Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 47 of 145
Found at i:15215744 original size:78 final size:77
Alignment explanation
Indices: 15215600--15215744 Score: 175
Period size: 78 Copynumber: 1.9 Consensus size: 77
15215590 TAGATAATTG
* * * * * * * *
15215600 TTGTACTTCGGTACCCCTGATTGCACTTACGTTCCCCTATTGTACTTTGGTACCCCTGATTACAC
1 TTGTACTTCGATACCCCTAATTACACTTACGTGCCCCTATTGTACTTCGATACCAC-GAATACAC
15215665 TTATGTGCCCCTA
65 TTATGTGCCCCTA
*
15215678 TTGTACTTCGATACCCCTAATTACACTTACGTGCCCCTGTTGTACTTCGATACACAC-AATAGCA
1 TTGTACTTCGATACCCCTAATTACACTTACGTGCCCCTATTGTACTTCGATAC-CACGAATA-CA
15215742 CTT
64 CTT
15215745 TCGTATCGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
77 3 0.05
78 51 0.91
79 2 0.04
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (77 bp):
TTGTACTTCGATACCCCTAATTACACTTACGTGCCCCTATTGTACTTCGATACCACGAATACACT
TATGTGCCCCTA
Found at i:15217334 original size:21 final size:21
Alignment explanation
Indices: 15217294--15217335 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15217284 CATGGCTAGT
* *
15217294 AAATGAAATGAAATTAGATTG
1 AAATAAAATGAAATGAGATTG
*
15217315 AAATAAAATGAAATGGGATTG
1 AAATAAAATGAAATGAGATTG
15217336 GTGATTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.26
Consensus pattern (21 bp):
AAATAAAATGAAATGAGATTG
Found at i:15219172 original size:16 final size:15
Alignment explanation
Indices: 15219146--15219175 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15219136 ATTAAATTAA
15219146 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
15219161 TTAACGTAAATGCAA
1 TTAAC-TAAATGCAA
15219176 ATGAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:15223180 original size:24 final size:23
Alignment explanation
Indices: 15223136--15223193 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
15223126 AAACTACCCA
15223136 AAAATAAAAACCAAAAATAAACT
1 AAAATAAAAACCAAAAATAAACT
*
15223159 AAAATGAAAAA-CAAGAATTAAACAT
1 AAAAT-AAAAACCAA-AAATAAAC-T
15223184 GAAAATAAAA
1 -AAAATAAAA
15223194 TAAAAGGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 8 0.27
24 12 0.40
25 5 0.17
26 5 0.17
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAATAAAAACCAAAAATAAACT
Found at i:15225441 original size:28 final size:28
Alignment explanation
Indices: 15225404--15225470 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 28
15225394 TAAGTACACA
15225404 CCACAAAGGCTTTCCTTTCA-GA-GTCTCG
1 CCACAAAGGCTTTCCTTT-ATGAGGT-TCG
*
15225432 CCACAAAGGC-ATCCTTTATGAGGTTCG
1 CCACAAAGGCTTTCCTTTATGAGGTTCG
*
15225459 CCACGAAGGCTT
1 CCACAAAGGCTT
15225471 ACCCTTCTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.03
27 20 0.61
28 12 0.36
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (28 bp):
CCACAAAGGCTTTCCTTTATGAGGTTCG
Found at i:15225506 original size:57 final size:57
Alignment explanation
Indices: 15225443--15225563 Score: 136
Period size: 57 Copynumber: 2.1 Consensus size: 57
15225433 CACAAAGGCA
** * * *
15225443 TCCTTTATGAGGTTCGCCACGAAGGCTTACCCTTCTAGAGTTTTACCATAAATG-TTG
1 TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTTACCACAAA-GCTTG
* * * * *
15225500 TCCTTTAACAGGTTCACCATAAAGGCTTACCTTTTTGGAGTTTTGCCACAAAGCTTG
1 TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTTACCACAAAGCTTG
15225557 TCCTTTA
1 TCCTTTA
15225564 CTTGTTGTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
56 1 0.02
57 52 0.98
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (57 bp):
TCCTTTAACAGGTTCACCACAAAGGCTTACCCTTCTAGAGTTTTACCACAAAGCTTG
Found at i:15226995 original size:40 final size:40
Alignment explanation
Indices: 15226941--15227033 Score: 136
Period size: 40 Copynumber: 2.3 Consensus size: 40
15226931 GGCTTTTGGA
15226941 TAAAAAACGCCGCTATAGAT-AGAGA-ATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGATCA-A-ACATTAGCGGCGCTTTT
*
15226981 TAAAAAAAGCCGCTATAGATCAAACATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGATCAAACATTAGCGGCGCTTTT
*
15227021 TGAAAAACGCCGC
1 TAAAAAACGCCGC
15227034 AAAAAATAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
39 1 0.02
40 46 0.96
41 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (40 bp):
TAAAAAACGCCGCTATAGATCAAACATTAGCGGCGCTTTT
Found at i:15227593 original size:24 final size:24
Alignment explanation
Indices: 15227563--15227612 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15227553 TTTAAAAGAG
15227563 ATAGTATTAATTTTCAAATATTGA
1 ATAGTATTAATTTTCAAATATTGA
15227587 ATAGTATTAATTTTCAAATATTGA
1 ATAGTATTAATTTTCAAATATTGA
15227611 AT
1 AT
15227613 TAATTATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (24 bp):
ATAGTATTAATTTTCAAATATTGA
Found at i:15227643 original size:7 final size:7
Alignment explanation
Indices: 15227622--15227781 Score: 72
Period size: 7 Copynumber: 22.4 Consensus size: 7
15227612 TTAATTATCA
*
15227622 TTATAGT
1 TTATGGT
*
15227629 TTAGGGT
1 TTATGGT
15227636 TTATGGT
1 TTATGGT
* *
15227643 TGACGGT
1 TTATGGT
*
15227650 TTAAGGT
1 TTATGGT
*
15227657 TTAGGAGT
1 TTATG-GT
15227665 TACTAT--T
1 T--TATGGT
*
15227672 TTAAGGT
1 TTATGGT
*
15227679 TTATGGA
1 TTATGGT
15227686 TTATGGGT
1 TTAT-GGT
* *
15227694 TTAGGGA
1 TTATGGT
*
15227701 TTATGAT
1 TTATGGT
15227708 TTATGGT
1 TTATGGT
15227715 TTATGGT
1 TTATGGT
* *
15227722 TTAAGGG
1 TTATGGT
*
15227729 TTAGGGT
1 TTATGGT
*
15227736 TTAAGGGT
1 TT-ATGGT
*
15227744 TTAGGGT
1 TTATGGT
* *
15227751 TTAGGGG
1 TTATGGT
*
15227758 TTATGTT
1 TTATGGT
*
15227765 TTATGAT
1 TTATGGT
*
15227772 TTAAGGT
1 TTATGGT
15227779 TTA
1 TTA
15227782 AGGGATAGAA
Statistics
Matches: 116, Mismatches: 30, Indels: 14
0.73 0.19 0.09
Matches are distributed among these distances:
5 2 0.02
7 97 0.84
8 15 0.13
10 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:15227720 original size:29 final size:29
Alignment explanation
Indices: 15227690--15227787 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
15227680 TATGGATTAT
15227690 GGGTTT-AGGGATTATGATTTATGGTTTA
1 GGGTTTAAGGGATTATGATTTATGGTTTA
* * * *
15227718 TGGTTTAAGGG-TTAGGGTTTAAGGGTTTA
1 GGGTTTAAGGGATTATGATTT-ATGGTTTA
* * *
15227747 GGGTTT-AGGGGTTATGTTTTATGATTTA
1 GGGTTTAAGGGATTATGATTTATGGTTTA
*
15227775 AGGTTTAAGGGAT
1 GGGTTTAAGGGAT
15227788 AGAAATTAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
28 27 0.49
29 28 0.51
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (29 bp):
GGGTTTAAGGGATTATGATTTATGGTTTA
Found at i:15227725 original size:50 final size:50
Alignment explanation
Indices: 15227671--15227787 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 50
15227661 GAGTTACTAT
* * * * *
15227671 TTTAAGGTTTATGGATTATGGGTTTAGGGATTATGATTTATGGTTTATGG
1 TTTAAGGTTTAGGGATTAAGGGTTTAGGGATTAGGAGTTATGGTTTATGA
* * * * *
15227721 TTTAAGGGTTAGGGTTTAAGGGTTTAGGGTTTAGGGGTTATGTTTTATGA
1 TTTAAGGTTTAGGGATTAAGGGTTTAGGGATTAGGAGTTATGGTTTATGA
15227771 TTTAAGGTTTAAGGGAT
1 TTTAAGGTTT-AGGGAT
15227788 AGAAATTAAG
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 49 0.91
51 5 0.09
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.45
Consensus pattern (50 bp):
TTTAAGGTTTAGGGATTAAGGGTTTAGGGATTAGGAGTTATGGTTTATGA
Found at i:15227736 original size:14 final size:14
Alignment explanation
Indices: 15227719--15227810 Score: 67
Period size: 14 Copynumber: 6.4 Consensus size: 14
15227709 TATGGTTTAT
15227719 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
15227733 GGTTTAAGGGTTTAG
1 GGTTTAAGGG-TTAG
* *
15227748 GGTTTAGGGGTTAT
1 GGTTTAAGGGTTAG
* * ** *
15227762 GTTTTATGATTTAA
1 GGTTTAAGGGTTAG
*
15227776 GGTTTAAGGGATAG
1 GGTTTAAGGGTTAG
***
15227790 AAATTAAGGGTTTAG
1 GGTTTAAGGG-TTAG
15227805 GGTTTA
1 GGTTTA
15227811 GATTAATTAG
Statistics
Matches: 56, Mismatches: 20, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
14 37 0.66
15 19 0.34
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:15227747 original size:15 final size:15
Alignment explanation
Indices: 15227712--15227759 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
15227702 TATGATTTAT
*
15227712 GGTTTATGGTTTAAG
1 GGTTTAGGGTTTAAG
15227727 GG-TTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
*
15227741 GGTTTAGGGTTTAGG
1 GGTTTAGGGTTTAAG
15227756 GGTT
1 GGTT
15227760 ATGTTTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GGTTTAGGGTTTAAG
Found at i:15227753 original size:57 final size:57
Alignment explanation
Indices: 15227690--15227811 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
15227680 TATGGATTAT
* * * ***
15227690 GGGTTTAGGGATTATGATTTATGGTTTATGGTTTAAGGGTTAGGGTTTAAGGGTTTA
1 GGGTTTAGGGATTATGATTTATGATTTAAGGTTTAAGGGATAGAAATTAAGGGTTTA
* *
15227747 GGGTTTAGGGGTTATGTTTTATGATTTAAGGTTTAAGGGATAGAAATTAAGGGTTTA
1 GGGTTTAGGGATTATGATTTATGATTTAAGGTTTAAGGGATAGAAATTAAGGGTTTA
15227804 GGGTTTAG
1 GGGTTTAG
15227812 ATTAATTAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.42
Consensus pattern (57 bp):
GGGTTTAGGGATTATGATTTATGATTTAAGGTTTAAGGGATAGAAATTAAGGGTTTA
Found at i:15231638 original size:51 final size:51
Alignment explanation
Indices: 15231578--15231703 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 51
15231568 CGGTGGTTTG
* * *
15231578 CACATAGTACCACCCATGTGACCATTGTCA-TCCGATACACATATTAGCCTA
1 CACATAGTACTACCCATGTGACCA-TATCATTCCGATACACATAGTAGCCTA
* * * * * *
15231629 CACATAGTACTACACATGCGATC-TATCATTCCGGTACACGTAGTAGCCTG
1 CACATAGTACTACCCATGTGACCATATCATTCCGATACACATAGTAGCCTA
15231679 CACATAGTACTACACCATGTGACCA
1 CACATAGTACTAC-CCATGTGACCA
15231704 CACTTTCACT
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.07
50 30 0.50
51 26 0.43
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (51 bp):
CACATAGTACTACCCATGTGACCATATCATTCCGATACACATAGTAGCCTA
Found at i:15235405 original size:43 final size:43
Alignment explanation
Indices: 15235333--15235540 Score: 215
Period size: 43 Copynumber: 4.8 Consensus size: 43
15235323 CACTAGTGGT
* * *
15235333 GTTTGTGATAAAAACGTCGTTAAATGTCATGTTCTTTAGCGGA
1 GTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGA
* *
15235376 GTTTGTGATAAAAGCGTCACTAAAGGTCATGTTCTTTAGC-AA
1 GTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGA
** ** **
15235418 TGTTTGTGATAAAAGCCCCGCTAAAGAACATGACCTTTAGCGGCA
1 -GTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG-A
* *
15235463 -TTTGTGATAAAAGCATCGCTAAAGGTCATGTTCTTTAGCGGC
1 GTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGA
* * * *
15235505 GTTTATCGGT-AAAGTGCCGCTAAAGGTCATGTTCTT
1 GTTTGT-GATAAAAGCGTCGCTAAAGGTCATGTTCTT
15235541 CGGCGGCATT
Statistics
Matches: 135, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.01
43 131 0.97
44 2 0.01
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
GTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGA
Found at i:15236169 original size:39 final size:39
Alignment explanation
Indices: 15236115--15236291 Score: 282
Period size: 39 Copynumber: 4.5 Consensus size: 39
15236105 AACTTGTTTT
*
15236115 TGAGTATTATGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
15236154 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
15236193 TGATTATGGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
15236232 TGAGTATGGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * *
15236271 TGTGTAATGTGATATGTGCTT
1 TGAGTATTGTGATATATGCTT
15236292 AAAAGTGAAT
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 129 1.00
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:15237538 original size:53 final size:52
Alignment explanation
Indices: 15237424--15237552 Score: 186
Period size: 53 Copynumber: 2.5 Consensus size: 52
15237414 TCCTTAAAAT
* *
15237424 TTCCTATATGATGCCATAACCCACTAGTTATAGCTTACACAATATGGTCTTC
1 TTCCAATATGATGCCATAACCCACTAGTTACAGCTTACACAATATGGTCTTC
* * *
15237476 TTCCCATATGATGTCATAACCCACTAGTTACGGTCTTACACAATATGGTCTTC
1 TTCCAATATGATGCCATAACCCACTAGTTACAG-CTTACACAATATGGTCTTC
* *
15237529 TTTCAATATGAGGCCATAACCCAC
1 TTCCAATATGATGCCATAACCCAC
15237553 CAATTGTGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
52 29 0.43
53 39 0.57
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
TTCCAATATGATGCCATAACCCACTAGTTACAGCTTACACAATATGGTCTTC
Found at i:15237569 original size:53 final size:53
Alignment explanation
Indices: 15237424--15237577 Score: 148
Period size: 53 Copynumber: 2.9 Consensus size: 53
15237414 TCCTTAAAAT
* * * * ** *
15237424 TTCCTATATGATGCCATAACCCACTAGTTATAG-CTTACACAATATGGTCTTC
1 TTCCAATATGAGGCCATAACCCACCAATTACGGTCATACACAATATGGTCTTC
* * * * * *
15237476 TTCCCATATGATGTCATAACCCACTAGTTACGGTCTTACACAATATGGTCTTC
1 TTCCAATATGAGGCCATAACCCACCAATTACGGTCATACACAATATGGTCTTC
* ** *
15237529 TTTCAATATGAGGCCATAACCCACCAATTGTGGTCATACACGATATGGT
1 TTCCAATATGAGGCCATAACCCACCAATTACGGTCATACACAATATGGT
15237578 TTTTTAGCGC
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
52 29 0.33
53 58 0.67
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (53 bp):
TTCCAATATGAGGCCATAACCCACCAATTACGGTCATACACAATATGGTCTTC
Found at i:15243744 original size:20 final size:19
Alignment explanation
Indices: 15243719--15243769 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
15243709 AGGAGCAGTT
15243719 TTTCAATCGATTTATAAAAG
1 TTTCAATCGATTT-TAAAAG
*
15243739 TTTCAATCGA-GTTAAAAG
1 TTTCAATCGATTTTAAAAG
15243757 TTTCAATC-ATTTT
1 TTTCAATCGATTTT
15243770 TGAACTTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 16 0.57
19 1 0.04
20 10 0.36
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (19 bp):
TTTCAATCGATTTTAAAAG
Found at i:15252950 original size:26 final size:26
Alignment explanation
Indices: 15252891--15252957 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
15252881 AGTAATTAAT
*
15252891 ATAAATTATTTGAAAAATTAATGATAC
1 ATAAA-TATTTTAAAAATTAATGATAC
15252918 ATAAAATATTTTAAAAATTTAAAT-ATA-
1 AT-AAATATTTTAAAAA-TT-AATGATAC
*
15252945 ATAAATAATTTAA
1 ATAAATATTTTAA
15252958 TATNNNNNNN
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
26 10 0.29
27 14 0.40
28 8 0.23
29 3 0.09
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (26 bp):
ATAAATATTTTAAAAATTAATGATAC
Found at i:15261782 original size:15 final size:15
Alignment explanation
Indices: 15261762--15261791 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15261752 TATTAGTATC
*
15261762 TTTCCTAACTTAGAG
1 TTTCCTAAATTAGAG
15261777 TTTCCTAAATTAGAG
1 TTTCCTAAATTAGAG
15261792 AAATAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (15 bp):
TTTCCTAAATTAGAG
Found at i:15270363 original size:34 final size:34
Alignment explanation
Indices: 15270320--15270387 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
15270310 CGATGGCATT
*
15270320 CATAACTCATCGACGATTGCTATTCGCCAACTTA
1 CATAACTCATCGACAATTGCTATTCGCCAACTTA
*
15270354 CATAACTCATTGACAATTGCTATTCGCCAACTTA
1 CATAACTCATCGACAATTGCTATTCGCCAACTTA
15270388 GCACGACACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (34 bp):
CATAACTCATCGACAATTGCTATTCGCCAACTTA
Found at i:15274298 original size:38 final size:37
Alignment explanation
Indices: 15274256--15274372 Score: 91
Period size: 37 Copynumber: 3.2 Consensus size: 37
15274246 ATTAATAATT
*
15274256 TTTTATATTTTTAATTGTTTTTACATATATTGCAATGA
1 TTTTATATTTTTAATTCTTTTTACATATATTG-AATGA
* ** * *
15274294 TTTTAT-TTTTT--TTACATCATATATATATT-AATAAA
1 TTTTATATTTTTAATT-CTTTTTACATATATTGAAT-GA
*
15274329 TTTT-TATATTTTAATTTTTTTTACATATATTGTAATGA
1 TTTTATAT-TTTTAATTCTTTTTACATATATTG-AATGA
15274367 TTTTAT
1 TTTTAT
15274373 TTATAATCAA
Statistics
Matches: 58, Mismatches: 12, Indels: 17
0.67 0.14 0.20
Matches are distributed among these distances:
34 4 0.07
35 8 0.14
36 14 0.24
37 15 0.26
38 13 0.22
39 4 0.07
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (37 bp):
TTTTATATTTTTAATTCTTTTTACATATATTGAATGA
Found at i:15274392 original size:74 final size:74
Alignment explanation
Indices: 15274241--15274400 Score: 214
Period size: 74 Copynumber: 2.2 Consensus size: 74
15274231 ATATTAATAT
* **
15274241 TATATATTAATAATTTTTTATATTTTTAATTGTTTTTACATATATTGCAATGATTTTATTTTTTT
1 TATATATTAATAAATTTTTATATTTTTAATTGTTTTTACATATATTGCAATGATTTTATTTTAAT
* * *
15274306 TACATCATA
66 CAAATCAAA
* *
15274315 TATATATTAATAAATTTTTATA-TTTTAATTTTTTTTACATATATTGTAATGATTTTATTTATAA
1 TATATATTAATAAATTTTTATATTTTTAATTGTTTTTACATATATTGCAATGATTTTATTT-TAA
*
15274379 TCAAATTAAA
65 TCAAATCAAA
*
15274389 TATATAATAATA
1 TATATATTAATA
15274401 CTCAATTATT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
73 36 0.48
74 39 0.52
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (74 bp):
TATATATTAATAAATTTTTATATTTTTAATTGTTTTTACATATATTGCAATGATTTTATTTTAAT
CAAATCAAA
Found at i:15277818 original size:33 final size:33
Alignment explanation
Indices: 15277781--15277847 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
15277771 TGTAATCGTT
*
15277781 AGGGTAAAGAGAGTGAAGAGAGGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAACAGAGGAGCTGTGGAA
* *
15277814 AGGGTGAAGAGAGTGAACAGATGAGCTGTGGAA
1 AGGGTAAAGAGAGTGAACAGAGGAGCTGTGGAA
15277847 A
1 A
15277848 ATGTCTTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.43, T:0.13
Consensus pattern (33 bp):
AGGGTAAAGAGAGTGAACAGAGGAGCTGTGGAA
Found at i:15280839 original size:17 final size:17
Alignment explanation
Indices: 15280812--15280857 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
15280802 TGATAAATCT
15280812 CCGAT-GAGCTTCTAAC
1 CCGATCGAGCTTCTAAC
15280828 CCGATCGAGCTTCTAAC
1 CCGATCGAGCTTCTAAC
15280845 CCGATCGAGCTTC
1 CCGATCGAGCTTC
15280858 CGATAGTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (17 bp):
CCGATCGAGCTTCTAAC
Found at i:15284580 original size:12 final size:12
Alignment explanation
Indices: 15284542--15284586 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
15284532 AAATTTCATA
*
15284542 AAAACATAGTTT
1 AAAACATACTTT
*
15284554 ATAAACAATATTTT
1 A-AAAC-ATACTTT
15284568 AAAACATACTTT
1 AAAACATACTTT
15284580 AAAACAT
1 AAAACAT
15284587 TAACTCTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 14 0.48
13 8 0.28
14 7 0.24
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (12 bp):
AAAACATACTTT
Found at i:15284626 original size:13 final size:13
Alignment explanation
Indices: 15284608--15284644 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15284598 AGAGAACGCG
15284608 TAAAACATATCTT
1 TAAAACATATCTT
*
15284621 TAAAACATAACTT
1 TAAAACATATCTT
15284634 TAAAAACATAT
1 T-AAAACATAT
15284645 ACTGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAACATATCTT
Found at i:15285767 original size:27 final size:26
Alignment explanation
Indices: 15285735--15285835 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 26
15285725 AACATGTTAG
* *
15285735 GAAAGAAAATCCTTTATGGCGTAAAAT
1 GAAAGAAAA-CCTTTGTGGCGTAATAT
15285762 GAAAGAAAAACCTTTGTGGCGTAATAT
1 GAAAG-AAAACCTTTGTGGCGTAATAT
* *
15285789 GAAAGGAACACCTCTGTGGCGTAATAT
1 GAAA-GAAAACCTTTGTGGCGTAATAT
*
15285816 GAAAGAATAGCCTTTGTGGC
1 GAAAGAA-AACCTTTGTGGC
15285836 AAACTCTGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 3 0.05
27 56 0.88
28 5 0.08
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (26 bp):
GAAAGAAAACCTTTGTGGCGTAATAT
Found at i:15289035 original size:50 final size:50
Alignment explanation
Indices: 15288839--15289035 Score: 286
Period size: 50 Copynumber: 3.9 Consensus size: 50
15288829 AGTTCTCATA
* * * * *
15288839 TCGGTGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATC
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATC
* *
15288889 TCGGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTTATC
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATC
* *
15288939 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATA
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATC
* * *
15288989 TCAGTGCCAACGCTATGTCCCAGACAAGGTCTTACAGGGGACCTCTT
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTT
15289036 TACCCAAATG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATC
Found at i:15293299 original size:24 final size:24
Alignment explanation
Indices: 15293271--15293320 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
15293261 ACATGCTGAA
15293271 CATTTTTCCCTTATATGACAACAT
1 CATTTTTCCCTTATATGACAACAT
*
15293295 CATTTTTCCCTTCTATGACAACAT
1 CATTTTTCCCTTATATGACAACAT
15293319 CA
1 CA
15293321 AATTCTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (24 bp):
CATTTTTCCCTTATATGACAACAT
Found at i:15296240 original size:29 final size:29
Alignment explanation
Indices: 15296198--15296268 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
15296188 AAAGAGGGGA
** * *
15296198 AAGTATCCATCAAGCGAAGTTCGCAAATC
1 AAGTATCCGCCAAGCGAAATCCGCAAATC
* *
15296227 AAGTATCCGCCAAGTGAAATCCGCAAGTC
1 AAGTATCCGCCAAGCGAAATCCGCAAATC
*
15296256 ACGTATCCGCCAA
1 AAGTATCCGCCAA
15296269 ATGCGCCTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.18
Consensus pattern (29 bp):
AAGTATCCGCCAAGCGAAATCCGCAAATC
Found at i:15300609 original size:91 final size:91
Alignment explanation
Indices: 15300451--15300632 Score: 319
Period size: 91 Copynumber: 2.0 Consensus size: 91
15300441 TCTTTTCATT
* * *
15300451 AATTTCCATATCAAATATTAACTTTTCCTTCATAAGAATCATTTATCTAACTTATTTTTCAATTT
1 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
15300516 TCTAGTCAATTCACTATATCCGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
*
15300542 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTTAAATT
1 AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
*
15300607 TCTAGTCAATTCACTATATCTGCTTC
66 TCTAGTCAATTCACTATATCCGCTTC
15300633 TTGAATAATG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.45
Consensus pattern (91 bp):
AATTTCCATATCAAATATTAACTTTGCCTTCATAAGAATCATTTATCTAACTCATTTTTCAAATT
TCTAGTCAATTCACTATATCCGCTTC
Found at i:15313428 original size:15 final size:15
Alignment explanation
Indices: 15313408--15313437 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15313398 AAATAGGCAA
15313408 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
15313423 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
15313438 AACGAATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
GAAGAAGGAAAAGAG
Found at i:15324188 original size:50 final size:50
Alignment explanation
Indices: 15324060--15324306 Score: 219
Period size: 50 Copynumber: 4.8 Consensus size: 50
15324050 GATAATAACA
* * * ** * * *
15324060 TGCCAAAGCTATGTCCCATACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
15324109 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
15324159 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** * *
15324209 TGCCAACACCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
15324265 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15324307 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 79 0.50
53 2 0.01
56 39 0.25
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:15329006 original size:17 final size:17
Alignment explanation
Indices: 15328984--15329021 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
15328974 ACATGAAAGA
15328984 AATTATGAATCTTTTCC
1 AATTATGAATCTTTTCC
15329001 AATTATGAATCTTTTCC
1 AATTATGAATCTTTTCC
15329018 AATT
1 AATT
15329022 CTGACAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (17 bp):
AATTATGAATCTTTTCC
Found at i:15344947 original size:10 final size:12
Alignment explanation
Indices: 15344920--15344960 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
15344910 CTCACATGCT
15344920 TGTGTGCTAGGC
1 TGTGTGCTAGGC
*
15344932 TGTGTGCTAGGT
1 TGTGTGCTAGGC
*
15344944 TGTGTACTAGGC
1 TGTGTGCTAGGC
*
15344956 CGTGT
1 TGTGT
15344961 AATAGCCTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.10, C:0.15, G:0.39, T:0.37
Consensus pattern (12 bp):
TGTGTGCTAGGC
Found at i:15346182 original size:25 final size:25
Alignment explanation
Indices: 15346130--15346225 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
15346120 TCATATACAT
* * *
15346130 GTATGCTCATACGAGCTAT-GAATTA
1 GTATGCTCACACGAGCTGTAG-ATCA
*
15346155 GTATGCTCACTCGAGCTGTAGATCA
1 GTATGCTCACACGAGCTGTAGATCA
* * * * *
15346180 GTATGCTCTCACGTGCTATAAATCG
1 GTATGCTCACACGAGCTGTAGATCA
*
15346205 GTATGCTCACACAAGCTGTAG
1 GTATGCTCACACGAGCTGTAG
15346226 GTCAAAGTGT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 54 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAGATCA
Found at i:15348205 original size:21 final size:21
Alignment explanation
Indices: 15348165--15348216 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
15348155 ATTAACCTGA
*
15348165 GATTT-TTTTCGTTCTTTTTC
1 GATTTCTTTTTGTTCTTTTTC
15348185 GATTTCTTTTTGTT-TTCTTTC
1 GATTTCTTTTTGTTCTT-TTTC
*
15348206 AATTTCTTTTT
1 GATTTCTTTTT
15348217 NNNNNNNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.08, C:0.13, G:0.08, T:0.71
Consensus pattern (21 bp):
GATTTCTTTTTGTTCTTTTTC
Found at i:15355759 original size:23 final size:23
Alignment explanation
Indices: 15355703--15355762 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
15355693 AGGTTTAACC
* *
15355703 GCATATCTACTAGTAGTTTATCT
1 GCATATCTACTGGTAGTTCATCT
* *
15355726 GTA-ACTTTACTGGTAGTTCATCT
1 GCATA-TCTACTGGTAGTTCATCT
15355749 GCATATCTACTGGT
1 GCATATCTACTGGT
15355763 GGTATATCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (23 bp):
GCATATCTACTGGTAGTTCATCT
Found at i:15357100 original size:15 final size:15
Alignment explanation
Indices: 15357080--15357108 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15357070 AAAAGCGAGA
15357080 AAAGTTTTGTTACCT
1 AAAGTTTTGTTACCT
15357095 AAAGTTTTGTTACC
1 AAAGTTTTGTTACC
15357109 CAATAGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (15 bp):
AAAGTTTTGTTACCT
Found at i:15359291 original size:67 final size:67
Alignment explanation
Indices: 15359183--15359313 Score: 244
Period size: 67 Copynumber: 2.0 Consensus size: 67
15359173 GTAATTGTCG
*
15359183 TTGCAGAGGATTTAGCTTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTGCAGAGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
15359248 TC
66 TC
*
15359250 TTGCAGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCT
1 TTGCAGAGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCT
15359314 TTCTGAATTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (67 bp):
TTGCAGAGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
TC
Found at i:15367591 original size:24 final size:26
Alignment explanation
Indices: 15367554--15367602 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
15367544 TAGGATATAT
15367554 ATATATATATATATTATTTT-TTAAA
1 ATATATATATATATTATTTTATTAAA
*
15367579 ATATA-ATTTATATTATTTTATTAA
1 ATATATATATATATTATTTTATTAA
15367603 TCTCGTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATATATATATATATTATTTTATTAAA
Found at i:15369715 original size:95 final size:97
Alignment explanation
Indices: 15369559--15369746 Score: 362
Period size: 95 Copynumber: 2.0 Consensus size: 97
15369549 CTAAACACCG
15369559 CGCACCGCACCCAATCGCTCATCCAAACCCACCCTTAGTAATTAAAAAAAAACTGACATGCGATC
1 CGCACCGCACCCAATCGCTCATCCAAACCCACCCTTAGTAATTAAAAAAAAACTGACATGCGATC
15369624 TTATTCATGTCCC-AA-CCCTCAAACGCGCAC
66 TTATTCATGTCCCAAAGCCCTCAAACGCGCAC
15369654 CGCACCGCACCCAATCGCTCATCCAAACCCACCCTTAGTAATTAAAAAAAAACTGACATGCGATC
1 CGCACCGCACCCAATCGCTCATCCAAACCCACCCTTAGTAATTAAAAAAAAACTGACATGCGATC
15369719 TTATTCATGTCCCAAAGCCCTCAAACGC
66 TTATTCATGTCCCAAAGCCCTCAAACGC
15369747 ACATCAAGCG
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
95 78 0.86
96 2 0.02
97 11 0.12
ACGTcount: A:0.34, C:0.36, G:0.11, T:0.19
Consensus pattern (97 bp):
CGCACCGCACCCAATCGCTCATCCAAACCCACCCTTAGTAATTAAAAAAAAACTGACATGCGATC
TTATTCATGTCCCAAAGCCCTCAAACGCGCAC
Found at i:15371418 original size:9 final size:9
Alignment explanation
Indices: 15371406--15371433 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
15371396 TTTTATTACA
15371406 ACAATTAAT
1 ACAATTAAT
15371415 ACAATTAAT
1 ACAATTAAT
15371424 ACAATTAAT
1 ACAATTAAT
15371433 A
1 A
15371434 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:15371460 original size:68 final size:68
Alignment explanation
Indices: 15371351--15371517 Score: 311
Period size: 68 Copynumber: 2.5 Consensus size: 68
15371341 CCGGGCCTCG
15371351 TTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
1 TTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
15371416 CAA
66 CAA
15371419 TTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
1 TTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
15371484 CAA
66 CAA
*
15371487 TT-A-ACAATTAATAATTTGATAATTTTACTAA
1 TTAATACAATTAATAATTTGATAAATTTACTAA
15371518 CAATTAGTTT
Statistics
Matches: 98, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
66 27 0.28
67 1 0.01
68 70 0.71
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (68 bp):
TTAATACAATTAATAATTTGATAAATTTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
CAA
Found at i:15371531 original size:22 final size:23
Alignment explanation
Indices: 15371496--15371558 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
15371486 ATTAACAATT
*
15371496 AATAATTTGATAATTTTACT-AACA
1 AATAATTT--TAATTTTACTAAAAA
* * *
15371520 ATTAGTTTTAATTTTATTAAAAA
1 AATAATTTTAATTTTACTAAAAA
15371543 AATAATTTTAATTTTA
1 AATAATTTTAATTTTA
15371559 ATTAAAAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 9 0.28
23 17 0.53
24 6 0.19
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
AATAATTTTAATTTTACTAAAAA
Found at i:15374668 original size:265 final size:263
Alignment explanation
Indices: 15374197--15374724 Score: 826
Period size: 265 Copynumber: 2.0 Consensus size: 263
15374187 CACCTTTTCT
* * *
15374197 TATGAACAGAATTACTATCACCGTAATAGTCGTGCCCACGACTCGTGACAAGCTTGCTAAAAAAA
1 TATGAACAGAATTACTATCACAGTAATAGTCCTACCCACGACTCGTGACAAGCTTGCTAAAAAAA
* * *
15374262 AGAAGTAAAATAAATAAGGAGGGGATGAAAATGTTTGGGAAGTCAATAAAATGTAATAGTAGCAA
66 AGAAATAAAATAAATAAGGAGGGAATGAAAATGTTTGGGAAGTAAATAAAATGTAATAGTAGCAA
* * * *
15374327 ATAAAAATTATATTAATCGTAAATAAAATAAGTAAATGGAGTTTAACTTCATAAGCAATAATATA
131 ATAAAAATTATATTAATCGAAAACAAAATAAGTAAATAGAGTTGAACTTCATAAGCAATAATATA
*
15374392 AAGTCTTAGCCTTAAACTAGGTTAATTTTAGTTCTAAATCGATCCTTGAAAATGAGTTTTCTCCT
196 AAGTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCCTTGAAAATGAGTTTTCTCCT
15374457 CCA
261 CCA
*
15374460 TATGAACAGAATTACTGTCACAGTAATAGTCCTACCCACGACTCGTG-CTAAGCTTGCTGAAAAA
1 TATGAACAGAATTACTATCACAGTAATAGTCCTACCCACGACTCGTGAC-AAGCTTGCT--AAAA
15374524 TAAAAGAAATAAAATAAATAAGG-GGGAATGAAAATGTTTGGGAAGTAAATAAAATGTAATAGTA
63 -AAAAGAAATAAAATAAATAAGGAGGGAATGAAAATGTTTGGGAAGTAAATAAAATGTAATAGTA
* * *
15374588 GCAAATAACAATTATATTAATCGAAAACAAAATAAGTAAATAGAGTTGGACTTCGTAAGCAATAA
127 GCAAATAAAAATTATATTAATCGAAAACAAAATAAGTAAATAGAGTTGAACTTCATAAGCAATAA
* * * *
15374653 TATAAAGTCTTAGCCTTAGACTCGGTTAATTCTGGTTCTGAATCGATCCTTGAAAATGAGTTTTC
192 TATAAAGTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCCTTGAAAATGAGTTTTC
*
15374718 TCTTCCA
257 TCCTCCA
15374725 CACCATAAGC
Statistics
Matches: 241, Mismatches: 20, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
262 1 0.00
263 52 0.22
265 167 0.69
266 21 0.09
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (263 bp):
TATGAACAGAATTACTATCACAGTAATAGTCCTACCCACGACTCGTGACAAGCTTGCTAAAAAAA
AGAAATAAAATAAATAAGGAGGGAATGAAAATGTTTGGGAAGTAAATAAAATGTAATAGTAGCAA
ATAAAAATTATATTAATCGAAAACAAAATAAGTAAATAGAGTTGAACTTCATAAGCAATAATATA
AAGTCTTAGCCTTAAACTAGGTTAATTCTAGTTCTAAATCGATCCTTGAAAATGAGTTTTCTCCT
CCA
Found at i:15378920 original size:26 final size:25
Alignment explanation
Indices: 15378891--15378953 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
15378881 TCTTGTATAC
*
15378891 ATTAATATTATTAAGATAAGTATTAA
1 ATTAATATTATTAAGA-AACTATTAA
**
15378917 ATTAA-ATTTATTATTAAACTATTAA
1 ATTAATA-TTATTAAGAAACTATTAA
*
15378942 AATAATATTATT
1 ATTAATATTATT
15378954 TTTGGAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 18 0.58
26 13 0.42
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (25 bp):
ATTAATATTATTAAGAAACTATTAA
Found at i:15379967 original size:23 final size:23
Alignment explanation
Indices: 15379941--15379987 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15379931 AGGATATCAT
15379941 TAACTCTTTAATTGAGCTATGAA
1 TAACTCTTTAATTGAGCTATGAA
15379964 TAACTCTTTAATTGAGCTATGAA
1 TAACTCTTTAATTGAGCTATGAA
15379987 T
1 T
15379988 TCCACTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (23 bp):
TAACTCTTTAATTGAGCTATGAA
Found at i:15385291 original size:15 final size:15
Alignment explanation
Indices: 15385271--15385299 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15385261 CTTTTTTCCT
15385271 TCTTATTTCCCTTTA
1 TCTTATTTCCCTTTA
15385286 TCTTATTTCCCTTT
1 TCTTATTTCCCTTT
15385300 TTTCCTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (15 bp):
TCTTATTTCCCTTTA
Found at i:15385991 original size:31 final size:31
Alignment explanation
Indices: 15385953--15386014 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
15385943 GAGAAAAAGA
15385953 AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
1 AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
15385984 AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
1 AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
15386015 TGAAGGAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (31 bp):
AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
Found at i:15386949 original size:22 final size:22
Alignment explanation
Indices: 15386913--15386972 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
15386903 GGCCCGGCCC
*
15386913 ATTT-TTTTAATAAATATCAAAA
1 ATTTATTTTAA-AAATATAAAAA
15386935 ATTTATTTTAAAAAT-TAAAAA
1 ATTTATTTTAAAAATATAAAAA
** *
15386956 AAGTATTTTTAAAATAT
1 ATTTATTTTAAAAATAT
15386973 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 17 0.53
22 9 0.28
23 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTATTTTAAAAATATAAAAA
Found at i:15386996 original size:39 final size:40
Alignment explanation
Indices: 15386944--15387028 Score: 127
Period size: 39 Copynumber: 2.1 Consensus size: 40
15386934 AATTTATTTT
* **
15386944 AAAAATTAAAAAAAGTATTTTTAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAA
*
15386984 AAAAATT-TAAAAAGTATGTAAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAA
15387023 AAAAAT
1 AAAAAT
15387029 AAATATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.83
40 7 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATGTAAAAAATATTTTAAAATTAA
Found at i:15388625 original size:77 final size:77
Alignment explanation
Indices: 15388498--15388659 Score: 315
Period size: 77 Copynumber: 2.1 Consensus size: 77
15388488 TGAGACAATC
15388498 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
*
15388563 CAAGTTCAGTTA
66 CAAGTTCAATTA
15388575 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
15388640 CAAGTTCAATTA
66 CAAGTTCAATTA
15388652 TTAAAGTG
1 TTAAAGTG
15388660 GACAAAAAAG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 84 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (77 bp):
TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
CAAGTTCAATTA
Found at i:15388976 original size:17 final size:18
Alignment explanation
Indices: 15388942--15388978 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
15388932 NNNNTAAGAA
15388942 TTTTATTAAATTAGATATT
1 TTTTATTAAATTA-ATATT
15388961 TTTTATTAAATT-ATATT
1 TTTTATTAAATTAATATT
15388978 T
1 T
15388979 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTATTAAATTAATATT
Found at i:15388990 original size:24 final size:24
Alignment explanation
Indices: 15388962--15389040 Score: 69
Period size: 26 Copynumber: 3.4 Consensus size: 24
15388952 TTAGATATTT
15388962 TTTATTAAATTATATTTAATAATAA
1 TTTATTAAATTATATTTAATAAT-A
* *
15388987 TTATTTTAAATTAT-TATTAA-ATTA
1 TT-TATTAAATTATAT-TTAATAATA
*
15389011 TTTATT-ATTTATA-TTAATAAT-
1 TTTATTAAATTATATTTAATAATA
15389032 TTTATTAAA
1 TTTATTAAA
15389041 ATTTAATAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
21 10 0.23
22 8 0.19
23 3 0.07
24 3 0.07
25 5 0.12
26 14 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTATTAAATTATATTTAATAATA
Found at i:15389008 original size:11 final size:11
Alignment explanation
Indices: 15388985--15389017 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
15388975 ATTTAATAAT
15388985 AATTATT-TTA
1 AATTATTATTA
15388995 AATTATTATTA
1 AATTATTATTA
15389006 AATTATTTATTA
1 AATTA-TTATTA
15389018 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:15389221 original size:45 final size:44
Alignment explanation
Indices: 15389140--15389229 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
15389130 GCCTCTATTC
15389140 CATTCAACCAAACACAGGAATACTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAGGAATACTATTACACCTCTATTCCATTA
* * *
15389184 CATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-GGAA-TACTATTACACCTCTATTCCATTA
15389229 C
1 C
15389230 GCCTCTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 17 0.41
45 23 0.56
ACGTcount: A:0.36, C:0.29, G:0.06, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAGGAATACTATTACACCTCTATTCCATTA
Found at i:15389230 original size:16 final size:16
Alignment explanation
Indices: 15389209--15389277 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
15389199 TTGAATTGCT
15389209 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
15389225 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
**
15389241 ATTACATCTCTATTCC
1 ATTACGCCTCTATTCC
*
15389257 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
15389273 ATTAC
1 ATTAC
15389278 AGCAAACCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.22, C:0.33, G:0.04, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:15392643 original size:16 final size:15
Alignment explanation
Indices: 15392622--15392651 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15392612 ATATAAATAA
15392622 ATAAATAAATATTTAT
1 ATAAATAAA-ATTTAT
15392638 ATAAATAAAATTTA
1 ATAAATAAAATTTA
15392652 AATGGAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATAAAATTTAT
Found at i:15393685 original size:52 final size:52
Alignment explanation
Indices: 15393586--15393699 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 52
15393576 GACTCAATGG
** * **
15393586 GGTCAATGTTGCAACAAGCACTTGTTATGGTCATGACACAGACCAACAATAA
1 GGTCAATGTCACAACAAGCACTTATTATGGTCACAACACAGACCAACAATAA
* * * * *
15393638 GGTCAATGTCACAACAAGCACTTATTGTGGTCGCAACACGGATCAACAGTAA
1 GGTCAATGTCACAACAAGCACTTATTATGGTCACAACACAGACCAACAATAA
*
15393690 GGTCAGTGTC
1 GGTCAATGTC
15393700 GTGACATACA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (52 bp):
GGTCAATGTCACAACAAGCACTTATTATGGTCACAACACAGACCAACAATAA
Found at i:15400253 original size:37 final size:37
Alignment explanation
Indices: 15400210--15400329 Score: 109
Period size: 36 Copynumber: 3.2 Consensus size: 37
15400200 CCACCTTCAT
** *
15400210 CCGATTTGCTTCCTTGTTTCATTACTTTTCTTTTCTG
1 CCGATTTGCTTCCCAGTTTCATTTCTTTTCTTTTCTG
* **
15400247 CCGATTTG-GTCCCAGTTT-ATTTTCTTGCCTTTTCTG
1 CCGATTTGCTTCCCAGTTTCA-TTTCTTTTCTTTTCTG
* * * * *
15400283 CCGATTTGCTCCCCCGATTCTTTTCTTTTCTATTTCGG
1 CCGATTTGCTTCCCAGTTTCATTTCTTTTCT-TTTCTG
15400321 CCGATTTGC
1 CCGATTTGC
15400330 GTTATCGGTT
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
35 1 0.02
36 28 0.43
37 22 0.34
38 14 0.22
ACGTcount: A:0.08, C:0.28, G:0.14, T:0.50
Consensus pattern (37 bp):
CCGATTTGCTTCCCAGTTTCATTTCTTTTCTTTTCTG
Found at i:15400326 original size:38 final size:36
Alignment explanation
Indices: 15400234--15400329 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
15400224 TGTTTCATTA
* *
15400234 CTTTTCTTTTCTGCCGATTTGGTCCCAGTTTATTTT
1 CTTTTCTTTTCTGCCGATTTGCTCCCAGATTATTTT
** * *
15400270 CTTGCCTTTTCTGCCGATTTGCTCCCCCGATTCTTTT
1 CTTTTCTTTTCTGCCGATTTGCT-CCCAGATTATTTT
*
15400307 CTTTTCTATTTCGGCCGATTTGC
1 CTTTTCT-TTTCTGCCGATTTGC
15400330 GTTATCGGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 20 0.41
37 15 0.31
38 14 0.29
ACGTcount: A:0.07, C:0.28, G:0.15, T:0.50
Consensus pattern (36 bp):
CTTTTCTTTTCTGCCGATTTGCTCCCAGATTATTTT
Found at i:15405543 original size:154 final size:154
Alignment explanation
Indices: 15405263--15405572 Score: 550
Period size: 154 Copynumber: 2.0 Consensus size: 154
15405253 CAAACACAAA
* *
15405263 ATGTAAGTGTTACATCTAAAATCTAGGTTAATAGAAATTGAGTTAATGAATTGAGAGTGGTCACG
1 ATGTAAGTGTTACATCTAAAATCTAAGTTAATAAAAATTGAGTTAATGAATTGAGAGTGGTCACG
* *
15405328 CCAAAAAATTTTTATATGATTTTTTACTCATTTTATAATAAATAAGTATCAAGTGTAGTAGTTGA
66 CCAAAAAATTTTTAGATGATTTTTTACTCATTTTATAATAAATAAATATCAAGTGTAGTAGTTGA
15405393 GCAGTAGTGGTGTTGTCATTGATG
131 GCAGTAGTGGTGTTGTCATTGATG
*
15405417 ATGTAAGTGTTACATCTAAAATCTAAGTTAATAAAAATTGGGTTAATGAATTGAGAGTGGTCACG
1 ATGTAAGTGTTACATCTAAAATCTAAGTTAATAAAAATTGAGTTAATGAATTGAGAGTGGTCACG
*
15405482 CTC-AAAATTTTTTAGATGATTTTTTACTCATTTTATAATAAATAAATATCAAGTGTAGTAGTTG
66 C-CAAAAAATTTTTAGATGATTTTTTACTCATTTTATAATAAATAAATATCAAGTGTAGTAGTTG
15405546 AGCAGTAGTGGTGTTGTCATTGATG
130 AGCAGTAGTGGTGTTGTCATTGATG
15405571 AT
1 AT
15405573 CTGTGCTCAA
Statistics
Matches: 149, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
154 148 0.99
155 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.38
Consensus pattern (154 bp):
ATGTAAGTGTTACATCTAAAATCTAAGTTAATAAAAATTGAGTTAATGAATTGAGAGTGGTCACG
CCAAAAAATTTTTAGATGATTTTTTACTCATTTTATAATAAATAAATATCAAGTGTAGTAGTTGA
GCAGTAGTGGTGTTGTCATTGATG
Found at i:15414893 original size:80 final size:80
Alignment explanation
Indices: 15414689--15415052 Score: 376
Period size: 80 Copynumber: 4.6 Consensus size: 80
15414679 CGTTACGCCC
* * * * * * ***
15414689 GATAAGTTCACCGGCACAAAGCGTGCTAGGTAAAAAGCCCTATAA-TCACACTAGCATTTAGCCT
1 GATAAATTCACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATAACT-ACACCAGCACAAAGCCT
* *
15414753 ACTAAGCACTAA--TT
65 GCTAAACACTAAGCTT
* *
15414767 GATAAATTCACCAGCACAAAGCCCTGCTAGGCACAAAGCCCGATAACTACACCGGCACAAAGCCT
1 GATAAATTCACCGGCACAAAG-CCTGCTAGGCACAAAGCCCGATAACTACACCAGCACAAAGCCT
15414832 GCTAAACACTAAGCTT
65 GCTAAACACTAAGCTT
* ** * *
15414848 GATAAATTCATCGGCACAAAGCCTGCTAGGCACAAAGCCTTATAACTACACCATCACAAAGCTTG
1 GATAAATTCACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATAACTACACCAGCACAAAGCCTG
*
15414913 CTAAACATTAAGCTT
66 CTAAACACTAAGCTT
* * * * * * * *
15414928 GATAAATTCACCAGCACGAAGCCTGGTGGGCACAGAGCTCGATAAATACAGC-GACACAAAGCCT
1 GATAAATTCACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATAACTACACCAG-CACAAAGCCT
* *
15414992 GTTAAGCACTAAGCTT
65 GCTAAACACTAAGCTT
* * * *
15415008 GATAAATTCATCGGCACAAAACCTGTTAGGCACAAAGTCCGATAA
1 GATAAATTCACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATAA
15415053 TTTCATAACA
Statistics
Matches: 235, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
78 19 0.08
79 42 0.18
80 153 0.65
81 21 0.09
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (80 bp):
GATAAATTCACCGGCACAAAGCCTGCTAGGCACAAAGCCCGATAACTACACCAGCACAAAGCCTG
CTAAACACTAAGCTT
Found at i:15415035 original size:40 final size:40
Alignment explanation
Indices: 15414748--15415032 Score: 236
Period size: 40 Copynumber: 7.2 Consensus size: 40
15414738 ACTAGCATTT
* *
15414748 AGCCTACTAAGCACTAA--TTGATAAATTCACCAGCACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATTCACCGGCACAA
* * ** * *
15414786 AGCCCTGCTAGGCACAAAGCCCGATAACTACACCGGCACAA
1 AG-CCTGCTAAGCACTAAGCTTGATAAATTCACCGGCACAA
* *
15414827 AGCCTGCTAAACACTAAGCTTGATAAATTCATCGGCACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATTCACCGGCACAA
* * * * **
15414867 AGCCTGCTAGGCACAAAGCCTT-ATAACTACACCATCACAA
1 AGCCTGCTAAGCACTAAG-CTTGATAAATTCACCGGCACAA
* * * * *
15414907 AGCTTGCTAAACATTAAGCTTGATAAATTCACCAGCACGA
1 AGCCTGCTAAGCACTAAGCTTGATAAATTCACCGGCACAA
* ** * * * *
15414947 AGCCTGGTGGGCAC-AGAGCTCGATAAATACAGCGACACAA
1 AGCCTGCTAAGCACTA-AGCTTGATAAATTCACCGGCACAA
* *
15414987 AGCCTGTTAAGCACTAAGCTTGATAAATTCATCGGCACAA
1 AGCCTGCTAAGCACTAAGCTTGATAAATTCACCGGCACAA
*
15415027 AACCTG
1 AGCCTG
15415033 TTAGGCACAA
Statistics
Matches: 187, Mismatches: 53, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
38 2 0.01
39 16 0.09
40 147 0.79
41 22 0.12
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (40 bp):
AGCCTGCTAAGCACTAAGCTTGATAAATTCACCGGCACAA
Found at i:15415052 original size:40 final size:40
Alignment explanation
Indices: 15414957--15415058 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
15414947 AGCCTGGTGG
* * * *
15414957 GCACAGAGCTCGATAAATACAGCGACACAAAGCCTGTTAA
1 GCACAAAGCTCGATAAATTCATCGACACAAAACCTGTTAA
* * * *
15414997 GCACTAAGCTTGATAAATTCATCGGCACAAAACCTGTTAG
1 GCACAAAGCTCGATAAATTCATCGACACAAAACCTGTTAA
*
15415037 GCACAAAG-TCCGATAATTTCAT
1 GCACAAAGCT-CGATAAATTCAT
15415059 AACATACCAA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
39 1 0.02
40 49 0.98
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (40 bp):
GCACAAAGCTCGATAAATTCATCGACACAAAACCTGTTAA
Found at i:15418142 original size:24 final size:24
Alignment explanation
Indices: 15418115--15418161 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
15418105 GAGGAAAAAT
*
15418115 TGGTGGCTTCATCCACGACCTACG
1 TGGTGGCTTCATCCACAACCTACG
*
15418139 TGGTGGCTTCCTCCACAACCTAC
1 TGGTGGCTTCATCCACAACCTAC
15418162 ATGGCAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.36, G:0.21, T:0.26
Consensus pattern (24 bp):
TGGTGGCTTCATCCACAACCTACG
Found at i:15418171 original size:24 final size:24
Alignment explanation
Indices: 15418120--15418171 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
15418110 AAAATTGGTG
* * **
15418120 GCTTCATCCACGACCTACGTGGTG
1 GCTTCATCCACAACCTACATGGCA
*
15418144 GCTTCCTCCACAACCTACATGGCA
1 GCTTCATCCACAACCTACATGGCA
15418168 GCTT
1 GCTT
15418172 ATCTGTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.25
Consensus pattern (24 bp):
GCTTCATCCACAACCTACATGGCA
Found at i:15419864 original size:24 final size:24
Alignment explanation
Indices: 15419836--15419910 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
15419826 GAAGAAGAAT
* *
15419836 TGGTGGCTTTGTCCACAACCTACG
1 TGGTGGCTTCGTCCACAACCTACA
* *
15419860 TGGTGGCTTCCTCCACGACCTACA
1 TGGTGGCTTCGTCCACAACCTACA
*
15419884 TGGTGGCTTCGTTCACAACCTACA
1 TGGTGGCTTCGTCCACAACCTACA
15419908 TGG
1 TGG
15419911 CAGCTTATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.17, C:0.31, G:0.24, T:0.28
Consensus pattern (24 bp):
TGGTGGCTTCGTCCACAACCTACA
Found at i:15420130 original size:15 final size:15
Alignment explanation
Indices: 15420107--15420150 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
15420097 ATGTGTTTAC
15420107 TTGTTATTTAACTTA
1 TTGTTATTTAACTTA
*
15420122 TTTTTATTTAACTTA
1 TTGTTATTTAACTTA
15420137 TTGTTATTTAACTT
1 TTGTTATTTAACTT
15420151 GTTATAAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (15 bp):
TTGTTATTTAACTTA
Found at i:15426160 original size:37 final size:37
Alignment explanation
Indices: 15426110--15426184 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
15426100 AACAAAATGT
15426110 CTCTTCCAAATTATCATCTCGAGCCATCCTGAACTAG
1 CTCTTCCAAATTATCATCTCGAGCCATCCTGAACTAG
15426147 CTCTTCCAAATTATCATCTCGAGCCATCCTGAACTAG
1 CTCTTCCAAATTATCATCTCGAGCCATCCTGAACTAG
15426184 C
1 C
15426185 CAACTTCCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (37 bp):
CTCTTCCAAATTATCATCTCGAGCCATCCTGAACTAG
Found at i:15426453 original size:3 final size:3
Alignment explanation
Indices: 15426445--15426498 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
15426435 AGGCAAGCAA
15426445 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA- GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
15426492 AGAT GAT
1 -GAT GAT
15426499 TTTGGGTAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:15427358 original size:57 final size:56
Alignment explanation
Indices: 15427289--15427400 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 56
15427279 AATGTTGTTT
15427289 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACCAAAAAAAAAAAAGATTCAAAA
1 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACC-AAAAAAAAAAAGATTCAAAA
*
15427346 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACCAAAAAGAAAAAGATTCAAA
1 CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACCAAAAAAAAAAAGATTCAAA
15427401 TCTTGTTATT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 18 0.33
57 36 0.67
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (56 bp):
CTGGTTAAGTGTAATTGACTCCATTTTCTTTCTACCAAAAAAAAAAAGATTCAAAA
Found at i:15430635 original size:18 final size:20
Alignment explanation
Indices: 15430588--15430645 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 20
15430578 TTTTAACTTA
15430588 ATTTAAATT-TAATTAAATT
1 ATTTAAATTATAATTAAATT
15430607 ATTTAAA--ATAATT-AATT
1 ATTTAAATTATAATTAAATT
*
15430624 -TTTAAATTATAAATAAA-T
1 ATTTAAATTATAATTAAATT
15430642 ATTT
1 ATTT
15430646 TTTTCTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
16 6 0.18
17 4 0.12
18 11 0.33
19 12 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAAATTATAATTAAATT
Found at i:15435865 original size:81 final size:81
Alignment explanation
Indices: 15435730--15435894 Score: 276
Period size: 81 Copynumber: 2.0 Consensus size: 81
15435720 AAATAAGTAA
* * * *
15435730 TTTTAATCAATTAACCACTTTTAGTGTTCAATTTAATCCACATTTCATATTTATGTAAAATTATC
1 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGTAAAATTACC
*
15435795 AATTTACCCCTAACAT
66 AATTTACCCCAAACAT
15435811 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGTAAAATTACC
1 TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGTAAAATTACC
*
15435876 AATTTACCCCAAATAT
66 AATTTACCCCAAACAT
15435892 TTT
1 TTT
15435895 AACTTTTTCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (81 bp):
TTTTAATCAATTAACCACTTCTAGTATTCAATTTAATCAACATTTCATATTTATGTAAAATTACC
AATTTACCCCAAACAT
Found at i:15437539 original size:37 final size:37
Alignment explanation
Indices: 15437477--15437557 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 37
15437467 CTTAATCACT
15437477 TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
*
15437514 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAA-TA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAAGTA
15437550 -TAATATTA
1 TTAATATTA
15437558 TAATCTGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
35 3 0.08
36 12 0.30
37 23 0.57
38 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
Found at i:15445017 original size:59 final size:61
Alignment explanation
Indices: 15444944--15445060 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
15444934 ATCACTTTAG
* * * *
15444944 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAGTTTAATATTAAATCT
1 TATTAAAATAATATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
* *
15445003 TATTAAAATGATATAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
15445061 GATAATCAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 19 0.39
61 1 0.02
62 29 0.59
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:15447997 original size:11 final size:11
Alignment explanation
Indices: 15447981--15448034 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
15447971 TTTTTTTTAA
15447981 ACCACCACTGG
1 ACCACCACTGG
*
15447992 ACCACCACTGA
1 ACCACCACTGG
** *
15448003 ACCACTGCCGG
1 ACCACCACTGG
*
15448014 ACCACCACCGTG
1 ACCACCACTG-G
15448026 ACCACCACT
1 ACCACCACT
15448035 CTCTTTCTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 25 0.74
12 9 0.26
ACGTcount: A:0.28, C:0.48, G:0.15, T:0.09
Consensus pattern (11 bp):
ACCACCACTGG
Found at i:15452674 original size:45 final size:45
Alignment explanation
Indices: 15452610--15452699 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
15452600 AAGACAATTG
*
15452610 GTTAATGCGTCTAACCTTCCTCTATCAAGTGACTAGATTTTTTTA
1 GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTTTA
* *
15452655 GTTAATGCGTTTAACCTTCCCCTATCAAGTGACTGGATTTTTTTA
1 GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTTTA
15452700 CACACTAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (45 bp):
GTTAATGCGTCTAACCTTCCCCTATCAAGTGACTAGATTTTTTTA
Found at i:15454782 original size:3 final size:3
Alignment explanation
Indices: 15454774--15454807 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
15454764 ATATGTAGGT
15454774 ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
15454808 CAAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:15455204 original size:21 final size:21
Alignment explanation
Indices: 15455178--15455255 Score: 138
Period size: 21 Copynumber: 3.7 Consensus size: 21
15455168 AATCATATCT
*
15455178 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
15455199 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
15455220 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
15455241 TCTAAGATTGTATAT
1 TCTAAGATTGCATAT
15455256 CCTCGAAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:15456023 original size:132 final size:131
Alignment explanation
Indices: 15455786--15456062 Score: 430
Period size: 132 Copynumber: 2.1 Consensus size: 131
15455776 TCCACTGCAA
* * *
15455786 CTTCAACCTACTCCGCTGCTGCTCAGTGAGATAAGACTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTGGTGGCTTAAATCTGCTT-CCACTAT
**
15455851 CTTGGAAAGATAAGATTTGTCGACTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTACA
65 CTTGGAAAGATAAGATTTACCGACTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTACA
15455916 AT
130 AT
* * *
15455918 CTTCAACCTTCTCTGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTT-CACTATC
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTGGTGGCTTAAATCTGCTTCCACTATC
* *
15455982 TTGGGGAAAGATAATATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTAC
66 TT--GGAAAGATAAGATTTACCGACTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTAC
15456047 AAT
129 AAT
15456050 CTTCAACCTTCTC
1 CTTCAACCTTCTC
15456063 NNNNNNNNNN
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
130 9 0.07
132 124 0.93
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (131 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTGGTGGCTTAAATCTGCTTCCACTATC
TTGGAAAGATAAGATTTACCGACTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTACAA
T
Found at i:15456735 original size:132 final size:132
Alignment explanation
Indices: 15456498--15456794 Score: 477
Period size: 132 Copynumber: 2.2 Consensus size: 132
15456488 NNNNNNNNNN
* *
15456498 CTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGA
1 CTCCGCTGCTGCTCAGGGAGACAAGGATTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGA
*
15456563 TAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
66 TAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
15456628 TT
131 TT
* * *
15456630 CTCCGCTGTTGCTCAGAGAGACAAGGATTTGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGA
1 CTCCGCTGCTGCTCAGGGAGACAAGGATTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGA
** * * * *
15456695 TAAGATTTTTCATCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACG
66 TAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
15456760 TT
131 TT
*
15456762 CTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
1 CTCCGCTGCTGCTCAGGGAGACAAGGATTGGTG
15456795 TTTCACCGGT
Statistics
Matches: 149, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 149 1.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (132 bp):
CTCCGCTGCTGCTCAGGGAGACAAGGATTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGA
TAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
TT
Found at i:15458034 original size:22 final size:22
Alignment explanation
Indices: 15458008--15458060 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
15457998 TCTCCTTTTG
15458008 TTTTTCTTTTCCTT-TTTCTTT
1 TTTTTCTTTTCCTTCTTTCTTT
*
15458029 CTTTTTCTTTTCTTTCTTTCTTT
1 -TTTTTCTTTTCCTTCTTTCTTT
15458052 TTTTT-TTTT
1 TTTTTCTTTT
15458061 GAAAAATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 18 0.62
23 7 0.24
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTCTTTTCCTTCTTTCTTT
Found at i:15458041 original size:15 final size:16
Alignment explanation
Indices: 15458000--15458047 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
15457990 CCTTGGCCTC
*
15458000 TCCTTTTGTTTTTCTTT
1 TCCTTTT-TCTTTCTTT
15458017 TCCTTTTTCTTTCTTT
1 TCCTTTTTCTTTCTTT
*
15458033 TTC-TTTTCTTTCTTT
1 TCCTTTTTCTTTCTTT
15458048 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 12 0.41
16 10 0.34
17 7 0.24
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (16 bp):
TCCTTTTTCTTTCTTT
Found at i:15458054 original size:15 final size:15
Alignment explanation
Indices: 15458010--15458054 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
15458000 TCCTTTTGTT
*
15458010 TTTCTTTTCCTTTTTC
1 TTTC-TTTCTTTTTTC
15458026 TTTCTTT-TTCTTTTC
1 TTTCTTTCTT-TTTTC
15458041 TTTCTTTCTTTTTT
1 TTTCTTTCTTTTTT
15458055 TTTTTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 19 0.73
16 6 0.23
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTTTCTTTTTTC
Found at i:15458058 original size:19 final size:19
Alignment explanation
Indices: 15458008--15458057 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
15457998 TCTCCTTTTG
15458008 TTTTTCTTTTCCTTTTTCTTTC
1 TTTTTCTTTT-C--TTTCTTTC
15458030 TTTTTCTTTTCTTTCTTTC
1 TTTTTCTTTTCTTTCTTTC
15458049 TTTTT-TTTT
1 TTTTTCTTTT
15458058 TTTGAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.14
19 13 0.46
21 1 0.04
22 10 0.36
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTCTTTCTTTC
Found at i:15462358 original size:52 final size:51
Alignment explanation
Indices: 15462265--15462364 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 51
15462255 ACTTATATAT
15462265 ATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATATACAC
1 ATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATATACAC
* * * *
15462316 ATATAAAATATATTCATGCATTTACT-AAAA-AATGAAATATATAAGTATA
1 ATATAAAATACA-TAATGCATTTA-TGAAAACAAGGAAA-ATATAAATATA
15462365 ATATAAAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
51 17 0.40
52 24 0.57
53 1 0.02
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.30
Consensus pattern (51 bp):
ATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATATACAC
Found at i:15462640 original size:3 final size:3
Alignment explanation
Indices: 15462632--15462671 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
15462622 ATATGTAGGT
*
15462632 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15462672 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15462655 original size:15 final size:12
Alignment explanation
Indices: 15462634--15462685 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
15462624 ATGTAGGTAT
15462634 AATAATAATATATA
1 AATAATAATA-A-A
15462648 ATATAATAATAAA
1 A-ATAATAATAAA
15462661 AATAATAATAACA
1 AATAATAATAA-A
*
15462674 AA-ATTAATAAA
1 AATAATAATAAA
15462685 A
1 A
15462686 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:15463067 original size:21 final size:21
Alignment explanation
Indices: 15463041--15463095 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
15463031 AATCATATCT
15463041 TCTAAAATTGTATATATCATA
1 TCTAAAATTGTATATATCATA
*
15463062 TCTAAAATTG--CATATCATA
1 TCTAAAATTGTATATATCATA
15463081 TCTAAAATTGTATAT
1 TCTAAAATTGTATAT
15463096 CCTCGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (21 bp):
TCTAAAATTGTATATATCATA
Found at i:15463081 original size:24 final size:20
Alignment explanation
Indices: 15463032--15463083 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
15463022 AGATTATAAA
15463032 ATCATATCTTCTAAAATTGT
1 ATCATATCTTCTAAAATTGT
15463052 AT-ATATCATATCTAAAATTGCAT
1 ATCATATC-T-TCTAAAATTG--T
15463075 ATCATATCT
1 ATCATATCT
15463084 AAAATTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.19
20 3 0.11
21 10 0.37
23 4 0.15
24 5 0.19
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.42
Consensus pattern (20 bp):
ATCATATCTTCTAAAATTGT
Found at i:15468096 original size:9 final size:9
Alignment explanation
Indices: 15468082--15468112 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15468072 GGAATTAATT
15468082 TTGAGAGAA
1 TTGAGAGAA
15468091 TTGAGAGAA
1 TTGAGAGAA
*
15468100 TGGAGAGAA
1 TTGAGAGAA
15468109 TTGA
1 TTGA
15468113 ATTTGAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:15468859 original size:21 final size:21
Alignment explanation
Indices: 15468788--15468861 Score: 105
Period size: 21 Copynumber: 3.6 Consensus size: 21
15468778 AAATTGAAAA
*
15468788 TCAATTTGA-TTTGATTTTAT
1 TCAAATTGATTTTGATTTTAT
* *
15468808 TCAAATTTATTTTTATTTTAT
1 TCAAATTGATTTTGATTTTAT
15468829 TCAAATTGATTTTGATTTTAT
1 TCAAATTGATTTTGATTTTAT
*
15468850 TCAAACTGATTT
1 TCAAATTGATTT
15468862 AAAGGCTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 7 0.15
21 40 0.85
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (21 bp):
TCAAATTGATTTTGATTTTAT
Found at i:15469400 original size:17 final size:17
Alignment explanation
Indices: 15469359--15469400 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15469349 AATATGTGTT
*
15469359 TATATTATTTATTTAAA
1 TATATTATTTATATAAA
*
15469376 TATTTTATTTAATATAAA
1 TATATTATTT-ATATAAA
15469394 TA-ATTAT
1 TATATTAT
15469401 AATTATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTATTTATATAAA
Found at i:15469723 original size:130 final size:130
Alignment explanation
Indices: 15469580--15469839 Score: 504
Period size: 130 Copynumber: 2.0 Consensus size: 130
15469570 TTTTGATATT
15469580 TTTTATATAAATAAATTTAATAAAGTTTTTTAAAAATAAATAATAATAATCAATAATTTCAAAAG
1 TTTTATATAAATAAATTTAATAAAGTTTTTTAAAAATAAATAATAATAATCAATAATTTCAAAAG
15469645 ATTTTTCTTAAAATG-TGTTATATAAAAATTTGTTTTTACCTTATAAAAAATTAAATTATTTACA
66 ATTTTTCTTAAAATGTTGTTATAT-AAAATTTGTTTTTACCTTATAAAAAATTAAATTATTTACA
15469709 A
130 A
15469710 TTTTATATAAATAAATTTAATAAAGTTTTTTAAAAATAAATAATAATAATCAATAATTTCAAAAG
1 TTTTATATAAATAAATTTAATAAAGTTTTTTAAAAATAAATAATAATAATCAATAATTTCAAAAG
15469775 ATTTTTCTTAAAATGTTGTTATATAAAATTTGTTTTTACCTTATAAAAAATTAAATTATTTACAA
66 ATTTTTCTTAAAATGTTGTTATATAAAATTTGTTTTTACCTTATAAAAAATTAAATTATTTACAA
15469840 ATTAAATAAA
Statistics
Matches: 129, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
130 121 0.94
131 8 0.06
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (130 bp):
TTTTATATAAATAAATTTAATAAAGTTTTTTAAAAATAAATAATAATAATCAATAATTTCAAAAG
ATTTTTCTTAAAATGTTGTTATATAAAATTTGTTTTTACCTTATAAAAAATTAAATTATTTACAA
Found at i:15470870 original size:7 final size:7
Alignment explanation
Indices: 15470858--15470895 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
15470848 AAGGTAGCAG
15470858 CTCGATC
1 CTCGATC
15470865 CTCGATC
1 CTCGATC
15470872 CTCGATC
1 CTCGATC
15470879 CTCGATC
1 CTCGATC
15470886 CTCGATC
1 CTCGATC
15470893 CTC
1 CTC
15470896 ATGGATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.45, G:0.13, T:0.29
Consensus pattern (7 bp):
CTCGATC
Found at i:15471000 original size:15 final size:15
Alignment explanation
Indices: 15470980--15471010 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15470970 TTAAATGACA
15470980 TGAAAACTATCTTTT
1 TGAAAACTATCTTTT
*
15470995 TGAAAATTATCTTTT
1 TGAAAACTATCTTTT
15471010 T
1 T
15471011 CTATCTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (15 bp):
TGAAAACTATCTTTT
Found at i:15471412 original size:17 final size:17
Alignment explanation
Indices: 15471390--15471423 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15471380 CTCCAAAGTC
*
15471390 TCTATTTATAGGTATAA
1 TCTATTTATAGGCATAA
15471407 TCTATTTATAGGCATAA
1 TCTATTTATAGGCATAA
15471424 GAAGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (17 bp):
TCTATTTATAGGCATAA
Found at i:15473394 original size:23 final size:23
Alignment explanation
Indices: 15473368--15473411 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
15473358 CCATTACACA
*
15473368 GCTCTTAGTGATCTTCCCGATAG
1 GCTCTTAGTGAGCTTCCCGATAG
*
15473391 GCTCTTTGTGAGCTTCCCGAT
1 GCTCTTAGTGAGCTTCCCGAT
15473412 TAAATGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.14, C:0.27, G:0.23, T:0.36
Consensus pattern (23 bp):
GCTCTTAGTGAGCTTCCCGATAG
Found at i:15475308 original size:24 final size:23
Alignment explanation
Indices: 15475252--15475345 Score: 77
Period size: 24 Copynumber: 4.1 Consensus size: 23
15475242 AAATGGGCAA
* *
15475252 CATATACATACCAAATTTAACAG
1 CATATATACACCAAATTTAACAG
*
15475275 CACT-TTTACACCAAAATTTAACAG
1 CA-TATATACACC-AAATTTAACAG
* *
15475299 CATATATACAACAAA--TAGGCAG
1 CATATATACACCAAATTTA-ACAG
* *
15475321 CATATACATACCAAATTTAACAG
1 CATATATACACCAAATTTAACAG
15475344 CA
1 CA
15475346 CTTATATATA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
21 2 0.04
22 15 0.27
23 16 0.29
24 22 0.40
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.24
Consensus pattern (23 bp):
CATATATACACCAAATTTAACAG
Found at i:15476211 original size:42 final size:42
Alignment explanation
Indices: 15476090--15476197 Score: 175
Period size: 41 Copynumber: 2.6 Consensus size: 42
15476080 AGCCCGATAC
15476090 ATTTCACTGGCA-CAAAGCCTGCTAGACATAAAGTCTGAAGTA
1 ATTTCACTGGCATC-AAGCCTGCTAGACATAAAGTCTGAAGTA
*
15476132 A-TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAGTA
1 ATTTCACTGGCATCAAGCCTGCTAGACATAAAGTCTGAAGTA
*
15476173 ATTTCACTGGCATCAACCCTGCTAG
1 ATTTCACTGGCATCAAGCCTGCTAG
15476198 GCATTAAACC
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 38 0.62
42 23 0.38
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATTTCACTGGCATCAAGCCTGCTAGACATAAAGTCTGAAGTA
Found at i:15480065 original size:14 final size:15
Alignment explanation
Indices: 15480031--15480075 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
15480021 ATTAGTCTCC
15480031 AATTATAATAAATAT
1 AATTATAATAAATAT
*
15480046 GA-TATAATAAATA-
1 AATTATAATAAATAT
15480059 AATTATAATAAAATAT
1 AATTATAAT-AAATAT
15480075 A
1 A
15480076 CCTGAGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 17 0.68
15 6 0.24
16 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AATTATAATAAATAT
Found at i:15486243 original size:9 final size:9
Alignment explanation
Indices: 15486229--15486274 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
15486219 GGTTGCAAAA
15486229 AGGACGATG
1 AGGACGATG
15486238 AGGACGATG
1 AGGACGATG
*
15486247 ACGACGATG
1 AGGACGATG
*
15486256 ACGACGATG
1 AGGACGATG
*
15486265 AGGATGATG
1 AGGACGATG
15486274 A
1 A
15486275 TGTTTCTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.39, T:0.13
Consensus pattern (9 bp):
AGGACGATG
Found at i:15486341 original size:22 final size:22
Alignment explanation
Indices: 15486316--15486380 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
15486306 CTTCTAAATA
15486316 TGTTGATGGACAATTTATATTT
1 TGTTGATGGACAATTTATATTT
* *
15486338 TGTT-AT-GA-AA-TTA-AATA
1 TGTTGATGGACAATTTATATTT
15486355 TGTTGATGGACAATTTATATTT
1 TGTTGATGGACAATTTATATTT
15486377 TGTT
1 TGTT
15486381 ATGAAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 4 0.12
20 4 0.12
21 5 0.15
22 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (22 bp):
TGTTGATGGACAATTTATATTT
Found at i:15486349 original size:19 final size:19
Alignment explanation
Indices: 15486327--15486388 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
15486317 GTTGATGGAC
15486327 AATTTATATTTTGTTATGA
1 AATTTATATTTTGTTATGA
* *
15486346 AA-TTA-AATATGTTGATGGA
1 AATTTATATTTTGTT-AT-GA
15486365 CAATTTATATTTTGTTATGA
1 -AATTTATATTTTGTTATGA
15486385 AATT
1 AATT
15486389 CAATATGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 8 0.24
20 4 0.12
21 5 0.15
22 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (19 bp):
AATTTATATTTTGTTATGA
Found at i:15486353 original size:39 final size:39
Alignment explanation
Indices: 15486310--15486403 Score: 179
Period size: 39 Copynumber: 2.4 Consensus size: 39
15486300 GCTTTCCTTC
15486310 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
15486349 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
*
15486388 TCAATATGTTGATGGA
1 TAAATATGTTGATGGA
15486404 TTAATGTATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (39 bp):
TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
Found at i:15486422 original size:39 final size:38
Alignment explanation
Indices: 15486310--15486422 Score: 111
Period size: 39 Copynumber: 2.9 Consensus size: 38
15486300 GCTTTCCTTC
* * *
15486310 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATGTATA-TATATTATGAAAT
* * *
15486349 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATGTATA-TATATTATGAAAT
* *
15486388 TCAATATGTTGATGGATTAATGTATGA-ATATTATG
1 TAAATATGTTGATGGA-CAATGTAT-ATATATTATG
15486423 GTTTGGTGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 60 0.90
40 6 0.09
41 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (38 bp):
TAAATATGTTGATGGACAATGTATATATATTATGAAAT
Found at i:15500051 original size:21 final size:22
Alignment explanation
Indices: 15500011--15500052 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15500001 TAATTTCTCC
* *
15500011 ATAGAATTTTGGATTGAATTGA
1 ATAGAATTATGGATTAAATTGA
15500033 ATAGAATTAT-GATTAAATTG
1 ATAGAATTATGGATTAAATTG
15500053 GTTAAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (22 bp):
ATAGAATTATGGATTAAATTGA
Found at i:15501484 original size:31 final size:31
Alignment explanation
Indices: 15501448--15501540 Score: 186
Period size: 31 Copynumber: 3.0 Consensus size: 31
15501438 AGATAATTTT
15501448 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
15501479 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
15501510 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
15501541 NNNNNNNNNN
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:15509094 original size:3 final size:3
Alignment explanation
Indices: 15509086--15509117 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15509076 AATCTATCCT
15509086 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15509118 TAACTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15509178 original size:33 final size:34
Alignment explanation
Indices: 15509124--15509189 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
15509114 TATTTAACTA
15509124 ATTTTATTTATTCTCGTTTTTATTTCTAATTTGT
1 ATTTTATTTATTCTCGTTTTTATTTCTAATTTGT
15509158 ATTTTATTTATTCTCG-TTTTATTTCTAATTTG
1 ATTTTATTTATTCTCGTTTTTATTTCTAATTTG
15509190 AGTTTCTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 16 0.50
34 16 0.50
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (34 bp):
ATTTTATTTATTCTCGTTTTTATTTCTAATTTGT
Found at i:15509670 original size:38 final size:36
Alignment explanation
Indices: 15509628--15509717 Score: 121
Period size: 38 Copynumber: 2.5 Consensus size: 36
15509618 TTCTATATGC
* *
15509628 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATGTGTATAAAAAATAGTTTAATACAAATTATAT
*
15509664 ATATATGTATAATAAAAATAGTTTAATACAAATTATAT
1 ATATGTGTAT-A-AAAAATAGTTTAATACAAATTATAT
15509702 ATA--TGTATAAAAAATA
1 ATATGTGTATAAAAAATA
15509718 TTATGTAAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 14 0.29
37 1 0.02
38 26 0.53
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (36 bp):
ATATGTGTATAAAAAATAGTTTAATACAAATTATAT
Found at i:15509674 original size:36 final size:34
Alignment explanation
Indices: 15509628--15509717 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 34
15509618 TTCTATATGC
* *
15509628 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATATGTATAAAAAATAGTTTAATACAAA-T-TAT
15509664 ATATATGTATAATAAAAATAGTTTAATACAAATTAT
1 ATATATGTAT-A-AAAAATAGTTTAATACAAATTAT
15509700 ATATATGTATAAAAAATA
1 ATATATGTATAAAAAATA
15509718 TTATGTAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 22 0.44
37 2 0.04
38 18 0.36
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (34 bp):
ATATATGTATAAAAAATAGTTTAATACAAATTAT
Found at i:15510712 original size:19 final size:18
Alignment explanation
Indices: 15510683--15510719 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
15510673 AAGAAAGAAA
*
15510683 GAAATAAAATAAATAAAT
1 GAAATAAAATAAAAAAAT
15510701 GAAATCAAAATAAAAAAAT
1 GAAAT-AAAATAAAAAAAT
15510720 CGGAGAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (18 bp):
GAAATAAAATAAAAAAAT
Found at i:15514358 original size:7 final size:7
Alignment explanation
Indices: 15514342--15514374 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
15514332 TGGCCTCTCC
15514342 TTTTTC-
1 TTTTTCT
15514348 TTTTTCT
1 TTTTTCT
15514355 TTTTTCT
1 TTTTTCT
15514362 TTTTTCT
1 TTTTTCT
15514369 TTTTTC
1 TTTTTC
15514375 ATCATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:15514408 original size:17 final size:17
Alignment explanation
Indices: 15514387--15514432 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
15514377 CATTTTCAAT
*
15514387 TTTTTTATTTTCATTTTA
1 TTTTTGATTTT-ATTTTA
*
15514405 TTTTTGATTTTTTTTTA
1 TTTTTGATTTTATTTTA
15514422 TTTTTGATTTT
1 TTTTTGATTTT
15514433 TTTATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTTGATTTTATTTTA
Done.