Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 39 of 206
Found at i:11147075 original size:42 final size:43
Alignment explanation
Indices: 11147016--11147137 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 43
11147006 ATTTCTGATA
* *
11147016 TGTGTTCTCGTGTAAGACCACATC-GGGACGTTGGCATCGA-C
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC
11147057 TTGTGTTTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATC
1 -TGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATC
* * *
11147101 TGTG-ATACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
11147138 TGTACAAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
41 2 0.03
42 46 0.67
43 19 0.28
44 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC
Found at i:11148697 original size:32 final size:32
Alignment explanation
Indices: 11148655--11148715 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
11148645 TTTTTTGAAA
11148655 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
11148687 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
11148716 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:11148708 original size:20 final size:20
Alignment explanation
Indices: 11148674--11148715 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11148664 AACTATTTAA
** *
11148674 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11148694 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11148714 AT
1 AT
11148716 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11150520 original size:14 final size:14
Alignment explanation
Indices: 11150496--11150528 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11150486 TGAAAATCTT
11150496 AAATT-TTAATATA
1 AAATTATTAATATA
11150509 AAATTATTAATATA
1 AAATTATTAATATA
*
11150523 ATATTA
1 AAATTA
11150529 AATTATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTATTAATATA
Found at i:11152498 original size:30 final size:30
Alignment explanation
Indices: 11152462--11152524 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
11152452 GAATATTGTA
11152462 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
11152492 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
11152522 TTG
1 TTG
11152525 CTTGTAAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:11160564 original size:17 final size:17
Alignment explanation
Indices: 11160542--11160575 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11160532 CATTTTCAAA
*
11160542 GGAAGAACTTTAGCTTT
1 GGAAGAACTTGAGCTTT
*
11160559 GGAAGAAGTTGAGCTTT
1 GGAAGAACTTGAGCTTT
11160576 CCATATGGAA
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:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (17 bp):
GGAAGAACTTGAGCTTT
Found at i:11168637 original size:116 final size:116
Alignment explanation
Indices: 11168429--11168662 Score: 405
Period size: 116 Copynumber: 2.0 Consensus size: 116
11168419 TCAATCAACT
*
11168429 AGTCAATACCCCAGTAAGATCTTCCAATACGTCTACTAAAATACTAAATCGACAAGAACTACTTA
1 AGTCAATACCCCAGTAAGATCTTCCAATACGTCCACTAAAATACTAAATCGACAAGAACTACTTA
11168494 TCTTCTGACATCACAATCCAGACCGATTTAGGGTTAAGGTGTTCACGAATA
66 TCTTCTGACATCACAATCCAGACCGATTTAGGGTTAAGGTGTTCACGAATA
* *
11168545 AGTCATTACCCCAGTAAGATCTTCCAATATGTCCACTAAAATACTAAATCGACAAGAACTACTTA
1 AGTCAATACCCCAGTAAGATCTTCCAATACGTCCACTAAAATACTAAATCGACAAGAACTACTTA
* * * *
11168610 TCTTTTGACATCACAGTCCAGATCGATTTAGGGTTAAGGTGTTCACGGATA
66 TCTTCTGACATCACAATCCAGACCGATTTAGGGTTAAGGTGTTCACGAATA
11168661 AG
1 AG
11168663 CCATACCGAA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 111 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (116 bp):
AGTCAATACCCCAGTAAGATCTTCCAATACGTCCACTAAAATACTAAATCGACAAGAACTACTTA
TCTTCTGACATCACAATCCAGACCGATTTAGGGTTAAGGTGTTCACGAATA
Found at i:11173669 original size:18 final size:18
Alignment explanation
Indices: 11173646--11173691 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
11173636 ATTTACAGCT
*
11173646 TTATTACTTTATC-AATAA
1 TTATTA-TTTATCAAAAAA
11173664 TTATTAATTT-TCAAAAAA
1 TTATT-ATTTATCAAAAAA
11173682 TTATTATTTA
1 TTATTATTTA
11173692 AATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 6 0.25
18 17 0.71
19 1 0.04
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATTATTTATCAAAAAA
Found at i:11175981 original size:9 final size:9
Alignment explanation
Indices: 11175969--11176016 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
11175959 TAAAAATTTT
11175969 AAATATTAA
1 AAATATTAA
*
11175978 AAATATTAT
1 AAATATTAA
*
11175987 AAATATT-T
1 AAATATTAA
11175995 AAATATTTAA
1 AAATA-TTAA
*
11176005 AAATAATAA
1 AAATATTAA
11176014 AAA
1 AAA
11176017 AAGAATATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 6 0.18
9 23 0.68
10 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATATTAA
Found at i:11175991 original size:18 final size:18
Alignment explanation
Indices: 11175959--11176016 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
11175949 TGCTAAACAA
11175959 TAAAAAT-TT-TAAATAT
1 TAAAAATATTATAAATAT
11175975 TAAAAATATTATAAATAT
1 TAAAAATATTATAAATAT
* * *
11175993 T-TAAATATTTAAAAATAA
1 TAAAAATA-TTATAAATAT
11176011 TAAAAA
1 TAAAAA
11176017 AAGAATATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 7 0.21
17 7 0.21
18 17 0.50
19 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAATATTATAAATAT
Found at i:11175999 original size:8 final size:8
Alignment explanation
Indices: 11175962--11176005 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 8
11175952 TAAACAATAA
11175962 AAAT-TTT
1 AAATATTT
*
11175969 AAATATTAA
1 AAATATT-T
11175978 AAATATTAT
1 AAATATT-T
11175987 AAATATTT
1 AAATATTT
11175995 AAATATTT
1 AAATATTT
11176003 AAA
1 AAA
11176006 AATAATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 4 0.12
8 14 0.42
9 15 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAATATTT
Found at i:11179046 original size:24 final size:25
Alignment explanation
Indices: 11179019--11179073 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
11179009 TAAAATAACT
*
11179019 AATTTTTATATA-TATA-TTTTTATA
1 AATTTTTATAAATTATATTTTTTA-A
11179043 AA-TTTTATAAATTATATTTTTTAA
1 AATTTTTATAAATTATATTTTTTAA
11179067 AATTTTT
1 AATTTTT
11179074 TGCACTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 8 0.30
24 9 0.33
25 10 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
AATTTTTATAAATTATATTTTTTAA
Found at i:11181369 original size:2 final size:2
Alignment explanation
Indices: 11181362--11181395 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11181352 TAATGCAAGC
11181362 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
11181396 TTAAGATCTG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11188907 original size:2 final size:2
Alignment explanation
Indices: 11188902--11188937 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11188892 TATGGGCGCG
11188902 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11188938 TCTATATCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11188946 original size:6 final size:6
Alignment explanation
Indices: 11188937--11188987 Score: 93
Period size: 6 Copynumber: 8.3 Consensus size: 6
11188927 ACACACACAC
11188937 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATACTAT
1 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT-CTAT
11188986 AT
1 AT
11188988 TGCGAGACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 38 0.86
7 6 0.14
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (6 bp):
ATCTAT
Found at i:11192074 original size:2 final size:2
Alignment explanation
Indices: 11192067--11192099 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11192057 TAAATTCCAG
11192067 AT AT AT 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 AT AT AT A
11192100 CACAAACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11194521 original size:43 final size:43
Alignment explanation
Indices: 11194473--11194560 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
11194463 ACTTATAAAC
* *
11194473 CAGACATGTAAGACTACAACCTTAACATACCAAGAATCTTCAA
1 CAGACATCTAAGACTACAACCTTAAAATACCAAGAATCTTCAA
**
11194516 CAGACATCTAAGACTACAACCTTAAAATGTCAAGAATCTTCAA
1 CAGACATCTAAGACTACAACCTTAAAATACCAAGAATCTTCAA
11194559 CA
1 CA
11194561 TGGAATAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.44, C:0.25, G:0.09, T:0.22
Consensus pattern (43 bp):
CAGACATCTAAGACTACAACCTTAAAATACCAAGAATCTTCAA
Found at i:11210458 original size:29 final size:30
Alignment explanation
Indices: 11210412--11210473 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
11210402 AAATAAATAA
11210412 TACATTAAATTAAAAAAAACAACTCGTAATT
1 TACATTAAATT-AAAAAAACAACTCGTAATT
* *
11210443 TACATTAAATT-AAAAAATAACTCTTAATT
1 TACATTAAATTAAAAAAACAACTCGTAATT
11210472 TA
1 TA
11210474 AAGAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 18 0.62
31 11 0.38
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (30 bp):
TACATTAAATTAAAAAAACAACTCGTAATT
Found at i:11210481 original size:29 final size:29
Alignment explanation
Indices: 11210425--11210481 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
11210415 ATTAAATTAA
* **
11210425 AAAAAACAACTCGTAATTTACATTAAATT
1 AAAAAACAACTCGTAATTTAAAGAAAATT
* *
11210454 AAAAAATAACTCTTAATTTAAAGAAAAT
1 AAAAAACAACTCGTAATTTAAAGAAAAT
11210482 AAACGTAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.30
Consensus pattern (29 bp):
AAAAAACAACTCGTAATTTAAAGAAAATT
Found at i:11214670 original size:11 final size:12
Alignment explanation
Indices: 11214651--11214678 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11214641 TCTTTTTAAG
11214651 TTAAAAAAATGT
1 TTAAAAAAATGT
11214663 TTAAAAAAATGT
1 TTAAAAAAATGT
11214675 TTAA
1 TTAA
11214679 GCATACTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (12 bp):
TTAAAAAAATGT
Found at i:11218970 original size:17 final size:18
Alignment explanation
Indices: 11218948--11218981 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11218938 AATCCATACA
11218948 AACTCAATCATT-TCATC
1 AACTCAATCATTATCATC
*
11218965 AACTCATTCATTATCAT
1 AACTCAATCATTATCAT
11218982 TTCTATTTAT
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:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (18 bp):
AACTCAATCATTATCATC
Found at i:11219988 original size:2 final size:2
Alignment explanation
Indices: 11219976--11220005 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11219966 TTCAATATCA
*
11219976 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11220006 TTCATTCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11220680 original size:53 final size:53
Alignment explanation
Indices: 11220600--11220706 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
11220590 TATAAGAAAA
11220600 TAACTTAATTTGACTTACCAATTGAGCTTGAAACCTTGAAACCCCAAATTTTC
1 TAACTTAATTTGACTTACCAATTGAGCTTGAAACCTTGAAACCCCAAATTTTC
11220653 TAACTTAATTTGACTTACCAATTGAGCTTGAAACCTTGAAACCCCAAATTTTC
1 TAACTTAATTTGACTTACCAATTGAGCTTGAAACCTTGAAACCCCAAATTTTC
11220706 T
1 T
11220707 TTCTTTCCTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (53 bp):
TAACTTAATTTGACTTACCAATTGAGCTTGAAACCTTGAAACCCCAAATTTTC
Found at i:11229633 original size:9 final size:9
Alignment explanation
Indices: 11229619--11229685 Score: 89
Period size: 9 Copynumber: 7.2 Consensus size: 9
11229609 TTTGGTTAAA
11229619 AATTACCCG
1 AATTACCCG
11229628 AATTACCCG
1 AATTACCCG
11229637 AATTACCCG
1 AATTACCCG
*
11229646 AATTACTCG
1 AATTACCCG
* *
11229655 AAAATTATCCA
1 --AATTACCCG
11229666 AATTACCCG
1 AATTACCCG
11229675 AATTACCCG
1 AATTACCCG
11229684 AA
1 AA
11229686 AATTACCCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
9 44 0.88
11 6 0.12
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:11229697 original size:9 final size:9
Alignment explanation
Indices: 11229618--11229697 Score: 70
Period size: 9 Copynumber: 8.4 Consensus size: 9
11229608 TTTTGGTTAA
11229618 AAATTACCC
1 AAATTACCC
*
11229627 GAATTACCC
1 AAATTACCC
*
11229636 GAATTACCC
1 AAATTACCC
* *
11229645 GAATTACTCGA
1 AAATTAC-C-C
*
11229656 AAATTATCC
1 AAATTACCC
11229665 AAATTACCC
1 AAATTACCC
*
11229674 GAATTACCC
1 AAATTACCC
11229683 GAAAATTACCC
1 --AAATTACCC
11229694 AAAT
1 AAAT
11229698 CCAAATATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
9 44 0.75
10 2 0.03
11 13 0.22
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (9 bp):
AAATTACCC
Found at i:11231788 original size:22 final size:18
Alignment explanation
Indices: 11231731--11231770 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11231721 TGTATTATAA
11231731 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
11231749 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
11231767 TATT
1 TATT
11231771 GTTTAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:11234299 original size:2 final size:2
Alignment explanation
Indices: 11234294--11234318 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11234284 TTATTAAAAT
11234294 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 T
11234319 GATAAAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11249453 original size:44 final size:44
Alignment explanation
Indices: 11249387--11249797 Score: 253
Period size: 44 Copynumber: 9.7 Consensus size: 44
11249377 GAAACTTCAG
11249387 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAT-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAAGAAATCCAA
* **
11249431 TCCTATCTCCCTGAAGTTGCAGTGGAGC-G--GATTAACATCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAA-ATCCA-A
** * ** * *
11249474 TCTTATCTTTCTGAGGTTGCA---GAG-AGCAGATCATATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAAATCCAA
* *
11249514 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAAAAAT-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAAGAAATCCAA
* **
11249558 TCCTATCTCCCTGAAGTTGCAGTGGAGC-G--GATTAACATCCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAA-ATCC-AA
** * * * *
11249601 TCTTATCTTTCTGAGGTTGCA---GAG-AGCAGATCG-CATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGA-AGAAATCCAA
* * *
11249641 TCTTATTTCCCTGAAGTTGCAGTGGAGAAGATAGAAGAAAT-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAAGAAATCCAA
* **
11249685 TCCTATCTCCCTGAAGTTGCAGTGGAGC-G--GATTAACATCCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAA-ATCCA-A
** * * *
11249728 TCTTATCTTTCTGAGGTTGCA---GAG-AGCAGATCG-CATCCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGA-AGAAATCCAA
11249768 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
11249798 ACTAAAAATA
Statistics
Matches: 279, Mismatches: 53, Indels: 70
0.69 0.13 0.17
Matches are distributed among these distances:
40 79 0.28
41 20 0.07
42 12 0.04
43 67 0.24
44 89 0.32
45 12 0.04
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAAGAAATCCAA
Found at i:11249531 original size:83 final size:82
Alignment explanation
Indices: 11249428--11249795 Score: 307
Period size: 83 Copynumber: 4.4 Consensus size: 82
11249418 CAGAAGAAAT
* * *
11249428 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTG
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGA-TAACATCCAGATCTTATCTTCCTGAAGTTG
*
11249493 CAGAGAGCAGATCATATC
65 CAGAGAGCAGATCACATC
* * * * * *
11249511 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAAAAAT-TA-ATCCTATCTCCCTGAAG
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGC-G---GATAACATCCAGATCTTATCTTCCTGAAG
* * *
11249574 TTGCAGTGGAGCGGATTAACATC
62 TTGCAG-AGAGCAGA-TCACATC
** * * * **
11249597 CAAATCTTATCTTTCTGAGGTTGCAG-AGAGCAGATCGCATCCAG-TCTTAT-TTCCCTGAAGTT
1 C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATAACATCCAGATCTTATCTT-CCTGAAGTT
* ** *
11249659 GCAGTGGAGAAGATAGAAGAAAT-
64 GCA---GAG-AG-CAGATCACATC
* * *
11249682 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTG
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGA-TAACATCCAGATCTTATCTTCCTGAAGTTG
*
11249747 CAGAGAGCAGATCGCATC
65 CAGAGAGCAGATCACATC
11249765 CAATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGC
11249796 AGACTAAAAA
Statistics
Matches: 217, Mismatches: 48, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
82 10 0.05
83 79 0.36
84 43 0.20
85 15 0.07
86 28 0.13
87 40 0.18
88 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (82 bp):
CAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATAACATCCAGATCTTATCTTCCTGAAGTTGC
AGAGAGCAGATCACATC
Found at i:11249610 original size:127 final size:127
Alignment explanation
Indices: 11249384--11249799 Score: 751
Period size: 127 Copynumber: 3.3 Consensus size: 127
11249374 GGTGAAACTT
11249384 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
**
11249449 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCATATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
* *
11249511 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAAAAATTAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
*
11249576 GCAGTGGAGCGGATTAACATCCAAATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
* * *
11249638 CAGTCTTATTTCCCTGAAGTTGCAGTGGAGAAGATAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
11249703 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
66 GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
*
11249765 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
11249800 TAAAAATAGC
Statistics
Matches: 274, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 274 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (127 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
GCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGAGCAGATCGCATC
Found at i:11259169 original size:22 final size:22
Alignment explanation
Indices: 11259104--11259171 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
11259094 ACAAAAACTG
*
11259104 TTTTTTGTTGTTTTCTTGCT-T
1 TTTTTTATTGTTTTCTTGCTAT
* * *
11259125 TTTTTTACTGTTTTGTTGTTAT
1 TTTTTTATTGTTTTCTTGCTAT
**
11259147 TTTTTTATTGTTTTCTCACTAT
1 TTTTTTATTGTTTTCTTGCTAT
11259169 TTT
1 TTT
11259172 ACTACCATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 16 0.43
22 21 0.57
ACGTcount: A:0.07, C:0.09, G:0.10, T:0.74
Consensus pattern (22 bp):
TTTTTTATTGTTTTCTTGCTAT
Found at i:11265937 original size:13 final size:13
Alignment explanation
Indices: 11265919--11265946 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11265909 TTTCATGGAC
11265919 GTATGTTTATGGG
1 GTATGTTTATGGG
11265932 GTATGTTTATGGG
1 GTATGTTTATGGG
11265945 GT
1 GT
11265947 GTAATTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.39, T:0.46
Consensus pattern (13 bp):
GTATGTTTATGGG
Found at i:11266661 original size:34 final size:31
Alignment explanation
Indices: 11266585--11266646 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
11266575 TTCATCTCTA
* **
11266585 ATTTTGCAATAAACCGGAACTTTTAATTTAT
1 ATTTTTCAATAAACAAGAACTTTTAATTTAT
11266616 ATTTTTCAATAAACAAGAACTTTTAATTTAT
1 ATTTTTCAATAAACAAGAACTTTTAATTTAT
11266647 TTTATTTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (31 bp):
ATTTTTCAATAAACAAGAACTTTTAATTTAT
Found at i:11271657 original size:96 final size:96
Alignment explanation
Indices: 11271493--11271667 Score: 224
Period size: 96 Copynumber: 1.8 Consensus size: 96
11271483 ACTGCAGCTT
* * *
11271493 CAGAGACAGCGGCCTCAGCAGAACCATTAGCTAAACCATCTCCACTGCAATCACCATTAACAACT
1 CAGAGACAGCGGCCTCAGCACAACCATTAGCTAAACCATCTCCACCGCAATCACCATCAACAACT
11271558 ACAGCCACTTCAGATTCCTCAACATTGGCTC
66 ACAGCCACTTCAGATTCCTCAACATTGGCTC
* * * * * * * * *
11271589 CAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGCCGTAATCACCATCAGCAGCT
1 CAGAGACAGCGGCCTCAGCACAACCATTAGCTAAACCATCTCCACCGCAATCACCATCAACAACT
* *
11271654 ACAGTCATTTCAGA
66 ACAGCCACTTCAGA
11271668 GCCCTCTTTC
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 65 1.00
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.21
Consensus pattern (96 bp):
CAGAGACAGCGGCCTCAGCACAACCATTAGCTAAACCATCTCCACCGCAATCACCATCAACAACT
ACAGCCACTTCAGATTCCTCAACATTGGCTC
Found at i:11271793 original size:120 final size:120
Alignment explanation
Indices: 11271578--11272528 Score: 1017
Period size: 120 Copynumber: 7.9 Consensus size: 120
11271568 CAGATTCCTC
* * * * * *
11271578 AACATTGGCTCCAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGCCGTAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* * * * **
11271643 CATCAGCAGCTACAGTCATTTCAGAGCCCTCTTTCTCTTCTGACGAGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * *
11271698 AACATTAGTTTCGGAGACAGTGGCGTTTGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* * * * * * *
11271763 CATCAGCAGCTACGGCCACTCCAGAACCCTCTTTCTCTTCTGACCTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * *
11271818 AACATTGGCTTCAGAGACAGTGGCCTCAGCACTATCATTAGATAGACCATTTGCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* *
11271883 CACCATCAGCTACAGCCATTTCAGAGCCCGCATTCTCTTTTGACCTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * * * ** *
11271938 AACGCTGGCTTCAGAGACTGTGGTCTTAGCACTATCATTAGCTAAACTGTCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
** * **
11272003 CATCATCAGCTACAGTTATTTCGGAGCCCTCATTCTCTTTTGACCTGGAATTGAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * * * *
11272058 AACGCTGGCTTCACAGACAGTGGCCTTAGCATTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* * * * *
11272123 CATCATCGGCTACAGCCATTTCAGAGTCCTCATTATCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * * * * * *
11272178 AACAGTATCTTCAGAAACAGTTGCCTCAACACTGTCATT-GACAAAACCATCTCCATTGAAATCT
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAG-CTAAACCATCTCCACTGCAATCA
* * * * *
11272242 CCATCACCAGCTACAGCCATTTCAGAGCCCCCGTTCTCTTTTGACCTGAAAT-AGAG
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCA-AT
* * * * ** * *
11272298 CACATTAGCTTCAGAAACAGGGGCCTCAATACTATCATTAACTAACCCATCTCCACTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
* * * * * *
11272363 CATCATCAGCTACTGTCATTTCGGAGCCCTCACTCTCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * *
11272418 AACATCAGCTTCAGAAACAG-GGGCTTCAACACTATCATTAACTAAACCATCTCCACTGCAATCA
1 AACATTAGCTTCAGAGACAGTGGCCTT-AGCACTATCATTAGCTAAACCATCTCCACTGCAATCA
* *
11272482 CCATCATCAGCTACAGCTATTTCGGAGCCCTCATTCTCTTTTGACCT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCT
11272529 AAAATCAAGG
Statistics
Matches: 705, Mismatches: 121, Indels: 10
0.84 0.14 0.01
Matches are distributed among these distances:
119 6 0.01
120 698 0.99
121 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (120 bp):
AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCACTGCAATCAC
CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
Found at i:11273994 original size:19 final size:18
Alignment explanation
Indices: 11273955--11273997 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
11273945 TGAATCGAGT
11273955 TTTTTACTTTTAATAATA
1 TTTTTACTTTTAATAATA
*
11273973 TTTTTATTTTTATTATAA-A
1 TTTTTACTTTTA--ATAATA
11273992 TTTTTA
1 TTTTTA
11273998 ATAATTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 7 0.32
20 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTACTTTTAATAATA
Found at i:11276322 original size:18 final size:18
Alignment explanation
Indices: 11276287--11276322 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11276277 AAAAAAACAA
*
11276287 AAATATTAGATATAAATT
1 AAATATTAGAAATAAATT
*
11276305 AAATATTAGAAATTAATT
1 AAATATTAGAAATAAATT
11276323 TGATACAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
AAATATTAGAAATAAATT
Found at i:11276869 original size:18 final size:18
Alignment explanation
Indices: 11276846--11276888 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11276836 GAATAGGTAT
11276846 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
11276864 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
11276882 TTAATTA
1 TTAATTA
11276889 CACTTTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:11284286 original size:21 final size:22
Alignment explanation
Indices: 11284246--11284286 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11284236 GTATTCTCAA
* *
11284246 ATTTCTTCTTTTACTTATTTCG
1 ATTTCTTCTATTACTAATTTCG
11284268 ATTTCTT-TATTACTAATTT
1 ATTTCTTCTATTACTAATTT
11284287 TGTTTATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.20, C:0.15, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTCTTCTATTACTAATTTCG
Found at i:11293734 original size:32 final size:32
Alignment explanation
Indices: 11293693--11293758 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
11293683 CCTTGTCCTT
11293693 GTATGAAGTGGCCAATCAAAGAAATACAATTA
1 GTATGAAGTGGCCAATCAAAGAAATACAATTA
* *
11293725 GTATGAAGTGGTCAATCAAAGAGATACAATTA
1 GTATGAAGTGGCCAATCAAAGAAATACAATTA
11293757 GT
1 GT
11293759 CTTTCTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (32 bp):
GTATGAAGTGGCCAATCAAAGAAATACAATTA
Found at i:11298665 original size:30 final size:32
Alignment explanation
Indices: 11298629--11298699 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
11298619 GGTTTCATTT
11298629 CAGTCACTCAAC-TT-TGGAAAAATAACAAAA
1 CAGTCACTCAACGTTATGGAAAAATAACAAAA
* * * *
11298659 CAGTCACT-AACGTTATTGAAAAGTGACAAAT
1 CAGTCACTCAACGTTATGGAAAAATAACAAAA
11298690 CAGTCACTCA
1 CAGTCACTCA
11298700 TTAACATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 10 0.29
31 20 0.59
32 1 0.03
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (32 bp):
CAGTCACTCAACGTTATGGAAAAATAACAAAA
Found at i:11298941 original size:196 final size:196
Alignment explanation
Indices: 11298606--11299000 Score: 711
Period size: 196 Copynumber: 2.0 Consensus size: 196
11298596 GTAGTTGACA
11298606 AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
1 AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
*
11298671 TTATTGAAAAGTGACAAATCAGTCACTCATTAACATTTTCCGTCACAAGCTTAACGGGATAGCTA
66 TTATTGAAAAGTGACAAATCAGTCACTCATTAACATTTTCCGTCACAAACTTAACGGGATAGCTA
* * *
11298736 ACGTGGCCAATTAACTAGCTGCTGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAGGGT
131 ACATGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAAGGT
11298801 C
196 C
* *
11298802 AAACAGTCACCTATGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAATG
1 AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
11298867 TTATTGAAAAGAT-ACAAATCAGTCACTCATTAACATTTTCCGTCACAAACTTAACGGGATAGCT
66 TTATTGAAAAG-TGACAAATCAGTCACTCATTAACATTTTCCGTCACAAACTTAACGGGATAGCT
*
11298931 GACATGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAAGG
130 AACATGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAAGG
11298996 TC
195 TC
11298998 AAA
1 AAA
11299001 GAAGAAAATA
Statistics
Matches: 191, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
196 190 0.99
197 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (196 bp):
AAACAGTCACCTAGGTTTCATTTCAGTCACTCAACTTTGGAAAAATAACAAAACAGTCACTAACG
TTATTGAAAAGTGACAAATCAGTCACTCATTAACATTTTCCGTCACAAACTTAACGGGATAGCTA
ACATGGCCAATTAACTAGCTGATGTGGCCAGTTAACTTGCCACGTTGGACGAGTAGTCAAAAGGT
C
Found at i:11298952 original size:21 final size:21
Alignment explanation
Indices: 11298926--11298968 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11298916 CTTAACGGGA
11298926 TAGCTGACATGGCCAATTAAC
1 TAGCTGACATGGCCAATTAAC
** *
11298947 TAGCTGATGTGGCCAGTTAAC
1 TAGCTGACATGGCCAATTAAC
11298968 T
1 T
11298969 TGCCACGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
TAGCTGACATGGCCAATTAAC
Found at i:11300044 original size:3 final size:3
Alignment explanation
Indices: 11300031--11300148 Score: 124
Period size: 3 Copynumber: 41.0 Consensus size: 3
11300021 TTCCATTTTC
* * * *
11300031 TCT TAT TCT TCT TC- TCC TCT TCT TGT T-T TCT TCT TCC TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
11300077 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC- TCT GT-T TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT
*
11300120 TCT TAT TCT TCT T-T T-T ATCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT
11300149 ACTGCCCAGG
Statistics
Matches: 99, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
2 12 0.12
3 85 0.86
4 2 0.02
ACGTcount: A:0.03, C:0.31, G:0.02, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:11300552 original size:24 final size:21
Alignment explanation
Indices: 11300521--11300569 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 21
11300511 GGGCCTCAAT
11300521 TTTTTATTTTATTACTAATATATA
1 TTTTTATTTTATTA-T-AT-TATA
11300545 TTTTTATTTTATTATATTATA
1 TTTTTATTTTATTATATTATA
11300566 TTTT
1 TTTT
11300570 ATAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.32
22 2 0.08
23 1 0.04
24 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTATTTTATTATATTATA
Found at i:11301130 original size:20 final size:20
Alignment explanation
Indices: 11301107--11301190 Score: 93
Period size: 20 Copynumber: 4.2 Consensus size: 20
11301097 TTTTAATAAA
11301107 TTTATAATTAGTCACCCAAT
1 TTTATAATTAGTCACCCAAT
11301127 TTTATAATTAGTCACCCAAT
1 TTTATAATTAGTCACCCAAT
* **
11301147 TTTAATAA--ACTGCTA-ATAAT
1 TTT-ATAATTAGT-C-ACCCAAT
11301167 TTTATAATTAGTCACCCAAT
1 TTTATAATTAGTCACCCAAT
11301187 TTTA
1 TTTA
11301191 ATAAATTTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.13
20 38 0.73
21 7 0.13
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTATAATTAGTCACCCAAT
Found at i:11302479 original size:16 final size:16
Alignment explanation
Indices: 11302453--11302497 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
11302443 CTGTGAAATT
11302453 TAATCATTTTATTGAAA
1 TAAT-ATTTTATTGAAA
*
11302470 TAATATTTTAATTGAGA
1 TAATATTTT-ATTGAAA
11302487 TAAT-TTTTATT
1 TAATATTTTATT
11302498 TAATAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 14 0.54
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (16 bp):
TAATATTTTATTGAAA
Found at i:11302517 original size:28 final size:26
Alignment explanation
Indices: 11302486--11302550 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 26
11302476 TTTAATTGAG
*
11302486 ATAATTTTTATTTA-ATAAATGATAATT
1 ATAATTTTTACTTATATAAA--ATAATT
*
11302513 AATAA-GTTTACTTATATAAAATAATT
1 -ATAATTTTTACTTATATAAAATAATT
11302539 ATAA-TTTTACTT
1 ATAATTTTTACTT
11302551 GAAAATTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 11 0.33
26 6 0.18
27 7 0.21
28 9 0.27
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (26 bp):
ATAATTTTTACTTATATAAAATAATT
Found at i:11304176 original size:3 final size:3
Alignment explanation
Indices: 11304168--11304197 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11304158 TTGCAGACAG
11304168 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
11304198 GTACAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:11307355 original size:31 final size:31
Alignment explanation
Indices: 11307320--11307380 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
11307310 TATATTATCT
* * *
11307320 GGTACTTGAATTTAGTTTTAATGTTTAATTC
1 GGTACTTGAATTTAATTTCAATGTTCAATTC
11307351 GGTACTTGAATTTAATTTCAATGTTCAATT
1 GGTACTTGAATTTAATTTCAATGTTCAATT
11307381 TGATACTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (31 bp):
GGTACTTGAATTTAATTTCAATGTTCAATTC
Found at i:11307388 original size:31 final size:31
Alignment explanation
Indices: 11307322--11307388 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
11307312 TATTATCTGG
* * * *
11307322 TACTTGAATTTAGTTTTAATGTTTAATTCGG
1 TACTTGAATTTAATTTCAATGTTCAATTCGA
*
11307353 TACTTGAATTTAATTTCAATGTTCAATTTGA
1 TACTTGAATTTAATTTCAATGTTCAATTCGA
11307384 TACTT
1 TACTT
11307389 AAGTTTTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (31 bp):
TACTTGAATTTAATTTCAATGTTCAATTCGA
Found at i:11308037 original size:9 final size:9
Alignment explanation
Indices: 11308020--11308056 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11308010 TGAGTTTTCG
11308020 AATTCGAAT
1 AATTCGAAT
*
11308029 AACTCGAAT
1 AATTCGAAT
11308038 AATTCGAAT
1 AATTCGAAT
11308047 AATTCGAAT
1 AATTCGAAT
11308056 A
1 A
11308057 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11308139 original size:30 final size:31
Alignment explanation
Indices: 11308105--11308165 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
11308095 AAACCTTTTT
* *
11308105 ACTTTTTCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
11308135 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
11308166 CTCCCAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (31 bp):
ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
Found at i:11308521 original size:21 final size:20
Alignment explanation
Indices: 11308475--11308523 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
11308465 CCTTTACTCC
*
11308475 CAAATAAAAAATCAAAATAT
1 CAAATAAAAAATCAAAACAT
11308495 CCAAATAAAAAATCACTAAACAT
1 -CAAATAAAAAATCA--AAACAT
11308518 -AAATAA
1 CAAATAA
11308524 TAATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 20 0.80
23 5 0.20
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.18
Consensus pattern (20 bp):
CAAATAAAAAATCAAAACAT
Found at i:11314907 original size:42 final size:42
Alignment explanation
Indices: 11314803--11315055 Score: 350
Period size: 42 Copynumber: 6.0 Consensus size: 42
11314793 GCACTTACAT
*
11314803 AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
11314845 AATAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 AA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
11314888 AAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
11314930 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAG
* * * * *
11314973 AAGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTTAT
1 AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG
**
11315015 TCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 AAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
11315056 TTTCACAAAC
Statistics
Matches: 192, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.01
42 115 0.60
43 76 0.40
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:11314948 original size:127 final size:127
Alignment explanation
Indices: 11314803--11315055 Score: 352
Period size: 127 Copynumber: 2.0 Consensus size: 127
11314793 GCACTTACAT
11314803 AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGC-TTAGAATAAAAACGCCGCT-AAAGAT
1 AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTTAGAA-AAAAACGCCGCTAAAAG-T
* *
11314866 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCT-AAAGATCA-TGTTCTTTAGCGGCGCTTA
64 AATGTTCTATAGCGGCGCTTAGAAAAAAACGCCCCTAAAAG-T-AGTGTTCTTTAGCGGCGCTTA
11314929 G
127 G
* * * *
11314930 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGAAGAAAACGCCTCTAAAAGTAA
1 AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTTAGAAAAAAACGCCGCTAAAAGTAA
*** *
11314995 TGTTCTATAGCGGCGCTTATTCAAAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTTA
66 TGTTCTATAGCGGCGCTTAGAAAAAAACGCCCCTAAAAGTAGTGTTCTTTAGCGGCGCTTA
11315056 TTTCACAAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
126 1 0.01
127 98 0.88
128 13 0.12
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (127 bp):
AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTTAGAAAAAAACGCCGCTAAAAGTAA
TGTTCTATAGCGGCGCTTAGAAAAAAACGCCCCTAAAAGTAGTGTTCTTTAGCGGCGCTTAG
Found at i:11314980 original size:85 final size:85
Alignment explanation
Indices: 11314803--11315054 Score: 350
Period size: 85 Copynumber: 3.0 Consensus size: 85
11314793 GCACTTACAT
* *
11314803 AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAATAAAAACGCCGCTAAAGATCA
1 AAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA-AAAAACGCCGCTAAAGATCA
11314868 TGTTCTTTAGCGGCGC-TTAG
65 TGTTCTTTAGCGGCGCTTTAG
11314888 AAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCAT
1 AAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCAT
*
11314953 GTTCTTTAGCGGCGCTTTGG
66 GTTCTTTAGCGGCGCTTTAG
* * * * ***
11314973 AAGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTTATTCAAAAACGCCGCTAAA-AGT-
1 AAAAAAACGCCCCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TC
11315035 AGTGTTCTTTAGCGGCGCTT
64 A-TGTTCTTTAGCGGCGCTT
11315055 ATTTCACAAA
Statistics
Matches: 153, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
84 39 0.25
85 114 0.75
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (85 bp):
AAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCAT
GTTCTTTAGCGGCGCTTTAG
Found at i:11315506 original size:12 final size:12
Alignment explanation
Indices: 11315474--11315508 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11315464 TTTTGAACCT
* *
11315474 CTGCTTCTATTG
1 CTGCTTCTCTCG
11315486 CTGCTTCTCTCG
1 CTGCTTCTCTCG
11315498 CTGCTTCTCTC
1 CTGCTTCTCTC
11315509 CTTGCGGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.37, G:0.14, T:0.46
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:11315524 original size:21 final size:20
Alignment explanation
Indices: 11315498--11315565 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
11315488 GCTTCTCTCG
*
11315498 CTGCTTCTCTCCTTGCGGCCT
1 CTGCTTCTCTCC-TGCAGCCT
* *
11315519 CTGCTTCTCTTCTGTAGCCT
1 CTGCTTCTCTCCTGCAGCCT
* *
11315539 CTGCTTCCCTCACTGCCGCCT
1 CTGCTTCTCTC-CTGCAGCCT
11315560 CTGCTT
1 CTGCTT
11315566 TAAGTTGCTG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 15 0.38
21 24 0.62
ACGTcount: A:0.03, C:0.43, G:0.16, T:0.38
Consensus pattern (20 bp):
CTGCTTCTCTCCTGCAGCCT
Found at i:11319249 original size:9 final size:9
Alignment explanation
Indices: 11319235--11319511 Score: 111
Period size: 9 Copynumber: 32.0 Consensus size: 9
11319225 AAGATATACA
11319235 TTATGTAAG
1 TTATGTAAG
11319244 TTATGTAAG
1 TTATGTAAG
11319253 TTATGTAAG
1 TTATGTAAG
*
11319262 TTGTGTAAG
1 TTATGTAAG
*
11319271 -TAGCGTAAG
1 TTA-TGTAAG
* *
11319280 ATGTGT-A-
1 TTATGTAAG
* *
11319287 TTATGAAAC
1 TTATGTAAG
11319296 TTATGTAAG
1 TTATGTAAG
*
11319305 TTATGT--C
1 TTATGTAAG
11319312 TTATGTAAG
1 TTATGTAAG
*
11319321 TTATGTAAA
1 TTATGTAAG
*
11319330 ATATGT-A-
1 TTATGTAAG
*
11319337 TTATTTACA-
1 TTATGTA-AG
*
11319346 -CATGTAAG
1 TTATGTAAG
* *
11319354 TAATGT--C
1 TTATGTAAG
11319361 TTATGTAAG
1 TTATGTAAG
**
11319370 TTGCGTAAG
1 TTATGTAAG
*
11319379 TTGTGT-A-
1 TTATGTAAG
*
11319386 TTATGAAAG
1 TTATGTAAG
*
11319395 TTATGT--C
1 TTATGTAAG
11319402 TTATGTAAG
1 TTATGTAAG
*
11319411 TTATGTAGG
1 TTATGTAAG
*
11319420 GTATGTATTA-
1 TTATGTA--AG
*
11319430 TTATGTAAC
1 TTATGTAAG
* *
11319439 TTATTTAAT
1 TTATGTAAG
*
11319448 TTATGTAGG
1 TTATGTAAG
*
11319457 GTATGTATTA-
1 TTATGTA--AG
*
11319467 TTATGTAAC
1 TTATGTAAG
* *
11319476 TTATTTAAT
1 TTATGTAAG
*
11319485 TTATGTAGG
1 TTATGTAAG
*
11319494 GTATGTAAG
1 TTATGTAAG
11319503 TTATGTAAG
1 TTATGTAAG
11319512 CTCTGTATTA
Statistics
Matches: 196, Mismatches: 50, Indels: 44
0.68 0.17 0.15
Matches are distributed among these distances:
7 29 0.15
8 12 0.06
9 142 0.72
10 13 0.07
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11319303 original size:25 final size:25
Alignment explanation
Indices: 11319275--11319340 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
11319265 TGTAAGTAGC
*
11319275 GTAAGATGTGTATTATGAAACTTAT
1 GTAAGATATGTATTATGAAACTTAT
* * * *
11319300 GTAAGTTATGTCTTATGTAAGTTAT
1 GTAAGATATGTATTATGAAACTTAT
*
11319325 GTAAAATATGTATTAT
1 GTAAGATATGTATTAT
11319341 TTACACATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (25 bp):
GTAAGATATGTATTATGAAACTTAT
Found at i:11319314 original size:16 final size:16
Alignment explanation
Indices: 11319295--11319416 Score: 73
Period size: 16 Copynumber: 8.0 Consensus size: 16
11319285 TATTATGAAA
11319295 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
11319311 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
** *
11319327 AAAATATGT-A-TTATTT
1 --CTTATGTAAGTTATGT
** *
11319343 ACACATGTAAGTAATGT
1 -CTTATGTAAGTTATGT
11319360 CTTATGTAAG-T-TG-
1 CTTATGTAAGTTATGT
*
11319373 C----GTAAGTTGTGT
1 CTTATGTAAGTTATGT
* *
11319385 ATTATGAAAGTTATGT
1 CTTATGTAAGTTATGT
11319401 CTTATGTAAGTTATGT
1 CTTATGTAAGTTATGT
11319417 AGGGTATGTA
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
9 5 0.06
10 1 0.01
11 2 0.03
13 1 0.01
14 2 0.03
15 6 0.08
16 53 0.66
17 5 0.06
18 5 0.06
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (16 bp):
CTTATGTAAGTTATGT
Found at i:11319427 original size:41 final size:40
Alignment explanation
Indices: 11319351--11319500 Score: 105
Period size: 37 Copynumber: 3.9 Consensus size: 40
11319341 TTACACATGT
* ** * * *
11319351 AAGTAATGTCTTATGTAAGTTGCGTAAGTTGTGTATTATGA
1 AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTATTAT-A
*
11319392 AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTATTATT
1 AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTATTATA
* * * * *
11319432 ATG-TA--ACTTATTTAATTTATGTAGGGTATGTATTATT
1 AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTATTATA
* * * *
11319469 ATG-TA--ACTTATTTAATTTATGTAGGGTATGTA
1 AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTA
11319501 AGTTATGTAA
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
37 61 0.62
39 2 0.02
40 2 0.02
41 33 0.34
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (40 bp):
AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTATTATA
Found at i:11319452 original size:37 final size:37
Alignment explanation
Indices: 11319401--11319500 Score: 182
Period size: 37 Copynumber: 2.7 Consensus size: 37
11319391 AAAGTTATGT
* *
11319401 CTTATGTAAGTTATGTAGGGTATGTATTATTATGTAA
1 CTTATTTAATTTATGTAGGGTATGTATTATTATGTAA
11319438 CTTATTTAATTTATGTAGGGTATGTATTATTATGTAA
1 CTTATTTAATTTATGTAGGGTATGTATTATTATGTAA
11319475 CTTATTTAATTTATGTAGGGTATGTA
1 CTTATTTAATTTATGTAGGGTATGTA
11319501 AGTTATGTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (37 bp):
CTTATTTAATTTATGTAGGGTATGTATTATTATGTAA
Found at i:11319454 original size:46 final size:43
Alignment explanation
Indices: 11319384--11319492 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 43
11319374 GTAAGTTGTG
* * * *
11319384 TATTATGAAAGTTATGTCTTATGTAAGTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTATTATGT-AGTTATGTAGGGTATGTAT
11319428 TATTATGTAACTTATTTA--A--T--TTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTATTATGTAGTTATGTAGGGTATGTAT
11319465 TATTATGTAACTTATTTAATTTATGTAG
1 TATTATGTAACTTATTT-A-TTATGTAG
11319493 GGTATGTAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
37 34 0.64
38 1 0.02
40 1 0.02
41 1 0.02
42 1 0.02
43 1 0.02
44 14 0.26
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (43 bp):
TATTATGTAACTTATTTATTATGTAGTTATGTAGGGTATGTAT
Found at i:11319617 original size:41 final size:41
Alignment explanation
Indices: 11319572--11319800 Score: 138
Period size: 44 Copynumber: 5.1 Consensus size: 41
11319562 ATATGTATAA
11319572 TATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTAT
1 TATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTAT
* * ** * *
11319613 TATTAATAAAATTTA-AATATAGCTTACATACGTAAATGAATATATGTAT
1 TATTAA-AAAA-ATAGTA-ATA-CTTATTTAAGT-TAT-AA-AT-T-TAT
11319662 AATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTAT
1 --TATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTAT
* * ** * *
11319705 TATTAATAAAATTTA-AATATAGCTTACATACGTAAATGAATATATGTAT
1 TATTAA-AAAA-ATAGTA-ATA-CTTATTTAAGT-TAT-AA-AT-T-TAT
11319754 AATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTAT
1 --TATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTAT
11319797 TATT
1 TATT
11319801 CGTGGAGAGG
Statistics
Matches: 140, Mismatches: 24, Indels: 48
0.66 0.11 0.23
Matches are distributed among these distances:
41 16 0.11
42 10 0.07
43 16 0.11
44 18 0.13
45 8 0.06
46 8 0.06
47 8 0.06
48 18 0.13
49 16 0.11
50 10 0.07
51 12 0.09
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.41
Consensus pattern (41 bp):
TATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTAT
Found at i:11319668 original size:51 final size:51
Alignment explanation
Indices: 11319613--11319767 Score: 161
Period size: 51 Copynumber: 3.2 Consensus size: 51
11319603 ATAAATTTAT
11319613 TATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAA
1 TATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAA
* * ** * *
11319664 TATTAA-AAAA-AT-AGTAATA-CTTATTTAAGT-TAT-AA-AT-T-TAT--
1 TATTAATAAAATTTAAAT-ATAGCTTACATACGTAAATGAATATATGTATAA
11319705 TATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAA
1 TATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAA
*
11319756 TATTAAAAAAAT
1 TATTAATAAAAT
11319768 AGTAATACTT
Statistics
Matches: 79, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
41 6 0.08
42 4 0.05
43 7 0.09
44 11 0.14
45 4 0.05
46 4 0.05
47 4 0.05
48 11 0.14
49 7 0.09
50 4 0.05
51 17 0.22
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (51 bp):
TATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAA
Found at i:11319843 original size:92 final size:92
Alignment explanation
Indices: 11319561--11319800 Score: 480
Period size: 92 Copynumber: 2.6 Consensus size: 92
11319551 TAATAAAATT
11319561 TATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATT
1 TATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATT
11319626 TAAATATAGCTTACATACGTAAATGAA
66 TAAATATAGCTTACATACGTAAATGAA
11319653 TATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATT
1 TATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATT
11319718 TAAATATAGCTTACATACGTAAATGAA
66 TAAATATAGCTTACATACGTAAATGAA
11319745 TATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
1 TATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
11319801 CGTGGAGAGG
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 148 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (92 bp):
TATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATT
TAAATATAGCTTACATACGTAAATGAA
Found at i:11320246 original size:14 final size:14
Alignment explanation
Indices: 11320208--11320246 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
11320198 ACAGTAAGAC
*
11320208 ATTTGCACATCAAA
1 ATTTGCACATAAAA
*
11320222 ATTTCCTACATAAAA
1 ATTTGC-ACATAAAA
11320237 ATTTGCACAT
1 ATTTGCACAT
11320247 CAAATCCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (14 bp):
ATTTGCACATAAAA
Found at i:11321772 original size:23 final size:23
Alignment explanation
Indices: 11321742--11321786 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11321732 CAATATTAAT
*
11321742 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
11321765 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
11321787 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:11322906 original size:40 final size:42
Alignment explanation
Indices: 11322845--11322939 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 42
11322835 TTCCTAAATA
*
11322845 TTACGGCG-TTTTGTTTAAAAACGCCACTAATGATG-CT-CT-T
1 TTACGGCGTTTTTGTATAAAAACGCCACT-ATG-TGTCTACTAT
11322885 TTACGGCGTTTTTGTAT-AAAACGCCACTATGTGTCTAACTAT
1 TTACGGCGTTTTTGTATAAAAACGCCACTATGTGTCT-ACTAT
11322927 TTACGGCGTTTTT
1 TTACGGCGTTTTT
11322940 CCAGAAACGC
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
38 2 0.04
39 5 0.10
40 19 0.39
41 9 0.18
42 14 0.29
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (42 bp):
TTACGGCGTTTTTGTATAAAAACGCCACTATGTGTCTACTAT
Found at i:11323104 original size:3 final size:3
Alignment explanation
Indices: 11323090--11323122 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
11323080 AGAAAGAATT
*
11323090 TAA TAA TGA TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11323123 TTAGGGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:11323147 original size:13 final size:13
Alignment explanation
Indices: 11323129--11323153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11323119 TAATTTAGGG
11323129 TAAACTATTAAAA
1 TAAACTATTAAAA
11323142 TAAACTATTAAA
1 TAAACTATTAAA
11323154 CTATTAAAAT
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTATTAAAA
Found at i:11326980 original size:31 final size:29
Alignment explanation
Indices: 11326912--11326990 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 29
11326902 ACGTTGAAAT
*
11326912 CAAACTCAAGTACCAAATTAAAACTAAAA
1 CAAACTTAAGTACCAAATTAAAACTAAAA
* *
11326941 AAATACTTAAGTACCAAATTAAATATTAAAA
1 CAA-ACTTAAGTACCAAATTAAA-ACTAAAA
11326972 CCAAACTTATA-TACCAAAT
1 -CAAACTTA-AGTACCAAAT
11326991 AGTATATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 2 0.05
30 18 0.43
31 19 0.45
32 3 0.07
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.24
Consensus pattern (29 bp):
CAAACTTAAGTACCAAATTAAAACTAAAA
Found at i:11338182 original size:7 final size:7
Alignment explanation
Indices: 11338170--11338208 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
11338160 ATACAGCCCT
11338170 ATAAAAA
1 ATAAAAA
11338177 ATAAAATA
1 ATAAAA-A
*
11338185 AAAATAAA
1 ATAA-AAA
11338193 ATAAAAA
1 ATAAAAA
11338200 ATAAAAA
1 ATAAAAA
11338207 AT
1 AT
11338209 TACTTTTCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 18 0.64
8 8 0.29
9 2 0.07
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
ATAAAAA
Found at i:11338189 original size:11 final size:12
Alignment explanation
Indices: 11338170--11338205 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
11338160 ATACAGCCCT
11338170 ATAAAAAATAAA
1 ATAAAAAATAAA
11338182 AT-AAAAATAAA
1 ATAAAAAATAAA
11338193 ATAAAAAATAAA
1 ATAAAAAATAAA
11338205 A
1 A
11338206 AATTACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:11338193 original size:18 final size:18
Alignment explanation
Indices: 11338170--11338206 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11338160 ATACAGCCCT
11338170 ATAAAA-AATAAAATAAAA
1 ATAAAATAA-AAAATAAAA
11338188 ATAAAATAAAAAATAAAA
1 ATAAAATAAAAAATAAAA
11338206 A
1 A
11338207 ATTACTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (18 bp):
ATAAAATAAAAAATAAAA
Found at i:11346512 original size:12 final size:12
Alignment explanation
Indices: 11346495--11346523 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
11346485 TATTTTGTTT
11346495 ATTTCCTAACAA
1 ATTTCCTAACAA
11346507 ATTTCCTAACAA
1 ATTTCCTAACAA
11346519 ATTTC
1 ATTTC
11346524 ATATTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTTCCTAACAA
Found at i:11346533 original size:3 final size:3
Alignment explanation
Indices: 11346525--11346590 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
11346515 ACAAATTTCA
*
11346525 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11346573 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
11346591 AATTGCTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11346719 original size:25 final size:26
Alignment explanation
Indices: 11346659--11346719 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
11346649 GTATGATTTT
**
11346659 TGTACATATTTACATATCTATATATA
1 TGTACATATTTACATAAATATATATA
**
11346685 TGTATTTATTT-CATAAATATATATA
1 TGTACATATTTACATAAATATATATA
*
11346710 TTTACATATT
1 TGTACATATT
11346720 CTTCATTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (26 bp):
TGTACATATTTACATAAATATATATA
Found at i:11347630 original size:108 final size:109
Alignment explanation
Indices: 11347373--11347777 Score: 602
Period size: 109 Copynumber: 3.7 Consensus size: 109
11347363 AAAAATAATA
* *
11347373 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTT-GATTTTT
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAAGGTACTGGGT-TTCGA--TTT
11347437 CTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAAT
62 CTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAAT
* *
11347485 AAGGCAATGTTTTGCGTTTGGAAATTCAAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCG
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCG
* *
11347550 TTCCACCAAAT-GACTTAATATCCTTTTCAAAAA-TTTTC-AAAAT
66 TTCGACCAAATAG-CTAAATATCCTTTT-AAAAACTTTTCAAAAAT
* * *
11347593 AAGGAAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCG
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCG
11347658 TTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAAT
66 TTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAAT
* * *
11347702 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTTGATTTCACG
1 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCG
**
11347767 TTTAACCAAAT
66 TTCGACCAAAT
11347778 TGCCAAATTT
Statistics
Matches: 268, Mismatches: 19, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
107 5 0.02
108 96 0.36
109 109 0.41
110 7 0.03
111 22 0.08
112 29 0.11
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (109 bp):
AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCG
TTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAAT
Found at i:11347671 original size:217 final size:219
Alignment explanation
Indices: 11347373--11347777 Score: 663
Period size: 217 Copynumber: 1.9 Consensus size: 219
11347363 AAAAATAATA
* * *
11347373 AAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATTTTTC
1 AAGGAAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTGTTGA-TTTTC
11347438 TCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTTTGCGTT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTTTGCGTT
* * *
11347503 TGGAAATTCAAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCCACCAAATGACTTAA
130 TGGAAATTCAAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCACGTTCAACCAAATGACTTAA
11347568 TATCCTTTTCAAAAATTTTCAAAAT
195 TATCCTTTTCAAAAATTTTCAAAAT
* *
11347593 AAGGAAATATTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTGGGT-TTCGA-TTTC
1 AAGGAAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTGTT-GATTTTC
11347655 TCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTTTGCGTT
65 TCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTTTGCGTT
* * * *
11347720 TGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTTGATTTCACGTTTAACCAAAT
130 TGGAAATTCAAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCACGTTCAACCAAAT
11347778 TGCCAAATTT
Statistics
Matches: 172, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
217 120 0.70
218 2 0.01
219 22 0.13
220 28 0.16
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (219 bp):
AAGGAAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTGTTGATTTTCT
CGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAATGTTTTGCGTTT
GGAAATTCAAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCACGTTCAACCAAATGACTTAAT
ATCCTTTTCAAAAATTTTCAAAAT
Found at i:11356131 original size:12 final size:12
Alignment explanation
Indices: 11356114--11356144 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11356104 GGTTTTTTTA
11356114 TGTTTTTAAATT
1 TGTTTTTAAATT
11356126 TGTTTTTAAATT
1 TGTTTTTAAATT
*
11356138 TATTTTT
1 TGTTTTT
11356145 CATTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TGTTTTTAAATT
Found at i:11357086 original size:98 final size:98
Alignment explanation
Indices: 11356952--11357148 Score: 326
Period size: 98 Copynumber: 2.0 Consensus size: 98
11356942 TAAAAAATAA
*
11356952 TAAAGGAAATATTCCGAGTTTGGAGTTTTGAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGAGTTTTGAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
* *
11357017 TTAAATCTCGGATAAGTGGATTTTCTTTTAAAG
66 TTAAATATCGGATAAGTGGATGTTCTTTTAAAG
11357050 TAAAGGAAATATTCCGAGTTTGG-GATTTT-AGAGGAATCGTGCCCTAACGTATTGGGTGTGATT
1 TAAAGGAAATATTCCGAGTTTGGAG-TTTTGA-AGGAATCGTGCCCTAACGTATTGGGTGTGATT
*
11357113 TCTTAAATATTGGATAAGTGGATGTTCTTTTAAAG
64 TCTTAAATATCGGATAAGTGGATGTTCTTTTAAAG
11357148 T
1 T
11357149 TTTTTTACAC
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
97 2 0.02
98 91 0.98
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGAGTTTTGAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATATCGGATAAGTGGATGTTCTTTTAAAG
Found at i:11363487 original size:44 final size:44
Alignment explanation
Indices: 11363252--11363873 Score: 280
Period size: 44 Copynumber: 14.3 Consensus size: 44
11363242 GAAAACCGAT
* * ****
11363252 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGAC
* * * * * * *
11363296 GATCTTATTTCTCTGAAGTTGCAG-AGAGCAGATCATATCTAG--
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-AGAC
* * *
11363338 --TCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-CAAAGTA-AGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGA-C
* * * *
11363379 AAGTCTTATC-CTCCAGAAGTTGCAGTGGGGGCAGACTGAAG-ATGGA-
1 AA-TCTTATCTC-CCTGAAGTTGCAGT-GGAGCAGATTAAAGCA--GAC
* * *
11363425 AAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGAC
* * * * *
11363470 AATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTTAAA-C-CAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCAGAC
* * * * *
11363513 AGATCTTATCACTCTGAAGTTGCAG-AGAGCAGA-T--CGCA-TC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGAC
* *
11363553 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGA-C
* * *
11363597 AGGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAG-ATGGAA
1 A-ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCA--GAC
*
11363643 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGAC
* * ** * **
11363687 AATCCTATCTCCCTGAAGTTGCAATGGAGTGGATTAAAAC-CTC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGAC
* * * *
11363730 AGATCTTATCTCTCTGAAGTTGCAGAGG-GCAGA-T--CGCA-TC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGAC
* * * *
11363770 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAACG-C
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-GAC
* * * * *
11363815 AAGTCTTATC-CCCTTGAAATTACAGTGGGGGCAGACTAAA-CATATC
1 AA-TCTTATCTCCC-TGAAGTTGCAGT-GGAGCAGATTAAAGCAGA-C
11363861 AATCTTATCTCCC
1 AATCTTATCTCCC
11363874 CAACGTCGCG
Statistics
Matches: 447, Mismatches: 80, Indels: 100
0.71 0.13 0.16
Matches are distributed among these distances:
39 1 0.00
40 71 0.16
41 21 0.05
42 3 0.01
43 32 0.07
44 185 0.41
45 85 0.19
46 46 0.10
47 2 0.00
48 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAGAC
Found at i:11363604 original size:84 final size:87
Alignment explanation
Indices: 11363470--11363680 Score: 211
Period size: 84 Copynumber: 2.4 Consensus size: 87
11363460 TAAAGCCGAT
* * * * * *
11363470 AATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTTAAACCACAGATCTTATCACT-CTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCTAAACAACAGATCTTATC-CTCCTGAAGTT
* **
11363534 GCAGAGA-GCAGA-T-CGCAT-CT
65 GCAGAGAGGCAGACTAAG-ATGAA
* * *
11363554 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGCAAGCAGGTCTTATCCTCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCTAAACAA-CAGATCTTATCCTCCTGAAGTT
*
11363618 GCAGTGAGGCAGACTAAAGATGGAA
65 GCAGAGAGGCAGACT-AAGAT-GAA
11363643 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCTAAA
11363681 GCTGACAATC
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
83 7 0.07
84 52 0.50
85 5 0.05
86 1 0.01
87 2 0.02
88 1 0.01
89 35 0.34
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCTAAACAACAGATCTTATCCTCCTGAAGTTG
CAGAGAGGCAGACTAAGATGAA
Found at i:11363739 original size:217 final size:217
Alignment explanation
Indices: 11363247--11363854 Score: 914
Period size: 217 Copynumber: 2.8 Consensus size: 217
11363237 CAGAAGAAAA
* * ** *
11363247 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATTTCTCTGA
1 CCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGA
** * *
11363312 AGTTGCAGAGAGCAGATCATATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAAAGTAA
66 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AA
* * * *
11363377 GCAAGTCTTATCCTCCAGAAGTTGCAGTGGGGGCAGACTGAAGATGGAAAGTCTTATCTCCTTGA
130 GCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGGCAGACTAAAGATGGAAAATCTTATCTCCCTGA
11363442 AGTTGCAGTGGAGCAGATTAAAG
195 AGTTGCAGTGGAGCAGATTAAAG
* * * * * *
11363465 CCGATAATCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTTAAACCACAGATCTTATCACTCTGA
1 CCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGA
11363530 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAA
66 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AA
* *
11363595 GCAGGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGGAAAATCTTATCTCCCTGA
130 GCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGGCAGACTAAAGATGGAAAATCTTATCTCCCTGA
11363659 AGTTGCAGTGGAGCAGATTAAAG
195 AGTTGCAGTGGAGCAGATTAAAG
* * *
11363682 CTGACAATCCTATCTCCCTGAAGTTGCAATGGAGTGGATTAAAACCTCAGATCTTATCTCTCTGA
1 CCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGA
*
11363747 AGTTGCAGAGGGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA
66 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAA
* *
11363812 CGCAAGTCTTATCC-CCTTGAAATTACAGTGGGGGCAGACTAAA
130 -GCAAGTCTTATCCTCC-TGAAGTTGCAGTGGGGGCAGACTAAA
11363855 CATATCAATC
Statistics
Matches: 352, Mismatches: 34, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
217 173 0.49
218 167 0.47
219 12 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (217 bp):
CCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGA
AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
CAAGTCTTATCCTCCTGAAGTTGCAGTGGGGGCAGACTAAAGATGGAAAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGATTAAAG
Found at i:11365051 original size:12 final size:12
Alignment explanation
Indices: 11365034--11365064 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11365024 GGTTTTTTTA
11365034 TGTTTTTAAATT
1 TGTTTTTAAATT
11365046 TGTTTTTAAATT
1 TGTTTTTAAATT
*
11365058 TATTTTT
1 TGTTTTT
11365065 CATTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (12 bp):
TGTTTTTAAATT
Found at i:11365995 original size:97 final size:98
Alignment explanation
Indices: 11365876--11366071 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
11365866 AAAAAAATCA
** *
11365876 TAAAGGAAATATTTTGAGTTTGGGATTTTAAAGGAATTGTGCCC-AACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
11365940 TTAAATCTTGGATAAGCGGACT-TTCTTTTAAAG
66 TTAAATCTTGGATAAGCGGA-TGTTCTTTTAAAG
*
11365973 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
11366038 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGCGGATGTTCTTTTAAAG
11366071 T
1 T
11366072 TTTATTATAC
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
97 41 0.45
98 51 0.55
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGCGGATGTTCTTTTAAAG
Found at i:11368855 original size:2 final size:2
Alignment explanation
Indices: 11368848--11368874 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11368838 GTGTTCCTAA
11368848 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
11368875 GCTAATTATA
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:11370654 original size:3 final size:3
Alignment explanation
Indices: 11370646--11370673 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11370636 AAATTAGTTA
11370646 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11370674 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11370806 original size:76 final size:74
Alignment explanation
Indices: 11370720--11370873 Score: 229
Period size: 76 Copynumber: 2.1 Consensus size: 74
11370710 TTAAACTTAA
* *
11370720 CCAAAATTTGAGAATATTATTTAATTGTATTCTAAAAATAATAAGAAATAATAAATTAAAGAAAA
1 CCAAAATTTGAAAATATTATTCAATTGTATTCTAAAAATAAT---AAATAATAAATTAAAGAAAA
11370785 ACT-AAAAAAAT
63 ACTAAAAAAAAT
* * *
11370796 CCAAATTTTGAAAATGTTATTCAATTGTATTCTAAAAATAATATATAATAAATTAAAGAAAAACT
1 CCAAAATTTGAAAATATTATTCAATTGTATTCTAAAAATAATAAATAATAAATTAAAGAAAAACT
11370861 AAAAAAAAT
66 AAAAAAAAT
11370870 CCAA
1 CCAA
11370874 CTTCCTAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
73 22 0.31
74 12 0.17
76 38 0.53
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (74 bp):
CCAAAATTTGAAAATATTATTCAATTGTATTCTAAAAATAATAAATAATAAATTAAAGAAAAACT
AAAAAAAAT
Found at i:11375443 original size:32 final size:31
Alignment explanation
Indices: 11375373--11375448 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 31
11375363 TTATCGTTTC
*
11375373 TTCATA-AACATATATCATTCATTTCATTAT
1 TTCATATAACATATACCATTCATTTCATTAT
* *
11375403 ATCAATATATCATATACCA-TCATTTCCATGTAT
1 TTC-ATATAACATATACCATTCATTT-CAT-TAT
11375436 TTCATATAA-ATAT
1 TTCATATAACATAT
11375449 CAAGAAACAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 2 0.05
31 13 0.35
32 17 0.46
33 5 0.14
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.43
Consensus pattern (31 bp):
TTCATATAACATATACCATTCATTTCATTAT
Found at i:11375805 original size:24 final size:24
Alignment explanation
Indices: 11375727--11375844 Score: 78
Period size: 24 Copynumber: 4.8 Consensus size: 24
11375717 AAGCTCTTTC
* * *
11375727 GAGCCATATAACGGGAAACTCATGT
1 GAGCCAT-TAACGGGAAGCTCAAGA
* *
11375752 GAACCATGTAATGGGAAGCTCCGAA-A
1 GAGCCAT-TAACGGGAAGCT-C-AAGA
* * *
11375778 -AGCCTTTAACGGGAAGTTCAAGC
1 GAGCCATTAACGGGAAGCTCAAGA
* * * *
11375801 GAGCCAATATCGAGAAGCTCCAGA
1 GAGCCATTAACGGGAAGCTCAAGA
11375825 GAGCCATTAACGGGAAGCTC
1 GAGCCATTAACGGGAAGCTC
11375845 TCCGAAGAGG
Statistics
Matches: 68, Mismatches: 21, Indels: 9
0.69 0.21 0.09
Matches are distributed among these distances:
22 2 0.03
23 1 0.01
24 43 0.63
25 20 0.29
26 1 0.01
27 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCAAGA
Found at i:11383795 original size:44 final size:44
Alignment explanation
Indices: 11383730--11384268 Score: 162
Period size: 44 Copynumber: 11.6 Consensus size: 44
11383720 CATCGTGGCG
*
11383730 AATCTTATCTCCCTACAGTTGTAGTGGAGTAGATTAAAGCCACA
1 AATCTTATCTCCCTACAGTTGTAGTGGAGCAGATTAAAGCCACA
** ** **
11383774 AATCTTATCTCCCTAGTGTTGTAGTGGAGCAGATTGGAGCTTCA
1 AATCTTATCTCCCTACAGTTGTAGTGGAGCAGATTAAAGCCACA
* * * * *
11383818 AATCTTATTTCCCTAAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTACAGTTGTAGTGGAGCAGATTAAAGC--C-----ACA
* * * **
11383869 AATCTTATCTCCCTGA-AGTCGCAGTGGAGCAGATTGAAGCTTCA
1 AATCTTATCTCCCT-ACAGTTGTAGTGGAGCAGATTAAAGCCACA
* * * * * * *
11383913 AATTTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAACTACAAGTTACA
1 AATCTTATCTCCCTACAGTTGTAGTGGAGCAGATTAAAGC--C-----ACA
* * * * * * ***
11383964 AATTTTATCTCACTGA-TGTTGCAATGGAGCAGATTGAAGTTTCA
1 AATCTTATCTCCCT-ACAGTTGTAGTGGAGCAGATTAAAGCCACA
* * * *
11384008 AATCTTATTTCCCTGA-AGTTGCAGTGGAACAGATTAAAGCTACAAGTTTTA
1 AATCTTATCTCCCT-ACAGTTGTAGTGGAGCAGATTAAAGC--C-A----CA
* * *
11384059 AATCTTATCTCCCT-CAAGTTGCAGTGAAGCAGATTGAAA-CTACA
1 AATCTTATCTCCCTAC-AGTTGTAGTGGAGCAGATT-AAAGCCACA
* * * * * *
11384103 AATCTTATTTTCCTGA-GGTTGCAGTAGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCT-ACAGTTGTAGTGGAGCAGATTAAAGC--C-----ACA
* * * *
11384154 AATCTTATCTCCCTGA-AGTTGCAGTGGAGTAGATTGAAGCTACA
1 AATCTTATCTCCCT-ACAGTTGTAGTGGAGCAGATTAAAGCCACA
* * *
11384198 AGTCTTATCTCCCTGA-AGTTGCAGTGGAGCAGA-TAGAAGCAACA
1 AATCTTATCTCCCT-ACAGTTGTAGTGGAGCAGATTA-AAGCCACA
* * *
11384242 AATCCTATATCTCTGA-AGTTGTAGTGG
1 AATCTTATCTCCCT-ACAGTTGTAGTGG
11384269 GTTAAAATGA
Statistics
Matches: 373, Mismatches: 84, Indels: 76
0.70 0.16 0.14
Matches are distributed among these distances:
43 5 0.01
44 228 0.61
48 1 0.00
51 134 0.36
52 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTACAGTTGTAGTGGAGCAGATTAAAGCCACA
Found at i:11383902 original size:51 final size:51
Alignment explanation
Indices: 11383816--11384231 Score: 357
Period size: 51 Copynumber: 8.7 Consensus size: 51
11383806 ATTGGAGCTT
* * * *
11383816 CAAATCTTATTTCCCTAAAGTTGCAATGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
* *
11383867 CAAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAG---C---TT-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
* * * * * *
11383911 CAAATTTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAACTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
* * * * *
11383962 CAAATTTTATCTCACTGATGTTGCAATGGAGCAGATT---G----AAGTTT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
* * *
11384006 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
* * * *
11384057 TAAATCTTATCTCCCTCAAGTTGCAGTGAAGCAGATT---G--A-AA-CTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
* * * * *
11384101 CAAATCTTATTTTCCTGAGGTTGCAGTAGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
* *
11384152 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAG---
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
11384200 ----TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
11384232 AGAAGCAACA
Statistics
Matches: 291, Mismatches: 53, Indels: 49
0.74 0.13 0.12
Matches are distributed among these distances:
44 130 0.45
45 4 0.01
46 1 0.00
47 3 0.01
48 2 0.01
49 1 0.00
50 4 0.01
51 146 0.50
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (51 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTTA
Found at i:11383902 original size:95 final size:95
Alignment explanation
Indices: 11383771--11384231 Score: 645
Period size: 95 Copynumber: 4.9 Consensus size: 95
11383761 GATTAAAGCC
* * * *
11383771 ACAAATCTTATCTCCCT-AGTGTTGTAGTGGAGCAGATTGGAGCTTCAAATCTTATTTCCCTAAA
1 ACAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAA
*
11383835 GTTGCAATGGAACAGATTAAAGCTACAAGTT
65 GTTGCAGTGGAACAGATTAAAGCTACAAGTT
* * *
11383866 ACAAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGCTTCAAATTTTATTTCCCTAAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
* *
11383931 TTGCAGTGGAACAAATTAAAACTACAAGTT
66 TTGCAGTGGAACAGATTAAAGCTACAAGTT
* * * * *
11383961 ACAAATTTTATCTCACTGATGTTGCAATGGAGCAGATTGAAGTTTCAAATCTTATTTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
11384026 TTGCAGTGGAACAGATTAAAGCTACAAGTT
66 TTGCAGTGGAACAGATTAAAGCTACAAGTT
** * * * * * *
11384056 TTAAATCTTATCTCCCTCAAGTTGCAGTGAAGCAGATTGAAACTACAAATCTTATTTTCCTGAGG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
*
11384121 TTGCAGTAGAACAGATTAAAGCTACAAGTT
66 TTGCAGTGGAACAGATTAAAGCTACAAGTT
* * * *
11384151 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAGTCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
*
11384216 TTGCAGTGGAGCAGAT
66 TTGCAGTGGAACAGAT
11384232 AGAAGCAACA
Statistics
Matches: 321, Mismatches: 44, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
95 320 1.00
96 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (95 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
TTGCAGTGGAACAGATTAAAGCTACAAGTT
Found at i:11385786 original size:4 final size:4
Alignment explanation
Indices: 11385777--11385874 Score: 78
Period size: 4 Copynumber: 24.8 Consensus size: 4
11385767 ACTATTTCCT
* *
11385777 TTTA TTTA TTTA TTTA TTTA -TTA TTCCT- TTTA TTTTA TTCA TTTA CTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA -TTTA TTTA TTTA TTTA
* * * * *
11385826 CTTA TTTA CTTA TTTA TTTA TATA -TTA TTCA TTTA TTTA CTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
11385872 TTT
1 TTT
11385875 TAATTCCTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
3 8 0.11
4 60 0.80
5 6 0.08
6 1 0.01
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:11386132 original size:3 final size:3
Alignment explanation
Indices: 11386117--11386151 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
11386107 ATTGTTCTCG
* *
11386117 TTA TTA TTG TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11386152 TACCTTTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11390826 original size:9 final size:9
Alignment explanation
Indices: 11390812--11390842 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11390802 GTTAAACGAA
11390812 TCGAGTTAT
1 TCGAGTTAT
*
11390821 TCGAGTTAA
1 TCGAGTTAT
11390830 TCGAGTTAT
1 TCGAGTTAT
11390839 TCGA
1 TCGA
11390843 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11390912 original size:9 final size:9
Alignment explanation
Indices: 11390895--11390931 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11390885 TGAGTTTTCG
11390895 AATTCGAAT
1 AATTCGAAT
*
11390904 AACTCGAAT
1 AATTCGAAT
11390913 AATTCGAAT
1 AATTCGAAT
11390922 AATTCGAAT
1 AATTCGAAT
11390931 A
1 A
11390932 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11392722 original size:5 final size:5
Alignment explanation
Indices: 11392683--11392707 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11392673 TTTTTTTTTA
11392683 AAACT AAACT AAACT AAACT AAACT
1 AAACT AAACT AAACT AAACT AAACT
11392708 GAACCGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AAACT
Found at i:11394477 original size:16 final size:17
Alignment explanation
Indices: 11394456--11394496 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11394446 AATCATCAAA
11394456 TTTTTATATTAA-AT-AT
1 TTTTTAT-TTAATATAAT
11394472 TTTTTATTTAATATAAT
1 TTTTTATTTAATATAAT
11394489 TTTTTATT
1 TTTTTATT
11394497 CAAAAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.17
16 9 0.39
17 10 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATTTAATATAAT
Found at i:11394479 original size:14 final size:16
Alignment explanation
Indices: 11394454--11394496 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
11394444 ATAATCATCA
11394454 AATTTTTATATTAA-AT
1 AATTTTT-TATTAATAT
11394470 -ATTTTTTATTTAATAT
1 AATTTTTTA-TTAATAT
11394486 AATTTTTTATT
1 AATTTTTTATT
11394497 CAAAAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.08
15 10 0.42
16 4 0.17
17 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTTTTATTAATAT
Found at i:11427540 original size:100 final size:100
Alignment explanation
Indices: 11427358--11428565 Score: 1661
Period size: 100 Copynumber: 12.1 Consensus size: 100
11427348 AAACCATAGT
* * *
11427358 TTGCAATT-AAAAGATTGAGGCCACAATGGCGAATCTTACTT-CCAGGGCGGTGCAGTGGAACAG
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCA-GGCGGTGCAGCGGAACAG
* * * *
11427421 ATTGAAGCTACAACGGTGAATCTTACTTACCTGACA
65 ATTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * *
11427457 TTACAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGTAGCAGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
* *
11427522 TTAAAGCTACAACAGTGAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
*
11427557 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCAGTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
* *
11427622 TTGAAGCTACAATAGCGAATCTTACTTCCCCGATA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * ** * *
11427657 TTGCAATTAAAAAGATTGAGGCCATAACGGCGAATCTTACTTTTCAGACGGTGCAGCGGAATAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
*
11427722 TTAAAGCTACAACAGCGAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * *
11427757 TTGCAATTAAAAAGATTGAGGCAACAACGGTGAATATTACTTCCCAGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
*
11427822 TTGAAGCTACAACAGCAAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * * * *
11427857 TTGCAATTAAAAAGATTGAGGCCATAACGGCGAATCTTATTTCCCAGGCGGTGCAGCAGAATAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
* * *
11427922 TTGAAGCTACAACAACGAATCTTGCTTTCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
*
11427957 TTGCAATTAAAAAGATTGAGGCCACAACGGCT-AATCTTACTTCCCAGGCGGTGCAGCGGAATAG
1 TTGCAATTAAAAAGATTGAGGCCACAACGG-TGAATCTTACTTCCCAGGCGGTGCAGCGGAACAG
*
11428021 ATTAAAGCTACAACAGCGAATCTTACTTCCCCGACA
65 ATTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * *
11428057 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCTAGGCGGTGCAGCAGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
* *
11428122 TTGAAGCTACAATAGCAAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * * * * *
11428157 TTGTAATTAAAAAGATTAAGGCTAAAATGGTGAGTCTTACTTCCCAGGCGGTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
11428222 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * *
11428257 TTGCAATTAAAAAGATTGAGGTCACAACGGTGAATCTTACTTCCCAGGCGGTGCAACAGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
** * *
11428322 TTGAAGCTACAATGGTGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * * * * *
11428357 TTGCAATTAAAAAGATTGAGGCCACAGCGGTGATTCTTACTTCCTAGGCGCTGCAGCGGAGCATA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
* * * *
11428422 TTAAAGCTACGAC-GTCGAATCTTGCTCCCCCGACA
66 TTGAAGCTACAACAG-CGAATCTTACTTCCCCGACA
* ** * * * * * *
11428457 TTGTAATT-AAAAGATTGAGGCCACAACGGCAAACCTTACCTCCCAGGCAGTGTAGTGGAATAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
* **
11428521 TTAAAGCTACAACAATGAATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
*
11428556 TTGCAGTTAA
1 TTGCAATTAA
11428566 TTAGACTGAA
Statistics
Matches: 976, Mismatches: 126, Indels: 13
0.88 0.11 0.01
Matches are distributed among these distances:
99 85 0.09
100 888 0.91
101 3 0.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
Found at i:11428690 original size:45 final size:45
Alignment explanation
Indices: 11428568--11428793 Score: 235
Period size: 45 Copynumber: 5.1 Consensus size: 45
11428558 GCAGTTAATT
* * *
11428568 AGACTGAAGATAGCAGATCTTGCCTTCATGTACTGACGGTGAAGC
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
* * ** * *
11428613 AGA-TCAAAGACATTAG-CCTTGCCTTCCTGTACTGACAGCGGAGC
1 AGACT-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
* **
11428657 AGACTGAAGATAGCAGATATTGCCTTCCTGTACTGATGGCGAAGC
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
* * * * *
11428702 AGA-TCGAAGACACCAG-CCTTGCCTTCCTGTACTGACAACGGAGC
1 AGACT-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
* *
11428746 ATACTGAAGATAGCAGATCTTGCCTTCCTGTAATGACAGCGAAGC
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
11428791 AGA
1 AGA
11428794 TCAAAGACAC
Statistics
Matches: 141, Mismatches: 34, Indels: 12
0.75 0.18 0.06
Matches are distributed among these distances:
44 68 0.48
45 73 0.52
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (45 bp):
AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
Found at i:11428720 original size:89 final size:89
Alignment explanation
Indices: 11428568--11428805 Score: 377
Period size: 89 Copynumber: 2.7 Consensus size: 89
11428558 GCAGTTAATT
* * **
11428568 AGACTGAAGATAGCAGATCTTGCCTTCATGTACTGACGGTGAAGCAGATCAAAGACATTAGCCTT
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCAAAGACACCAGCCTT
*
11428633 GCCTTCCTGTACTGACAGCGGAGC
66 GCCTTCCTGTACTGACAACGGAGC
* * *
11428657 AGACTGAAGATAGCAGATATTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGACACCAGCCTT
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCAAAGACACCAGCCTT
11428722 GCCTTCCTGTACTGACAACGGAGC
66 GCCTTCCTGTACTGACAACGGAGC
* * *
11428746 ATACTGAAGATAGCAGATCTTGCCTTCCTGTAATGACAGCGAAGCAGATCAAAGACACCA
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCAAAGACACCA
11428806 TAGTTTACAG
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 135 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (89 bp):
AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACGGCGAAGCAGATCAAAGACACCAGCCTT
GCCTTCCTGTACTGACAACGGAGC
Found at i:11429092 original size:132 final size:132
Alignment explanation
Indices: 11428844--11429298 Score: 748
Period size: 132 Copynumber: 3.4 Consensus size: 132
11428834 GCAAATCTTA
* *
11428844 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGATGAATCTTATATTCCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
* * * * * * *
11428909 GCAGATTTAAGCCATTAGTCCTATCTCCCTAAGTAGTAGCGGAATAGGTTGAACATTGCAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTC
11428974 TG
131 TG
* *
11428976 TCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAATGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
*
11429041 GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTACGTTGAAGATTGCAAATTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTC
11429106 TG
131 TG
*
11429108 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTCCAAGATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
11429173 GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTC
66 GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTC
11429238 TG
131 TG
* * * * *
11429240 TCTCCCTAAGCAGTAGTGAAGCAGATCAAAGAGGGTGAATCTTATCTTCTCAAGGTAGT
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGT
11429299 AGGGAAGTAA
Statistics
Matches: 301, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 301 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAA
GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTC
TG
Found at i:11431114 original size:16 final size:17
Alignment explanation
Indices: 11431085--11431120 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
11431075 TTATTTTATG
11431085 TTTTCTATTATTATTTT
1 TTTTCTATTATTATTTT
11431102 TTTTCTATT-TTATTTT
1 TTTTCTATTATTATTTT
11431118 TTT
1 TTT
11431121 ACATACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTATTATTATTTT
Found at i:11431119 original size:14 final size:14
Alignment explanation
Indices: 11431076--11431119 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
11431066 TAGATTTTAT
*
11431076 TATTTTATGTTTTC
1 TATTTTATTTTTTC
11431090 TATTATTATTTTTTTTC
1 TATT-TTA--TTTTTTC
11431107 TATTTTATTTTTT
1 TATTTTATTTTTT
11431120 TACATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 10 0.38
15 3 0.12
16 3 0.12
17 10 0.38
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (14 bp):
TATTTTATTTTTTC
Found at i:11431156 original size:17 final size:16
Alignment explanation
Indices: 11431070--11431153 Score: 66
Period size: 17 Copynumber: 5.1 Consensus size: 16
11431060 TATACATAGA
11431070 TTTTATTATTTTATGTT
1 TTTTATTATTTTAT-TT
*
11431087 TTCTATTA--TTATTT
1 TTTTATTATTTTATTT
11431101 TTTT-TCTATTTTATTT
1 TTTTAT-TATTTTATTT
* *
11431117 TTTTACATACTATTATTAT
1 TTTTA-TTA-TTTTATT-T
*
11431136 TATTATTATTTTATTT
1 TTTTATTATTTTATTT
11431152 TT
1 TT
11431154 ATTTATTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
13 1 0.02
14 7 0.13
15 4 0.08
16 12 0.23
17 15 0.29
18 8 0.15
19 5 0.10
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTTATTATTTTATTT
Found at i:11431490 original size:8 final size:8
Alignment explanation
Indices: 11431479--11431503 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11431469 CCAAATATCC
11431479 TTTTAAAA
1 TTTTAAAA
11431487 TTTTAAAA
1 TTTTAAAA
11431495 TTTTAAAA
1 TTTTAAAA
11431503 T
1 T
11431504 AAGGCAATGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:11431590 original size:115 final size:107
Alignment explanation
Indices: 11431388--11431699 Score: 441
Period size: 115 Copynumber: 2.9 Consensus size: 107
11431378 TTTAATTTTT
* *
11431388 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCAATTTTC
1 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC-ATTTTC
11431453 TCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTTAAAATTTTAAAA
65 TCGTTCGACCAAATAGCCAAATATCC---T----TTTTAAAATTTTAAAA
11431503 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTC
1 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC-ATTTTC
11431568 TCGTTCGACCAAATAGCCAAATATCC-TTTTAAAATTTTAAAA
65 TCGTTCGACCAAATAGCCAAATATCCTTTTTAAAATTTTAAAA
* * *
11431610 TAAGGCAATGTTTTACTTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT-AATTTCT
1 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCATTTTCT
* * *
11431674 CGTTGGACCGAAT-GTCTAAATATCCT
66 CGTTCGACCAAATAG-CCAAATATCCT
11431700 CTTACATCTT
Statistics
Matches: 186, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
104 1 0.01
105 26 0.14
107 71 0.38
115 88 0.47
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (107 bp):
TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCATTTTCT
CGTTCGACCAAATAGCCAAATATCCTTTTTAAAATTTTAAAA
Found at i:11431655 original size:107 final size:105
Alignment explanation
Indices: 11431487--11431699 Score: 338
Period size: 107 Copynumber: 2.0 Consensus size: 105
11431477 CCTTTTAAAA
*
11431487 TTTTAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTG
1 TTTTAAAATTTTAAAATAAGGCAATGTTTTACATTTGGAAATTCGAGAAAACGTGCCCTAATGTG
*
11431552 CTGGGTTTCGATTTTCTCGTTCGACCAAATAG-CCAAATATCC
66 CTGGGTTT--AATTTCTCGTTCGACCAAAT-GTCCAAATATCC
*
11431594 TTTTAAAATTTTAAAATAAGGCAATGTTTTACTTTTGGAAATTCGAGAAAACGTGCCCTAATGTG
1 TTTTAAAATTTTAAAATAAGGCAATGTTTTACATTTGGAAATTCGAGAAAACGTGCCCTAATGTG
* * *
11431659 CTGGGTTTAATTTCTCGTTGGACCGAATGTCTAAATATCC
66 CTGGGTTTAATTTCTCGTTCGACCAAATGTCCAAATATCC
11431699 T
1 T
11431700 CTTACATCTT
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
104 1 0.01
105 27 0.27
107 71 0.72
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (105 bp):
TTTTAAAATTTTAAAATAAGGCAATGTTTTACATTTGGAAATTCGAGAAAACGTGCCCTAATGTG
CTGGGTTTAATTTCTCGTTCGACCAAATGTCCAAATATCC
Found at i:11432997 original size:24 final size:24
Alignment explanation
Indices: 11432968--11433024 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
11432958 ATTAGGAGGA
* * *
11432968 GGAGGTGGTGGAGGGTTTGGTGGT
1 GGAGGTGGAGGAGGGCTAGGTGGT
11432992 GGAGGTGGAGGAGGGCTAGGTGGT
1 GGAGGTGGAGGAGGGCTAGGTGGT
*
11433016 GGAGCTGGA
1 GGAGGTGGA
11433025 TTTGGGGGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.14, C:0.04, G:0.61, T:0.21
Consensus pattern (24 bp):
GGAGGTGGAGGAGGGCTAGGTGGT
Found at i:11433055 original size:18 final size:18
Alignment explanation
Indices: 11433034--11433089 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
11433024 ATTTGGGGGG
*
11433034 GGCGCTGGTGCTGGTGGT
1 GGCGCTGGTGCAGGTGGT
* *
11433052 GGCGTTGGTGGAGGTGGT
1 GGCGCTGGTGCAGGTGGT
* *
11433070 GG-GCTTGGAGGAGGTGGT
1 GGCGC-TGGTGCAGGTGGT
11433088 GG
1 GG
11433090 TGGAGGGTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 1 0.03
18 31 0.97
ACGTcount: A:0.05, C:0.09, G:0.61, T:0.25
Consensus pattern (18 bp):
GGCGCTGGTGCAGGTGGT
Found at i:11433067 original size:24 final size:23
Alignment explanation
Indices: 11433040--11433154 Score: 64
Period size: 24 Copynumber: 5.2 Consensus size: 23
11433030 GGGGGGCGCT
11433040 GGTGCTGGTGGTGGCGTTGGTGGA
1 GGTGCTGGTGGTGG-GTTGGTGGA
* *
11433064 -G-G-TGGT-G-GGCTTGGAGGA
1 GGTGCTGGTGGTGGGTTGGTGGA
* * *
11433082 GGTGGTGGTGGAGGGTTCGGAGGA
1 GGTGCTGGTGGTGGGTT-GGTGGA
* * * *
11433106 GGTGGTGGCGGTGGAGTAGGTGGT
1 GGTGCTGGTGGTGG-GTTGGTGGA
*
11433130 GGTGCTGGCGGTGGGTT--TGGA
1 GGTGCTGGTGGTGGGTTGGTGGA
11433151 GGTG
1 GGTG
11433155 GAGCTGGAGG
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
18 7 0.10
19 3 0.04
20 2 0.03
21 15 0.21
22 2 0.03
23 7 0.10
24 35 0.48
25 2 0.03
ACGTcount: A:0.08, C:0.06, G:0.61, T:0.25
Consensus pattern (23 bp):
GGTGCTGGTGGTGGGTTGGTGGA
Found at i:11433121 original size:18 final size:18
Alignment explanation
Indices: 11433046--11433131 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 18
11433036 CGCTGGTGCT
* *
11433046 GGTGGTGGCGTTGGTGGA
1 GGTGGTGGCGGTGGAGGA
* *
11433064 GGTGGTGGGCTTGGAGGAGGT
1 GGTGGT-GGC--GGTGGAGGA
*
11433085 GGTGGTGGAGGGTTCGGAGGA
1 GGTGGTGG-CGG-T-GGAGGA
*
11433106 GGTGGTGGCGGTGGAGTA
1 GGTGGTGGCGGTGGAGGA
11433124 GGTGGTGG
1 GGTGGTGG
11433132 TGCTGGCGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
18 19 0.36
19 6 0.11
20 4 0.08
21 24 0.45
ACGTcount: A:0.09, C:0.05, G:0.63, T:0.23
Consensus pattern (18 bp):
GGTGGTGGCGGTGGAGGA
Found at i:11433155 original size:24 final size:24
Alignment explanation
Indices: 11433067--11433167 Score: 78
Period size: 24 Copynumber: 4.2 Consensus size: 24
11433057 TGGTGGAGGT
* * *
11433067 GGTGGGCTTGGAGGAGGTGGTGGT
1 GGTGGGTTTGGAGGAGGTGCTGGC
* * *
11433091 GGAGGGTTCGGAGGAGGTGGTGGC
1 GGTGGGTTTGGAGGAGGTGCTGGC
* * *
11433115 GGTGGAG-TAGGTGGTGGTGCTGGC
1 GGTGG-GTTTGGAGGAGGTGCTGGC
* * *
11433139 GGTGGGTTTGGAGGTGGAGCTGGA
1 GGTGGGTTTGGAGGAGGTGCTGGC
11433163 GGTGG
1 GGTGG
11433168 AGCTGGAGGT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
23 1 0.02
24 60 0.97
25 1 0.02
ACGTcount: A:0.10, C:0.06, G:0.61, T:0.23
Consensus pattern (24 bp):
GGTGGGTTTGGAGGAGGTGCTGGC
Found at i:11433162 original size:12 final size:12
Alignment explanation
Indices: 11433147--11433179 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
11433137 GCGGTGGGTT
11433147 TGGAGGTGGAGC
1 TGGAGGTGGAGC
11433159 TGGAGGTGGAGC
1 TGGAGGTGGAGC
11433171 TGGAGGTGG
1 TGGAGGTGG
11433180 CTTCGGTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.06, G:0.61, T:0.18
Consensus pattern (12 bp):
TGGAGGTGGAGC
Done.