Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 115 of 378
Found at i:32067664 original size:45 final size:45
Alignment explanation
Indices: 32067613--32067703 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
32067603 CCATACTTAG
32067613 CTGATTTATACTTAAGTCCCTAGCAGCCCAAAATTTTATTTATTT
1 CTGATTTATACTTAAGTCCCTAGCAGCCCAAAATTTTATTTATTT
* *
32067658 CTGATTTATACTTGAGTCTCTAGCAGCCCAAAATTTTATTTATTT
1 CTGATTTATACTTAAGTCCCTAGCAGCCCAAAATTTTATTTATTT
32067703 C
1 C
32067704 ACATTTCAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (45 bp):
CTGATTTATACTTAAGTCCCTAGCAGCCCAAAATTTTATTTATTT
Found at i:32071658 original size:14 final size:15
Alignment explanation
Indices: 32071639--32071671 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
32071629 GCAGAGACTA
32071639 AAATATCATCA-TTT
1 AAATATCATCATTTT
32071653 AAATATCATCATTTT
1 AAATATCATCATTTT
32071668 AAAT
1 AAAT
32071672 GTATAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATATCATCATTTT
Found at i:32082616 original size:10 final size:10
Alignment explanation
Indices: 32082601--32082732 Score: 65
Period size: 10 Copynumber: 13.8 Consensus size: 10
32082591 CGCCATTTTG
32082601 ATAATTTTAT
1 ATAATTTTAT
*
32082611 ATAATTTTTTTT
1 ATAA--TTTTAT
32082623 ATAA-TTTAT
1 ATAATTTTAT
*
32082632 A-ACTTTT-T
1 ATAATTTTAT
32082640 ATAATTCTT-T
1 ATAATT-TTAT
*
32082650 A-ACTTTTAT
1 ATAATTTTAT
32082659 AATACA--TTA-
1 -ATA-ATTTTAT
32082668 ATAATATTTA-
1 ATAAT-TTTAT
32082678 ATAATATTTAT
1 ATAAT-TTTAT
*
32082689 AT--TTTTCT
1 ATAATTTTAT
*
32082697 ATAATTTTTT
1 ATAATTTTAT
32082707 ATAATTTT-T
1 ATAATTTTAT
32082716 ATAATTTT-T
1 ATAATTTTAT
32082725 ATAATTTT
1 ATAATTTT
32082733 TAATATTTTT
Statistics
Matches: 99, Mismatches: 8, Indels: 31
0.72 0.06 0.22
Matches are distributed among these distances:
7 1 0.01
8 14 0.14
9 34 0.34
10 38 0.38
11 3 0.03
12 9 0.09
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (10 bp):
ATAATTTTAT
Found at i:32082640 original size:17 final size:18
Alignment explanation
Indices: 32082618--32082661 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
32082608 TATATAATTT
32082618 TTTTTATAATT-TATAAC
1 TTTTTATAATTCTATAAC
*
32082635 TTTTTATAATTCTTTAAC
1 TTTTTATAATTCTATAAC
32082653 -TTTTATAAT
1 TTTTTATAAT
32082662 ACATTAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTCTATAAC
Found at i:32082668 original size:17 final size:18
Alignment explanation
Indices: 32082618--32082668 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
32082608 TATATAATTT
**
32082618 TTTTTATAATTTA-TAAC
1 TTTTTATAATACATTAAC
* *
32082635 TTTTTATAATTCTTTAAC
1 TTTTTATAATACATTAAC
32082653 -TTTTATAATACATTAA
1 TTTTTATAATACATTAA
32082669 TAATATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTATAATACATTAAC
Found at i:32082710 original size:29 final size:28
Alignment explanation
Indices: 32082601--32082750 Score: 103
Period size: 29 Copynumber: 5.3 Consensus size: 28
32082591 CGCCATTTTG
* *
32082601 ATAATTTTATATAATTTTT-TTTATAATTT
1 ATAATTTT-TATAATTTTTAATAAT-ATTT
*
32082630 ATAACTTTTTATAATTCTTT-A-ACT-TTT
1 ATAA-TTTTTATAATT-TTTAATAATATTT
* * *
32082657 ATAATACATTAATAATATTTAATAATATTT
1 ATAAT--TTTTATAATTTTTAATAATATTT
* * *
32082687 ATATTTTTCTATAATTTTTTATAATTTTT
1 ATAATTTT-TATAATTTTTAATAATATTT
*
32082716 ATAATTTTTATAATTTTTAAT-ATTTTT
1 ATAATTTTTATAATTTTTAATAATATTT
*
32082743 ACAATTTT
1 ATAATTTT
32082751 CTAATATTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.01
27 23 0.24
28 22 0.23
29 37 0.38
30 14 0.14
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
ATAATTTTTATAATTTTTAATAATATTT
Found at i:32082716 original size:9 final size:9
Alignment explanation
Indices: 32082595--32082750 Score: 109
Period size: 9 Copynumber: 16.6 Consensus size: 9
32082585 AATTTTCGCC
*
32082595 ATTTTGATA
1 ATTTTTATA
32082604 ATTTTATATA
1 ATTTT-TATA
* *
32082614 ATTTTTTTT
1 ATTTTTATA
*
32082623 ATAATTTATA
1 AT-TTTTATA
32082633 ACTTTTTATA
1 A-TTTTTATA
*
32082643 ATTCTT-TA
1 ATTTTTATA
*
32082651 ACTTTTATA
1 ATTTTTATA
* *
32082660 ATACATTAATA
1 AT--TTTTATA
*
32082671 ATATTTAATA
1 AT-TTTTATA
*
32082681 ATATTTATA
1 ATTTTTATA
*
32082690 TTTTTCTATA
1 ATTTT-TATA
32082700 ATTTTTTATA
1 A-TTTTTATA
32082710 ATTTTTATA
1 ATTTTTATA
32082719 ATTTTTATA
1 ATTTTTATA
32082728 ATTTTTA-A
1 ATTTTTATA
*
32082736 TATTTTTACA
1 -ATTTTTATA
32082746 ATTTT
1 ATTTT
32082751 CTAATATTTT
Statistics
Matches: 117, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
8 7 0.06
9 60 0.51
10 38 0.32
11 12 0.10
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:32082755 original size:19 final size:18
Alignment explanation
Indices: 32082698--32082760 Score: 85
Period size: 18 Copynumber: 3.5 Consensus size: 18
32082688 TATTTTTCTA
32082698 TAAT-TTTTTATAATTTT
1 TAATATTTTTATAATTTT
32082715 T-ATAATTTTTATAATTTT
1 TAAT-ATTTTTATAATTTT
*
32082733 TAATATTTTTACAATTTT
1 TAATATTTTTATAATTTT
32082751 CTAATATTTT
1 -TAATATTTT
32082761 CTAATACTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
16 2 0.05
17 1 0.02
18 27 0.66
19 11 0.27
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATATTTTTATAATTTT
Found at i:32082759 original size:10 final size:9
Alignment explanation
Indices: 32082700--32082766 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 9
32082690 TTTTTCTATA
*
32082700 ATTTTTTAT
1 ATTTTTAAT
32082709 AATTTTT-AT
1 -ATTTTTAAT
32082718 AATTTTT-AT
1 -ATTTTTAAT
32082727 AATTTTTAAT
1 -ATTTTTAAT
32082737 ATTTTTACA-
1 ATTTTTA-AT
32082746 ATTTTCTAAT
1 ATTTT-TAAT
32082756 ATTTTCTAAT
1 ATTTT-TAAT
32082766 A
1 A
32082767 CTTAAATAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
9 31 0.58
10 22 0.42
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:32082818 original size:32 final size:32
Alignment explanation
Indices: 32082782--32082854 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
32082772 ATAAAAAAGT
* *
32082782 AATTAAATTTTTGTAAAATAA-TTAGAAATATC
1 AATTAAACTATTGTAAAATAATTTAGAAA-ATC
*
32082814 AATTAAACTATTGTAAAATAATTTATAAAATC
1 AATTAAACTATTGTAAAATAATTTAGAAAATC
32082846 AATTAAACT
1 AATTAAACT
32082855 CTATACAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 31 0.84
33 6 0.16
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.38
Consensus pattern (32 bp):
AATTAAACTATTGTAAAATAATTTAGAAAATC
Found at i:32085664 original size:51 final size:49
Alignment explanation
Indices: 32085534--32085724 Score: 256
Period size: 49 Copynumber: 3.9 Consensus size: 49
32085524 TCTATTGTGA
* * *
32085534 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
32085583 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TT
* *** *
32085634 GATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
32085683 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
32085725 AATAGCTTTG
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 81 0.66
51 41 0.34
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:32085714 original size:100 final size:100
Alignment explanation
Indices: 32085541--32085723 Score: 330
Period size: 100 Copynumber: 1.8 Consensus size: 100
32085531 TGAGGTCACA
** *
32085541 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAAGTG
32085606 CAGGCTACTATGCGTACCTGATAACTTTGATCATG
66 CAGGCTACTATGCGTACCTGATAACTTTGATCATG
32085641 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAAGTG
*
32085706 CAGGCTACTATGTGTACC
66 CAGGCTACTATGCGTACC
32085724 AAATAGCTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAAGTG
CAGGCTACTATGCGTACCTGATAACTTTGATCATG
Found at i:32085758 original size:100 final size:100
Alignment explanation
Indices: 32085541--32085766 Score: 285
Period size: 100 Copynumber: 2.3 Consensus size: 100
32085531 TGAGGTCACA
* * ** *
32085541 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGAAATAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAAGTG
** *
32085606 CAGGCTACTATGCGTACCTGATAACTTTGATCATG
66 CAGGCTACTATGCGTACCAAATAACTTTGATCAAG
* *
32085641 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAAGTG
1 TGTGTAGAAATAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAAGTG
* * *
32085706 CAGGCTACTATGTGTACCAAATAGCTTTGGCTACAAG
66 CAGGCTACTATGCGTACCAAATAACTTT-GAT-CAAG
* *
32085743 TGTG-A-AAATATGTGCAGGCAACTA
1 TGTGTAGAAATAAGTGCAGGCTACTA
32085767 AGTATCAGTT
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
100 101 0.91
101 3 0.03
102 7 0.06
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (100 bp):
TGTGTAGAAATAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACTAAGTG
CAGGCTACTATGCGTACCAAATAACTTTGATCAAG
Found at i:32086421 original size:26 final size:26
Alignment explanation
Indices: 32086385--32086493 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
32086375 TGATACAAAT
*
32086385 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
32086411 TGATAATAGGTTA-GTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
32086436 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
32086462 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
32086488 TGATAA
1 TGATAA
32086494 GAATTTCATG
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 23 0.29
26 56 0.71
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:32086440 original size:51 final size:52
Alignment explanation
Indices: 32086385--32086493 Score: 166
Period size: 51 Copynumber: 2.1 Consensus size: 52
32086375 TGATACAAAT
32086385 TGATAATAGGTTAGGTAAATATTCCATGATAATAGGTTA-GTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATATTCCATGATAATAGGTTAGGTAAATGTTCCA
* * * * *
32086436 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATATTCCATGATAATAGGTTAGGTAAATGTTCCA
32086488 TGATAA
1 TGATAA
32086494 GAATTTCATG
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
51 35 0.67
52 17 0.33
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATATTCCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:32089674 original size:58 final size:58
Alignment explanation
Indices: 32089607--32089728 Score: 237
Period size: 58 Copynumber: 2.1 Consensus size: 58
32089597 ATGAGATTAT
32089607 GTAC-TATTATGATTGTTTTGTTTTGAAAAATATGTTGATAAATTGTATATCACTTAC
1 GTACTTATTATGATTGTTTTGTTTTGAAAAATATGTTGATAAATTGTATATCACTTAC
32089664 GTACTTATTATGATTGTTTTGTTTTGAAAAATATGTTGATAAATTGTATATCACTTAC
1 GTACTTATTATGATTGTTTTGTTTTGAAAAATATGTTGATAAATTGTATATCACTTAC
32089722 GTACTTA
1 GTACTTA
32089729 CTTACTAAGC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 4 0.06
58 60 0.94
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (58 bp):
GTACTTATTATGATTGTTTTGTTTTGAAAAATATGTTGATAAATTGTATATCACTTAC
Found at i:32091170 original size:29 final size:30
Alignment explanation
Indices: 32091138--32091194 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
32091128 ACTTAACAAG
32091138 CAAATGCCTCTAAAATAATAA-AAAATTGA
1 CAAATGCCTCTAAAATAATAACAAAATTGA
*
32091167 CAAATGCCTTTAAAATAATAACAAAATT
1 CAAATGCCTCTAAAATAATAACAAAATT
32091195 AACGATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.26
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTGA
Found at i:32091254 original size:22 final size:22
Alignment explanation
Indices: 32091228--32091276 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
32091218 ATATCCAAAC
32091228 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * * *
32091250 CATAATAGTAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
32091272 AATAA
1 AATAA
32091277 GGGAGAAAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:32092479 original size:19 final size:19
Alignment explanation
Indices: 32092455--32092494 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
32092445 TAAGTTTGGT
*
32092455 AGAATAAATAAATTAACTA
1 AGAATAAAAAAATTAACTA
32092474 AGAATAAAAAAATTAACTA
1 AGAATAAAAAAATTAACTA
32092493 AG
1 AG
32092495 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
AGAATAAAAAAATTAACTA
Found at i:32096381 original size:19 final size:19
Alignment explanation
Indices: 32096357--32096401 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
32096347 CAACTGAAAG
32096357 CAACTGCACTAGACAAAAC
1 CAACTGCACTAGACAAAAC
32096376 CAACTGCACTAGACAAAAC
1 CAACTGCACTAGACAAAAC
32096395 CAACTGC
1 CAACTGC
32096402 TTAAGAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.44, C:0.33, G:0.11, T:0.11
Consensus pattern (19 bp):
CAACTGCACTAGACAAAAC
Found at i:32101281 original size:42 final size:41
Alignment explanation
Indices: 32101245--32101323 Score: 140
Period size: 42 Copynumber: 1.9 Consensus size: 41
32101235 TATTTTATTT
32101245 TATCTTTTAGTAGTTTATTAGAATAAGGAAATTATTTTTCTG
1 TATCTTTTAGTAGTTTATTAGAATAAGGAAA-TATTTTTCTG
*
32101287 TATGTTTTAGTAGTTTATTAGAATAAGGAAATATTTT
1 TATCTTTTAGTAGTTTATTAGAATAAGGAAATATTTT
32101324 CCCAACTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 6 0.17
42 30 0.83
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (41 bp):
TATCTTTTAGTAGTTTATTAGAATAAGGAAATATTTTTCTG
Found at i:32104966 original size:21 final size:22
Alignment explanation
Indices: 32104929--32104971 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
32104919 TGTCCTGTGG
*
32104929 CCATTCTGCAGT-TTTTTTCAT
1 CCATTCTGCAGTCTTTTCTCAT
32104950 CCATTCTGTCA-TCTTTTCTCAT
1 CCATTCTG-CAGTCTTTTCTCAT
32104972 TGTCAAGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.14, C:0.28, G:0.07, T:0.51
Consensus pattern (22 bp):
CCATTCTGCAGTCTTTTCTCAT
Found at i:32106323 original size:19 final size:19
Alignment explanation
Indices: 32106299--32106335 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
32106289 ATTTATTCTG
*
32106299 AGATTTATCTATCTAAATC
1 AGATTTATCTACCTAAATC
32106318 AGATTTATCTACCTAAAT
1 AGATTTATCTACCTAAAT
32106336 AACTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (19 bp):
AGATTTATCTACCTAAATC
Found at i:32108409 original size:17 final size:17
Alignment explanation
Indices: 32108387--32108421 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
32108377 TTGTCTGTGA
*
32108387 TTTGATGTGTTGTATCT
1 TTTGATGTGTCGTATCT
32108404 TTTGATGTGTCGTATCT
1 TTTGATGTGTCGTATCT
32108421 T
1 T
32108422 ACTTATTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.09, G:0.23, T:0.57
Consensus pattern (17 bp):
TTTGATGTGTCGTATCT
Found at i:32111773 original size:31 final size:31
Alignment explanation
Indices: 32111735--32111797 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
32111725 TATCTTATGG
32111735 TTAATTTCATTTGTATCATGGACAAATATAC
1 TTAATTTCATTTGTATCATGGACAAATATAC
*
32111766 TTAATTTCATTTGTATCATGGACAAGTATAC
1 TTAATTTCATTTGTATCATGGACAAATATAC
32111797 T
1 T
32111798 AACTTATGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (31 bp):
TTAATTTCATTTGTATCATGGACAAATATAC
Found at i:32117164 original size:49 final size:49
Alignment explanation
Indices: 32117081--32117446 Score: 624
Period size: 49 Copynumber: 7.4 Consensus size: 49
32117071 AATGTGCAAG
*
32117081 TGTGAAAATGTATATATATGTGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAATGTATATATA--TGTGATAAGGCCTAATGGCCGATGTGATGAA
*
32117132 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAA
1 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
32117181 TGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAATG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
32117232 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
32117281 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
32117330 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
32117379 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
32117428 TATGAAAGTGTATATATAT
1 TGTGAAAATGTATATATAT
32117447 ATGTGGTAAA
Statistics
Matches: 303, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
49 238 0.79
51 65 0.21
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:32117575 original size:37 final size:36
Alignment explanation
Indices: 32117515--32117601 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
32117505 AACTTGGAAA
*
32117515 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCAGATGACTACGTGTGGAGAT
32117553 TATGTCCGGGTACGACCAGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCAGATGACTACGTGTGGAGAT
32117590 TATGTCCGGGTA
1 TATGTCCGGGTA
32117602 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCAGATGACTACGTGTGGAGAT
Found at i:32122320 original size:29 final size:29
Alignment explanation
Indices: 32122230--32122389 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
32122220 ACTCGATTTC
* * **
32122230 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
32122259 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
32122287 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
32122317 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
32122346 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
32122375 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
32122390 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:32130378 original size:29 final size:29
Alignment explanation
Indices: 32130288--32130447 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
32130278 ACTCGATTTC
* * **
32130288 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
32130317 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
32130345 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
32130375 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
32130404 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
32130433 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
32130448 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:32135500 original size:40 final size:40
Alignment explanation
Indices: 32135455--32135621 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
32135445 CGGAATATAA
32135455 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32135495 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
32135535 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
32135575 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
32135614 CCGGATAT
1 CCGGATAT
32135622 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32135605 original size:80 final size:79
Alignment explanation
Indices: 32135455--32135621 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
32135445 CGGAATATAA
* *
32135455 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
32135520 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
32135535 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
32135597 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
32135614 CCGGATAT
1 CCGGATAT
32135622 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:32136470 original size:17 final size:19
Alignment explanation
Indices: 32136447--32136492 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
32136437 AAGAAGCATG
32136447 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
32136465 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
32136483 AATCATGCTC
1 AATCATGCTC
32136493 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:32138306 original size:21 final size:21
Alignment explanation
Indices: 32138260--32138319 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
32138250 ATCTGCACAC
32138260 TCAGATGCATCCACAACAAAG
1 TCAGATGCATCCACAACAAAG
* * *
32138281 CCAGATGCATCTACACCAGAA-
1 TCAGATGCATCCACAACA-AAG
32138302 TCAGATGC-TGCCACAACA
1 TCAGATGCAT-CCACAACA
32138320 CTCTTCAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.90
22 2 0.06
ACGTcount: A:0.38, C:0.32, G:0.15, T:0.15
Consensus pattern (21 bp):
TCAGATGCATCCACAACAAAG
Found at i:32142090 original size:40 final size:40
Alignment explanation
Indices: 32142045--32142212 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
32142035 CGGAATATAA
32142045 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
32142085 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** *
32142125 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * * *
32142165 CCGGATATAATTTCCAGCATAATTGTCTACGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
32142205 CCGGATAT
1 CCGGATAT
32142213 CATTCAATTT
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 107 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32156286 original size:51 final size:52
Alignment explanation
Indices: 32156215--32156318 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
32156205 AAAAAAAGTG
32156215 TTGTTAAATTTGGTTGTAAAACATC-TGATCTCTTCAAAACTCATTTAAAAA
1 TTGTTAAATTTGGTTGTAAAACATCTTGATCTCTTCAAAACTCATTTAAAAA
32156266 TTGTTAAATTTGGTTGTAAAACATCTTGATCTCTTCAAAACTCATTTAAAAA
1 TTGTTAAATTTGGTTGTAAAACATCTTGATCTCTTCAAAACTCATTTAAAAA
32156318 T
1 T
32156319 CATTCAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 25 0.48
52 27 0.52
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (52 bp):
TTGTTAAATTTGGTTGTAAAACATCTTGATCTCTTCAAAACTCATTTAAAAA
Found at i:32158401 original size:17 final size:18
Alignment explanation
Indices: 32158379--32158412 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32158369 CACATTGAAG
32158379 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
32158396 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
32158413 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:32159680 original size:28 final size:28
Alignment explanation
Indices: 32159638--32159734 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 28
32159628 TGGCCCCTTT
* *
32159638 AGGCCTAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
32159666 GGGCCCAATCACATTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
* * **
32159694 AGGCCCAATCAC-TTCCCTATGGCTCGCC
1 AGGCCCAATCACATT-CATATGGCCCATC
32159722 AGGCCCAATCACA
1 AGGCCCAATCACA
32159735 CTCGTAGTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
27 2 0.03
28 57 0.97
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:32165636 original size:145 final size:145
Alignment explanation
Indices: 32165446--32165737 Score: 566
Period size: 145 Copynumber: 2.0 Consensus size: 145
32165436 TTTTACAATT
32165446 TATGATAAATTTTTAAAGTCAGAACAGGAGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
1 TATGATAAATTTTTAAAGTCAGAACAGGAGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
32165511 TTAAATATCTCATAAAATATAACTCATTTACCTGTTTCGTTTCTTCCATATGAAAATACACTCAT
66 TTAAATATCTCATAAAATATAACTCATTTACCTGTTTCGTTTCTTCCATATGAAAATACACTCAT
32165576 CAAGATTTGATTCCA
131 CAAGATTTGATTCCA
*
32165591 TATGATAAATTTTTAAAGTCAGAACAGGGGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
1 TATGATAAATTTTTAAAGTCAGAACAGGAGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
*
32165656 TTAAATATCTCATAAAATATAACTCATTTACCTGTTTCGTTTCTTCCATATGAAAATAGACTCAT
66 TTAAATATCTCATAAAATATAACTCATTTACCTGTTTCGTTTCTTCCATATGAAAATACACTCAT
32165721 CAAGATTTGATTCCA
131 CAAGATTTGATTCCA
32165736 TA
1 TA
32165738 ACTCTTTAAT
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.34
Consensus pattern (145 bp):
TATGATAAATTTTTAAAGTCAGAACAGGAGATTCAGAGATCGCTCTGACCCTGTTTCACCAAAAC
TTAAATATCTCATAAAATATAACTCATTTACCTGTTTCGTTTCTTCCATATGAAAATACACTCAT
CAAGATTTGATTCCA
Found at i:32166585 original size:93 final size:93
Alignment explanation
Indices: 32166472--32166641 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
32166462 ACCCATAAGT
* * * *
32166472 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
32166536 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
32166565 GAACTTGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
32166630 TGAGTTCGGATG
66 CGAGTTCGGATG
32166642 TTCGCATCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:32166686 original size:46 final size:46
Alignment explanation
Indices: 32166464--32166687 Score: 265
Period size: 46 Copynumber: 4.8 Consensus size: 46
32166454 TGTAACCCAC
** *
32166464 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGTTCGCAT
* * *
32166510 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * * * **
32166556 ACATTTCA-CGAACTTGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
32166603 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
32166649 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
32166688 CCCAAATATC
Statistics
Matches: 148, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
45 4 0.03
46 110 0.74
47 32 0.22
48 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:32171805 original size:93 final size:93
Alignment explanation
Indices: 32171692--32171862 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
32171682 CGCCCATAAG
*
32171692 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
32171757 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
32171785 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
32171850 ACGTGTTCGGATG
66 ACGAGTTCGGATG
32171863 TTCGCATCCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:32171895 original size:51 final size:46
Alignment explanation
Indices: 32171685--32171906 Score: 263
Period size: 46 Copynumber: 4.8 Consensus size: 46
32171675 TGTAACCCGC
* * * *
32171685 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACATTCACAT
*
32171731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
32171781 --TTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCACAT
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACATTCACAT
* ** *
32171824 CCATAAGTGAACTTGGACTCAACTCAACGTGTTCGGATGTTCGCAT
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACATTCACAT
32171870 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
32171907 TGCCCAATTA
Statistics
Matches: 152, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 1 0.01
45 2 0.01
46 104 0.68
47 28 0.18
48 2 0.01
49 1 0.01
50 5 0.03
51 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:32176051 original size:42 final size:42
Alignment explanation
Indices: 32175994--32176116 Score: 174
Period size: 42 Copynumber: 2.9 Consensus size: 42
32175984 ATTACATGGG
* *
32175994 GTCTACATACCGATGCCATATCCCAGATATGGTCTTATACGAA
1 GTCT-CATATCGATGCCATATCCCAGATATGGTCTTACACGAA
* *
32176037 GTCTCATATCGATGCCATGTCCCAGACATGGTCTTACACGAA
1 GTCTCATATCGATGCCATATCCCAGATATGGTCTTACACGAA
* * *
32176079 ATCTCATATCAACGCCATATCCCAGATATGGTCTTACA
1 GTCTCATATCGATGCCATATCCCAGATATGGTCTTACA
32176117 TGAAATCACA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 67 0.94
43 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (42 bp):
GTCTCATATCGATGCCATATCCCAGATATGGTCTTACACGAA
Found at i:32176270 original size:48 final size:48
Alignment explanation
Indices: 32176048--32176272 Score: 187
Period size: 48 Copynumber: 4.8 Consensus size: 48
32176038 TCTCATATCG
* *
32176048 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCAACGCC-
1 ATGCCATGTCCCAGACATGGTCTTACATGGAATCTCATATCAACGCCA
* * * * * * *
32176095 AT---A--TCCCAGATATGGTCTTACATGAAATCACATACCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGGAATCTCATATCAACGCCA
* * * * * * * * *
32176138 ATGCCATATCCCATATATGGTCTTATACTAGCA-CACATATCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGGAATCTCATATCAACGCCA
*
32176186 ATGCCATGTCCCAGACATGGTCTTACACTGG-CTCTCATATCAACGCCA
1 ATGCCATGTCCCAGACATGGTCTTACA-TGGAATCTCATATCAACGCCA
* *
32176234 ATGCCATGTCCCAGACATGCTCTTACATGGGATCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACATGGAATCTCATA
32176273 AATCGTGGTG
Statistics
Matches: 141, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
42 32 0.23
43 2 0.01
44 1 0.01
46 1 0.01
47 5 0.04
48 98 0.70
49 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGAATCTCATATCAACGCCA
Found at i:32180638 original size:35 final size:35
Alignment explanation
Indices: 32180599--32181024 Score: 295
Period size: 35 Copynumber: 12.1 Consensus size: 35
32180589 CCAATCCTTT
** *
32180599 TTCAATTAACATTTCACCACAACATCGATACTTCT
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * *
32180634 TTCAATTAACATCTCGCCACAACACCGATACTTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * * *
32180669 TTCATTTAACATCCCACCATAACA-CTATTACTTTA
1 TTCAATTAACATCCCACCACAACATCGA-TACTTCA
* * * *
32180704 TTCAATTCATAACCCACCACAACATCGATACTTTA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * * *
32180739 TTCATTTAACATCCCACCACTATACCGATACTTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* * * *
32180774 TTCAATTAATATCCCGCCACAACATCGTTACTACA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* *
32180809 TTC-ATGTAGCATCCTACCACAACA-CTGATACTTCA
1 TTCAAT-TAACATCCCACCACAACATC-GATACTTCA
* * * *
32180844 TTCAATTAATATCCCGCCACAACAGT-GTTACTACA
1 TTCAATTAACATCCCACCACAACA-TCGATACTTCA
* * ** * *
32180879 TTCATTTAACATCCTATTACAACACCAATACTTCTTCA
1 TTCAATTAACATCCCACCACAACATCGATA---CTTCA
* * ** * *
32180917 TTCATTTAACATTCTGCCACAACACCAATACTTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
* ** * * *
32180952 TTCATTTAACATCTTACCATAACA-CTGTTAATTCA
1 TTCAATTAACATCCCACCACAACATC-GATACTTCA
* * * *
32180987 TTCATTTAATATCCTACCACAACACCGATACTTCA
1 TTCAATTAACATCCCACCACAACATCGATACTTCA
32181022 TTC
1 TTC
32181025 TTCATTCATT
Statistics
Matches: 308, Mismatches: 70, Indels: 26
0.76 0.17 0.06
Matches are distributed among these distances:
34 6 0.02
35 267 0.87
36 5 0.02
38 30 0.10
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (35 bp):
TTCAATTAACATCCCACCACAACATCGATACTTCA
Found at i:32180701 original size:70 final size:69
Alignment explanation
Indices: 32180626--32181024 Score: 377
Period size: 70 Copynumber: 5.7 Consensus size: 69
32180616 CACAACATCG
* * * *
32180626 ATACTTCTTTCAATTAACATCTCGCCACAACACCGATACTTCATTCATTTAACATCCCACCATAA
1 ATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAACATCCTACCATAA
32180691 CACT
66 CACT
* * * * * * *
32180695 ATTACTTTATTCAATTCATAACCCACCACAACATCGATACTTTATTCATTTAACATCCCACCACT
1 A-TACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAACATCCTACCA-T
*
32180760 ATAC-CG
64 A-ACACT
* * * * * *
32180766 ATACTTCATTCAATTAATATCCCGCCACAACATCGTTACTACATTCATGTAGCATCCTACCACAA
1 ATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAACATCCTACCATAA
32180831 CACT
66 CACT
** * * ** *
32180835 GATACTTCATTCAATTAATATCCCGCCACAACAGTGTTACTACATTCATTTAACATCCTATTACA
1 -ATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAACATCCTACCATA
32180900 ACACCAAT
65 ACA-C--T
* * * * * * *
32180908 ACTTCTTCATTCATTTAACATTCTGCCACAACACCAATACTTCATTCATTTAACATCTTACCATA
1 A-TACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAACATCCTACCATA
32180973 ACACT
65 ACACT
* * * **
32180978 GTTAATTCATTCATTTAATATCCTACCACAACACCGATACTTCATTC
1 -ATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTC
32181025 TTCATTCATT
Statistics
Matches: 271, Mismatches: 49, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
68 2 0.01
69 3 0.01
70 204 0.75
71 5 0.02
72 4 0.01
73 53 0.20
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (69 bp):
ATACTTCATTCAATTAATATCCCGCCACAACACCGATACTTCATTCATTTAACATCCTACCATAA
CACT
Found at i:32180949 original size:108 final size:112
Alignment explanation
Indices: 32180807--32181053 Score: 277
Period size: 108 Copynumber: 2.2 Consensus size: 112
32180797 ATCGTTACTA
* * ** * * *
32180807 CATTCATGTAGCATCCTACCACAACACTGATACTTCATTCAATTAATATCCCGCCACAACAGTGT
1 CATTCATTTAACATCCTACCACAACACCAATACTTCATTCAATTAACATCCCACCACAACACTGT
* **
32180872 TACTACATTCATTTAACATCCTATTACAACACC-A-A-TAC-TTCTT
66 TAATACATTCATTTAACATCCTACCACAACACCGATACTACATTCTT
* * * ** *
32180915 CATTCATTTAACATTCTGCCACAACACCAATACTTCATTCATTTAACATCTTACCATAACACTGT
1 CATTCATTTAACATCCTACCACAACACCAATACTTCATTCAATTAACATCCCACCACAACACTGT
* * *
32180980 TAATTCATTCATTTAATATCCTACCACAACACCGATACTTCATTCTT
66 TAATACATTCATTTAACATCCTACCACAACACCGATACTACATTCTT
* *
32181027 CATTCATTTAACATCCCAGCACAACAC
1 CATTCATTTAACATCCTACCACAACAC
32181054 TTATGTAACA
Statistics
Matches: 112, Mismatches: 23, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
108 80 0.71
109 1 0.01
110 1 0.01
111 2 0.02
112 28 0.25
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (112 bp):
CATTCATTTAACATCCTACCACAACACCAATACTTCATTCAATTAACATCCCACCACAACACTGT
TAATACATTCATTTAACATCCTACCACAACACCGATACTACATTCTT
Found at i:32182464 original size:40 final size:40
Alignment explanation
Indices: 32182419--32182585 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
32182409 CGGAATATAA
32182419 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32182459 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
32182499 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
32182539 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
32182578 CCGGATAT
1 CCGGATAT
32182586 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32182569 original size:80 final size:79
Alignment explanation
Indices: 32182419--32182585 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
32182409 CGGAATATAA
* *
32182419 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
32182484 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
32182499 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
32182561 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
32182578 CCGGATAT
1 CCGGATAT
32182586 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:32183433 original size:17 final size:19
Alignment explanation
Indices: 32183410--32183455 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
32183400 AAGAAGCATG
32183410 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
32183428 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
32183446 AATCATGCTC
1 AATCATGCTC
32183456 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:32190465 original size:40 final size:40
Alignment explanation
Indices: 32190420--32190586 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
32190410 CGGAATATAA
32190420 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32190460 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
32190500 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
32190540 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
32190579 CCGGATAT
1 CCGGATAT
32190587 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32190570 original size:80 final size:79
Alignment explanation
Indices: 32190420--32190586 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
32190410 CGGAATATAA
* *
32190420 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
32190485 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
32190500 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
32190562 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
32190579 CCGGATAT
1 CCGGATAT
32190587 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:32191434 original size:17 final size:19
Alignment explanation
Indices: 32191411--32191456 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
32191401 AAGAAGCATG
32191411 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
32191429 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
32191447 AATCATGCTC
1 AATCATGCTC
32191457 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:32199066 original size:40 final size:40
Alignment explanation
Indices: 32198992--32199128 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
32198982 GAGTCACGTA
* **
32198992 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAACAACTCGCACAATTG
* ** *
32199031 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACAATTG
32199071 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAACAACTCGCAC-AATTG
32199111 CCTTCGGGTCTTAACCCG
1 CCTTCGGGTCTTAACCCG
32199129 AAGGCATTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 70 0.82
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAACAACTCGCACAATTG
Found at i:32199192 original size:40 final size:40
Alignment explanation
Indices: 32199124--32199291 Score: 191
Period size: 40 Copynumber: 4.2 Consensus size: 40
32199114 TCGGGTCTTA
* * *
32199124 ACCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAG
1 ACCCGAAGGCAATTGTGCTAGTTG-TTATATCCGGGTTAAG
*
32199164 ACCCGAAGGC-ATTCGTGCGAGTTGTTATATCCGGGTTAAG
1 ACCCGAAGGCAATT-GTGCTAGTTGTTATATCCGGGTTAAG
* ** *
32199204 ACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAG
1 ACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGTTAAG
* *
32199244 ACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGTTAA-
1 ACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGTTAAG
32199282 ATCCCGAAGG
1 A-CCCGAAGG
32199292 TACGTGACTC
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 16 0.15
40 88 0.80
41 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
ACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGTTAAG
Found at i:32207350 original size:79 final size:80
Alignment explanation
Indices: 32207219--32207395 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
32207209 TGAATGATAC
* * * * * *
32207219 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGA-CCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
32207282 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
32207298 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
32207363 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
32207378 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
32207396 TACGTGACTC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 56 0.67
80 23 0.28
81 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:32207395 original size:39 final size:40
Alignment explanation
Indices: 32207219--32207395 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
32207209 TGAATGATAC
* * * *
32207219 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
32207259 CCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * *
32207298 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
32207338 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
32207378 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
32207396 TACGTGACTC
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 3 0.03
39 44 0.38
40 66 0.57
41 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:32211970 original size:18 final size:18
Alignment explanation
Indices: 32211947--32211983 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
32211937 GCTTGATAAG
32211947 TTAGCTGAGTTATACATT
1 TTAGCTGAGTTATACATT
32211965 TTAGCTGAGTTATACATT
1 TTAGCTGAGTTATACATT
32211983 T
1 T
32211984 CTGATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (18 bp):
TTAGCTGAGTTATACATT
Found at i:32212252 original size:107 final size:107
Alignment explanation
Indices: 32212079--32212294 Score: 405
Period size: 107 Copynumber: 2.0 Consensus size: 107
32212069 GCAAGAGGCT
*
32212079 TTAGGTATGAAAGTGCAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCGGAT
1 TTAGGTATGAAAGTGCAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCAGAT
* *
32212144 TATTCAGATTCTCAGAGATATGTTGAGATGTTGCATTCTTGA
66 TATTCAGATTCTCAGAGATATGTTGAGATGCTGCATTCCTGA
32212186 TTAGGTATGAAAGTGCAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCAGAT
1 TTAGGTATGAAAGTGCAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCAGAT
32212251 TATTCAGATTCTCAGAGATATGTTGAGATGCTGCATTCCTGA
66 TATTCAGATTCTCAGAGATATGTTGAGATGCTGCATTCCTGA
32212293 TT
1 TT
32212295 TTAAAGGTAC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (107 bp):
TTAGGTATGAAAGTGCAATTCAGTACTGCTTTTCACCCACAAACGGATGGTCAATCCGAGCAGAT
TATTCAGATTCTCAGAGATATGTTGAGATGCTGCATTCCTGA
Found at i:32213784 original size:29 final size:29
Alignment explanation
Indices: 32213745--32213803 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
32213735 TTAAAATGTG
32213745 AAATAAATGAAACATATGGACTTGTATGA
1 AAATAAATGAAACATATGGACTTGTATGA
32213774 AAATAAATGAAACATATGGACTTGTATGA
1 AAATAAATGAAACATATGGACTTGTATGA
32213803 A
1 A
32213804 CACTATGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (29 bp):
AAATAAATGAAACATATGGACTTGTATGA
Found at i:32214418 original size:43 final size:42
Alignment explanation
Indices: 32214278--32214424 Score: 133
Period size: 41 Copynumber: 3.5 Consensus size: 42
32214268 TGTTATCGTG
* *
32214278 TAAGACCATGTCTGGGACGTTGGCATCGACTTATTT-A-T-ATG
1 TAAGACCACGTCTGGGACGTTGGCATCGA--TATTTGATTCATA
* * *
32214319 TAAGACCACGTCTGGGATGCTGGCATCG-TATTTGATTTCGTA
1 TAAGACCACGTCTGGGACGTTGGCATCGATATTTGA-TTCATA
* * * *
32214361 TAAGACC-CTATCTGGGACATTGACATCGATATTTGATTACATC
1 TAAGACCAC-GTCTGGGACGTTGGCATCGATATTTGATT-CATA
32214404 TAAGACCACGTCTGGGACGTT
1 TAAGACCACGTCTGGGACGTT
32214425 AACATTGTAC
Statistics
Matches: 84, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
38 5 0.06
39 1 0.01
41 27 0.32
42 24 0.29
43 26 0.31
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTCATA
Found at i:32215189 original size:10 final size:10
Alignment explanation
Indices: 32215149--32215191 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
32215139 TATTGAAACA
*
32215149 TATGCTTTGG
1 TATGATTTGG
32215159 TATGATTTTGG
1 TATGA-TTTGG
*
32215170 TTTAGATTTGG
1 TAT-GATTTGG
32215181 TATGATTTGG
1 TATGATTTGG
32215191 T
1 T
32215192 TAGTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:32217875 original size:46 final size:47
Alignment explanation
Indices: 32217738--32217912 Score: 166
Period size: 46 Copynumber: 3.8 Consensus size: 47
32217728 GGTCATTGGT
* * *
32217738 GTAAGCCAGTGTAAGACATGTCTGGGAAATGGCATCGAC-ATTGGGAC
1 GTAAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTA-CGAGAC
* * * *
32217785 G-AGTGCTAGTGTAAGACATGTCTGGGACAT-GTATCAGCCT-CGAGAC
1 GTA-AGCCAGTGTAAGACATGTCTGGGACATGGCATC-GACTACGAGAC
* *
32217831 GTAAGCCAGTGTAAGATATGTCTGGGACAT-GCATCGACTACGAGAT
1 GTAAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTACGAGAC
* *
32217877 GT--GTCATTGTAAGACCATGTCTGGGACATGGCATCG
1 GTAAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
32217913 GCACGGATAT
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.10
45 16 0.15
46 51 0.49
47 28 0.27
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GTAAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTACGAGAC
Found at i:32219170 original size:20 final size:21
Alignment explanation
Indices: 32219132--32219170 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32219122 TCAAGTTGGT
*
32219132 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
32219153 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
32219171 ATTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:32237457 original size:16 final size:18
Alignment explanation
Indices: 32237419--32237463 Score: 67
Period size: 16 Copynumber: 2.6 Consensus size: 18
32237409 AAGACTGAAC
32237419 AAATAATTAACAAAGATAA
1 AAATAATTAACAAAGA-AA
32237438 AAATAATTAA-AAAG-AA
1 AAATAATTAACAAAGAAA
32237454 AAATAATTAA
1 AAATAATTAA
32237464 TTAACTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.46
18 4 0.15
19 10 0.38
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATAATTAACAAAGAAA
Found at i:32246705 original size:34 final size:33
Alignment explanation
Indices: 32246612--32246720 Score: 137
Period size: 34 Copynumber: 3.2 Consensus size: 33
32246602 ATTCTTGTTT
* * * *
32246612 AAAAATTAATTAAATTAGGGTTTAGGGGTTTAA
1 AAAAATAAATTAAATTTGGGTTTAGTGTTTTAA
32246645 AATAAATAAATTAAATTTGGGTTTAGTGTTTTAA
1 AA-AAATAAATTAAATTTGGGTTTAGTGTTTTAA
*
32246679 AGAAAATAAATTAAATTTGGGTTTAGTTTTTTTAA
1 A-AAAATAAATTAAATTTGGGTTTAG-TGTTTTAA
*
32246714 AATAATA
1 AAAAATA
32246721 GTGTTTAGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
33 2 0.03
34 56 0.84
35 9 0.13
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (33 bp):
AAAAATAAATTAAATTTGGGTTTAGTGTTTTAA
Found at i:32247052 original size:126 final size:125
Alignment explanation
Indices: 32246828--32247157 Score: 489
Period size: 126 Copynumber: 2.6 Consensus size: 125
32246818 CTGAATTTAC
* ** *
32246828 AACGCTTCAAGTAGGATGCATTGTCAGCAAAATTACTGAAAAAGCTCCCACTTGGACGCTCTTTT
1 AACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACAAAAAAAGCTCCCACGTGGACGCTCTTTT
*
32246893 TCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTGTCAAA
66 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTGTCAAA
*
32246953 AACGCTTCAAGCAGGATGCATTGTCAGCAAAATTAACAAAAAAAGCTCCCACGTGGATGCTCTTT
1 AACGCTTCAAGCAGGATGCATTGTCAGCAAAATT-ACAAAAAAAGCTCCCACGTGGACGCTCTTT
* * ** *
32247018 TTCTATAGTAGTTCCTGAATAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAA
65 TTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTGTCAAA
* * * * * *
32247079 AATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAACAGCTCTCACGTGGACGCTCTTT
1 AACGCTTCAAGCAGGATGCATTGTCAGCAAAATTAC-AAAAAAAGCTCCCACGTGGACGCTCTTT
32247144 TTCTACAGTAGTTC
65 TTCTACAGTAGTTC
32247158 ATGTTTGGCC
Statistics
Matches: 184, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
125 35 0.19
126 149 0.81
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (125 bp):
AACGCTTCAAGCAGGATGCATTGTCAGCAAAATTACAAAAAAAGCTCCCACGTGGACGCTCTTTT
TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTGTCAAA
Found at i:32250006 original size:42 final size:42
Alignment explanation
Indices: 32249959--32250112 Score: 177
Period size: 42 Copynumber: 3.6 Consensus size: 42
32249949 TACTACACCA
* * *
32249959 ATGCCATATCCCATATATGGTCTTACATAG-GATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-AGAAATCTCATATCG
* * *
32250001 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
* *
32250044 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCAT-ATCG
* *
32250086 ATGCCATATCTCAGATATGGTATTACA
1 ATGCCATATCCCAGATATGGTCTTACA
32250113 CAGTCTCGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
42 61 0.63
43 36 0.37
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
Found at i:32252140 original size:24 final size:24
Alignment explanation
Indices: 32252094--32252141 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
32252084 TATTTTGTTA
* *
32252094 AAAATATAAAAATAATTTATTATT
1 AAAATATAAAAACAACTTATTATT
32252118 AAAATATTAAAAACAACTT-TTATT
1 AAAATA-TAAAAACAACTTATTATT
32252142 TTATTAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATATAAAAACAACTTATTATT
Found at i:32253159 original size:26 final size:25
Alignment explanation
Indices: 32253097--32253179 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 25
32253087 TGATACAAAT
32253097 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
32253122 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
32253148 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
32253174 TGATAA
1 TGATAA
32253180 GAATTCATGT
Statistics
Matches: 55, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
25 23 0.42
26 30 0.55
27 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:32255140 original size:137 final size:136
Alignment explanation
Indices: 32254894--32255167 Score: 539
Period size: 137 Copynumber: 2.0 Consensus size: 136
32254884 GAGTAGTCTC
32254894 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
32254959 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGG-CCAGTACC
32255024 ACTGTTA
130 ACTGTTA
32255031 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
32255096 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAGTACCA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAGTACCA
32255161 CTGTTA
131 CTGTTA
32255167 C
1 C
32255168 TGAATGGGCT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 16 0.12
137 121 0.88
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCAGTACCA
CTGTTA
Found at i:32258951 original size:25 final size:25
Alignment explanation
Indices: 32258917--32258998 Score: 130
Period size: 25 Copynumber: 3.2 Consensus size: 25
32258907 TGATACAAAT
32258917 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
32258942 TGATAATAGGTTAGGTAAAT-TTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
32258967 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
32258993 TGATAA
1 TGATAA
32258999 GAATTTCATG
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
24 2 0.04
25 41 0.77
26 8 0.15
27 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:32260961 original size:136 final size:136
Alignment explanation
Indices: 32260717--32260989 Score: 537
Period size: 136 Copynumber: 2.0 Consensus size: 136
32260707 AGTAGTCTCC
*
32260717 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
32260782 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
32260847 CTGTTA
131 CTGTTA
32260853 CCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
32260918 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
32260983 CTGTTA
131 CTGTTA
32260989 C
1 C
32260990 TTGAATGGGC
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 136 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:32267577 original size:21 final size:21
Alignment explanation
Indices: 32267553--32267592 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32267543 AAATAATTAA
**
32267553 TTAAAGAGAGCTTTGAGAAAT
1 TTAAAGAGAAATTTGAGAAAT
*
32267574 TTAAGGAGAAATTTGAGAA
1 TTAAAGAGAAATTTGAGAA
32267593 CTTTGAGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.28
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAAAT
Found at i:32267597 original size:9 final size:9
Alignment explanation
Indices: 32267564--32267621 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 9
32267554 TAAAGAGAGC
32267564 TTTGAGAAA
1 TTTGAGAAA
32267573 TTTAAGGAGAAA
1 TTT---GAGAAA
*
32267585 TTTGAGAAC
1 TTTGAGAAA
32267594 TTTGAGAAA
1 TTTGAGAAA
32267603 TTTAAGGAGAAA
1 TTT---GAGAAA
32267615 TTTGAGA
1 TTTGAGA
32267622 GTTTTTTGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
9 23 0.56
12 18 0.44
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (9 bp):
TTTGAGAAA
Found at i:32267597 original size:30 final size:30
Alignment explanation
Indices: 32267558--32267621 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
32267548 ATTAATTAAA
*
32267558 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAACTTTGAGAAATTTAAGGAGAAATTT
32267588 GAGAACTTTGAGAAATTTAAGGAGAAATTT
1 GAGAACTTTGAGAAATTTAAGGAGAAATTT
32267618 GAGA
1 GAGA
32267622 GTTTTTTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (30 bp):
GAGAACTTTGAGAAATTTAAGGAGAAATTT
Found at i:32270104 original size:6 final size:6
Alignment explanation
Indices: 32270093--32270121 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
32270083 GTATTCCAAG
32270093 AGAAAA AGAAAA AGAAAA AGAAAA A-AAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
32270122 TATTCTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:32276005 original size:40 final size:40
Alignment explanation
Indices: 32275950--32276167 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
32275940 CGGATGATAA
* *
32275950 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
32275990 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32276030 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
32276070 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
32276110 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
32276150 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
32276168 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:32279949 original size:39 final size:40
Alignment explanation
Indices: 32279895--32280110 Score: 266
Period size: 39 Copynumber: 5.5 Consensus size: 40
32279885 AAACCAAGTA
* * * *
32279895 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
*
32279934 CCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTAGCACAAATG
*
32279974 -CTTCGGGACTTAGCCCGGTTATAGTAACTCAG-ACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
*
32280013 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
32280053 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
*
32280092 TCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
32280111 TTATCATCCG
Statistics
Matches: 157, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 83 0.53
40 73 0.46
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:32280026 original size:79 final size:79
Alignment explanation
Indices: 32279928--32280114 Score: 265
Period size: 79 Copynumber: 2.4 Consensus size: 79
32279918 GCTACTTGCT
32279928 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG-CTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
*
32279992 -TTATAGTAACTCAG-A
65 AAT-TAGTAACT-AGCA
*
32280007 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTGCACAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
*
32280071 AATTAGTCACTAGCA
65 AATTAGTAACTAGCA
* *
32280086 CAAATGTCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGATTAT
32280115 CATCCGAATA
Statistics
Matches: 98, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
78 3 0.03
79 85 0.87
80 10 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTAACTAGCA
Found at i:32283835 original size:22 final size:23
Alignment explanation
Indices: 32283804--32283850 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
32283794 TAAAAATTGG
32283804 AGAAGAAAACCTAAGAGA-ACTAA
1 AGAAGAAAA-CTAAGAGACACTAA
*
32283827 AGAAG-AAACTAAGATACACTAA
1 AGAAGAAAACTAAGAGACACTAA
32283849 AG
1 AG
32283851 CTAATGTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 10 0.45
23 5 0.23
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.11
Consensus pattern (23 bp):
AGAAGAAAACTAAGAGACACTAA
Found at i:32297226 original size:27 final size:27
Alignment explanation
Indices: 32297196--32297359 Score: 193
Period size: 27 Copynumber: 6.1 Consensus size: 27
32297186 ACACGATAAC
* * *
32297196 AAAGAATATCCTTTGTGGTGAACTTTA
1 AAAGAATAGCCTTTGTGGTGAACTCTG
*
32297223 AAAGAATAGCCTTTGTGGAGAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTCTG
32297250 AAAGAATAGCCTTTGTGGTGAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTCTG
* ** * *
32297277 AAAGAATAGCCTTTATGGAAAAATCTA
1 AAAGAATAGCCTTTGTGGTGAACTCTG
* *
32297304 AAAGAATAGCCTTTATGGTGAACTTTG
1 AAAGAATAGCCTTTGTGGTGAACTCTG
* * **
32297331 AAAGAATCGTCTTTGTGGCAAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTCTG
32297358 AA
1 AA
32297360 TGGACTACCT
Statistics
Matches: 116, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (27 bp):
AAAGAATAGCCTTTGTGGTGAACTCTG
Found at i:32297281 original size:54 final size:53
Alignment explanation
Indices: 32297196--32297359 Score: 220
Period size: 54 Copynumber: 3.0 Consensus size: 53
32297186 ACACGATAAC
* *
32297196 AAAGAATATCCTTTGTGGTGAACTTTAAAAGAATAGCCTTTGTGGAGAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTTTGAAAGAATAGCCTTTGTGGA-AACTCTG
* * * *
32297250 AAAGAATAGCCTTTGTGGTGAACTCTGAAAGAATAGCCTTTATGGAAAAATCTA
1 AAAGAATAGCCTTTGTGGTGAACTTTGAAAGAATAGCCTTTGTGG-AAACTCTG
* * *
32297304 AAAGAATAGCCTTTATGGTGAACTTTGAAAGAATCGTCTTTGTGGCAAACTCTG
1 AAAGAATAGCCTTTGTGGTGAACTTTGAAAGAATAGCCTTTGTGG-AAACTCTG
32297358 AA
1 AA
32297360 TGGACTACCT
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
54 94 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (53 bp):
AAAGAATAGCCTTTGTGGTGAACTTTGAAAGAATAGCCTTTGTGGAAACTCTG
Found at i:32298944 original size:15 final size:14
Alignment explanation
Indices: 32298909--32298951 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
32298899 AAAATTCAAC
32298909 CACAATTCAATTAAAA
1 CACAATTC-A-TAAAA
32298925 C-CAATTCATAACAA
1 CACAATTCATAA-AA
32298939 CACAATTCATAAA
1 CACAATTCATAAA
32298952 TATATATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 5 0.20
15 16 0.64
16 1 0.04
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (14 bp):
CACAATTCATAAAA
Found at i:32303677 original size:14 final size:14
Alignment explanation
Indices: 32303658--32303685 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32303648 ATTGAGTTGG
32303658 ATATGTGATGGAAT
1 ATATGTGATGGAAT
32303672 ATATGTGATGGAAT
1 ATATGTGATGGAAT
32303686 GAAATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
ATATGTGATGGAAT
Found at i:32315078 original size:37 final size:37
Alignment explanation
Indices: 32315016--32315126 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
32315006 AGCTTAGATG
* * *
32315016 AAATCTCCACACGAAGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
32315053 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
32315090 AAATCTCCACACATAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
32315127 TAGTCACCAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:32315146 original size:74 final size:74
Alignment explanation
Indices: 32315016--32315154 Score: 172
Period size: 74 Copynumber: 1.9 Consensus size: 74
32315006 AGCTTAGATG
* * * * *
32315016 AAATCTCCACACGAAGTTATTGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCGAGTCTTACCCGGACAAAATCACCACACATAGTCATCGGGTCTT
32315081 ACCCGGACA
66 ACCCGGACA
* * * * *
32315090 AAATCTCCACAC-ATAGTCATCGAGTCTTACCCGGACATAGTCACCACATATGGTCATCTGGTCT
1 AAATCTCCACACGA-AGTCATCGAGTCTTACCCGGACAAAATCACCACACATAGTCATCGGGTCT
32315154 T
65 T
32315155 TAATCCCAGG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 1 0.02
74 53 0.98
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCGAGTCTTACCCGGACAAAATCACCACACATAGTCATCGGGTCTT
ACCCGGACA
Found at i:32315154 original size:37 final size:36
Alignment explanation
Indices: 32315016--32315154 Score: 154
Period size: 37 Copynumber: 3.8 Consensus size: 36
32315006 AGCTTAGATG
* *
32315016 AAATCTCCACACGA-AGTTATTGGGTCTTACCCGGACA
1 AAATCTCCACAC-ATAGTCA-TCGGTCTTACCCGGACA
*
32315053 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATC-GGTCTTACCCGGACA
32315090 AAATCTCCACACATAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCG-GTCTTACCCGGACA
* * * * *
32315127 TAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACATAGTCATC-GGTCTT
32315155 TAATCCCAGG
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
36 2 0.02
37 86 0.97
38 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (36 bp):
AAATCTCCACACATAGTCATCGGTCTTACCCGGACA
Found at i:32315291 original size:47 final size:47
Alignment explanation
Indices: 32315230--32315659 Score: 565
Period size: 47 Copynumber: 9.3 Consensus size: 47
32315220 ACACATTTCG
* * * **
32315230 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
32315277 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
32315324 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
32315371 CATTGGCCTTTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
32315418 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
32315465 CATTGGTCATTTGGCCTTAT----C--ACGCA---T-ACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
32315502 CATTGGTCATTTGGCCTTATCACGCATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
32315549 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
32315596 CATTGGCCATTCGGCCTTATCACGCATGTATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--CA--CATACGCATGTTCACATTCATCA
*
32315647 CATTTGCCATTCG
1 CATTGGCCATTCG
32315660 ACGTTATCTC
Statistics
Matches: 348, Mismatches: 21, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
37 30 0.09
38 1 0.00
41 6 0.02
43 6 0.02
46 1 0.00
47 271 0.78
49 2 0.01
51 31 0.09
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:32315466 original size:25 final size:25
Alignment explanation
Indices: 32315342--32315419 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
32315332 ATTCAGCCTT
32315342 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** * *
32315367 AT--CACATTGGCCT-TTCAGCCTT-
1 ATCACACATACGCATGTTCA-CATTC
32315389 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
32315414 ATCACA
1 ATCACA
32315420 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:32315499 original size:37 final size:37
Alignment explanation
Indices: 32315455--32315530 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
32315445 ACGCATGTTC
32315455 ACATTCATCACATTGGTCATTTGGCCTTATCACGCAT
1 ACATTCATCACATTGGTCATTTGGCCTTATCACGCAT
32315492 ACATTCATCACATTGGTCATTTGGCCTTATCACGCAT
1 ACATTCATCACATTGGTCATTTGGCCTTATCACGCAT
32315529 AC
1 AC
32315531 GCATGTTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (37 bp):
ACATTCATCACATTGGTCATTTGGCCTTATCACGCAT
Found at i:32315518 original size:84 final size:84
Alignment explanation
Indices: 32315408--32315577 Score: 286
Period size: 84 Copynumber: 2.0 Consensus size: 84
32315398 ACGCATGTTC
*
32315408 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
* *
32315473 ATTTGGCCTTATCACGCAT
66 ATTCGGCCTTATCACACAT
* * *
32315492 ACATTCATCACATTGGTCATTTGGCCTTATCACGCATACGCATGTTCACATTCATCACATTGGCC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
32315557 ATTCGGCCTTATCACACAT
66 ATTCGGCCTTATCACACAT
32315576 AC
1 AC
32315578 GCATGTTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (84 bp):
ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
ATTCGGCCTTATCACACAT
Found at i:32315519 original size:131 final size:131
Alignment explanation
Indices: 32315361--32315622 Score: 463
Period size: 131 Copynumber: 2.0 Consensus size: 131
32315351 ACGCATGTTC
*
32315361 ACATTCATCACATTGGCCTTTCAGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
1 ACATTCATCACATTGGCATTTCAGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
* *
32315426 ATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGTCATTTGGCCTTATCACGCA
66 ATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCA
32315491 T
131 T
* *
32315492 ACATTCATCACATTGGTCATTT-GGCCTTATCACGCATACGCATGTTCACATTCATCACATTGGC
1 ACATTCATCACATTGG-CATTTCAGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
32315556 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGC
65 CATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGC
32315621 AT
130 AT
32315623 GTATATACAG
Statistics
Matches: 125, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
131 121 0.97
132 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.32
Consensus pattern (131 bp):
ACATTCATCACATTGGCATTTCAGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCC
ATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCA
T
Found at i:32315667 original size:98 final size:94
Alignment explanation
Indices: 32315492--32315667 Score: 244
Period size: 98 Copynumber: 1.8 Consensus size: 94
32315482 TATCACGCAT
* * * *
32315492 ACATTCATCACATTGGTCATTTGGCCTTATCACGCATACGCATGTTCACATTCATCACATTGGCC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACGCATACACAGGTTCACATTCATCACATTGGCC
*
32315557 ATTCGGCCTTATCACACATACGCATGTTC
66 ATTCGACCTTATCACACATACGCATGTTC
*
32315586 ACATTCATCACATTGGCCATTCGGCCTTATCACGCATGTATATACAGGTTCACATTCATCACATT
1 ACATTCATCACATTGGCCATTCGGCCTTATCACGC----ATACACAGGTTCACATTCATCACATT
* *
32315651 TGCCATTCGACGTTATC
62 GGCCATTCGACCTTATC
32315668 TCATATATAC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
94 33 0.47
98 37 0.53
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (94 bp):
ACATTCATCACATTGGCCATTCGGCCTTATCACGCATACACAGGTTCACATTCATCACATTGGCC
ATTCGACCTTATCACACATACGCATGTTC
Found at i:32315685 original size:98 final size:94
Alignment explanation
Indices: 32315492--32315696 Score: 239
Period size: 98 Copynumber: 2.1 Consensus size: 94
32315482 TATCACGCAT
* * * *
32315492 ACATTCATCACATTGGTCATTTGGCCTTATCACGCATACGCATGTTCACATTCATCACATTGGCC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACGCATACACAGGTTCACATTCATCACATTGGCC
* * **
32315557 ATTCGGCCTTATCACACATACGCATGTTC
66 ATTCGACCTTATCACACATACACACATTC
*
32315586 ACATTCATCACATTGGCCATTCGGCCTTATCACGCATGTATATACAGGTTCACATTCATCACATT
1 ACATTCATCACATTGGCCATTCGGCCTTATCACGC----ATACACAGGTTCACATTCATCACATT
* * * * *
32315651 TGCCATTCGACGTTATCTCATATATACACATTC
62 GGCCATTCGACCTTATCACACATACACACATTC
*
32315684 ACATCCATCACAT
1 ACATTCATCACAT
32315697 ATACTTTCAT
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
94 33 0.36
98 59 0.64
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (94 bp):
ACATTCATCACATTGGCCATTCGGCCTTATCACGCATACACAGGTTCACATTCATCACATTGGCC
ATTCGACCTTATCACACATACACACATTC
Found at i:32315693 original size:47 final size:47
Alignment explanation
Indices: 32315492--32315696 Score: 212
Period size: 47 Copynumber: 4.3 Consensus size: 47
32315482 TATCACGCAT
* * ** ** *
32315492 ACATTCATCACATTGGTCATTTGGCCTTATCACGCATACGCATGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACGTTC
* ** *
32315539 ACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACGTTC
*
32315586 ACATTCATCACATTGGCCATTCGGCCTTATCACGCATGTATATACAGGTTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCA--CA--TATATACACGTTC
* * * * *
32315637 ACATTCATCACATTTGCCATTCGACGTTATCTCATATATACACATTC
1 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACGTTC
*
32315684 ACATCCATCACAT
1 ACATTCATCACAT
32315697 ATACTTTCAT
Statistics
Matches: 140, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
47 99 0.71
49 4 0.03
51 37 0.26
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACGTTC
Found at i:32321761 original size:29 final size:28
Alignment explanation
Indices: 32321729--32321831 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 28
32321719 GTGACGAGAT
* *
32321729 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
32321758 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* *
32321787 TGGCACTATGTGTGCGGGCTTGAATCATA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
32321816 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
32321832 TGATTGAGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 3 0.05
29 59 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:32321873 original size:57 final size:58
Alignment explanation
Indices: 32321738--32321863 Score: 141
Period size: 58 Copynumber: 2.2 Consensus size: 58
32321728 TTGGCACTGA
* * * *
32321738 GTGTGCGAGCTTGTAAT-GTATGGCACTAAGTGTGCGAGTTTGGACTATATGGCACTAT
1 GTGTGCGAACTTG-AATCATATGGCACTAAGTGTGCGAGATTGGACTATATAGCACTAT
** * *
32321796 GTGTGCGGGCTTGAATCATATGGCACTAAGTGTGCGTGATT-GAGTAT-TAAGCACTAT
1 GTGTGCGAACTTGAATCATATGGCACTAAGTGTGCGAGATTGGACTATAT-AGCACTAT
32321853 GTGTGCGAACT
1 GTGTGCGAACT
32321864 CTACACATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
56 1 0.02
57 24 0.41
58 33 0.57
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (58 bp):
GTGTGCGAACTTGAATCATATGGCACTAAGTGTGCGAGATTGGACTATATAGCACTAT
Found at i:32344552 original size:20 final size:20
Alignment explanation
Indices: 32344522--32344579 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
32344512 TTTGTTGTGC
*
32344522 TAAAATGATTTTAACTTGGT
1 TAAAATCATTTTAACTTGGT
* **
32344542 TGAAATCATTTTGTCTTGGT
1 TAAAATCATTTTAACTTGGT
32344562 TAAAATCATTTTAACTTG
1 TAAAATCATTTTAACTTG
32344580 ACTTTAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (20 bp):
TAAAATCATTTTAACTTGGT
Found at i:32344566 original size:40 final size:40
Alignment explanation
Indices: 32344495--32344579 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
32344485 AGAAATTGTG
* *
32344495 ACTTGTTTGAAAATCATTTTGTTGTGCTAAAATGATTTTA
1 ACTTGGTTGAAAATCATTTTGTTGTGCTAAAATCATTTTA
*
32344535 ACTTGGTTG-AAATCATTTTGTCT-TGGTTAAAATCATTTTA
1 ACTTGGTTGAAAATCATTTTGT-TGT-GCTAAAATCATTTTA
32344575 ACTTG
1 ACTTG
32344580 ACTTTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 13 0.32
40 27 0.68
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (40 bp):
ACTTGGTTGAAAATCATTTTGTTGTGCTAAAATCATTTTA
Found at i:32361426 original size:21 final size:22
Alignment explanation
Indices: 32361381--32361427 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
32361371 TGCAGGGCTC
**
32361381 ACACGCCCGTGTGGTCTAAGGG
1 ACACGCCCGTGTGACCTAAGGG
*
32361403 ACACGCCCGTGTGACCT-TGGG
1 ACACGCCCGTGTGACCTAAGGG
32361424 ACAC
1 ACAC
32361428 ACCCATGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (22 bp):
ACACGCCCGTGTGACCTAAGGG
Found at i:32363145 original size:30 final size:30
Alignment explanation
Indices: 32363109--32363169 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
32363099 GAGCCTACTA
32363109 AGCCCAAAACATCCATTGGAACCCATTCAG
1 AGCCCAAAACATCCATTGGAACCCATTCAG
32363139 AGCCCAAAACATCCATTGGAACCCATTCAG
1 AGCCCAAAACATCCATTGGAACCCATTCAG
32363169 A
1 A
32363170 AACAATCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.33, G:0.13, T:0.16
Consensus pattern (30 bp):
AGCCCAAAACATCCATTGGAACCCATTCAG
Found at i:32366433 original size:40 final size:40
Alignment explanation
Indices: 32366377--32366584 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
32366367 TGAATGATAC
* *
32366377 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
** *
32366417 CCGGGCTAAGTTCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
32366457 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
32366497 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
32366537 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
32366577 CC-GGCTAA
1 CCGGGCTAA
32366585 ATTTCGAAGA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:32370110 original size:17 final size:17
Alignment explanation
Indices: 32370079--32370114 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
32370069 AGGACCTCTA
32370079 TATTTGAATTCTATAGC
1 TATTTGAATTCTATAGC
32370096 TATTT-AATTCTTATAGC
1 TATTTGAATTC-TATAGC
32370113 TA
1 TA
32370115 CTAGAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (17 bp):
TATTTGAATTCTATAGC
Found at i:32370887 original size:39 final size:39
Alignment explanation
Indices: 32370795--32370889 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 39
32370785 ACTATTCTAA
*
32370795 AAAATATATTATTTTAATAGATTTAATATTAAATTTAATTT
1 AAAATA-ATTATCTTAATAGATTT-ATATTAAATTTAATTT
* *
32370836 --AATACTTATCTTAATACTATTT-TATT-AATTTAATATT
1 AAAATAATTATCTTAATA-GATTTATATTAAATTTAAT-TT
32370873 AAAATAATTATCTTAAT
1 AAAATAATTATCTTAAT
32370890 TTTAATTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
36 8 0.17
37 6 0.13
38 10 0.22
39 22 0.48
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (39 bp):
AAAATAATTATCTTAATAGATTTATATTAAATTTAATTT
Found at i:32374187 original size:228 final size:227
Alignment explanation
Indices: 32373790--32374899 Score: 1123
Period size: 228 Copynumber: 4.9 Consensus size: 227
32373780 AAGATGCAGA
* * *
32373790 GTAGACTCCTTTTGGATATTATAATCAGCCAATGTCCTGCCATCTTCAAGTTGCTTGCCAGCAAA
1 GTAGACTCCTTTTGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAAA
* * * * *
32373855 TATGAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGAATCTTTGCCTTAACATTGTCAA
66 GATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCAA
* * * *
32373920 TGGTGTCTGAACTTTCAACCT-CTAGAGTGATAGTCTTTCCAGTAAGAGTCTTAACAAAGATCTG
131 TGGTGTCTGAACTTTCAACCTCCAAG-GTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTG
* * *
32373984 CATCCCACCACGCAGCCGCAACACCAAGTGAAGG
195 CATCCCACCACGAAGACG-AAGACCAAGTGAAGG
* * *
32374018 GTAGACTCCTTTTGGATATTGTAGTCGGCCAATGTCCTACCATCTTCGAGCTGCTTGCCAGCAAA
1 GTAGACTCCTTTTGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAAA
* * *
32374083 GATGAGCCTTTGCTGGTCTGGGGGGATACCC-TCCTTGTCTTGGATCTTTGCCTTCACATTGTCA
66 GATAAGCCTTTGCTGGTCTGGTGGGAT-CCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCA
* * * * * * *
32374147 ATGGTATCGGAACTTTCAACCTCCAAAGTGATGGTCTTTCCGGTAAGAGTCTTTACAAAGATCTG
130 ATGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTG
* * * * * *
32374212 CATACCACCACGAAGGCGGAGAACCAAATGGAGA
195 CATCCCACCACGAAGACGAAG-ACCAAGTGAAGG
* * * * * *
32374246 GTAGACTCCTTCTGGATATTATAATCGG-CAAGAGTCCTTCCATCTTCAAGTTGTTTTCCAGCAA
1 GTAGACTCCTTTTGGATATTGTAATCGGCCAA-TGTCCTACCATCTTCAAGTTGCTTGCCAGCAA
* * * * * * * * *
32374310 AAATCAA-TCTTTGTTGGTCTGGTGGGATTCCTTCTTTGTCCTGAATCTTGGCTTTCACATTATC
65 AGAT-AAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATC
* * * * * * * *
32374374 AATGGTATCCGAACTCTCCACCTCCAAGGTAATTGTCTTTCCAGTGAGAGTTTTGACAAAGATTT
129 AATGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTT
* * * * *
32374439 GCATGCCACCTCGAAGACGAAGTACTAGGTGGAGG
194 GCATCCCACCACGAAGACGAAG-ACCAAGTGAAGG
* * * * * * * * *
32374474 GTGGACTCTTTTTGGATATTGTAATCAGCTAAGGTGCGACCATCTTCAAGCTGCTTTCCAGCAAA
1 GTAGACTCCTTTTGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAAA
* * * *
32374539 GATAAGCCTCTGCTGATCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTTACATTATCTA
66 GATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCAA
* * * * * *
32374604 TTGTGTCAGAGCTTTCAACCTCCAAGGTAATTGTCTTTCCAGTGAGAGTCTTGACAAAGATTTGC
131 TGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTGC
* * *
32374669 ATGCCGCCACGAAGTCGAAGAACCAAGTGAAGG
196 ATCCCACCACGAAGACGAAG-ACCAAGTGAAGG
* * * * * * ** * ** * *
32374702 GTGGA-TTCTTTCTGAATGTTGTAGTCGGCTAGCGTGCGGCCATCCTCAAGTTGTTTGCCAGCAA
1 GTAGACTCCTTT-TGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAA
* * * * *
32374766 AGATAAGCCTCTGCTGATCCGGTGGGATCCCTTCCTTATCTTGGATCTTAGCCTTCACATTATCA
65 AGATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCA
* * * * * * *
32374831 ATGGTGTCTGAACTCTCCACCTCGAGGGTGATGGTCTTGCCAGTGAGGGTTTTAACAAAGATTTG
130 ATGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTG
32374896 CATC
195 CATC
32374900 TATTGAATCA
Statistics
Matches: 736, Mismatches: 137, Indels: 18
0.83 0.15 0.02
Matches are distributed among these distances:
227 12 0.02
228 716 0.97
229 8 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (227 bp):
GTAGACTCCTTTTGGATATTGTAATCGGCCAATGTCCTACCATCTTCAAGTTGCTTGCCAGCAAA
GATAAGCCTTTGCTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTTGCCTTCACATTATCAA
TGGTGTCTGAACTTTCAACCTCCAAGGTGATGGTCTTTCCAGTGAGAGTCTTAACAAAGATTTGC
ATCCCACCACGAAGACGAAGACCAAGTGAAGG
Found at i:32374621 original size:456 final size:455
Alignment explanation
Indices: 32373759--32374899 Score: 1293
Period size: 456 Copynumber: 2.5 Consensus size: 455
32373749 TTACTTAGAA
* * * * *
32373759 ACCACCGCGAAGGCGAAGGA-CAAGATGCAGAGTAGACTCCTTTTGGATATTATAATCAGCCAA-
1 ACCACCACGAAGGCGAAGAACCAA-ATGAAGAGTAGACTCCTTCTGGATATTATAATC-GGCAAG
* * * *
32373822 TGTCCTGCCATCTTCAAGTTGCTTGCCAGCAAATATGAGCCTTTGCTGGTCTGGTGGGATCCCTT
64 AGTCCTGCCATCTTCAAGTTGTTTGCCAGCAAAAAT-AACCTTTGCTGGTCTGGTGGGATCCCTT
* * * * * *
32373887 CCTTGTCTTGAATCTTTGCCTTAACATTGTCAATGGTGTCTGAACTTTCAACCT-CTAGAGTGAT
128 CCTTGTCTTGAATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCCAAG-GTGAT
* * * * *
32373951 AGTCTTTCCAGTAAGAGTCTTAACAAAGATCTGCATCCCACCACGCAGCCGCAACACCAAGTGAA
192 AGTCTTTCCAGTGAGAGTTTTAACAAAGATTTGCATCCCACCACGAAGACGCAACACCAAGTGAA
* * * * *
32374016 GGGTAGACTCCTTTTGGATATTGTAGTCGGCCAATGTCCTACCATCTTCGAGCTGCTTGCCAGCA
257 GGGTAGACTCCTTTTGGATATTGTAATCAGCCAAGGTCCGACCATCTTCAAGCTGCTTGCCAGCA
* * * *
32374081 AAGATGAGCCTTTGCTGGTCTGGGGGGATACCCTCCTTGTCTTGGATCTTTGCCTTCACATTGTC
322 AAGATAAGCCTCTGCTGATCTGGGGGGATACCCTCCTTGTCTTGGATCTTTGCCTTCACATTATC
* * * *
32374146 AATGGTATCGGAACTTTCAACCTCCAAAGTGATGGTCTTTCCGGTAAGAGTCTTTACAAAGATCT
387 AATGGTATCAGAACTTTCAACCTCCAAAGTAATGGTCTTTCCAGTAAGAGTCTTGACAAAGATCT
32374211 GCAT
452 GCAT
* *
32374215 ACCACCACGAAGGCGGAGAACCAAATGGAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAG
1 ACCACCACGAAGGCGAAGAACCAAATGAAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAG
* * * * * *
32374280 TCCTTCCATCTTCAAGTTGTTTTCCAGCAAAAATCAATCTTTGTTGGTCTGGTGGGATTCCTTCT
66 TCCTGCCATCTTCAAGTTGTTTGCCAGCAAAAAT-AACCTTTGCTGGTCTGGTGGGATCCCTTCC
* * * * * * *
32374345 TTGTCCTGAATCTTGGCTTTCACATTATCAATGGTATCCGAACTCTCCACCTCCAAGGTAATTGT
130 TTGTCTTGAATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCCAAGGTGATAGT
* * * * * * *
32374410 CTTTCCAGTGAGAGTTTTGACAAAGATTTGCATGCCACCTCGAAGACG-AAGTACTAGGTGGAGG
195 CTTTCCAGTGAGAGTTTTAACAAAGATTTGCATCCCACCACGAAGACGCAA-CACCAAGTGAAGG
* * * * *
32374474 GTGGACTCTTTTTGGATATTGTAATCAGCTAAGGTGCGACCATCTTCAAGCTGCTTTCCAGCAAA
259 GTAGACTCCTTTTGGATATTGTAATCAGCCAAGGTCCGACCATCTTCAAGCTGCTTGCCAGCAAA
* * *
32374539 GATAAGCCTCTGCTGATCTGGTGGGAT-CCCTTCCTTGTCTTGGATCTTTGCCTTTACATTATCT
324 GATAAGCCTCTGCTGATCTGGGGGGATACCC-TCCTTGTCTTGGATCTTTGCCTTCACATTATCA
* * * * * * *
32374603 ATTGTGTCAGAGCTTTCAACCTCCAAGGTAATTGTCTTTCCAGTGAGAGTCTTGACAAAGATTTG
388 ATGGTATCAGAACTTTCAACCTCCAAAGTAATGGTCTTTCCAGTAAGAGTCTTGACAAAGATCTG
32374668 CAT
453 CAT
* * * * * * * * * * * * * *
32374671 GCCGCCACGAAGTCGAAGAACCAAGTGAAGGGTGGATTCTTTCTGAATGTTGTAGTCGGCTAGCG
1 ACCACCACGAAGGCGAAGAACCAAATGAAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAG
* * * * * * *
32374736 TGCGGCCATCCTCAAGTTGTTTGCCAGCAAAGATAAGCCTCTGCTGATCCGGTGGGATCCCTTCC
66 TCCTGCCATCTTCAAGTTGTTTGCCAGCAAAAATAA-CCTTTGCTGGTCTGGTGGGATCCCTTCC
* * * * *
32374801 TTATCTTGGATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCGAGGGTGATGGT
130 TTGTCTTGAATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCCAAGGTGATAGT
* *
32374866 CTTGCCAGTGAGGGTTTTAACAAAGATTTGCATC
195 CTTTCCAGTGAGAGTTTTAACAAAGATTTGCATC
32374900 TATTGAATCA
Statistics
Matches: 566, Mismatches: 113, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
455 11 0.02
456 549 0.97
457 6 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (455 bp):
ACCACCACGAAGGCGAAGAACCAAATGAAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAG
TCCTGCCATCTTCAAGTTGTTTGCCAGCAAAAATAACCTTTGCTGGTCTGGTGGGATCCCTTCCT
TGTCTTGAATCTTAGCCTTCACATTATCAATGGTGTCTGAACTCTCCACCTCCAAGGTGATAGTC
TTTCCAGTGAGAGTTTTAACAAAGATTTGCATCCCACCACGAAGACGCAACACCAAGTGAAGGGT
AGACTCCTTTTGGATATTGTAATCAGCCAAGGTCCGACCATCTTCAAGCTGCTTGCCAGCAAAGA
TAAGCCTCTGCTGATCTGGGGGGATACCCTCCTTGTCTTGGATCTTTGCCTTCACATTATCAATG
GTATCAGAACTTTCAACCTCCAAAGTAATGGTCTTTCCAGTAAGAGTCTTGACAAAGATCTGCAT
Found at i:32376450 original size:16 final size:15
Alignment explanation
Indices: 32376413--32376443 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
32376403 AATATTTAAA
32376413 AATATAAATTAATAT
1 AATATAAATTAATAT
32376428 AATATAATATTAATAT
1 AATATAA-ATTAATAT
32376444 TAAATAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATAAATTAATAT
Found at i:32376487 original size:26 final size:26
Alignment explanation
Indices: 32376456--32376509 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
32376446 AATAAAAGTT
* *
32376456 AAATTAGTTTTAGCTATAAAAATAAA
1 AAATTAGATTTAGCTACAAAAATAAA
32376482 AAATTAGATTTAGCTACAAAAATAAA
1 AAATTAGATTTAGCTACAAAAATAAA
32376508 AA
1 AA
32376510 TTTGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (26 bp):
AAATTAGATTTAGCTACAAAAATAAA
Found at i:32376826 original size:26 final size:27
Alignment explanation
Indices: 32376783--32376836 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
32376773 TGAATTGAAT
* * *
32376783 TTTATTTTTATTTAATATATAATTAAA
1 TTTATTTTTATATAATATAAAAATAAA
*
32376810 TTTATTTTT-TATGATATAAAAATAAA
1 TTTATTTTTATATAATATAAAAATAAA
32376836 T
1 T
32376837 ACTTTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TTTATTTTTATATAATATAAAAATAAA
Found at i:32384348 original size:124 final size:124
Alignment explanation
Indices: 32384126--32384350 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
32384116 GAATTATGTG
* * * ** * * *
32384126 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
32384191 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
32384250 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
32384315 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
32384351 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:32384472 original size:40 final size:40
Alignment explanation
Indices: 32384345--32384474 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
32384335 ATGCTGGAAA
* *
32384345 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
32384385 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
32384425 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
32384465 TTATATCCGG
1 TTATATCCGG
32384475 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:32384473 original size:80 final size:80
Alignment explanation
Indices: 32384307--32384474 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
32384297 CAATTGAATG
* * *
32384307 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
32384372 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
32384387 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
32384451 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
32384467 ATATCCGG
1 ATATCCGG
32384475 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:32393201 original size:40 final size:40
Alignment explanation
Indices: 32393156--32393321 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
32393146 CGGAATATAA
32393156 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32393196 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
32393236 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
32393275 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
32393314 CCGGATAT
1 CCGGATAT
32393322 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32393278 original size:39 final size:38
Alignment explanation
Indices: 32393172--32393283 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
32393162 ATAATCACGT
* * *
32393172 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
32393212 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
32393251 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
32393284 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:32393305 original size:79 final size:78
Alignment explanation
Indices: 32393172--32393321 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
32393162 ATAATCACGT
*
32393172 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
32393237 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
32393251 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
32393314 CCGGATAT
64 CCGGATAT
32393322 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:32394167 original size:17 final size:19
Alignment explanation
Indices: 32394144--32394189 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
32394134 AAGAAGCATG
32394144 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
32394162 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
32394180 AATCATGCTC
1 AATCATGCTC
32394190 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:32401198 original size:40 final size:40
Alignment explanation
Indices: 32401153--32401319 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
32401143 CGGAATATAA
32401153 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
32401193 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
32401233 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
32401273 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
32401312 CCGGATAT
1 CCGGATAT
32401320 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:32401303 original size:80 final size:79
Alignment explanation
Indices: 32401153--32401319 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
32401143 CGGAATATAA
* *
32401153 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
32401218 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
32401233 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
32401295 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
32401312 CCGGATAT
1 CCGGATAT
32401320 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:32402168 original size:17 final size:19
Alignment explanation
Indices: 32402145--32402190 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
32402135 AAGAAGCATG
32402145 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
32402163 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
32402181 AATCATGCTC
1 AATCATGCTC
32402191 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Done.