Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 305 of 345
Found at i:103290217 original size:57 final size:58
Alignment explanation
Indices: 103290090--103290240 Score: 200
Period size: 57 Copynumber: 2.6 Consensus size: 58
103290080 TGACCATGCA
* * *
103290090 CCACT-GTTTTACAGATTTTATAGTTTTGTCACTATTTTTCCAGATTTTACAGTTTTG
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTACAGTTTTG
* * * *
103290147 CCACTGGTTTTCCAGATTTTATAATTCTGCCATTATTTTT-CAGATATTACTA-TTTTG
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTAC-AGTTTTG
*
103290204 CTACTAGTTTTCCAGATTTTATAGTTTTGCCACTATT
1 CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATT
103290241 CTTAAAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
57 51 0.63
58 30 0.37
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (58 bp):
CCACTAGTTTTCCAGATTTTATAGTTTTGCCACTATTTTTCCAGATATTACAGTTTTG
Found at i:103290921 original size:135 final size:135
Alignment explanation
Indices: 103290679--103290938 Score: 360
Period size: 135 Copynumber: 1.9 Consensus size: 135
103290669 GCAAAAGCAT
* * *
103290679 ATTCCAACTGCGTCCATTTTACCGTGCAAGCACAACCCTTTGACAGCTTTTATCTGTGAGTATGT
1 ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTTTATCTGCGAGTATGT
* * *
103290744 TGTGCTTCCACAGCAATTGACAGATTTTATCTGCATTATATGTGTGTGTTGTGTATCCACTGAAA
66 TGTGCTTCCACAGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACTGAAA
103290809 AATAG
131 AATAG
* * ** * *
103290814 ATTCCAACTGCATCTATTTTATCGTGTGAGCACAACCCTTTAATAGCTTTGT-TTTGCGAGTATG
1 ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTT-TATCTGCGAGTATG
** * *
103290878 TTGTGCTTCCATGGCTATTGGCAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCAC
65 TTGTGCTTCCACAGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCAC
103290939 AACAAAAGCA
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
135 107 0.99
136 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (135 bp):
ATTCCAACTGCATCCATTTTACCGTGCAAGCACAACCCTTTAACAGCTTTTATCTGCGAGTATGT
TGTGCTTCCACAGCAATTGACAGATCTTATCTGCATTATATGTGTGCGCTGTGTATCCACTGAAA
AATAG
Found at i:103291418 original size:37 final size:37
Alignment explanation
Indices: 103291334--103291419 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
103291324 TTTATCGTAT
* * * **
103291334 TGAATTGATTGATATGCAAGAGTGTTTGTTATTATGT
1 TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
* * *
103291371 TAAATAGATTGATATGCAAAACTGTTTGTCATTGTAC
1 TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
103291408 TGAATTGATTGA
1 TGAATTGATTGA
103291420 CATGTGAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (37 bp):
TGAATTGATTGATATGCAAAACTGTTTGTCATTATAC
Found at i:103304102 original size:15 final size:15
Alignment explanation
Indices: 103304082--103304111 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
103304072 TATTCATAAG
103304082 TAAACAATAAATTCA
1 TAAACAATAAATTCA
103304097 TAAACAATAAATTCA
1 TAAACAATAAATTCA
103304112 AGATAATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAACAATAAATTCA
Found at i:103309834 original size:19 final size:19
Alignment explanation
Indices: 103309810--103309903 Score: 110
Period size: 19 Copynumber: 5.2 Consensus size: 19
103309800 AATCTTTAAG
103309810 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
103309829 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
103309848 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
103309865 GATATG--AT-AT-GATAT
1 GATATGCAATCTTAGATAT
103309880 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
103309901 GAT
1 GAT
103309904 TTTGTAATCT
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
15 11 0.17
16 1 0.02
17 20 0.31
18 1 0.02
19 23 0.36
21 8 0.12
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:103309868 original size:5 final size:5
Alignment explanation
Indices: 103309860--103309885 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
103309850 TATAATCTTA
103309860 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
103309886 CAATCTTGAA
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:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:103309899 original size:36 final size:37
Alignment explanation
Indices: 103309810--103309903 Score: 117
Period size: 36 Copynumber: 2.6 Consensus size: 37
103309800 AATCTTTAAG
*
103309810 GATATGCAATCTTAGATATGATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATATGATATG-AATTATAGATAT
103309848 GATAT--AATCTTAGATATGATATG-A-TAT-GATAT
1 GATATGCAATCTTAGATATGATATGAATTATAGATAT
103309880 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
103309904 TTTGTAATCT
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
32 10 0.20
33 2 0.04
34 7 0.14
36 27 0.53
38 5 0.10
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (37 bp):
GATATGCAATCTTAGATATGATATGAATTATAGATAT
Found at i:103314014 original size:26 final size:26
Alignment explanation
Indices: 103313978--103314084 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
103313968 GAAATGCCCG
* *
103313978 TCATGGAACATTTACGTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
103314004 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
103314030 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
103314056 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
103314082 TCA
1 TCA
103314085 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:103314757 original size:4 final size:4
Alignment explanation
Indices: 103314748--103314782 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
103314738 AATTCTATTA
103314748 TTCT TTCT TTCT TTCT TTCT TTCTT TTCT TT-T TTC
1 TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT TTC
103314783 ATTTTCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:103314763 original size:12 final size:13
Alignment explanation
Indices: 103314748--103314789 Score: 61
Period size: 12 Copynumber: 3.3 Consensus size: 13
103314738 AATTCTATTA
103314748 TTCTTTCTTTC-T
1 TTCTTTCTTTCTT
103314760 TTCTTTCTTTCTT
1 TTCTTTCTTTCTT
103314773 TTCTTT-TTTCATT
1 TTCTTTCTTTC-TT
103314786 TTCT
1 TTCT
103314790 AATATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 15 0.54
13 13 0.46
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTTCTTTCTT
Found at i:103318925 original size:25 final size:25
Alignment explanation
Indices: 103318897--103318954 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
103318887 AATTTGATAT
*
103318897 TTCAGCAAAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGACATTGTTGAGA
*
103318922 TTCAGCAGAGAAGACATTGTTGAGA
1 TTCAGCAAAGAAGACATTGTTGAGA
103318947 TTC-GCAAA
1 TTCAGCAAA
103318955 CTCAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (25 bp):
TTCAGCAAAGAAGACATTGTTGAGA
Found at i:103319969 original size:16 final size:16
Alignment explanation
Indices: 103319948--103320002 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
103319938 CGAATTACTG
103319948 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
103319964 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
103319980 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
103319996 ATTACAG
1 ATTACAG
103320003 TGAACCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:103321673 original size:172 final size:172
Alignment explanation
Indices: 103321387--103321730 Score: 679
Period size: 172 Copynumber: 2.0 Consensus size: 172
103321377 TTAATGAAAA
*
103321387 ATCAATATTTTGGAGATTGGATCGAATCAGATCACCCAAGTTAATCTTGTAGACCGTAGATATTG
1 ATCAATATTTTGGAGATTGGATCGAATCAGATCACCCAAGTCAATCTTGTAGACCGTAGATATTG
103321452 GATTAGATTGAAACTTTGATTAATTAGCTTTCCAGAGTCCATATTTACATTACTTGTTACTAGTA
66 GATTAGATTGAAACTTTGATTAATTAGCTTTCCAGAGTCCATATTTACATTACTTGTTACTAGTA
103321517 TATTGAATTGAGCTTATCTTATTGTTGGTTTAATGGGATTGT
131 TATTGAATTGAGCTTATCTTATTGTTGGTTTAATGGGATTGT
103321559 ATCAATATTTTGGAGATTGGATCGAATCAGATCACCCAAGTCAATCTTGTAGACCGTAGATATTG
1 ATCAATATTTTGGAGATTGGATCGAATCAGATCACCCAAGTCAATCTTGTAGACCGTAGATATTG
103321624 GATTAGATTGAAACTTTGATTAATTAGCTTTCCAGAGTCCATATTTACATTACTTGTTACTAGTA
66 GATTAGATTGAAACTTTGATTAATTAGCTTTCCAGAGTCCATATTTACATTACTTGTTACTAGTA
103321689 TATTGAATTGAGCTTATCTTATTGTTGGTTTAATGGGATTGT
131 TATTGAATTGAGCTTATCTTATTGTTGGTTTAATGGGATTGT
103321731 GATAGATCTT
Statistics
Matches: 171, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 171 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (172 bp):
ATCAATATTTTGGAGATTGGATCGAATCAGATCACCCAAGTCAATCTTGTAGACCGTAGATATTG
GATTAGATTGAAACTTTGATTAATTAGCTTTCCAGAGTCCATATTTACATTACTTGTTACTAGTA
TATTGAATTGAGCTTATCTTATTGTTGGTTTAATGGGATTGT
Found at i:103322652 original size:18 final size:18
Alignment explanation
Indices: 103322631--103322665 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103322621 ATTCTGTAAT
*
103322631 TAGTTTGAATTTAATTTC
1 TAGTTTAAATTTAATTTC
*
103322649 TAGTTTAAATTTGATTT
1 TAGTTTAAATTTAATTT
103322666 TTAAGATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (18 bp):
TAGTTTAAATTTAATTTC
Found at i:103323521 original size:14 final size:15
Alignment explanation
Indices: 103323499--103323527 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
103323489 ATTTATCCAT
103323499 TTAATTTTATTTTGC
1 TTAATTTTATTTTGC
103323514 TTAA-TTTATTTTGC
1 TTAATTTTATTTTGC
103323528 AATCACGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTAATTTTATTTTGC
Found at i:103325575 original size:27 final size:28
Alignment explanation
Indices: 103325491--103325587 Score: 124
Period size: 27 Copynumber: 3.5 Consensus size: 28
103325481 CATGAGATTG
* * * * *
103325491 GCACTAAGTGTACGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
103325520 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
103325548 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
103325575 GCACTGAGTGTGC
1 GCACTAAGTGTGC
103325588 AGACTTAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
27 23 0.37
28 22 0.35
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:103325602 original size:29 final size:27
Alignment explanation
Indices: 103325519--103325602 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
103325509 TAAATTGTAC
* *
103325519 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
103325547 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
103325574 AGCACTGAGTGTGCAGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
103325603 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:103355785 original size:25 final size:25
Alignment explanation
Indices: 103355757--103355804 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
103355747 AATACTGAAA
*
103355757 AGTCATCTATAAATACCTCCATAAT
1 AGTCATCCATAAATACCTCCATAAT
103355782 AGTCATCCATAAATACCTCCATA
1 AGTCATCCATAAATACCTCCATA
103355805 GTGTCTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (25 bp):
AGTCATCCATAAATACCTCCATAAT
Found at i:103361926 original size:20 final size:21
Alignment explanation
Indices: 103361874--103361926 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
103361864 TACAGGATTT
* *
103361874 TGCACTTCGGTGCCTCTGATC
1 TGCACTTCAGTGCCCCTGATC
* *
103361895 -GCACATCTGTGCCCCTG-TC
1 TGCACTTCAGTGCCCCTGATC
103361914 TGCACTTCAGTGC
1 TGCACTTCAGTGC
103361927 TTCTATTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.11, C:0.36, G:0.23, T:0.30
Consensus pattern (21 bp):
TGCACTTCAGTGCCCCTGATC
Found at i:103367565 original size:23 final size:24
Alignment explanation
Indices: 103367518--103367561 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
103367508 TAACTAAGTC
103367518 TACTTACTTTTCTAACTTAATTCT
1 TACTTACTTTTCTAACTTAATTCT
103367542 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
103367562 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCT
Found at i:103370056 original size:13 final size:13
Alignment explanation
Indices: 103370019--103370067 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
103370009 AAGTCAGATC
*
103370019 TAAAAAAATAAAA
1 TAAAAAATTAAAA
* *
103370032 GAAAGTAATTAAAA
1 TAAA-AAATTAAAA
*
103370046 TAAAAAATTAAGA
1 TAAAAAATTAAAA
103370059 TAAAAAATT
1 TAAAAAATT
103370068 TAATTAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:103374504 original size:11 final size:11
Alignment explanation
Indices: 103374484--103374517 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
103374474 TTTATCTTTC
103374484 ATCC-AAAAAT
1 ATCCAAAAAAT
103374494 ATCCAAAAAAT
1 ATCCAAAAAAT
103374505 ATCCAAAAAAT
1 ATCCAAAAAAT
103374516 AT
1 AT
103374518 AAAATACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (11 bp):
ATCCAAAAAAT
Found at i:103374839 original size:19 final size:19
Alignment explanation
Indices: 103374815--103374855 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
103374805 CTTGCTCTCC
*
103374815 TATTTTCTTTGTTTTT-TTT
1 TATTTT-TTTATTTTTATTT
103374834 TATTTTTTTATTTTTATTT
1 TATTTTTTTATTTTTATTT
103374853 TAT
1 TAT
103374856 AACACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (19 bp):
TATTTTTTTATTTTTATTT
Found at i:103376651 original size:14 final size:14
Alignment explanation
Indices: 103376618--103376690 Score: 74
Period size: 14 Copynumber: 5.2 Consensus size: 14
103376608 TGAGTATTTG
*
103376618 TATCTGTATTTATA
1 TATCTGTATCTATA
* * *
103376632 TTTCTGCATCTGTA
1 TATCTGTATCTATA
*
103376646 TATCTGTATCCATA
1 TATCTGTATCTATA
103376660 TATCTGTATCTATA
1 TATCTGTATCTATA
* * *
103376674 TTTCTATATCTGTA
1 TATCTGTATCTATA
103376688 TAT
1 TAT
103376691 GGGGTGGGAT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 46 1.00
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (14 bp):
TATCTGTATCTATA
Found at i:103378630 original size:20 final size:20
Alignment explanation
Indices: 103378584--103378624 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
103378574 ATTTCCGAGG
103378584 TAATCCTCATTGACTTTGTC
1 TAATCCTCATTGACTTTGTC
103378604 TAATCCTCATTGACTTTGTC
1 TAATCCTCATTGACTTTGTC
103378624 T
1 T
103378625 TTTCCTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (20 bp):
TAATCCTCATTGACTTTGTC
Found at i:103379152 original size:13 final size:13
Alignment explanation
Indices: 103379134--103379158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103379124 AACCCTAAAT
103379134 TTTCCTTTCTTTC
1 TTTCCTTTCTTTC
103379147 TTTCCTTTCTTT
1 TTTCCTTTCTTT
103379159 TTCCTCTATT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCCTTTCTTTC
Found at i:103385559 original size:13 final size:13
Alignment explanation
Indices: 103385543--103385575 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
103385533 TTTAATTAAA
*
103385543 TTAGTTAATTAGT
1 TTAGATAATTAGT
103385556 TTAGATAATTAGT
1 TTAGATAATTAGT
103385569 TTA-ATAA
1 TTAGATAA
103385576 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:103386202 original size:30 final size:30
Alignment explanation
Indices: 103386168--103386224 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
103386158 AATGCTGTTT
103386168 TCACATGGCTGAA-ACACATGCCCGTGTGCC
1 TCACATGGCT-AAGACACATGCCCGTGTGCC
*
103386198 TCACATGGCTAAGACACATGGCCGTGT
1 TCACATGGCTAAGACACATGCCCGTGT
103386225 CTCTGCCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.21
Consensus pattern (30 bp):
TCACATGGCTAAGACACATGCCCGTGTGCC
Found at i:103393965 original size:17 final size:17
Alignment explanation
Indices: 103393943--103393979 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
103393933 AGTCGCTATT
*
103393943 AGTTTTGCTACAGTCTC
1 AGTTTTACTACAGTCTC
*
103393960 AGTTTTACTACAGTTTC
1 AGTTTTACTACAGTCTC
103393977 AGT
1 AGT
103393980 AAACACTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (17 bp):
AGTTTTACTACAGTCTC
Found at i:103397447 original size:17 final size:18
Alignment explanation
Indices: 103397405--103397450 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
103397395 TTTTCTTACA
103397405 AAACTAATTTCATATCTC
1 AAACTAATTTCATATCTC
* * *
103397423 AATC-AATTTC-TATTTT
1 AAACTAATTTCATATCTC
103397439 AAACTAATTTCA
1 AAACTAATTTCA
103397451 ACTCTCTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
16 7 0.32
17 12 0.55
18 3 0.14
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.43
Consensus pattern (18 bp):
AAACTAATTTCATATCTC
Found at i:103397770 original size:13 final size:13
Alignment explanation
Indices: 103397752--103397776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103397742 AACCCTAAAT
103397752 TTTCCTTTCTTTC
1 TTTCCTTTCTTTC
103397765 TTTCCTTTCTTT
1 TTTCCTTTCTTT
103397777 TTCCCCTATT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCCTTTCTTTC
Found at i:103405338 original size:18 final size:20
Alignment explanation
Indices: 103405315--103405352 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
103405305 ACGTGGCAGT
103405315 CCAAC-TAGATTT-TAAATG
1 CCAACTTAGATTTCTAAATG
*
103405333 CCAACTTGGATTTCTAAATG
1 CCAACTTAGATTTCTAAATG
103405353 GGATGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
CCAACTTAGATTTCTAAATG
Found at i:103405389 original size:17 final size:17
Alignment explanation
Indices: 103405369--103405402 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103405359 AAATAGATTT
103405369 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
103405386 TTAATTAAAACTTTTAA
1 TTAATTAAAAATTTTAA
103405403 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:103406276 original size:31 final size:29
Alignment explanation
Indices: 103406207--103406280 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
103406197 ACAAAATAAT
**
103406207 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATAACA
*
103406236 AACATAAGTGACTAAAATGTAACCTGAAACA
1 AACATAAGTGACTAAAATGTAACAT--AACA
*
103406267 AACAAAAGTGACTA
1 AACATAAGTGACTA
103406281 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATAACA
Found at i:103407967 original size:20 final size:21
Alignment explanation
Indices: 103407942--103407981 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
103407932 AGTCTTTATC
*
103407942 AATTTT-TATATAAATTTTAA
1 AATTTTCTAAATAAATTTTAA
*
103407962 AATTTTCTAAATAAGTTTTA
1 AATTTTCTAAATAAATTTTA
103407982 CTAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
AATTTTCTAAATAAATTTTAA
Found at i:103410013 original size:22 final size:23
Alignment explanation
Indices: 103409971--103410013 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
103409961 ACCAAAGAAT
*
103409971 AAAATGAATAATATAAACAATTC
1 AAAATGAATAATAGAAACAATTC
103409994 AAAATGAATAAT-GAAACAAT
1 AAAATGAATAATAGAAACAAT
103410014 ATTAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAATGAATAATAGAAACAATTC
Found at i:103410339 original size:28 final size:28
Alignment explanation
Indices: 103410308--103410403 Score: 83
Period size: 27 Copynumber: 3.5 Consensus size: 28
103410298 ATAATATACA
*
103410308 AAAAAACTTAAAAATAGATGATATATGT
1 AAAAAACTTAAAAATAGATAATATATGT
* * *
103410336 AAAAAA-TTTAGAATAGATAATATATAT
1 AAAAAACTTAAAAATAGATAATATATGT
* *
103410363 ATAAAAGTGT-AAAATA-AGTAATATATG-
1 AAAAAACT-TAAAAATAGA-TAATATATGT
103410390 AAAAGAACTTAAAA
1 AAAA-AACTTAAAA
103410404 CAAATAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
27 27 0.50
28 26 0.48
29 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.28
Consensus pattern (28 bp):
AAAAAACTTAAAAATAGATAATATATGT
Found at i:103410471 original size:23 final size:22
Alignment explanation
Indices: 103410405--103410496 Score: 79
Period size: 22 Copynumber: 4.3 Consensus size: 22
103410395 AACTTAAAAC
*
103410405 AAATAA-TA-ATAAAACAATTTT
1 AAATAAGTATATAAAA-AATTTA
*
103410426 AAATAA--ATA-AAAAGAGTTTA
1 AAATAAGTATATAAAA-AATTTA
103410446 AAATAAGGTATATAAAAAATTTA
1 AAATAA-GTATATAAAAAATTTA
*
103410469 AAATAAGTAT-TAGAACAATTTA
1 AAATAAGTATATA-AAAAATTTA
103410491 AAATAA
1 AAATAA
103410497 ATAATATAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.25
21 9 0.15
22 18 0.30
23 14 0.23
24 4 0.07
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (22 bp):
AAATAAGTATATAAAAAATTTA
Found at i:103410488 original size:22 final size:23
Alignment explanation
Indices: 103410432--103410496 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 23
103410422 TTTTAAATAA
103410432 ATAAAAAGAGTTTAAAATAAGGTAT
1 ATAAAAA-A-TTTAAAATAAGGTAT
103410457 ATAAAAAATTTAAAATAA-GTAT
1 ATAAAAAATTTAAAATAAGGTAT
*
103410479 -TAGAACAATTTAAAATAA
1 ATA-AAAAATTTAAAATAA
103410497 ATAATATAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
21 2 0.05
22 18 0.47
23 10 0.26
24 1 0.03
25 7 0.18
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
ATAAAAAATTTAAAATAAGGTAT
Found at i:103410504 original size:45 final size:44
Alignment explanation
Indices: 103410398--103410543 Score: 107
Period size: 45 Copynumber: 3.2 Consensus size: 44
103410388 TGAAAAGAAC
* * * *
103410398 TTAAAACAAATAATAATAAAACAATTTTAAATAAATAAAAAGAGT
1 TTAAAATAAATAAT-ATAAAACAATTTAAAATAAATAAAAACAAT
* * *
103410443 TTAAAATAAGGT-ATATAAAA-AATTTAAAATAAGTATTAGAACAAT
1 TTAAAATAA-ATAATATAAAACAATTTAAAATAA--ATAAAAACAAT
** *
103410488 TTAAAATAAATAATATAGAAAGCGCTTTAAAATAAAATAATAAAACAGT
1 TTAAAATAAATAATATA-AAA-CAATTTAAAAT-AAAT-A-AAAACAAT
103410537 TTAAAAT
1 TTAAAAT
103410544 GTAGGGTCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
43 11 0.14
44 7 0.09
45 31 0.40
46 4 0.05
47 2 0.03
48 8 0.10
49 15 0.19
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (44 bp):
TTAAAATAAATAATATAAAACAATTTAAAATAAATAAAAACAAT
Found at i:103410543 original size:23 final size:22
Alignment explanation
Indices: 103410405--103410543 Score: 97
Period size: 23 Copynumber: 6.2 Consensus size: 22
103410395 AACTTAAAAC
*
103410405 AAAT-AATAATAAAACAATTTT
1 AAATAAATAATAAAACAATTTA
* *
103410426 AAATAAAT-A-AAAAGAGTTTA
1 AAATAAATAATAAAACAATTTA
*
103410446 AAATAAGGTATATAAAA-AATTTA
1 AAATAA-ATA-ATAAAACAATTTA
* * *
103410469 AAATAAGTATTAGAACAATTTA
1 AAATAAATAATAAAACAATTTA
**
103410491 AAATAAATAATATAGAAAGCGCTTTA
1 AAATAAAT-A-ATA-AAA-CAATTTA
*
103410517 AAATAAAATAATAAAACAGTTTA
1 AAAT-AAATAATAAAACAATTTA
103410540 AAAT
1 AAAT
103410544 GTAGGGTCAA
Statistics
Matches: 93, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
20 14 0.15
21 10 0.11
22 19 0.20
23 22 0.24
24 9 0.10
25 5 0.05
26 10 0.11
27 4 0.04
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (22 bp):
AAATAAATAATAAAACAATTTA
Found at i:103412177 original size:45 final size:45
Alignment explanation
Indices: 103412128--103412373 Score: 171
Period size: 45 Copynumber: 5.5 Consensus size: 45
103412118 GTTTGACTAT
**
103412128 AACTTCAGGGAGATAAGGTTTGTAATCTTTAGTCTACTCCACTGC
1 AACTTCAGGGAGATAAGACTTGTAATCTTTAGTCTACTCCACTGC
* * * *
103412173 AACTTCAGGGAGATAAGACTTGTTATCTTTAGTCTGCTCCTCTTC
1 AACTTCAGGGAGATAAGACTTGTAATCTTTAGTCTACTCCACTGC
* * * * *** **
103412218 AACTTCAGAGAGATAAGACTTGTTTATTTTTA-TCCTGCTTTTCTAT
1 AACTTCAGGGAGATAAGACTTG-TAATCTTTAGT-CTACTCCACTGC
* * * * ** * *
103412264 AATTTTAGAGAGATAATGA-TGGT-GGC-TTCGATCTGCTCCACTGC
1 AACTTCAGGGAGATAA-GACTTGTAATCTTTAG-TCTACTCCACTGC
*
103412308 AACTTCAGGGAGATAAGA-TCTGCT-ATCTTCAGTCTACTCCACTGC
1 AACTTCAGGGAGATAAGACT-TG-TAATCTTTAGTCTACTCCACTGC
*
103412353 AACTTCAAGGAGATAAGACTT
1 AACTTCAGGGAGATAAGACTT
103412374 TAACTTCAAC
Statistics
Matches: 158, Mismatches: 34, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
43 5 0.03
44 21 0.13
45 95 0.60
46 35 0.22
47 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (45 bp):
AACTTCAGGGAGATAAGACTTGTAATCTTTAGTCTACTCCACTGC
Found at i:103417766 original size:21 final size:22
Alignment explanation
Indices: 103417737--103417779 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
103417727 TAAAAATCCC
103417737 AAATATCGAGT-CACACAGCCAT
1 AAATATCGA-TCCACACAGCCAT
*
103417759 AAAT-TCGATCCACACTGCCAT
1 AAATATCGATCCACACAGCCAT
103417780 GCGACATGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 14 0.74
22 4 0.21
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (22 bp):
AAATATCGATCCACACAGCCAT
Found at i:103420074 original size:5 final size:5
Alignment explanation
Indices: 103420064--103420114 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
103420054 CCATTTATTT
* *
103420064 TTTTA TTTTA TTTTA TTTTA TTTTTGT TTTTA TTTTTG TTTTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTT-A TTTTA -TTTTA TTTTA TTTTA
103420111 TTTT
1 TTTT
103420115 TCTTAAGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 4 0.11
5 22 0.58
6 12 0.32
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:103420077 original size:12 final size:12
Alignment explanation
Indices: 103420057--103420109 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 12
103420047 TTTGAGTCCA
103420057 TTTATTTTTTTAT
1 TTTA-TTTTTTAT
103420070 TTTA--TTTTAT
1 TTTATTTTTTAT
103420080 TTTATTTTTGT-T
1 TTTATTTTT-TAT
*
103420092 TTTA-TTTTTGT
1 TTTATTTTTTAT
103420103 TTTATTT
1 TTTATTT
103420110 ATTTTTCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
10 11 0.31
11 9 0.26
12 10 0.29
13 5 0.14
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:103420085 original size:23 final size:23
Alignment explanation
Indices: 103420057--103420115 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
103420047 TTTGAGTCCA
103420057 TTTATTTTTTTATTTTA-TTTTAT
1 TTTATTTTTTT-TTTTATTTTTAT
* *
103420080 TTTATTTTTGTTTTTATTTTTGT
1 TTTATTTTTTTTTTTATTTTTAT
*
103420103 TTTATTTATTTTT
1 TTTATTTTTTTTT
103420116 CTTAAGACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (23 bp):
TTTATTTTTTTTTTTATTTTTAT
Found at i:103420088 original size:11 final size:11
Alignment explanation
Indices: 103420063--103420109 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
103420053 TCCATTTATT
103420063 TTTTTATTTTA
1 TTTTTATTTTA
103420074 -TTTTATTTTA
1 TTTTTATTTTA
*
103420084 TTTTTGTTTTTA
1 TTTTT-ATTTTA
*
103420096 TTTTTGTTTTA
1 TTTTTATTTTA
103420107 TTT
1 TTT
103420110 ATTTTTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 10 0.31
11 12 0.38
12 10 0.31
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:103420094 original size:27 final size:27
Alignment explanation
Indices: 103420063--103420115 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
103420053 TCCATTTATT
103420063 TTTTTA-TTTTATTTTATTTTATTTTTG
1 TTTTTATTTTTATTTTA-TTTATTTTTG
*
103420090 TTTTTATTTTTGTTTTATTTATTTTT
1 TTTTTATTTTTATTTTATTTATTTTT
103420116 CTTAAGACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (27 bp):
TTTTTATTTTTATTTTATTTATTTTTG
Found at i:103424074 original size:33 final size:33
Alignment explanation
Indices: 103424032--103424096 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
103424022 AGAGAAAGTC
*
103424032 CATGAGGAAGTCATGACATACAGAGGTGAAGGT
1 CATGAGGAAGTCATGACATACAAAGGTGAAGGT
*
103424065 CATGGGGAAGTCATGACATACAAAGGTGAAGG
1 CATGAGGAAGTCATGACATACAAAGGTGAAGG
103424097 AGGTTGTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.34, T:0.17
Consensus pattern (33 bp):
CATGAGGAAGTCATGACATACAAAGGTGAAGGT
Found at i:103429522 original size:43 final size:40
Alignment explanation
Indices: 103429456--103429607 Score: 180
Period size: 43 Copynumber: 3.6 Consensus size: 40
103429446 CACTAAAGAC
* *
103429456 AACGCCGCTAAAGAACATAACCTTTAGCGACACTTTCCCCACA
1 AACGCCGCTAAAGAACATGACCTTTAGCG---CTTTTCCCACA
*
103429499 AACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTCGCACA
1 AACGCCGCTAAAGAACATGACCTTTAGC---GCTTTTCCCACA
* *
103429542 AACGCCGCTATAGAACA-GACCTTTAAGCGCTTTTCTCACA
1 AACGCCGCTAAAGAACATGACCTTT-AGCGCTTTTCCCACA
*
103429582 AACGCCGCTAAAGAACATGACATTTA
1 AACGCCGCTAAAGAACATGACCTTTA
103429608 AAAAATTATT
Statistics
Matches: 97, Mismatches: 7, Indels: 13
0.83 0.06 0.11
Matches are distributed among these distances:
40 28 0.29
41 6 0.06
42 7 0.07
43 55 0.57
46 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.22
Consensus pattern (40 bp):
AACGCCGCTAAAGAACATGACCTTTAGCGCTTTTCCCACA
Found at i:103433831 original size:7 final size:7
Alignment explanation
Indices: 103433829--103433876 Score: 87
Period size: 7 Copynumber: 6.7 Consensus size: 7
103433819 AATTTTAAGT
103433829 TTTTTAA
1 TTTTTAA
103433836 TTTTTAA
1 TTTTTAA
103433843 TTTTTAA
1 TTTTTAA
103433850 TTTTTAA
1 TTTTTAA
103433857 TTTTTAA
1 TTTTTAA
103433864 TTTTTAAA
1 TTTTT-AA
103433872 TTTTT
1 TTTTT
103433877 TTGAAGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 33 0.82
8 7 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:103434854 original size:14 final size:14
Alignment explanation
Indices: 103434817--103434868 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
103434807 ATAAGCCCTA
* *
103434817 AAACCCCAAACCAT
1 AAACCCTAAACCTT
**
103434831 AAACATTAAACCTT
1 AAACCCTAAACCTT
*
103434845 AAATCCTAAACCTT
1 AAACCCTAAACCTT
103434859 AAACCCTAAA
1 AAACCCTAAA
103434869 ATAAAATGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:103435174 original size:40 final size:40
Alignment explanation
Indices: 103435122--103435239 Score: 157
Period size: 40 Copynumber: 3.0 Consensus size: 40
103435112 GCATTTTTAG
*
103435122 AAAAGCGCCGCTAATGCTC-AGTCTATAGCAGTGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGA-TCTATAGCAGCGTTTTTCA
* * * *
103435162 AAAAGCGTCGCTAATGCTCGATCTTTAGCTGCATTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTTCA
* *
103435202 AAAAGAGCCGCTAATGCTCGATCTATAGCGGCGTTTTT
1 AAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTT
103435240 TATCCAAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
40 66 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTTCA
Found at i:103436072 original size:83 final size:84
Alignment explanation
Indices: 103435932--103436098 Score: 232
Period size: 83 Copynumber: 2.0 Consensus size: 84
103435922 GGGCCTGATT
* * *
103435932 GTAACGGATGGCCTTCGTGTGTGCATCTCGAGTTATGTTTGAGCATTTTTCGAGGTGAAACCAAG
1 GTAACCGATGGCCTTCGAGTGTGCATCTCGAGTTATGTTTGAGCATTTGTCGAGGTGAAACCAAG
*
103435997 G-GGTAGAGAGGATTTTCA
66 GAGGTAGAGAGGATCTTCA
* *
103436015 GTAACCGATGGCCTTCGAGTGTGCATCTC-AGGT-TGCTTTTGAGCATTTGTCGGGGTGAAACCA
1 GTAACCGATGGCCTTCGAGTGTGCATCTCGAGTTATG--TTTGAGCATTTGTCGAGGTGAAACCA
*
103436078 GGGAGGTAGAGAGGATCTTCA
64 AGGAGGTAGAGAGGATCTTCA
103436099 CTTGTCCACT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 2 0.03
82 3 0.04
83 53 0.72
84 16 0.22
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (84 bp):
GTAACCGATGGCCTTCGAGTGTGCATCTCGAGTTATGTTTGAGCATTTGTCGAGGTGAAACCAAG
GAGGTAGAGAGGATCTTCA
Found at i:103439837 original size:22 final size:23
Alignment explanation
Indices: 103439795--103439837 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
103439785 ACCAAAGAAT
*
103439795 AAAATGAATAATATAAACAATTC
1 AAAATGAATAATAGAAACAATTC
103439818 AAAATGAATAAT-GAAACAAT
1 AAAATGAATAATAGAAACAAT
103439838 ATTAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAATGAATAATAGAAACAATTC
Found at i:103440312 original size:22 final size:22
Alignment explanation
Indices: 103440228--103440395 Score: 117
Period size: 22 Copynumber: 7.2 Consensus size: 22
103440218 AACTTAAAAC
*
103440228 AAAT-AATAATAAAACAATTTT
1 AAATAAATAATAAAACAATTTA
* *
103440249 AAATAAAT-A-AAAAGAGTTTA
1 AAATAAATAATAAAACAATTTA
**
103440269 AAATTAGGTATATAAAACAATTTA
1 AAA-TAAATA-ATAAAACAATTTA
* *
103440293 AAATAAGTAATAGAACAATTTA
1 AAATAAATAATAAAACAATTTA
*
103440315 AAATAAATAATACATGAAAGAATTTA
1 AAATAAATAAT--A--AAACAATTTA
*
103440341 AAATAAATAATATAGAAATCACTTTAA
1 AAATAAAT-A-ATA-AAA-CAATTT-A
*
103440368 AAATAAAATAATAAAACAGTTTA
1 AAAT-AAATAATAAAACAATTTA
103440391 AAATA
1 AAATA
103440396 TAGGGTCAAG
Statistics
Matches: 118, Mismatches: 15, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
20 11 0.09
21 8 0.07
22 26 0.22
23 11 0.09
24 18 0.15
25 7 0.06
26 24 0.20
27 7 0.06
28 6 0.05
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (22 bp):
AAATAAATAATAAAACAATTTA
Found at i:103440366 original size:26 final size:26
Alignment explanation
Indices: 103440283--103440395 Score: 98
Period size: 26 Copynumber: 4.6 Consensus size: 26
103440273 TAGGTATATA
*
103440283 AAACAATTTAAAATAAGTAAT--A-G
1 AAACAATTTAAAATAAATAATACATG
103440306 -AACAATTTAAAATAAATAATACATG
1 AAACAATTTAAAATAAATAATACATG
* *
103440331 AAAGAATTTAAAATAAATAATATA-G
1 AAACAATTTAAAATAAATAATACATG
* *
103440356 AAATCACTTTAAAA-ATAA-AATA-ATA
1 AAA-CAATTTAAAATA-AATAATACATG
*
103440381 AAACAGTTTAAAATA
1 AAACAATTTAAAATA
103440396 TAGGGTCAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
22 19 0.25
24 11 0.15
25 14 0.19
26 31 0.41
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (26 bp):
AAACAATTTAAAATAAATAATACATG
Found at i:103443975 original size:46 final size:46
Alignment explanation
Indices: 103443908--103444081 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
103443898 GTAACCCGCA
*
103443908 CATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTTGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTTGCATC
* * *
103443954 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GGC-ATTTGCATC
* * * *
103444003 -TTCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CATTTGCATC
*
103444047 CATAAGTGAACTCAGACTCAACTCAACGAGTTCAG
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCAG
103444082 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 57 0.55
47 27 0.26
48 3 0.03
49 2 0.02
50 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCATTTGCATC
Found at i:103444022 original size:93 final size:93
Alignment explanation
Indices: 103443915--103444085 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
103443905 GCACATAAGT
* *
103443915 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
103443979 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCAGATGCCTAGTTACATTTCAC
*
103444008 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
103444073 CGAGTTCAGATGC
66 CGAGTTCAGATGC
103444086 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:103450539 original size:42 final size:42
Alignment explanation
Indices: 103450492--103450612 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
103450482 CACACAATCC
*
103450492 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACG-GTCT
1 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCT-T
* * * * *
103450534 GCGACACGGCCGTGTTTATCAAGTTAGAGAGTTACACGCCTT
1 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCTT
* * * *
103450576 ACGACACAATCATGTG-ATCTAAGTCGGTGAGTTACAC
1 GCGACACAGTCGTGTGTATC-AAGTCAGTGAGTTACAC
103450613 TGTTTAAGAC
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
41 3 0.05
42 58 0.94
43 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (42 bp):
GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCTT
Found at i:103451860 original size:37 final size:37
Alignment explanation
Indices: 103451809--103451882 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
103451799 GTACAATTGA
*
103451809 GGTAACACAGCCTGAATTTAGCACATTCAAGGTAAAC
1 GGTAACACAGCCTGAATTCAGCACATTCAAGGTAAAC
* * *
103451846 GGTAACACATCCTGAATTCGGCATATTCAAGGTAAAC
1 GGTAACACAGCCTGAATTCAGCACATTCAAGGTAAAC
103451883 AATACTTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (37 bp):
GGTAACACAGCCTGAATTCAGCACATTCAAGGTAAAC
Found at i:103452126 original size:12 final size:13
Alignment explanation
Indices: 103452109--103452138 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
103452099 ATCATTTTTT
103452109 AAAAAA-TTGAAA
1 AAAAAACTTGAAA
103452121 AAAAAACTTGAAA
1 AAAAAACTTGAAA
103452134 AAAAA
1 AAAAA
103452139 TTAGTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAAAACTTGAAA
Found at i:103452713 original size:21 final size:20
Alignment explanation
Indices: 103452688--103452749 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
103452678 CCAAATTGAT
103452688 TTTATTTAGTTTTATATTTTA
1 TTTATTT-GTTTTATATTTTA
* *
103452709 TTTATTTCTATTTCTATTTCTA
1 TTTATTTGT-TTTATATTT-TA
* *
103452731 TTTTTTTGTTTTTTATTTT
1 TTTATTTGTTTTATATTTT
103452750 TGTTTTCGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTATTTGTTTTATATTTTA
Found at i:103452784 original size:22 final size:21
Alignment explanation
Indices: 103452739--103452784 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
103452729 TATTTTTTTG
*
103452739 TTTTTTATTTTTGTTTTCGTT
1 TTTTTTATTTTTGTTTTCGCT
* *
103452760 TTTTTTCTTCTTTGTTTTTGCT
1 TTTTTTATT-TTTGTTTTCGCT
103452782 TTT
1 TTT
103452785 GCTTTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.02, C:0.09, G:0.09, T:0.80
Consensus pattern (21 bp):
TTTTTTATTTTTGTTTTCGCT
Found at i:103454785 original size:41 final size:41
Alignment explanation
Indices: 103454725--103454983 Score: 369
Period size: 41 Copynumber: 6.4 Consensus size: 41
103454715 TTTTTTACTG
*
103454725 AAACGCCACTAAAAA-CAGAGCATTAGCGGCGCTTTCGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
* *
103454765 AAACGCCGCTAAAAACCAGAGTATTAGCGGCGCTTTAGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
* * **
103454806 AAACGCCGCTAAAAACCAGAGTATTAGCGGTGCTTTCTATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
* * *
103454847 AAACGCCGCTAAAAA-CAGGGCATTAGCAGCGCTTTGGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
* *
103454887 AAACACCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
* * *
103454928 AAACGTCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
103454969 AAACGCCGCTAAAAA
1 AAACGCCGCTAAAAA
103454984 TCCCATAACC
Statistics
Matches: 194, Mismatches: 23, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
40 46 0.24
41 148 0.76
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (41 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
Found at i:103454810 original size:81 final size:82
Alignment explanation
Indices: 103454725--103454983 Score: 378
Period size: 81 Copynumber: 3.2 Consensus size: 82
103454715 TTTTTTACTG
* *
103454725 AAACGCCACTAAAAA-CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGTAT
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCAT
103454789 TAGCGGCGCTTTAGGTA
66 TAGCGGCGCTTTAGGTA
* * ** *
103454806 AAACGCCGCTAAAAACCAGAGTATTAGCGGTGCTTTCTATAAAACGCCGCTAAAAA-CAGGGCAT
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCAT
* *
103454870 TAGCAGCGCTTTGGGTA
66 TAGCGGCGCTTTAGGTA
* * * *
103454887 AAACACCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGGTAAAACGTCACTAAAAACCAGAGCAT
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCAT
*
103454952 TAGCGGCGCTTTTGGTA
66 TAGCGGCGCTTTAGGTA
103454969 AAACGCCGCTAAAAA
1 AAACGCCGCTAAAAA
103454984 TCCCATAACC
Statistics
Matches: 155, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
81 83 0.54
82 72 0.46
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (82 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCAT
TAGCGGCGCTTTAGGTA
Found at i:103454870 original size:122 final size:122
Alignment explanation
Indices: 103454725--103454983 Score: 394
Period size: 122 Copynumber: 2.1 Consensus size: 122
103454715 TTTTTTACTG
* * * *
103454725 AAACGCCACTAAAAACAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGTATT
1 AAACGCCGCTAAAAACAGAGCATTAGCAGCGCTTTCGGTAAAACACCGCTAAAAACCAGAGCATT
* * *
103454790 AGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGTATTAGCGGTGCTTTCT-ATA
66 AGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTT-TGATA
* *
103454847 AAACGCCGCTAAAAACAGGGCATTAGCAGCGCTTTGGGTAAAACACCGCTAAAAACCAGAGCATT
1 AAACGCCGCTAAAAACAGAGCATTAGCAGCGCTTTCGGTAAAACACCGCTAAAAACCAGAGCATT
* * *
103454912 AGCGGCGCTTTGGGTAAAACGTCACTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
66 AGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGATA
103454969 AAACGCCGCTAAAAA
1 AAACGCCGCTAAAAA
103454984 TCCCATAACC
Statistics
Matches: 124, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
121 1 0.01
122 123 0.99
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (122 bp):
AAACGCCGCTAAAAACAGAGCATTAGCAGCGCTTTCGGTAAAACACCGCTAAAAACCAGAGCATT
AGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTTGATA
Found at i:103455163 original size:14 final size:14
Alignment explanation
Indices: 103455141--103455180 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
103455131 TTAATTATCA
* *
103455141 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
103455155 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
103455169 ATATGGTTTAAG
1 TTATGGTTTAAG
103455181 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:103456037 original size:15 final size:15
Alignment explanation
Indices: 103456017--103456048 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
103456007 TTTAATTTAG
*
103456017 AAGATAAATGTATAT
1 AAGATAAATATATAT
103456032 AAGATAAATATATAT
1 AAGATAAATATATAT
103456047 AA
1 AA
103456049 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:103456087 original size:24 final size:24
Alignment explanation
Indices: 103456020--103456087 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
103456010 AATTTAGAAG
* *
103456020 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
103456045 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
103456069 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
103456088 GTGGTTTACT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:103457657 original size:18 final size:17
Alignment explanation
Indices: 103457636--103457678 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
103457626 ATCTTAATGA
103457636 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
103457654 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
103457671 TCGATGAT
1 T-GATGAT
103457679 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:103459704 original size:133 final size:133
Alignment explanation
Indices: 103459466--103459717 Score: 486
Period size: 133 Copynumber: 1.9 Consensus size: 133
103459456 TGGTGATTCC
*
103459466 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATTTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
103459531 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
103459596 TAT
131 TAT
103459599 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
103459664 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATAT
103459718 TGTTGAATTC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:103467528 original size:21 final size:21
Alignment explanation
Indices: 103467502--103467545 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
103467492 TCAACTTAGA
103467502 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
*
103467523 GCGGAGGCAGCAGCGATGGAG
1 GCGGAGGCAGCAGCGAGGGAG
103467544 GC
1 GC
103467546 AGAGCAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.20, G:0.55, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:103468059 original size:85 final size:85
Alignment explanation
Indices: 103467847--103468243 Score: 368
Period size: 85 Copynumber: 4.7 Consensus size: 85
103467837 CTGAGCAAAT
* * * * * * * * *
103467847 TAGCGGCGTTTTTTAAAAAAACGCCGCTAAAAGTACAGGTCTATAGTGGCATTTTTTACAAAAGC
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGC-GTTTTTATAAAAGC
*
103467912 GCCGCTAAAAGTTCAGGTCTA
65 GCCGCTAAAAGTCCAGGTCTA
* * * * * *
103467933 TAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAACGGCGTTTTTATAAAAGCG
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTATAAAAGCG
* *
103467998 CCGCCAAAAGTACAGGTCTA
66 CCGCTAAAAGTCCAGGTCTA
* * * *
103468018 TAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCAGCGCTTTTATAAAAAAC
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTAT-AAAAGC
* * *
103468083 GCCGCTAAAGGTCCTGATCT-
65 GCCGCTAAAAGTCCAGGTCTA
* * ** * * * *
103468103 TTGCCGGCGTTTTTT-TAAGAGTACCGCTAAAGGTCCTGGTCTTTGGTGGCGTTTTTTTAAGAGC
1 TAG-CGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTATAAAAGC
* *
103468167 GCCGCTAAAGGTCCAGGTCTT
65 GCCGCTAAAAGTCCAGGTCTA
* * * * * *
103468188 TAGCGGCGCCTTTTTA-AAAAACGCTGCTAAAGATCGTGGTCTTTAGCGGAGTTTTT
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTT
103468244 TTCTTAAAAA
Statistics
Matches: 257, Mismatches: 49, Indels: 11
0.81 0.15 0.03
Matches are distributed among these distances:
84 27 0.11
85 154 0.60
86 76 0.30
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (85 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTATAAAAGCG
CCGCTAAAAGTCCAGGTCTA
Found at i:103468092 original size:43 final size:42
Alignment explanation
Indices: 103467846--103468244 Score: 352
Period size: 43 Copynumber: 9.4 Consensus size: 42
103467836 ACTGAGCAAA
* * *
103467846 TTAGCGGCGTTTTTTAAAAAAACGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTT-AAAAAGCGCCGCTAAAGGTCCAGGTCT
* * * * *
103467889 ATAGTGGCATTTTTTACAAAAGCGCCGCTAAAAGTTCAGGTCT
1 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAGGTCCAGGTCT
* * *
103467932 ATAGCGGCGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAGGTCCAGGTCT
* * * * *
103467975 ATAACGGCG-TTTTTATAAAAGCGCCGCCAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAGGTCCAGGTCT
* * *
103468017 ATAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAGGTCCAGGTCT
* * * * *
103468060 TTAGCAGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGATCT
1 TTAGCGGCG-TTTTTTAAAAAGCGCCGCTAAAGGTCCAGGTCT
* * ** *
103468103 TT-GCCGGCGTTTTTTTAAGAGTACCGCTAAAGGTCCTGGTCT
1 TTAG-CGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCAGGTCT
* * * *
103468145 TTGGTGGCGTTTTTTTAAGAGCGCCGCTAAAGGTCCAGGTCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCAGGTCT
* * * * **
103468187 TTAGCGGCGCCTTTTTAAAAAACGCTGCTAAAGATCGTGGTCT
1 TTAGCGGCG-TTTTTTAAAAAGCGCCGCTAAAGGTCCAGGTCT
*
103468230 TTAGCGGAGTTTTTT
1 TTAGCGGCGTTTTTT
103468245 TCTTAAAAAC
Statistics
Matches: 303, Mismatches: 47, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
42 114 0.38
43 183 0.60
44 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCAGGTCT
Found at i:103468146 original size:42 final size:41
Alignment explanation
Indices: 103468022--103468245 Score: 180
Period size: 42 Copynumber: 5.3 Consensus size: 41
103468012 GGTCTATAGT
* *
103468022 GGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGC
1 GGCGTTTTTT-TAAGAGCACCGCTAAAGGTCCTGGTCTTT-GC
* * * * * * *
103468065 AGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGATCTTTGCC
1 GGCG-TTTTTTTAAGAGCACCGCTAAAGGTCCTGGTCTTTG-C
* *
103468108 GGCGTTTTTTTAAGAGTACCGCTAAAGGTCCTGGTCTTTGGT
1 GGCGTTTTTTTAAGAGCACCGCTAAAGGTCCTGGTCTTT-GC
* *
103468150 GGCGTTTTTTTAAGAGCGCCGCTAAAGGTCCAGGTCTTTAGC
1 GGCGTTTTTTTAAGAGCACCGCTAAAGGTCCTGGTCTTT-GC
** ** * *
103468192 GGCGCCTTTTTAA-AAAACGCTGCTAAAGATCGTGGTCTTTAGC
1 GGCGTTTTTTTAAGAGCAC-C-GCTAAAGGTCCTGGTCTTT-GC
*
103468235 GGAGTTTTTTT
1 GGCGTTTTTTT
103468246 CTTAAAAACG
Statistics
Matches: 146, Mismatches: 30, Indels: 10
0.78 0.16 0.05
Matches are distributed among these distances:
41 2 0.01
42 78 0.53
43 61 0.42
44 5 0.03
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (41 bp):
GGCGTTTTTTTAAGAGCACCGCTAAAGGTCCTGGTCTTTGC
Found at i:103472698 original size:6 final size:6
Alignment explanation
Indices: 103472687--103472723 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
103472677 TAAGAGTAAC
103472687 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT A
1 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT A
103472724 GTAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAGAAT
Found at i:103482006 original size:32 final size:32
Alignment explanation
Indices: 103481969--103482033 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
103481959 TCTAAATACC
103481969 TAAGGAGATAAACCTTAAGATAGATTCTGTTA
1 TAAGGAGATAAACCTTAAGATAGATTCTGTTA
103482001 TAAGGAGATAAACCTTAAGATAGATTCTGTTA
1 TAAGGAGATAAACCTTAAGATAGATTCTGTTA
103482033 T
1 T
103482034 TTGATTTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (32 bp):
TAAGGAGATAAACCTTAAGATAGATTCTGTTA
Found at i:103491946 original size:14 final size:14
Alignment explanation
Indices: 103491927--103491958 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
103491917 TAGCCGTTCA
103491927 TCTCCTCCTCCCAT
1 TCTCCTCCTCCCAT
103491941 TCTCCTCCTCCCAT
1 TCTCCTCCTCCCAT
103491955 TCTC
1 TCTC
103491959 TTTGATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.56, G:0.00, T:0.38
Consensus pattern (14 bp):
TCTCCTCCTCCCAT
Found at i:103492035 original size:6 final size:6
Alignment explanation
Indices: 103492024--103492050 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
103492014 TTACCATCTC
103492024 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
103492051 GCCACAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:103494779 original size:11 final size:11
Alignment explanation
Indices: 103494734--103494781 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
103494724 ATTAAATTAA
*
103494734 TAAAATACTAT
1 TAAAATAATAT
*
103494745 TAAGATAAGTAT
1 TAAAATAA-TAT
*
103494757 TAAATTTAATAT
1 TAAA-ATAATAT
103494769 TAAAATAATAT
1 TAAAATAATAT
103494780 TA
1 TA
103494782 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 14 0.47
12 13 0.43
13 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:103499451 original size:46 final size:46
Alignment explanation
Indices: 103499399--103499811 Score: 621
Period size: 46 Copynumber: 9.0 Consensus size: 46
103499389 AGTGTTCTCT
*
103499399 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
103499445 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
103499491 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
103499537 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
103499583 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
103499629 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
103499675 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
103499721 GTGACATGAAATGAATAAGACCATGGTTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGG-TTGAAAGATACCATGGCAAC
* * * * * *
103499768 ATGATA-GAAAATGAGTAAGAGCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
103499812 TCATGTCAAA
Statistics
Matches: 346, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 308 0.89
47 38 0.11
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:103500118 original size:16 final size:17
Alignment explanation
Indices: 103500097--103500129 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
103500087 ATGATGGTGC
103500097 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
103500113 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
103500130 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:103501137 original size:26 final size:26
Alignment explanation
Indices: 103501093--103501150 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
103501083 TTAAACATTC
*
103501093 AATTATAATTTCACATTTCAAGTAAA
1 AATTATAATTTCACATTTCAAGCAAA
103501119 AATTATAATTTCACATTTCAAGCAAA
1 AATTATAATTTCACATTTCAAGCAAA
*
103501145 CATTAT
1 AATTAT
103501151 TCAGACTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (26 bp):
AATTATAATTTCACATTTCAAGCAAA
Found at i:103508219 original size:13 final size:13
Alignment explanation
Indices: 103508201--103508225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103508191 GTGCAGACTT
103508201 CACACGCCCATGA
1 CACACGCCCATGA
103508214 CACACGCCCATG
1 CACACGCCCATG
103508226 TCCCTAGGCC
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:0.28, C:0.48, G:0.16, T:0.08
Consensus pattern (13 bp):
CACACGCCCATGA
Found at i:103514367 original size:19 final size:19
Alignment explanation
Indices: 103514325--103514385 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
103514315 GATTGCATAT
103514325 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
103514343 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
103514361 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
103514380 CATATC
1 CATATC
103514386 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:103514546 original size:23 final size:22
Alignment explanation
Indices: 103514505--103514547 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
103514495 CTTGGAATTC
**
103514505 ATTTTTTTTTTGGGTTTATTAT
1 ATTTTTTTTTTGGACTTATTAT
103514527 ATTTTTGTTTTTGGACTTATT
1 ATTTTT-TTTTTGGACTTATT
103514548 TCTGGGCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (22 bp):
ATTTTTTTTTTGGACTTATTAT
Found at i:103514890 original size:43 final size:42
Alignment explanation
Indices: 103514746--103514902 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 42
103514736 TGTGTTTTTG
* *
103514746 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGA-CACGTCTGGGAAGTTGGCATCGA-TATTTGA-TTACA
* * * * *
103514790 TGTAGGACAATGTCTAGGAAGTTGGCATC-ATATTTGATTTCG
1 TGTAAGAC-ACGTCTGGGAAGTTGGCATCGATATTTGATTACA
*
103514832 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACAC-GTCTGGGA-AGTTGGCATCGATATTTGATTACA
*
103514875 TGTAAGATCACGTCTGGGACGTTGGCAT
1 TGTAAGA-CACGTCTGGGAAGTTGGCAT
103514903 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
42 26 0.29
43 40 0.44
44 25 0.27
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACACGTCTGGGAAGTTGGCATCGATATTTGATTACA
Found at i:103517617 original size:14 final size:14
Alignment explanation
Indices: 103517598--103517628 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
103517588 TCTCCTTGGC
*
103517598 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
103517612 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
103517626 CGG
1 CGG
103517629 ACCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:103517711 original size:22 final size:22
Alignment explanation
Indices: 103517669--103517713 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
103517659 TTATTAACCC
*
103517669 AAATTAAATTAGATATAAATTA
1 AAATTAAATTAAATATAAATTA
*
103517691 AAATT-AATTAAATTATGAATTA
1 AAATTAAATTAAA-TATAAATTA
103517713 A
1 A
103517714 TACACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATTAAATTAAATATAAATTA
Found at i:103523386 original size:27 final size:27
Alignment explanation
Indices: 103523330--103523386 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
103523320 AAGTTGTTCG
* *
103523330 AAAATAAGAAAAATAAAGTAAATAACT
1 AAAATAAGAAAAATAAAATAAAGAACT
**
103523357 AAAATAAGAAATTTAAGAATAAAGAA-T
1 AAAATAAGAAAAATAA-AATAAAGAACT
103523384 AAA
1 AAA
103523387 TATTCAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (27 bp):
AAAATAAGAAAAATAAAATAAAGAACT
Found at i:103527242 original size:18 final size:18
Alignment explanation
Indices: 103527219--103527267 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
103527209 CGAGATAATG
*
103527219 ATATTGAAATGGAAAATC
1 ATATTGAAATGAAAAATC
* *
103527237 ATATTGAAGTGAAAAATG
1 ATATTGAAATGAAAAATC
*
103527255 ATA-TGGAATGAAA
1 ATATTGAAATGAAA
103527268 TGAAATGTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.51, C:0.02, G:0.20, T:0.27
Consensus pattern (18 bp):
ATATTGAAATGAAAAATC
Found at i:103528419 original size:30 final size:30
Alignment explanation
Indices: 103528357--103528420 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
103528347 CACACGGTTA
* * *
103528357 TGTGCCATACATAGGTTTATGGCATAGTCG
1 TGTGCCATACACAGGCTTATGGCATAGCCG
*
103528387 TGTGCCATACACGGGCTTATGGCAT-GACCG
1 TGTGCCATACACAGGCTTATGGCATAG-CCG
103528417 TGTG
1 TGTG
103528421 GTCAGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (30 bp):
TGTGCCATACACAGGCTTATGGCATAGCCG
Found at i:103529455 original size:13 final size:13
Alignment explanation
Indices: 103529437--103529461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103529427 TCCATTGGCT
103529437 TTTCTAATAAAGG
1 TTTCTAATAAAGG
103529450 TTTCTAATAAAG
1 TTTCTAATAAAG
103529462 CAACTTAAAA
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:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TTTCTAATAAAGG
Found at i:103533367 original size:21 final size:21
Alignment explanation
Indices: 103533323--103533368 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
103533313 ATGCATGAAT
* *
103533323 TTAATTATTTGAAATTTACTA
1 TTAATTATTTAAAATTTACAA
*
103533344 TTAATTATTTAAAATTTTCAA
1 TTAATTATTTAAAATTTACAA
103533365 TTAA
1 TTAA
103533369 CAAATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAATTATTTAAAATTTACAA
Found at i:103537000 original size:15 final size:15
Alignment explanation
Indices: 103536976--103537006 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
103536966 AACTTTATAT
103536976 ATATAAGTTATAATA
1 ATATAAGTTATAATA
*
103536991 ATATATGTTATAATA
1 ATATAAGTTATAATA
103537006 A
1 A
103537007 AAAAATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATAAGTTATAATA
Found at i:103537916 original size:4 final size:4
Alignment explanation
Indices: 103537907--103537933 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
103537897 AATGTGCATA
103537907 TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TAT
103537934 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:103538307 original size:19 final size:19
Alignment explanation
Indices: 103538272--103538344 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
103538262 AAGATGGCAA
*
103538272 AGATGGGAAAT-AAATATG
1 AGATGAGAAATGAAATATG
103538290 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
* * *
103538309 AAATGATGAAATGAGATGTG
1 AGATGA-GAAATGAAATATG
*
103538329 A-ATTGTGAAATGAAAT
1 AGA-TGAGAAATGAAAT
103538345 CAAGTATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
18 10 0.22
19 22 0.48
20 14 0.30
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:103552183 original size:21 final size:21
Alignment explanation
Indices: 103552158--103552222 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
103552148 TAGCCTTCGG
103552158 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
** * *
103552179 GCTT-CAATTAGCA-TT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
103552197 GCTTCCGTTTAGCACTTATTT
1 GCTTCCGTTTAGCACTTATGT
103552218 GCTTC
1 GCTTC
103552223 AGCTAGACTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
20 9 0.28
21 9 0.28
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:103552190 original size:39 final size:39
Alignment explanation
Indices: 103552140--103552223 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
103552130 GCTCTGATGA
* *
103552140 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAATTAGCATTCGGGCTTCCGTTTAGCACTTATGT
*
103552179 GCTTCAATTAGCATTCGGGCTTCCGTTTAGCACTTATTT
1 GCTTCAATTAGCATTCGGGCTTCCGTTTAGCACTTATGT
103552218 GCTTCA
1 GCTTCA
103552224 GCTAGACTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.39
Consensus pattern (39 bp):
GCTTCAATTAGCATTCGGGCTTCCGTTTAGCACTTATGT
Found at i:103552210 original size:19 final size:19
Alignment explanation
Indices: 103552147--103552210 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
103552137 TGAGCTTCAG
*
103552147 TTAGCCTTCGGGCTTCCGT
1 TTAGCATTCGGGCTTCCGT
* * **
103552166 TTAGCACTTATGTGCTT-CAA
1 TTAGCA-TT-CGGGCTTCCGT
103552186 TTAGCATTCGGGCTTCCGT
1 TTAGCATTCGGGCTTCCGT
103552205 TTAGCA
1 TTAGCA
103552211 CTTATTTGCT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 5 0.15
19 14 0.42
20 9 0.27
21 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (19 bp):
TTAGCATTCGGGCTTCCGT
Found at i:103552706 original size:12 final size:12
Alignment explanation
Indices: 103552691--103552716 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
103552681 TATATTAGTG
103552691 AATACTACTTGA
1 AATACTACTTGA
103552703 AATACTACTTGA
1 AATACTACTTGA
103552715 AA
1 AA
103552717 GTATGAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AATACTACTTGA
Found at i:103557198 original size:46 final size:45
Alignment explanation
Indices: 103557145--103557408 Score: 246
Period size: 46 Copynumber: 5.8 Consensus size: 45
103557135 AGATTTGTGT
*
103557145 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATA
* * * **
103557191 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGATA
* * *
103557239 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGATA
* * * * *
103557285 GCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATA
* ** * * *
103557331 GCCAGTGTCAGACATGTCTGGGACATGTGTCAGCTACGAGATG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGATA
*
103557375 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
103557409 ACGGTTACAT
Statistics
Matches: 178, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
44 29 0.16
45 2 0.01
46 93 0.52
47 33 0.19
48 20 0.11
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGATA
Found at i:103557266 original size:94 final size:92
Alignment explanation
Indices: 103557145--103557409 Score: 293
Period size: 94 Copynumber: 2.9 Consensus size: 92
103557135 AGATTTGTGT
** * * *
103557145 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGATAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAATGTAAGA-CATGTC
* * *
103557210 TGGGACATGGCATCGGCATTGAGACGAGG
65 TAGGACAT-GCATCGGCATCGAGACGAGA
*
103557239 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAATGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAATGTAAGACATGTCT
* * **
103557304 AGGACATGCATCGGCCTCGAGATGTTA
66 AGGACATGCATCGGCATCGAGACGAGA
* ** * * * *
103557331 GCCAGTGTCAGACATGTCTGGGACATGTGTCAGCTAC-G-A-GATGTGCTAGTGTAAGACATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGA-GAGCCAATGTAAGACATGTC
*
103557393 TGGGACATGCATCGGCA
65 TAGGACATGCATCGGCA
103557410 CGGTTACATG
Statistics
Matches: 147, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
89 2 0.01
90 33 0.22
91 1 0.01
92 46 0.31
93 13 0.09
94 52 0.35
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (92 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAATGTAAGACATGTCT
AGGACATGCATCGGCATCGAGACGAGA
Found at i:103557433 original size:136 final size:138
Alignment explanation
Indices: 103557145--103557405 Score: 345
Period size: 140 Copynumber: 1.9 Consensus size: 138
103557135 AGATTTGTGT
* * * *
103557145 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGATAGCCAGTGTAAGACCATGTC
1 GCCAATGTAAGACATGTCTAGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATGTC
*
103557210 TGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA
66 TGGGACATGG-ATCAGCA-TGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA
103557275 CAGTATGAGA
129 CAGTATGAGA
* * *
103557285 GCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GATGTTAGCCAGTGTCAGA-CATGT
1 GCCAATGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGATAGCCAGTGTAAGACCATGT
*
103557348 CTGGGACATGTG-TCAGC-T-ACGA-GATGTGCTAGTGTAAGACATGTCTGGGACATGCATC
65 CTGGGACATG-GATCAGCATGA-GACGA-GGGCTAGTGTAAGACATGTCTGGGACATGCATC
103557406 GGCACGGTTA
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
135 3 0.03
136 35 0.32
138 4 0.04
139 15 0.14
140 50 0.46
141 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (138 bp):
GCCAATGTAAGACATGTCTAGGACATGCATCGGCCACATGATGATAGCCAGTGTAAGACCATGTC
TGGGACATGGATCAGCATGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACA
GTATGAGA
Found at i:103559004 original size:20 final size:20
Alignment explanation
Indices: 103558979--103559018 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
103558969 TATTTCGGAG
103558979 TAAGATTTGAGTACTGAGGA
1 TAAGATTTGAGTACTGAGGA
103558999 TAAGATTTGAGTACTGAGGA
1 TAAGATTTGAGTACTGAGGA
103559019 ACTCTAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (20 bp):
TAAGATTTGAGTACTGAGGA
Found at i:103566671 original size:10 final size:10
Alignment explanation
Indices: 103566656--103566685 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
103566646 AAAAGGTTCG
103566656 GATTGTCTGA
1 GATTGTCTGA
103566666 GATTGTCTGA
1 GATTGTCTGA
103566676 GATTGTCTGA
1 GATTGTCTGA
103566686 AAGCTGCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (10 bp):
GATTGTCTGA
Found at i:103570763 original size:43 final size:43
Alignment explanation
Indices: 103570652--103570774 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
103570642 AATTAAGAAG
* * * * ** *
103570652 TCCGAACTCGTTGAGTGGTCCGGGTTCGTGATATATGTG-CCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGACCA
* *
103570694 TCCGAGCTCGTT--GTGGTCCGAGTTCATTATGGATGCGAGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGACCA
103570735 TCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGA
103570775 TATATGTGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
40 19 0.28
41 14 0.20
42 11 0.16
43 25 0.36
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGACCA
Found at i:103574208 original size:5 final size:5
Alignment explanation
Indices: 103574168--103574222 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
103574158 ACAAATAAAT
*
103574168 AAAAG AAAA- AAAAG ACAAG CAAAACG AAATAG AAAAG AAAAG -AAAG
1 AAAAG AAAAG AAAAG AAAAG -AAAA-G AAA-AG AAAAG AAAAG AAAAG
103574214 AAAAG AAAA
1 AAAAG AAAA
103574223 AGGGAAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
4 8 0.19
5 23 0.53
6 10 0.23
7 2 0.05
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:103574232 original size:21 final size:20
Alignment explanation
Indices: 103574206--103574244 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
103574196 ATAGAAAAGA
103574206 AAAGAAAGAAAAGAAAAAGGG
1 AAAGAAAG-AAAGAAAAAGGG
*
103574227 AAAGAAAGAACGAAAAAG
1 AAAGAAAGAAAGAAAAAG
103574245 AAGGAGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAAAGGG
Found at i:103574282 original size:8 final size:8
Alignment explanation
Indices: 103574269--103574293 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
103574259 CCTTAAGGGC
103574269 TTCAAAGT
1 TTCAAAGT
103574277 TTCAAAGT
1 TTCAAAGT
103574285 TTCAAAGT
1 TTCAAAGT
103574293 T
1 T
103574294 CAATTGGTTA
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:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (8 bp):
TTCAAAGT
Found at i:103575161 original size:41 final size:39
Alignment explanation
Indices: 103575116--103575226 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 39
103575106 CGACTTCGAG
* *
103575116 TCGATAAGACATTGGATGTCAATTTACTACTTCGGATTTAT
1 TCGATAAGACACTGG-TGTCAATTTACTACTTCGG-TTTAA
* *
103575157 TCGATGAGGCACTGGGTGTCAA-TT--TACTTCGGTTTAA
1 TCGATAAGACACT-GGTGTCAATTTACTACTTCGGTTTAA
* *
103575194 CCGATTAGACACTGTGTGTCAATTTACTACTTC
1 TCGATAAGACACTG-GTGTCAATTTACTACTTC
103575227 AAATTATCCG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
36 1 0.02
37 21 0.36
38 10 0.17
40 8 0.14
41 16 0.28
42 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (39 bp):
TCGATAAGACACTGGTGTCAATTTACTACTTCGGTTTAA
Found at i:103575238 original size:40 final size:40
Alignment explanation
Indices: 103575132--103575255 Score: 146
Period size: 40 Copynumber: 3.1 Consensus size: 40
103575122 AGACATTGGA
*
103575132 TGTCAATTTACTACTTCGGATTTATTCGATGAGGCACTGGG
1 TGTCAATTTACTACTTC-GATTTATCCGATGAGGCACTGGG
* * * * *
103575173 TGTCAA-TT--TACTTCGGTTTAACCGATTAGACACTGTG
1 TGTCAATTTACTACTTCGATTTATCCGATGAGGCACTGGG
* *
103575210 TGTCAATTTACTACTTCAAATTATCCGATGAGGCACTGGG
1 TGTCAATTTACTACTTCGATTTATCCGATGAGGCACTGGG
103575250 TGTCAA
1 TGTCAA
103575256 ACTGGTGTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
37 23 0.34
38 8 0.12
40 30 0.45
41 6 0.09
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (40 bp):
TGTCAATTTACTACTTCGATTTATCCGATGAGGCACTGGG
Found at i:103578477 original size:18 final size:19
Alignment explanation
Indices: 103578437--103578480 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
103578427 ATACATTATT
*
103578437 TTTTTAATAGTTTTACAAC
1 TTTTTAATAGTTTTACAAA
103578456 TTTTTAATA-TTTTA-ATAA
1 TTTTTAATAGTTTTACA-AA
103578474 TTTTTAA
1 TTTTTAA
103578481 ACTTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 13 0.57
19 9 0.39
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTTAATAGTTTTACAAA
Found at i:103578477 original size:27 final size:28
Alignment explanation
Indices: 103578438--103578506 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
103578428 TACATTATTT
*
103578438 TTTTAAT-AGTTTTACAACTTTTT-AATA
1 TTTTAATAATTTTTA-AACTTTTTAAATA
103578465 TTTTAATAATTTTTAAACTTTTTAAATA
1 TTTTAATAATTTTTAAACTTTTTAAATA
*
103578493 TTTT-ACAATTTTTA
1 TTTTAATAATTTTTA
103578507 TAATTTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTTAATAATTTTTAAACTTTTTAAATA
Found at i:103578487 original size:19 final size:18
Alignment explanation
Indices: 103578464--103578513 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
103578454 ACTTTTTAAT
*
103578464 ATTTTAATAATTTTTA-A
1 ATTTTTATAATTTTTACA
103578481 ACTTTTTA-AATATTTTACA
1 A-TTTTTATAAT-TTTTACA
103578500 ATTTTTATAATTTT
1 ATTTTTATAATTTT
103578514 ATAAGTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTATAATTTTTACA
Found at i:103578511 original size:9 final size:9
Alignment explanation
Indices: 103578464--103578522 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
103578454 ACTTTTTAAT
*
103578464 ATTTTAATA
1 ATTTTTATA
103578473 ATTTTTA-A
1 ATTTTTATA
103578481 ACTTTTTA-A
1 A-TTTTTATA
*
103578490 ATATTTTACA
1 AT-TTTTATA
103578500 ATTTTTATA
1 ATTTTTATA
103578509 A-TTTTATA
1 ATTTTTATA
103578517 AGTTTT
1 A-TTTT
103578523 GTTTTACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
8 11 0.26
9 26 0.60
10 6 0.14
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
ATTTTTATA
Found at i:103578586 original size:16 final size:16
Alignment explanation
Indices: 103578565--103578607 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
103578555 CAATTGTTTC
103578565 TTTTTATTTATTGTAA
1 TTTTTATTTATTGTAA
*
103578581 TTTTTAGTT-TTGTAA
1 TTTTTATTTATTGTAA
*
103578596 TTTTTATGTATT
1 TTTTTATTTATT
103578608 TTTTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (16 bp):
TTTTTATTTATTGTAA
Found at i:103578645 original size:21 final size:20
Alignment explanation
Indices: 103578596--103578647 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
103578586 AGTTTTGTAA
*
103578596 TTTTTATGTATTTTTTAAAT
1 TTTTTATATATTTTTTAAAT
** *
103578616 TTTAGATATATTTTTCTTAAT
1 TTTTTATATATTTTT-TAAAT
103578637 TTTTTATATAT
1 TTTTTATATAT
103578648 CTGTTTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTATATATTTTTTAAAT
Found at i:103579778 original size:20 final size:19
Alignment explanation
Indices: 103579755--103579795 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
103579745 AATACAACAC
103579755 TATTGCAATCAATTCTCTTT
1 TATT-CAATCAATTCTCTTT
**
103579775 TATTCTTTCAATTCTCTTT
1 TATTCAATCAATTCTCTTT
103579794 TA
1 TA
103579796 GTTTGTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.22, C:0.20, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTCAATCAATTCTCTTT
Done.