTTTTCT-TCC
13615172 TTTTTTTTTTCTTCC
1 TTTTTTTTTTCTTCC
* *
13615187 TTTCTATTTTCTT
1 TTTTTTTTTTCTT
13615200 TCTTACAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTTTTTCTTCC
Found at i:13619818 original size:2 final size:2
Alignment explanation
Indices: 13619811--13619837 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13619801 GATTAAACCA
13619811 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13619838 GTAAATGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13623196 original size:81 final size:79
Alignment explanation
Indices: 13623043--13623196 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 79
13623033 ATTTTTTTTC
* **
13623043 TTTTTCTTTTTTCTCTTAATGCAAAAAATACAAATACAAAACTTAATTATTTTTATTTTATTTTC
1 TTTTTCTTTTTTCTCTCAATGCAAAAAATACAAATACAAAACTTAA-TATTTTTATTTTATCCTC
*
13623108 CTTTTTCTCATCATT
65 CTCTTTCTCATCATT
** *
13623123 TTTTTCTTTTTTTCTCTCAATGCAAAAAGATACAAATACAATTC-TCA-ATTTTTATTTTATCCC
1 TTTTTC-TTTTTTCTCTCAATGCAAAAA-ATACAAATACAAAACTTAATATTTTTATTTTAT-CC
13623186 TCTCTCTTTCT
63 TC-CTCTTTCT
13623197 AAACGCTCCC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 13 0.21
80 8 0.13
81 29 0.46
82 13 0.21
ACGTcount: A:0.28, C:0.18, G:0.02, T:0.52
Consensus pattern (79 bp):
TTTTTCTTTTTTCTCTCAATGCAAAAAATACAAATACAAAACTTAATATTTTTATTTTATCCTCC
TCTTTCTCATCATT
Found at i:13623773 original size:2 final size:2
Alignment explanation
Indices: 13623766--13623792 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13623756 CAAATTTTCT
13623766 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13623793 TTGTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13623801 original size:53 final size:53
Alignment explanation
Indices: 13623738--13623845 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
13623728 CATGGTCTGC
13623738 ATTTGTAAATTTCAATCTCAAATTTTCTTATATATATATATATATATATATAT
1 ATTTGTAAATTTCAATCTCAAATTTTCTTATATATATATATATATATATATAT
13623791 ATTTGTAAATTTCAATCTCAAATTTTCTTATATATATATATATATATATATAT
1 ATTTGTAAATTTCAATCTCAAATTTTCTTATATATATATATATATATATATAT
13623844 AT
1 AT
13623846 ATATATAACC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (53 bp):
ATTTGTAAATTTCAATCTCAAATTTTCTTATATATATATATATATATATATAT
Found at i:13623826 original size:2 final size:2
Alignment explanation
Indices: 13623819--13623852 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13623809 CAAATTTTCT
13623819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13623853 ACCATGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13633987 original size:20 final size:19
Alignment explanation
Indices: 13633964--13634003 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
13633954 TCGTCGGATT
13633964 AAAAACTTTAAATAAATAAA
1 AAAAACTTTAAATAAA-AAA
*
13633984 AAAAATTTTAAATAAAAAA
1 AAAAACTTTAAATAAAAAA
13634003 A
1 A
13634004 TCTTCTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAACTTTAAATAAAAAA
Found at i:13641101 original size:19 final size:17
Alignment explanation
Indices: 13641077--13641120 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
13641067 AGTTTTTAAT
13641077 TATTTATTAATTTCATAAA
1 TATTTATTAATTT-A-AAA
*
13641096 TATTTAATAATTTAAAA
1 TATTTATTAATTTAAAA
13641113 T-TTTATTA
1 TATTTATTA
13641121 TATATACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 1 0.04
19 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTATTAATTTAAAA
Found at i:13644997 original size:40 final size:40
Alignment explanation
Indices: 13644953--13645226 Score: 128
Period size: 40 Copynumber: 6.8 Consensus size: 40
13644943 AGAGGTCTTT
*
13644953 AAAAATTTAAAATTCTATATAAAGGTCTTAGAAATCATTC
1 AAAAATTTAAAATTCTATATAGAGGTCTTAGAAATCATTC
* * ** * * **
13644993 AAAAATTTAAGATTTTACCTAGATGTCTTTGAAAATTGTTC
1 AAAAATTTAAAATTCTATATAGAGGTCTTAG-AAATCATTC
* *
13645034 AAAAATTTAAAGTT-T-TACTCAGAGATCTTTCA-AAATCATTC
1 AAAAATTTAAAATTCTATA-T-AGAGGTC-TT-AGAAATCATTC
* * * * *
13645075 AAAAATTTAAAATTCTGCT-CAGAGGTCTTAAAAATTATTA
1 AAAAATTTAAAATTCT-ATATAGAGGTCTTAGAAATCATTC
* * * *** *
13645115 AAAAATCTAAGATTTTGCGTAGAGGTTTTAGAAATCATTC
1 AAAAATTTAAAATTCTATATAGAGGTCTTAGAAATCATTC
* * * * * *
13645155 AAATGA-TTAAGATTTTACT-TGGAGGTTTTAGAGATCATTC
1 AAA-AATTTAAAATTCTA-TATAGAGGTCTTAGAAATCATTC
* * * * *
13645195 AAAATTTTAAGATTTTATCTAGAGGTTTTAGA
1 AAAAATTTAAAATTCTATATAGAGGTCTTAGA
13645227 TATTTTTTGA
Statistics
Matches: 178, Mismatches: 42, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.01
40 121 0.68
41 51 0.29
42 3 0.02
44 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (40 bp):
AAAAATTTAAAATTCTATATAGAGGTCTTAGAAATCATTC
Found at i:13645042 original size:41 final size:41
Alignment explanation
Indices: 13644984--13645120 Score: 129
Period size: 41 Copynumber: 3.4 Consensus size: 41
13644974 AAGGTCTTAG
*
13644984 AAATCATTCAAAAATTT-AAGATTTTAC-CTAGATG-TCTTTGA
1 AAATCATTCAAAAATTTAAAG-TTTTACTC-AGA-GATCTTTCA
**
13645025 AAATTGTTCAAAAATTTAAAGTTTTACTCAGAGATCTTTCA
1 AAATCATTCAAAAATTTAAAGTTTTACTCAGAGATCTTTCA
* * * * *
13645066 AAATCATTCAAAAATTTAAAATTCTGCTCAGAGGTC-TTAA
1 AAATCATTCAAAAATTTAAAGTTTTACTCAGAGATCTTTCA
* *
13645106 AAATTATTAAAAAAT
1 AAATCATTCAAAAAT
13645121 CTAAGATTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 17 0.21
41 60 0.74
42 4 0.05
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (41 bp):
AAATCATTCAAAAATTTAAAGTTTTACTCAGAGATCTTTCA
Found at i:13647240 original size:58 final size:57
Alignment explanation
Indices: 13646765--13647399 Score: 715
Period size: 60 Copynumber: 10.7 Consensus size: 57
13646755 TCTTGTGCAG
* * *
13646765 GGAAAATTAATACTTTCAACTTTTCTTCAAAAATTGATTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-T-A---TTTTTTGAAATTTTATTTTTAA
**
13646827 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGGAAACTTTTATTTTCGA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATA-TTTTTT-GAAA-TTTTATTTTTAA
* * *
13646887 GAAAAATTGATATTTTCAACTTTTCCTCAAAAATTGATTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTGAAATTTTATTTTTAA
* * **
13646946 GGAAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAACTTTTATTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTT-GAAA-TTTTATTTTTAA
* *
13647006 GGAAAATTGACACTTTCAACTTTCCTCAAACTTTCCCAAAAATATTTTTTGGAAACTTTA-TTTT
1 GGAAAATTGATACTTTCAACTTT--TC---C--T--CAAAAATATTTTTT-GAAATTTTATTTTT
13647070 --
56 AA
*
13647070 CGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTATTTTTAA
*
13647126 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA---TATTTTTTGAAATTTTATTTTTAA
* * * **
13647186 GGAAAATTGATATTTTCAACTTTTTCTCAAAAATATTTTTTGAAACTTTGATTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAA-TTTTATTTTTAA
*
13647244 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTATTTTTAA
* * *
13647301 GAAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAA-TTTTATTTTTAA
* *
13647359 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
13647400 TTATTTTTAT
Statistics
Matches: 501, Mismatches: 43, Indels: 61
0.83 0.07 0.10
Matches are distributed among these distances:
53 8 0.02
54 11 0.02
55 6 0.01
56 45 0.09
57 51 0.10
58 101 0.20
59 67 0.13
60 121 0.24
61 8 0.02
62 30 0.06
63 5 0.01
64 21 0.04
65 1 0.00
66 3 0.01
67 4 0.01
68 11 0.02
69 8 0.02
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTATTTTTAA
Found at i:13647318 original size:115 final size:115
Alignment explanation
Indices: 13647037--13647400 Score: 526
Period size: 115 Copynumber: 3.2 Consensus size: 115
13647027 TTCCTCAAAC
* * * *
13647037 TTTCC-CAAAAATATTTTTTGGAAACTTTA-TTTT-CGAAAATTGATACTTTCAACTTTTCCTCA
1 TTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAAGAAAATTGATACTTTCAACTTTTTCTCA
* *
13647099 AAAA-ATTTTTTGAAA-TTTTATTTTTAAGGAAAATTGATACTTTCAACT
66 AAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACT
* *
13647147 TTTCCTCAAAAACCTTTTTTTTTGAAATTTTATTTTTAAGGAAAATTGATATTTTCAACTTTTTC
1 TTTCCTCAAAAA--TATTTTTTTGAAATTTTATTTTTAA-GAAAATTGATACTTTCAACTTTTTC
*
13647212 TCAAAAATATTTTTTGAAACTTTGATTTTCGAGGAAAATTGATACTTTCAACT
63 TCAAAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACT
*
13647265 TTTCCTCAAAAAT-TTTTTTTGAAATTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTTCCC
1 TTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAAG-AAAATTGATACTTTCAACTTTTTCTC
*
13647328 AAAAATATTTTTTGGAAACTTTGATTTTCAAGAAAAATTGATACTTTCAACT
65 AAAAATATTTTTT-GAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACT
*
13647380 TTTCCCCAAAAATATTTTTTT
1 TTTCCTCAAAAATATTTTTTT
13647401 TATTTTTATT
Statistics
Matches: 229, Mismatches: 14, Indels: 16
0.88 0.05 0.06
Matches are distributed among these distances:
110 5 0.02
111 6 0.03
113 15 0.07
114 24 0.10
115 88 0.38
116 38 0.17
117 11 0.05
118 42 0.18
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (115 bp):
TTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAAGAAAATTGATACTTTCAACTTTTTCTCA
AAAATATTTTTTGAAACTTTGATTTTCAAGGAAAATTGATACTTTCAACT
Found at i:13647461 original size:12 final size:11
Alignment explanation
Indices: 13647423--13647510 Score: 61
Period size: 12 Copynumber: 7.6 Consensus size: 11
13647413 AAGAAAATAG
13647423 AATAATAAAACAA
1 AATAA-AAAA-AA
**
13647436 AATAAAAGTGAA
1 AATAAAA-AAAA
13647448 AATAAATAAAAA
1 AATAAA-AAAAA
*
13647460 AAT-AAAGAAA
1 AATAAAAAAAA
* *
13647470 AGTAAAACAAA
1 AATAAAAAAAA
13647481 AATAAAAATAAA
1 AATAAAAA-AAA
*
13647493 AATAAAATAAA
1 AATAAAAAAAA
*
13647504 GATAAAA
1 AATAAAA
13647511 TAATATTAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
10 6 0.10
11 23 0.38
12 25 0.42
13 6 0.10
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:13647461 original size:29 final size:28
Alignment explanation
Indices: 13647415--13647499 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 28
13647405 TTTATTTAAA
*
13647415 GAAAATAGAATAATAAAACAAAATAAAAGT
1 GAAAATA-AATAA-AAAAAAAAATAAAAGT
* *
13647445 GAAAATAAATAAAAAAATAAAGAAAAGT
1 GAAAATAAATAAAAAAAAAAATAAAAGT
* * *
13647473 AAAACAAAAATAAAAATAAAAATAAAA
1 GAAA-ATAAATAAAAAAAAAAATAAAA
13647500 TAAAGATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 16 0.35
29 23 0.50
30 7 0.15
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.14
Consensus pattern (28 bp):
GAAAATAAATAAAAAAAAAAATAAAAGT
Found at i:13647464 original size:34 final size:32
Alignment explanation
Indices: 13647417--13647524 Score: 83
Period size: 34 Copynumber: 3.2 Consensus size: 32
13647407 TATTTAAAGA
* * **
13647417 AAATAGAATAATAAAACAAAATAAAAGTGAAAAT
1 AAATAAAAAAATAAAA-AAAATAAAA-CAAAAAT
*
13647451 AAATAAAAAAATAAAGAAAAGTAAAACAAAAAT
1 AAATAAAAAAATAAA-AAAAATAAAACAAAAAT
* * *
13647484 AAA-AATAAAAATAAAATAAAGATAAAATAATATT
1 AAATAA-AAAAATAAAA-AAA-ATAAAACAAAAAT
13647518 AAATAAA
1 AAATAAA
13647525 CCTAATCTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
32 3 0.05
33 20 0.33
34 34 0.57
35 3 0.05
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.18
Consensus pattern (32 bp):
AAATAAAAAAATAAAAAAAATAAAACAAAAAT
Found at i:13647482 original size:6 final size:6
Alignment explanation
Indices: 13647434--13647510 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
13647424 ATAATAAAAC
* * * *
13647434 AAAATA AAAGTG AAAATA AATAA-A AAAATA AAGAAAA GTAAAACA AAAATA
1 AAAATA AAAATA AAAATA AA-AATA AAAATA AA-AATA --AAAATA AAAATA
*
13647485 AAAATA AAAAT- AAAATA AAGATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
13647511 TAATATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
5 7 0.12
6 39 0.70
7 5 0.09
8 3 0.05
9 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:13647499 original size:11 final size:11
Alignment explanation
Indices: 13647416--13647513 Score: 74
Period size: 11 Copynumber: 8.6 Consensus size: 11
13647406 TTATTTAAAG
13647416 AAAATAGAATAAT
1 AAAATA-AA-AAT
*
13647429 AAAA-CAAAAT
1 AAAATAAAAAT
*
13647439 AAAAGTGAAAAT
1 AAAA-TAAAAAT
*
13647451 -AAATAAAAAA
1 AAAATAAAAAT
* *
13647461 ATAAAGAAAAGT
1 A-AAATAAAAAT
*
13647473 AAAACAAAAAT
1 AAAATAAAAAT
13647484 AAAAATAAAAAT
1 -AAAATAAAAAT
*
13647496 AAAATAAAGAT
1 AAAATAAAAAT
13647507 AAAATAA
1 AAAATAA
13647514 TATTAAATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
10 12 0.17
11 30 0.43
12 23 0.33
13 4 0.06
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:13647499 original size:17 final size:17
Alignment explanation
Indices: 13647416--13647510 Score: 72
Period size: 17 Copynumber: 5.5 Consensus size: 17
13647406 TTATTTAAAG
*
13647416 AAAATAGAATAATAAAA-C
1 AAAATA-AA-AATAAAATA
*
13647434 AAAATAAAAGTGAAAATA
1 AAAATAAAAAT-AAAATA
*
13647452 AATAA-AAAAAT-AAAGA
1 AA-AATAAAAATAAAATA
*
13647468 AAAGTAAAACA-AAAATA
1 AAAATAAAA-ATAAAATA
13647485 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
*
13647502 AAGATAAAA
1 AAAATAAAA
13647511 TAATATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
15 1 0.02
16 13 0.21
17 33 0.53
18 13 0.21
19 2 0.03
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:13648397 original size:17 final size:19
Alignment explanation
Indices: 13648364--13648409 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
13648354 ACAAAAAAAA
13648364 AAAAAAAAATCAGATAAAC-
1 AAAAAAAAATCA-ATAAACG
13648383 AAAAAAAAATC-ATAAACG
1 AAAAAAAAATCAATAAACG
13648401 AAAAAAAAA
1 AAAAAAAAA
13648410 AAAAACAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.78, C:0.09, G:0.04, T:0.09
Consensus pattern (19 bp):
AAAAAAAAATCAATAAACG
Found at i:13648421 original size:24 final size:23
Alignment explanation
Indices: 13648359--13648421 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 23
13648349 ATCTCACAAA
13648359 AAAAAAAAAAAAAATCAGATAAAC
1 AAAAAAAAAAAAAA-CAGATAAAC
*
13648383 ----AAAAAAAAATC--ATAAAC
1 AAAAAAAAAAAAAACAGATAAAC
13648400 GAAAAAAAAAAAAAACAGATAA
1 -AAAAAAAAAAAAAACAGATAA
13648422 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
17 6 0.20
19 1 0.03
20 9 0.30
22 10 0.33
24 4 0.13
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (23 bp):
AAAAAAAAAAAAAACAGATAAAC
Found at i:13648448 original size:19 final size:19
Alignment explanation
Indices: 13648424--13648493 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
13648414 ACAGATAATT
13648424 AAAAATAATAAGATAAATA
1 AAAAATAATAAGATAAATA
*
13648443 AAAAATATTACAAGATAAA-A
1 AAAAATA--ATAAGATAAATA
*
13648463 AAATAATAATAATAATAAAT-
1 AAA-AATAATAA-GATAAATA
*
13648483 AATAATAATAA
1 AAAAATAATAA
13648494 ATATATAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 18 0.43
20 11 0.26
21 13 0.31
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAATAATAAGATAAATA
Found at i:13648470 original size:3 final size:3
Alignment explanation
Indices: 13648464--13648493 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
13648454 AAGATAAAAA
13648464 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
13648494 ATATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13648496 original size:4 final size:4
Alignment explanation
Indices: 13648457--13648627 Score: 53
Period size: 4 Copynumber: 44.2 Consensus size: 4
13648447 ATATTACAAG
* *
13648457 ATAA AAAA AT-A AT-A AT-A AT-A ATAA AT-A AT-A AT-A ATAA ATAT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * *
13648498 ATAA CTAG ATAAA ATAA ATACA TATAA AT-A TTAA A-AA AAAA ATAA ATAA
1 ATAA ATAA AT-AA ATAA ATA-A -ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * * * * *
13648547 ATAA AGAT ATAC ATAT ATTA ATAC ATAGCA AT-A ATAA ATAC ATAA A-AA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA
* *
13648595 ATAC ATAA A-ATA A-AA ATAA AAAA ATAAA ATAA A
1 ATAA ATAA ATA-A ATAA ATAA ATAA AT-AA ATAA A
13648628 AATAAAAATA
Statistics
Matches: 126, Mismatches: 27, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
3 35 0.28
4 77 0.61
5 9 0.07
6 5 0.04
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:13648609 original size:5 final size:5
Alignment explanation
Indices: 13648599--13648657 Score: 50
Period size: 5 Copynumber: 11.2 Consensus size: 5
13648589 TAAAAAATAC
*
13648599 ATAAA ATAAA A-ATAA A-AAA ATAAA ATAAAA ATAAAA ATAAT ATAAA
1 ATAAA ATAAA ATA-AA ATAAA ATAAA AT-AAA AT-AAA ATAAA ATAAA
13648645 ATACAAA ATAAA A
1 AT--AAA ATAAA A
13648658 ATCAAATTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.09
5 27 0.57
6 11 0.23
7 5 0.11
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Done.