Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 78 of 120
Found at i:9819532 original size:24 final size:24
Alignment explanation
Indices: 9819505--9819551 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9819495 TAATCAAGTA
*
9819505 AATAAATATATAATCATATCATGC
1 AATAAATATAAAATCATATCATGC
*
9819529 AATAAATATAAAATTATATCATG
1 AATAAATATAAAATCATATCATG
9819552 TAAATATATT
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:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (24 bp):
AATAAATATAAAATCATATCATGC
Found at i:9819719 original size:15 final size:15
Alignment explanation
Indices: 9819678--9819720 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
9819668 AAAATATAAA
*
9819678 AAAATCATAAAAAGG
1 AAAATTATAAAAAGG
* *
9819693 AAAAATAGTAAATAGG
1 AAAATTA-TAAAAAGG
9819709 AAAATTATAAAA
1 AAAATTATAAAA
9819721 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (15 bp):
AAAATTATAAAAAGG
Found at i:9819736 original size:16 final size:16
Alignment explanation
Indices: 9819717--9819758 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9819707 GGAAAATTAT
*
9819717 AAAATAAAATAAAAAC
1 AAAAAAAAATAAAAAC
9819733 AAAAAAAAATAAAAAC
1 AAAAAAAAATAAAAAC
9819749 AAAAACAAAA
1 AAAAA-AAAA
9819759 CCTTGCGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAAAAAAATAAAAAC
Found at i:9820685 original size:16 final size:17
Alignment explanation
Indices: 9820663--9820699 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9820653 TTCCCTTTTT
*
9820663 TTTTTTTTACTTTTAAC
1 TTTTTTTAACTTTTAAC
*
9820680 TTTTTTTAACTTTTGAC
1 TTTTTTTAACTTTTAAC
9820697 TTT
1 TTT
9820700 AAAAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTTTAACTTTTAAC
Found at i:9820726 original size:13 final size:12
Alignment explanation
Indices: 9820710--9820780 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
9820700 AAAAATAATA
9820710 AAAACTAAAATT
1 AAAACTAAAATT
* *
9820722 AAAAACCAAAAATA
1 -AAAA-CTAAAATT
* *
9820736 AAAATTAAAACT
1 AAAACTAAAATT
**
9820748 AAAA-TTGAATT
1 AAAACTAAAATT
*
9820759 AAAACCAAAATT
1 AAAACTAAAATT
9820771 AAAACTAAAA
1 AAAACTAAAA
9820781 CCAAATTTAA
Statistics
Matches: 43, Mismatches: 13, Indels: 5
0.70 0.21 0.08
Matches are distributed among these distances:
11 8 0.19
12 21 0.49
13 8 0.19
14 6 0.14
ACGTcount: A:0.69, C:0.10, G:0.01, T:0.20
Consensus pattern (12 bp):
AAAACTAAAATT
Found at i:9820760 original size:17 final size:17
Alignment explanation
Indices: 9820738--9820785 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
9820728 CAAAAATAAA
*
9820738 AATTAAAACTAAAATTG
1 AATTAAAACCAAAATTG
*
9820755 AATTAAAACCAAAATTAA
1 AATTAAAACCAAAATT-G
*
9820773 AACTAAAACCAAA
1 AATTAAAACCAAA
9820786 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (17 bp):
AATTAAAACCAAAATTG
Found at i:9820781 original size:18 final size:18
Alignment explanation
Indices: 9820710--9820794 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
9820700 AAAAATAATA
*
9820710 AAAACTAAAATTAAAAACC
1 AAAATTAAAATT-AAAACC
* *
9820729 AAAAATAAAAATTAAAACT
1 -AAAATTAAAATTAAAACC
*
9820748 AAAATT-GAATTAAAACC
1 AAAATTAAAATTAAAACC
*
9820765 AAAATTAAAACTAAAACC
1 AAAATTAAAATTAAAACC
*
9820783 AAATTTAAAATT
1 AAAATTAAAATT
9820795 TTCGGGCTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
17 15 0.28
18 24 0.44
19 5 0.09
20 10 0.19
ACGTcount: A:0.66, C:0.11, G:0.01, T:0.22
Consensus pattern (18 bp):
AAAATTAAAATTAAAACC
Found at i:9820787 original size:29 final size:30
Alignment explanation
Indices: 9820736--9820792 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
9820726 ACCAAAAATA
***
9820736 AAAATTAAAACTAAAATTGAA-TTAAAACC
1 AAAATTAAAACTAAAACCAAATTTAAAACC
9820765 AAAATTAAAACTAAAACCAAATTTAAAA
1 AAAATTAAAACTAAAACCAAATTTAAAA
9820793 TTTTCGGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.23
Consensus pattern (30 bp):
AAAATTAAAACTAAAACCAAATTTAAAACC
Found at i:9821449 original size:17 final size:17
Alignment explanation
Indices: 9821429--9821477 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
9821419 TTGAAAGATT
*
9821429 CAAAGATTTGCAAGACA
1 CAAAAATTTGCAAGACA
* **
9821446 CAAATATTCACAAGACA
1 CAAAAATTTGCAAGACA
9821463 CAAAAATTTGCAAGA
1 CAAAAATTTGCAAGA
9821478 TTTTAAGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.51, C:0.18, G:0.12, T:0.18
Consensus pattern (17 bp):
CAAAAATTTGCAAGACA
Found at i:9827873 original size:23 final size:23
Alignment explanation
Indices: 9827832--9827894 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
9827822 AAACAAAAAT
*
9827832 TATCATGCAA-AATAATATAGTA
1 TATCATGCAATAATAATATAATA
*
9827854 TATCATGCAATTATAATATAATA
1 TATCATGCAATAATAATATAATA
9827877 TATCATGCAATAATAATA
1 TATCATGCAATAATAATA
9827895 AACTATCACG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 10 0.27
23 27 0.73
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (23 bp):
TATCATGCAATAATAATATAATA
Found at i:9827895 original size:21 final size:21
Alignment explanation
Indices: 9827832--9827909 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 21
9827822 AAACAAAAAT
9827832 TATCATGCAA-AATAATATAGTA
1 TATCATGCAATAATAATA-A-TA
*
9827854 TATCATGCAATTATAATATAATA
1 TATCATGCAATAAT-A-ATAATA
9827877 TATCATGCAATAATAATAA-A
1 TATCATGCAATAATAATAATA
*
9827897 CTATCACGCAATA
1 -TATCATGCAATA
9827910 TATTATGCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.02
21 15 0.31
22 11 0.22
23 17 0.35
24 2 0.04
25 3 0.06
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (21 bp):
TATCATGCAATAATAATAATA
Found at i:9828059 original size:24 final size:24
Alignment explanation
Indices: 9828025--9828084 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
9828015 CATGATCACA
* *
9828025 CAAATAGATATATTAATAATCATG
1 CAAATAAATATATCAATAATCATG
* *
9828049 CAACTAAATATATCAATAATTATG
1 CAAATAAATATATCAATAATCATG
*
9828073 CAAATAAGTATA
1 CAAATAAATATA
9828085 AATCATATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.32
Consensus pattern (24 bp):
CAAATAAATATATCAATAATCATG
Found at i:9828101 original size:23 final size:24
Alignment explanation
Indices: 9828075--9828119 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9828065 TAATTATGCA
*
9828075 AATAAGTAT-AAATCATATCATAC
1 AATAAATATAAAATCATATCATAC
*
9828098 AATAAATATAAAATCGTATCAT
1 AATAAATATAAAATCATATCAT
9828120 GCAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (24 bp):
AATAAATATAAAATCATATCATAC
Found at i:9828129 original size:23 final size:24
Alignment explanation
Indices: 9828070--9828129 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
9828060 ATCAATAATT
9828070 ATGCAAATA-AGTATAAATCATATC
1 ATGCAAATATA-TATAAATCATATC
* * *
9828094 ATAC-AATAAATATAAAATCGTATC
1 ATGCAAATATATAT-AAATCATATC
9828118 ATGCAAATATAT
1 ATGCAAATATAT
9828130 TGTAAAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 7 0.24
24 16 0.55
25 6 0.21
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.30
Consensus pattern (24 bp):
ATGCAAATATATATAAATCATATC
Found at i:9828284 original size:5 final size:6
Alignment explanation
Indices: 9828269--9828302 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
9828259 AAAATAAATA
9828269 AAAAAG AAAAAG AAAAAG -AAAAG AAAAAG CAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAA
9828303 CTTGCAATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.65
7 4 0.15
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:9828284 original size:12 final size:11
Alignment explanation
Indices: 9828269--9828302 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
9828259 AAAATAAATA
9828269 AAAAAGAAAAAG
1 AAAAAG-AAAAG
9828281 AAAAAGAAAAG
1 AAAAAGAAAAG
9828292 AAAAAGCAAAA
1 AAAAAG-AAAA
9828303 CTTGCAATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:9829289 original size:14 final size:13
Alignment explanation
Indices: 9829264--9829308 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
9829254 TTAAAAATAA
*
9829264 TAAAAACTAAAAT
1 TAAAAACCAAAAT
9829277 TAAAAACCAAAAAT
1 TAAAAACC-AAAAT
* *
9829291 CAAAAATCAAAAT
1 TAAAAACCAAAAT
9829304 TAAAA
1 TAAAA
9829309 TTTTCAAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (13 bp):
TAAAAACCAAAAT
Found at i:9835494 original size:21 final size:21
Alignment explanation
Indices: 9835451--9835494 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9835441 TTAAATTTTT
* * *
9835451 AATTTTAATGATTTAAGTCTA
1 AATTTTAATAATTTAAATATA
9835472 AATTTTAATAATTTAAATATA
1 AATTTTAATAATTTAAATATA
9835493 AA
1 AA
9835495 AAATTTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (21 bp):
AATTTTAATAATTTAAATATA
Found at i:9840587 original size:34 final size:34
Alignment explanation
Indices: 9840549--9840626 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
9840539 CTTAGTAATC
* *
9840549 TATTTTCGAGAA-ACCAATATCATTTTCAAAAATT
1 TATTTTCGAGAACA-CAATATAATTCTCAAAAATT
*
9840583 TATTTTTGAGAACACAATATAATTCTCAAAAATT
1 TATTTTCGAGAACACAATATAATTCTCAAAAATT
*
9840617 GATTTTCGAG
1 TATTTTCGAG
9840627 TATTATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 37 0.97
35 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (34 bp):
TATTTTCGAGAACACAATATAATTCTCAAAAATT
Found at i:9840766 original size:16 final size:16
Alignment explanation
Indices: 9840745--9840775 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9840735 ATAAATAAAT
9840745 ACATTTAATCTTGATA
1 ACATTTAATCTTGATA
*
9840761 ACATTTAATTTTGAT
1 ACATTTAATCTTGAT
9840776 TTAAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (16 bp):
ACATTTAATCTTGATA
Found at i:9840822 original size:15 final size:16
Alignment explanation
Indices: 9840802--9840831 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9840792 CATTTTAATC
9840802 TTAAAATAAA-AAATT
1 TTAAAATAAATAAATT
9840817 TTAAAATAAATAAAT
1 TTAAAATAAATAAAT
9840832 ATGATGTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAATAAATAAATT
Found at i:9843047 original size:329 final size:330
Alignment explanation
Indices: 9842623--9843286 Score: 1060
Period size: 330 Copynumber: 2.0 Consensus size: 330
9842613 GTTTGAAAGG
9842623 TCATTGTAAATGGTCATCAAATTCCAATGAAGATGGTAGATGGTAGGGAAGTGATCAAGCAAGAG
1 TCATTGTAAATGGTCATCAAATTCCAATGAAGATGGTAGATGGTAGGGAAGTGATCAAGCAAGAG
* *
9842688 AGTGAATGAGATCTCAATGATATGAAGATGGCTCAATTCAATACCAAAGCAATGCATACATTCTT
66 AGTGAATGAGATCTCAATGATATGAAGATGGCTCAACTCAATACCAAAGCAATGCATACAATCTT
* *
9842753 TTGTACATTAGGGCCTAGTGAGTACAATACAGTTT-TTTGTGTGAAAATACAAAAAAAATTTAGG
131 TTGTACATTAGGGCCTAGTGAGTACAATACAGTTTCTTTGTGTGAAAATACAAAAAAAAATTAAG
* *
9842817 ATAAGTTAACTGTCACTCATAAAGGTACAAATCAAGTTAAAGAGATAAAAATTGACATGCTCACT
196 ATAAGTTAACTGTCACTCATAAAGGTACAAATCAAGTTAAAAAGATAAAAATTAACATGCTCACT
* ** * *
9842882 CATGATTATCAGTTGTTCAAGATGAAATTAGATGAAACCATCAGTGAGATGTCAAACTGCTTTAT
261 CATGATTATCAGTTATTCAAGATGAAACCAGATAAAACCATCAGTGAGATGTCAAACTGCTTTAC
9842947 CGACA
326 CGACA
* * * *
9842952 TCATTGTAAATGGTCCTCAAATTCTATTGAAGATGGTAGATGGTAGGGAGGTGATCAAGCAAGAG
1 TCATTGTAAATGGTCATCAAATTCCAATGAAGATGGTAGATGGTAGGGAAGTGATCAAGCAAGAG
* * *
9843017 AGTGAATGAGATGTCAATGATATGAAGATGGCTCAACTCAATGCCAAAGTAATGCATACAATCTT
66 AGTGAATGAGATCTCAATGATATGAAGATGGCTCAACTCAATACCAAAGCAATGCATACAATCTT
* * * * **
9843082 TTGTACATTGGGGCTTATTGAGTACAATAGAGTTTCTTTGTGTGAAAATGTAAAAAAAAATTAAG
131 TTGTACATTAGGGCCTAGTGAGTACAATACAGTTTCTTTGTGTGAAAATACAAAAAAAAATTAAG
* *
9843147 ATAAGTTAACTGTCACTCATGAAGGTACAAATTAAGTTAAAAAGATAAAAATTAACATGCTCACT
196 ATAAGTTAACTGTCACTCATAAAGGTACAAATCAAGTTAAAAAGATAAAAATTAACATGCTCACT
* *
9843212 CATGATTATGAGTTATTCAAGATGAAACCAGATAAAACCATTAGTGAGATGTCAAACTGCTTTAC
261 CATGATTATCAGTTATTCAAGATGAAACCAGATAAAACCATCAGTGAGATGTCAAACTGCTTTAC
*
9843277 CGATA
326 CGACA
9843282 TCATT
1 TCATT
9843287 AATGGTTTAA
Statistics
Matches: 305, Mismatches: 29, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
329 152 0.50
330 153 0.50
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (330 bp):
TCATTGTAAATGGTCATCAAATTCCAATGAAGATGGTAGATGGTAGGGAAGTGATCAAGCAAGAG
AGTGAATGAGATCTCAATGATATGAAGATGGCTCAACTCAATACCAAAGCAATGCATACAATCTT
TTGTACATTAGGGCCTAGTGAGTACAATACAGTTTCTTTGTGTGAAAATACAAAAAAAAATTAAG
ATAAGTTAACTGTCACTCATAAAGGTACAAATCAAGTTAAAAAGATAAAAATTAACATGCTCACT
CATGATTATCAGTTATTCAAGATGAAACCAGATAAAACCATCAGTGAGATGTCAAACTGCTTTAC
CGACA
Found at i:9852003 original size:24 final size:26
Alignment explanation
Indices: 9851952--9852005 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
9851942 AAAAATATTA
9851952 AAATAATTTTATTGATTTAATATAAT
1 AAATAATTTTATTGATTTAATATAAT
9851978 AAATAATTTGTATT-A-TT-ATATAAT
1 AAATAATTT-TATTGATTTAATATAAT
9852002 AAAT
1 AAAT
9852006 TAATAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 11 0.41
25 2 0.07
26 10 0.37
27 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
AAATAATTTTATTGATTTAATATAAT
Found at i:9852026 original size:17 final size:17
Alignment explanation
Indices: 9851974--9852027 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
9851964 TGATTTAATA
9851974 TAATAAATAAT-TTGTAT
1 TAATAAATAATATT-TAT
* * *
9851991 TATTATATAATA--AAT
1 TAATAAATAATATTTAT
9852006 TAATAAATAATATTTAT
1 TAATAAATAATATTTAT
9852023 TAATA
1 TAATA
9852028 TTTTGATTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TAATAAATAATATTTAT
Found at i:9852564 original size:15 final size:16
Alignment explanation
Indices: 9852526--9852567 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
9852516 TTATATTCTT
*
9852526 TTTGTAACACCTTTAA
1 TTTGTAACACATTTAA
* *
9852542 TTTATAACA-ATTTGA
1 TTTGTAACACATTTAA
9852557 TTTGTAACACA
1 TTTGTAACACA
9852568 AATCAAATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (16 bp):
TTTGTAACACATTTAA
Found at i:9862679 original size:18 final size:20
Alignment explanation
Indices: 9862640--9862680 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
9862630 TGTGCAGAAG
9862640 AATGAATCTTGTAATATTTTT
1 AATGAATCTTG-AATATTTTT
9862661 AATGAATCTTG-AT-TTTTT
1 AATGAATCTTGAATATTTTT
9862679 AA
1 AA
9862681 AAAATTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 2 0.10
21 11 0.55
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
AATGAATCTTGAATATTTTT
Found at i:9863413 original size:16 final size:16
Alignment explanation
Indices: 9863392--9863451 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
9863382 AGTGATTTTT
9863392 AGCTTTCTTGTTCTT-A
1 AGCTTTCTTGTT-TTAA
*
9863408 AGCTTTCTTTAGTTTTCA
1 AGCTTTC-TT-GTTTTAA
9863426 AG-TTT-TTGTTTTAA
1 AGCTTTCTTGTTTTAA
*
9863440 AGCTTTCATGTT
1 AGCTTTCTTGTT
9863452 CTTTTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.22
15 5 0.14
16 11 0.30
17 7 0.19
18 6 0.16
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (16 bp):
AGCTTTCTTGTTTTAA
Found at i:9879237 original size:15 final size:15
Alignment explanation
Indices: 9879217--9879248 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9879207 TTCAACAAGC
9879217 AATCCTAGAGGTCCT
1 AATCCTAGAGGTCCT
*
9879232 AATCCTATAGGTCCT
1 AATCCTAGAGGTCCT
9879247 AA
1 AA
9879249 GGTCACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (15 bp):
AATCCTAGAGGTCCT
Found at i:9881512 original size:12 final size:13
Alignment explanation
Indices: 9881488--9881516 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9881478 TGTTAATAAA
9881488 AAAATACAAAATG
1 AAAATACAAAATG
9881501 AAAATA-AAAATG
1 AAAATACAAAATG
9881513 AAAA
1 AAAA
9881517 AAATACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAATACAAAATG
Found at i:9882347 original size:89 final size:90
Alignment explanation
Indices: 9882163--9882459 Score: 245
Period size: 104 Copynumber: 3.2 Consensus size: 90
9882153 AAAATAAAAA
* * * * * *
9882163 AAAGATATTTGCATTACTTGCATCTACATCATAAAAAAAGGACATTTGCATCTGCATAATTCATA
1 AAAGACATTTGCATCACTTGCATCTACATCACAAAAAAAGGACATTTACATCTGCATAACTCACA
* *
9882228 TTCGTACTTACATGTACATTATGAG
66 TTCGTACTTACATGTACATCACGAG
* * * *
9882253 AAAGACATTTGCATCACTTGTATCTACATCGCAAAAAAA-GACATTTACATTTGCATCACTCACA
1 AAAGACATTTGCATCACTTGCATCTACATCACAAAAAAAGGACATTTACATCTGCATAACTCACA
* * *
9882317 TTTGTACTTACGTGTGCATCACGAG
66 TTCGTACTTACATGTACATCACGAG
* **
9882342 AAAGACATTTGCATTCACATTTGCATCACTTGCATCTGCATCACAAAAAAAAAAGACATTCGCAT
1 AAAGACATTTGCA-TCAC--TTGCAT--C-T--A----CATCAC--AAAAAAAGGACATTTACAT
* * * * *
9882407 CTACATCACTCACATTTGTACTTACATGTGCATCATGAG
52 CTGCATAACTCACATTCGTACTTACATGTACATCACGAG
*
9882446 AAAGACAATTGCAT
1 AAAGACATTTGCAT
9882460 TCACATTTAC
Statistics
Matches: 168, Mismatches: 24, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
89 53 0.32
90 38 0.23
92 5 0.03
94 1 0.01
95 1 0.01
97 1 0.01
101 5 0.03
103 8 0.05
104 56 0.33
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (90 bp):
AAAGACATTTGCATCACTTGCATCTACATCACAAAAAAAGGACATTTACATCTGCATAACTCACA
TTCGTACTTACATGTACATCACGAG
Found at i:9882420 original size:104 final size:101
Alignment explanation
Indices: 9882257--9882489 Score: 322
Period size: 104 Copynumber: 2.3 Consensus size: 101
9882247 TATGAGAAAG
* * * * * *
9882257 ACATTTGCATCACTTGTATCTACATCGCAAAAAAAGACATTTACATTTGCATCACTCACATTTGT
1 ACATTTGCATCACTTGCATCTGCATCACAAAAAAAGACATTCACATCTACATCACTCACATTTGT
* *
9882322 ACTTACGTGTGCATCACGAGAAAGACATTTGCATTC
66 ACTTACATGTGCATCACGAGAAAGACAATTGCATTC
*
9882358 ACATTTGCATCACTTGCATCTGCATCACAAAAAAAAAAGACATTCGCATCTACATCACTCACATT
1 ACATTTGCATCACTTGCATCTGCATCAC---AAAAAAAGACATTCACATCTACATCACTCACATT
*
9882423 TGTACTTACATGTGCATCATGAGAAAGACAATTGCATTC
63 TGTACTTACATGTGCATCACGAGAAAGACAATTGCATTC
* * *
9882462 ACATTTACCTCACTTGCATTTGCATCAC
1 ACATTTGCATCACTTGCATCTGCATCAC
9882490 TTGCATCACA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 25 0.22
104 91 0.78
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (101 bp):
ACATTTGCATCACTTGCATCTGCATCACAAAAAAAGACATTCACATCTACATCACTCACATTTGT
ACTTACATGTGCATCACGAGAAAGACAATTGCATTC
Found at i:9882514 original size:51 final size:53
Alignment explanation
Indices: 9882457--9882581 Score: 157
Period size: 51 Copynumber: 2.4 Consensus size: 53
9882447 AAGACAATTG
* *
9882457 CATTCACATTTACCTCACTTGCATTTGCA-TCAC-T-TGCATCACAAAAAACGA
1 CATTCACATTTACATCACTTGCATTCGCACTCACGTATGCATCACAAAAAA-GA
* * **
9882508 CATTCACATTTACATCATTTGCATTCGCACTTACGTATGCATCATGAAAAAGA
1 CATTCACATTTACATCACTTGCATTCGCACTCACGTATGCATCACAAAAAAGA
*
9882561 CATTTACATTTACATCACTTG
1 CATTCACATTTACATCACTTG
9882582 TATCCGTATC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
51 26 0.41
52 3 0.05
53 22 0.35
54 12 0.19
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.33
Consensus pattern (53 bp):
CATTCACATTTACATCACTTGCATTCGCACTCACGTATGCATCACAAAAAAGA
Found at i:9882874 original size:18 final size:18
Alignment explanation
Indices: 9882851--9882897 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
9882841 TTTGCATCAA
* *
9882851 GCATTCGTATTGATATTT
1 GCATTCGCATCGATATTT
9882869 GCATTCGCATCGATATTT
1 GCATTCGCATCGATATTT
* *
9882887 CCATTAGCATC
1 GCATTCGCATC
9882898 ATTTAATGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (18 bp):
GCATTCGCATCGATATTT
Found at i:9883355 original size:105 final size:106
Alignment explanation
Indices: 9883173--9883612 Score: 489
Period size: 105 Copynumber: 4.2 Consensus size: 106
9883163 AAAAAAAAAA
* * * * * * * *
9883173 TTAAATTTTTAAAATTTCAGTGCCT-TTGATTAGAAGAAGCATTCAAAGATTTTGAGATTTATAA
1 TTAAATTTTCAAAGTTTCAATGCCTCTTAATTAGGAGGAGCATTCAAAAATTTTGAGATTTGTAA
* * * * **
9883237 GACTTTTGGGCATAATCTCTAAAACCTCTGGGTAAATTATT
66 GACCTTTGGGCATAATCTCTAAGACCTCTGAGCAAACCATT
* * *
9883278 TTAAATTTTCAAAGTTTCAATGCCTCTT-ATTGGGAGGAGCATTCAAAAATATCGAGATTTGTAA
1 TTAAATTTTCAAAGTTTCAATGCCTCTTAATTAGGAGGAGCATTCAAAAATTTTGAGATTTGTAA
*
9883342 GACTTTTGGGCATAATCTCTAAGACCT-TCGAGCAAACCATT
66 GACCTTTGGGCATAATCTCTAAGACCTCT-GAGCAAACCATT
* * * * * * * *
9883383 TTAAATTTTTAAAATTTTAATGCCTC-TGATTGGGAGGAGCATTCATAGATTTTAAGATTTGTAA
1 TTAAATTTTCAAAGTTTCAATGCCTCTTAATTAGGAGGAGCATTCAAAAATTTTGAGATTTGTAA
* * *
9883447 GACCTTCGGGCATAATCTTTAAGACCTCCTG-GTAAACCATT
66 GACCTTTGGGCATAATCTCTAAGACCT-CTGAGCAAACCATT
* * *
9883488 TTAAAATTTT-AAAGTTTCAATGCC-CTTAATTAGGATGAGCATTTATAAATTTTGAGATTTGTA
1 TT-AAATTTTCAAAGTTTCAATGCCTCTTAATTAGGAGGAGCATTCAAAAATTTTGAGATTTGTA
* *
9883551 AGACCTATGGGCATAATCTCTAAGACCTCTGAGCAAAACATT
65 AGACCTTTGGGCATAATCTCTAAGACCTCTGAGCAAACCATT
*
9883593 TTAAAGTTTCAAAGTTTCAA
1 TTAAATTTTCAAAGTTTCAA
9883613 AGTCTTTGTT
Statistics
Matches: 285, Mismatches: 41, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
104 12 0.04
105 262 0.92
106 10 0.04
107 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (106 bp):
TTAAATTTTCAAAGTTTCAATGCCTCTTAATTAGGAGGAGCATTCAAAAATTTTGAGATTTGTAA
GACCTTTGGGCATAATCTCTAAGACCTCTGAGCAAACCATT
Found at i:9883547 original size:210 final size:210
Alignment explanation
Indices: 9883173--9883612 Score: 573
Period size: 210 Copynumber: 2.1 Consensus size: 210
9883163 AAAAAAAAAA
* * *
9883173 TTAAATTTTTAAAATTTCAGTGCCTTTGATTAGAAGAAGCATTCAAAGATTTTGAGATTTATAAG
1 TTAAATTTTTAAAATTTCAATGCCTCTGATTAGAAGAAGCATTCAAAGATTTTAAGATTTATAAG
* * **
9883238 ACTTTTGGGCATAATCTCTAAAACCTCTGGGTAAATTATTTTAAATTTTCAAAGTTTCAATGCCT
66 ACCTTCGGGCATAATCTCTAAAACCTCTGGGTAAACCATTTTAAATTTTCAAAGTTTCAATGCCT
* * *
9883303 CTTATTGGGAGGAGCATTCAAAAATATCGAGATTTGTAAGACTTTTGGGCATAATCTCTAAGACC
131 CTTATTAGGAGGAGCATTCAAAAATATCGAGATTTGTAAGACCTATGGGCATAATCTCTAAGACC
*
9883368 T-TCGAGCAAACCATT
196 TCT-GAGCAAAACATT
* * * * * *
9883383 TTAAATTTTTAAAATTTTAATGCCTCTGATTGGGAGGAGCATTCATAGATTTTAAGATTTGTAAG
1 TTAAATTTTTAAAATTTCAATGCCTCTGATTAGAAGAAGCATTCAAAGATTTTAAGATTTATAAG
* *
9883448 ACCTTCGGGCATAATCTTTAAGACCTCCT-GGTAAACCATTTTAAAATTTT-AAAGTTTCAATGC
66 ACCTTCGGGCATAATCTCTAAAACCT-CTGGGTAAACCATTTT-AAATTTTCAAAGTTTCAATGC
* * * * *
9883511 C-CTTAATTAGGATGAGCATTTATAAATTTTGAGATTTGTAAGACCTATGGGCATAATCTCTAAG
129 CTCTT-ATTAGGAGGAGCATTCAAAAATATCGAGATTTGTAAGACCTATGGGCATAATCTCTAAG
9883575 ACCTCTGAGCAAAACATT
193 ACCTCTGAGCAAAACATT
* * *
9883593 TTAAAGTTTCAAAGTTTCAA
1 TTAAATTTTTAAAATTTCAA
9883613 AGTCTTTGTT
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
209 3 0.02
210 185 0.93
211 10 0.05
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (210 bp):
TTAAATTTTTAAAATTTCAATGCCTCTGATTAGAAGAAGCATTCAAAGATTTTAAGATTTATAAG
ACCTTCGGGCATAATCTCTAAAACCTCTGGGTAAACCATTTTAAATTTTCAAAGTTTCAATGCCT
CTTATTAGGAGGAGCATTCAAAAATATCGAGATTTGTAAGACCTATGGGCATAATCTCTAAGACC
TCTGAGCAAAACATT
Found at i:9883686 original size:37 final size:39
Alignment explanation
Indices: 9883603--9883782 Score: 179
Period size: 37 Copynumber: 4.6 Consensus size: 39
9883593 TTAAAGTTTC
* * *
9883603 AAAGTTTCAAAGTCTTTGTTTGGGGGGAGCCATCTTTTTTTT
1 AAAGTTTCAAAGCCTCTGTTTGGGGGGAGCCA---TATTTTT
* * *
9883645 AAAGTTTCAAAGTCTCTATTTGGGGGGAG-C-TATTTTC
1 AAAGTTTCAAAGCCTCTGTTTGGGGGGAGCCATATTTTT
* * * *
9883682 AAAGTTTCAAAGCCTTTGCTTAGGGGGAGCCATCTTTTATT
1 AAAGTTTCAAAGCCTCTGTTTGGGGGGAGCCAT-ATTT-TT
* *
9883723 AAAGTTTCAAAGCCTCTATTTTGGGGGAGCC--ATTTTT
1 AAAGTTTCAAAGCCTCTGTTTGGGGGGAGCCATATTTTT
9883760 AAAGTTTCAAAGCCTCTGTTTGG
1 AAAGTTTCAAAGCCTCTGTTTGG
9883783 AAAAAGCAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
37 52 0.45
38 4 0.03
39 1 0.01
40 3 0.03
41 29 0.25
42 27 0.23
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (39 bp):
AAAGTTTCAAAGCCTCTGTTTGGGGGGAGCCATATTTTT
Found at i:9883769 original size:78 final size:79
Alignment explanation
Indices: 9883599--9883774 Score: 273
Period size: 78 Copynumber: 2.2 Consensus size: 79
9883589 CATTTTAAAG
* * * * *
9883599 TTTCAAAGTTTCAAAGTCTTTGTTTGGGGGGAGCCATCTTTTTTTTAAAGTTTCAAAGTCTCTAT
1 TTTCAAAGTTTCAAAGCCTTTGCTTAGGGGGAGCCATCTTTTTATTAAAGTTTCAAAGCCTCTAT
*
9883664 TTGGGGGGAGCTAT
66 TTGGGGGGAGCCAT
9883678 TTTCAAAGTTTCAAAGCCTTTGCTTAGGGGGAGCCATC-TTTTATTAAAGTTTCAAAGCCTCTAT
1 TTTCAAAGTTTCAAAGCCTTTGCTTAGGGGGAGCCATCTTTTTATTAAAGTTTCAAAGCCTCTAT
*
9883742 TTTGGGGGAGCCAT
66 TTGGGGGGAGCCAT
*
9883756 TTTTAAAGTTTCAAAGCCT
1 TTTCAAAGTTTCAAAGCCT
9883775 CTGTTTGGAA
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 54 0.61
79 35 0.39
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (79 bp):
TTTCAAAGTTTCAAAGCCTTTGCTTAGGGGGAGCCATCTTTTTATTAAAGTTTCAAAGCCTCTAT
TTGGGGGGAGCCAT
Found at i:9888387 original size:26 final size:26
Alignment explanation
Indices: 9888334--9888388 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
9888324 TTTTGATAAA
*
9888334 TAATTAAATATCCCTGTTTCATTAGT
1 TAATTAAATATCCCTGTTTCAGTAGT
* * *
9888360 TAATTAAATCTCCTTGTTTCAGTGGT
1 TAATTAAATATCCCTGTTTCAGTAGT
9888386 TAA
1 TAA
9888389 ACTTTACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (26 bp):
TAATTAAATATCCCTGTTTCAGTAGT
Found at i:9888846 original size:21 final size:21
Alignment explanation
Indices: 9888822--9888864 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9888812 TAAATTGACA
*
9888822 AATTTAATT-GTGACAATAATT
1 AATTT-ATTAGTGACAAGAATT
9888843 AATTTATTAGTGACAAGAATT
1 AATTTATTAGTGACAAGAATT
9888864 A
1 A
9888865 TTGTGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (21 bp):
AATTTATTAGTGACAAGAATT
Found at i:9892633 original size:41 final size:43
Alignment explanation
Indices: 9892558--9892644 Score: 119
Period size: 41 Copynumber: 2.1 Consensus size: 43
9892548 TTCGATCGGT
9892558 AAACAAACAAACCAAAAAAAATAAGTATAG-AAAAAT-AAAAA
1 AAACAAACAAACCAAAAAAAATAAGTATAGAAAAAATGAAAAA
*
9892599 AAACAAACAAACC-AAAAAAA-AAGTGTAGAAAAAAAATGAAAAA
1 AAACAAACAAACCAAAAAAAATAAGTATAG--AAAAAATGAAAAA
9892642 AAA
1 AAA
9892645 TGAAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
39 7 0.17
40 7 0.17
41 13 0.32
42 6 0.15
43 8 0.20
ACGTcount: A:0.76, C:0.09, G:0.07, T:0.08
Consensus pattern (43 bp):
AAACAAACAAACCAAAAAAAATAAGTATAGAAAAAATGAAAAA
Found at i:9892642 original size:9 final size:10
Alignment explanation
Indices: 9892626--9892654 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
9892616 AAAAAGTGTA
9892626 GAAAAAAAAT
1 GAAAAAAAAT
9892636 GAAAAAAAAT
1 GAAAAAAAAT
9892646 GAAAAAAAA
1 GAAAAAAAA
9892655 ATACTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (10 bp):
GAAAAAAAAT
Found at i:9899671 original size:30 final size:30
Alignment explanation
Indices: 9899635--9899705 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
9899625 TTTTCAGTCC
9899635 TTAATTCTAGGGAGACAGATTACAACCAGA
1 TTAATTCTAGGGAGACAGATTACAACCAGA
* * * *
9899665 TTAATTCTAAGTATACAGATTACAACCAGC
1 TTAATTCTAGGGAGACAGATTACAACCAGA
9899695 TTAATTCTAGG
1 TTAATTCTAGG
9899706 TATCTTCCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (30 bp):
TTAATTCTAGGGAGACAGATTACAACCAGA
Found at i:9904062 original size:17 final size:17
Alignment explanation
Indices: 9904040--9904074 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9904030 ACATGTTTGT
*
9904040 GAAGGCTTTTCAAATTG
1 GAAGGCTTCTCAAATTG
9904057 GAAGGCTTCTCAAATTG
1 GAAGGCTTCTCAAATTG
9904074 G
1 G
9904075 CAATTTGGGT
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:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (17 bp):
GAAGGCTTCTCAAATTG
Found at i:9920749 original size:130 final size:130
Alignment explanation
Indices: 9920461--9920921 Score: 551
Period size: 128 Copynumber: 3.6 Consensus size: 130
9920451 ATAAAAAATG
* * * * * *
9920461 TAAAATAAAAATTACATAATTTTCTTATCACCTAATCAAAAGGTAAGCAAAATTACAGAACATGT
1 TAAAATAAAAATTACATAATTTTCTTATCACTTATTCAAAAGATAAACAAAATTACAAAATATGT
* * * *
9920526 TATCAAAGTATTTAAGAAATTTAGTAA-CTGCTAAGAATAATATGTAATTC-AAAAGGAAA-ATA
66 TATCAAAGCATTTAAGAAATTTAATAATCTGATAAGAATAATATGTAATTCAAAAAGAAAAGATA
* * * * **
9920588 TGAAAGATGAAAGTTATATAATTTTCTTATCACTTATTCATAAGATAAATGAAATTACAAAATAT
1 T-AAA-ATAAAAATTACATAATTTTCTTATCACTTATTCAAAAGATAAACAAAATTACAAAATAT
* * * *
9920653 GTTATCAAAGCATTTAAGAAATTTAATAATCTGATAACAACAATATGAAATTCAAAAATAAAAGA
64 GTTATCAAAGCATTTAAGAAATTTAATAATCTGATAAGAATAATATGTAATTCAAAAAGAAAAGA
9920718 TA
129 TA
* * * **
9920720 TAAAATGAAAATTGCATAATTTTCATATCACTTATTCAAAAGATAAATGAAATTAC-AAA-ATGT
1 TAAAATAAAAATTACATAATTTTCTTATCACTTATTCAAAAGATAAACAAAATTACAAAATATGT
*
9920783 TATCAAAGCATTTAAGAAATTTAATAATCTGATAAGAATAATATGTAATTCAGAAAGAAAAGATA
66 TATCAAAGCATTTAAGAAATTTAATAATCTGATAAGAATAATATGTAATTCAAAAAGAAAAGATA
* * * * *
9920848 TAAAATAAAAATT--ATATTTTTTTTGTCAGC-TATTCAAAAGATACACAAAATTACAAGATATG
1 TAAAATAAAAATTACATAATTTTCTTATCA-CTTATTCAAAAGATAAACAAAATTACAAAATATG
*
9920910 TTATAAAAGCAT
65 TTATCAAAGCAT
9920922 ACGTTACAAG
Statistics
Matches: 286, Mismatches: 40, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
126 32 0.11
127 4 0.01
128 93 0.33
129 77 0.27
130 66 0.23
131 10 0.03
132 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.32
Consensus pattern (130 bp):
TAAAATAAAAATTACATAATTTTCTTATCACTTATTCAAAAGATAAACAAAATTACAAAATATGT
TATCAAAGCATTTAAGAAATTTAATAATCTGATAAGAATAATATGTAATTCAAAAAGAAAAGATA
Found at i:9927189 original size:31 final size:32
Alignment explanation
Indices: 9927154--9927221 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
9927144 GAAAATCTAG
*
9927154 AATTTTCCT-GAAAAATTTAAAGTTTTAGATC
1 AATTTTCCTAGAAAAACTTAAAGTTTTAGATC
* * *
9927185 AA-TTTCCTAGCAAACCTTAAAGTTTTCGATC
1 AATTTTCCTAGAAAAACTTAAAGTTTTAGATC
9927216 AATTTT
1 AATTTT
9927222 TGGGTAGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 6 0.19
31 22 0.71
32 3 0.10
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (32 bp):
AATTTTCCTAGAAAAACTTAAAGTTTTAGATC
Found at i:9927905 original size:26 final size:26
Alignment explanation
Indices: 9927856--9927905 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9927846 AAATTGAAAA
*
9927856 TAAATTGTGACGATTTTATAATTGAT
1 TAAATTGTGACGATTTGATAATTGAT
** *
9927882 TAAATTGTGATTATTTGATTATTG
1 TAAATTGTGACGATTTGATAATTG
9927906 TATTTTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (26 bp):
TAAATTGTGACGATTTGATAATTGAT
Found at i:9927929 original size:30 final size:29
Alignment explanation
Indices: 9927893--9927957 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
9927883 AAATTGTGAT
9927893 TATTTGATTATTG-TATTTTATTAAATTTTG
1 TATTTGA--ATTGATATTTTATTAAATTTTG
**
9927923 TATTTGAATTGTATATTTTATTGGATTTTG
1 TATTTGAATTG-ATATTTTATTAAATTTTG
9927953 TATTT
1 TATTT
9927958 TACTATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.13
30 27 0.87
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (29 bp):
TATTTGAATTGATATTTTATTAAATTTTG
Found at i:9927966 original size:12 final size:12
Alignment explanation
Indices: 9927951--9928001 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
9927941 TATTGGATTT
9927951 TGTATTTTACTA
1 TGTATTTTACTA
*
9927963 TGTATTTATA-TG
1 TGTATTT-TACTA
9927975 TGTATTTTACTA
1 TGTATTTTACTA
9927987 TGTA-TTT-CTA
1 TGTATTTTACTA
9927997 TGTAT
1 TGTAT
9928002 CTCTTTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 7 0.21
11 5 0.15
12 20 0.59
13 2 0.06
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (12 bp):
TGTATTTTACTA
Found at i:9927993 original size:24 final size:24
Alignment explanation
Indices: 9927951--9927999 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
9927941 TATTGGATTT
9927951 TGTATTTTACTATGTATTTATATG
1 TGTATTTTACTATGTATTTATATG
*
9927975 TGTATTTTACTATGTATTTCTATG
1 TGTATTTTACTATGTATTTATATG
9927999 T
1 T
9928000 ATCTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.59
Consensus pattern (24 bp):
TGTATTTTACTATGTATTTATATG
Found at i:9931432 original size:26 final size:26
Alignment explanation
Indices: 9931403--9931455 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
9931393 AAATAAAAAA
*
9931403 ATTCTCCAAAATGTTGGAATGATTTT
1 ATTCTCCAAAATGTTGGAATAATTTT
* *
9931429 ATTCTCCAAAGTGTTGGGATAATTTT
1 ATTCTCCAAAATGTTGGAATAATTTT
9931455 A
1 A
9931456 CAAGCTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (26 bp):
ATTCTCCAAAATGTTGGAATAATTTT
Found at i:9939818 original size:16 final size:16
Alignment explanation
Indices: 9939797--9939829 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9939787 CACTTGGAAA
9939797 TGCATTAATTGACATC
1 TGCATTAATTGACATC
*
9939813 TGCATTAATTGGCATC
1 TGCATTAATTGACATC
9939829 T
1 T
9939830 ATATTACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (16 bp):
TGCATTAATTGACATC
Found at i:9940344 original size:40 final size:40
Alignment explanation
Indices: 9940289--9940390 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
9940279 TATTGGCTCA
* * *
9940289 TTAATTTTTAAAGTTGTGTGCTCTCGTGTTGAAGGAACCC
1 TTAATTTTTAAAGTTGTGTGCCCTCGTATTGAAAGAACCC
* *
9940329 TTAATTTTTAAAGTTGTGTGCCCTCGTATTGAAAGAGCTC
1 TTAATTTTTAAAGTTGTGTGCCCTCGTATTGAAAGAACCC
* *
9940369 TTGATTTTTAATAGTGGTGTGC
1 TTAATTTTTAA-AGTTGTGTGC
9940391 ATTTATTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 45 0.83
41 9 0.17
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (40 bp):
TTAATTTTTAAAGTTGTGTGCCCTCGTATTGAAAGAACCC
Found at i:9940609 original size:20 final size:18
Alignment explanation
Indices: 9940584--9940629 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
9940574 TAAATTTGGG
9940584 ATTTTTATTTATACTTTTTT
1 ATTTTT-TTT-TACTTTTTT
*
9940604 ATTTTTTTTTATTTTTTT
1 ATTTTTTTTTACTTTTTT
9940622 ATCTTTTT
1 AT-TTTTT
9940630 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
19 8 0.33
20 6 0.25
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTTTTTTACTTTTTT
Found at i:9940611 original size:8 final size:8
Alignment explanation
Indices: 9940607--9940650 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
9940597 CTTTTTTATT
9940607 TTTTTTTA
1 TTTTTTTA
9940615 TTTTTTTA
1 TTTTTTTA
*
9940623 TCTTTTTA
1 TTTTTTTA
*
9940631 TTATTTTA
1 TTTTTTTA
*
9940639 TTTTTCTA
1 TTTTTTTA
9940647 TTTT
1 TTTT
9940651 ATCTTTTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:9940611 original size:10 final size:10
Alignment explanation
Indices: 9940584--9940643 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
9940574 TAAATTTGGG
*
9940584 ATTTTTATTT
1 ATTTTTTTTT
**
9940594 ATACTTTTTT
1 ATTTTTTTTT
9940604 ATTTTTTTTT
1 ATTTTTTTTT
9940614 A--TTTTTTT
1 ATTTTTTTTT
*
9940622 ATCTTTTTATT
1 AT-TTTTTTTT
9940633 ATTTTATTTTT
1 ATTTT-TTTTT
9940644 CTATTTTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
8 8 0.21
10 19 0.49
11 12 0.31
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:9940635 original size:29 final size:29
Alignment explanation
Indices: 9940599--9940662 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
9940589 TATTTATACT
9940599 TTTTTATT-TTTT-TTTATT-T-TTTTATC
1 TTTTTATTATTTTATTT-TTCTATTTTATC
9940625 TTTTTATTATTTTATTTTTCTATTTTATC
1 TTTTTATTATTTTATTTTTCTATTTTATC
9940654 TTTTGTATT
1 TTTT-TATT
9940663 TATCCTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.24
27 6 0.18
28 4 0.12
29 11 0.33
30 4 0.12
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (29 bp):
TTTTTATTATTTTATTTTTCTATTTTATC
Found at i:9946223 original size:21 final size:22
Alignment explanation
Indices: 9946197--9946241 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9946187 TATTTGATAC
*
9946197 ATAAGATTATAATA-TAATAAA
1 ATAAGATAATAATATTAATAAA
*
9946218 ATAAGATAATATTATTAATAAA
1 ATAAGATAATAATATTAATAAA
9946240 AT
1 AT
9946242 TAAATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATAAGATAATAATATTAATAAA
Found at i:9946246 original size:27 final size:26
Alignment explanation
Indices: 9946197--9946255 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
9946187 TATTTGATAC
* *
9946197 ATAAGATTATAATATAATAAAA-TAA
1 ATAATATTATAATAAAATAAAATTAA
*
9946222 GATAATATTATTAATAAAATTAAATTAA
1 -ATAATATTA-TAATAAAATAAAATTAA
9946250 ATAATA
1 ATAATA
9946256 AGATATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.29
27 17 0.61
28 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (26 bp):
ATAATATTATAATAAAATAAAATTAA
Found at i:9947536 original size:26 final size:27
Alignment explanation
Indices: 9947507--9947572 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
9947497 AAAAATTAGG
* *
9947507 AAAATAGATAAAAGAAATTGAAAAT-T
1 AAAATAAATAAAAGAAATTAAAAATAT
* * *
9947533 AAAAAAAATGAAATAAATTAAAAATAT
1 AAAATAAATAAAAGAAATTAAAAATAT
9947560 AAAATAAATAAAA
1 AAAATAAATAAAA
9947573 ATTAGAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (27 bp):
AAAATAAATAAAAGAAATTAAAAATAT
Found at i:9947581 original size:18 final size:18
Alignment explanation
Indices: 9947494--9947584 Score: 68
Period size: 18 Copynumber: 5.1 Consensus size: 18
9947484 ATAAACAAGT
9947494 AATAAAAATTAGGAAAATA
1 AATAAAAATTA-GAAAATA
*
9947513 GATAAAAGAAATT-GAAAATTA
1 -A-ATAA-AAATTAGAAAA-TA
9947534 AA-AAAAA-T-G-AAATA
1 AATAAAAATTAGAAAATA
*
9947548 AATTAAAAA-TATAAAATA
1 AA-TAAAAATTAGAAAATA
9947566 AATAAAAATTAGAAAATA
1 AATAAAAATTAGAAAATA
9947584 A
1 A
9947585 CAAGAAAATG
Statistics
Matches: 60, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
14 4 0.07
15 3 0.05
16 8 0.13
17 9 0.15
18 18 0.30
19 1 0.02
20 7 0.12
21 5 0.08
22 5 0.08
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (18 bp):
AATAAAAATTAGAAAATA
Found at i:9948447 original size:3 final size:3
Alignment explanation
Indices: 9948430--9948565 Score: 122
Period size: 3 Copynumber: 46.3 Consensus size: 3
9948420 GAAGAAAGAA
* *
9948430 AAT AA- AAT AAAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT GAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** *
9948475 AAT AAT AAT AAT AAT -TT AAT AAT -AT AAT TAC AAT AGT AAT CTT GGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
9948522 AAT -AT AAT AAT AAT AA- ATAT AAT AAT AA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
9948565 A
1 A
9948566 CTAGTAGATT
Statistics
Matches: 107, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
2 10 0.09
3 92 0.86
4 5 0.05
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:9949131 original size:114 final size:114
Alignment explanation
Indices: 9949012--9949224 Score: 281
Period size: 114 Copynumber: 1.9 Consensus size: 114
9949002 TGTAAGTCTA
* *
9949012 AAAATGATCTGGCTTGAGCCGAGATC-AGATGACTGAGACAAT-AT-C-GTGAGTCAAAAAGTGA
1 AAAATGATCTAGCTTGAGCCGAGATCGA-ATGACT-AG--AATGATGCAATGAGTCAAAAAGTGA
*
9949073 CCAAAATTGAGTCGAGGTCATAAATGAATGACTAAGATGATACTGTGAATCTG
62 CCAAAATTGAGTCAAGGTCATAAATGAATGACTAAGATGATACTGTGAATCTG
* * * *
9949126 AAAATGATCTAGCTTGAGCTGAGATCGAATGACTAGGATGATGCAATGAGTCTAAAAGTGACTAA
1 AAAATGATCTAGCTTGAGCCGAGATCGAATGACTAGAATGATGCAATGAGTCAAAAAGTGACCAA
* *
9949191 GATTGAGTCAAGGTCATAAATGAATGATTAAGAT
66 AATTGAGTCAAGGTCATAAATGAATGACTAAGAT
9949225 AATGCTGCAA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
111 2 0.02
112 2 0.02
113 3 0.03
114 78 0.91
115 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.25
Consensus pattern (114 bp):
AAAATGATCTAGCTTGAGCCGAGATCGAATGACTAGAATGATGCAATGAGTCAAAAAGTGACCAA
AATTGAGTCAAGGTCATAAATGAATGACTAAGATGATACTGTGAATCTG
Found at i:9949440 original size:60 final size:59
Alignment explanation
Indices: 9949330--9949452 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 59
9949320 CTGATATCAG
* **
9949330 ATGACTGGATGATGTCGTAAGTTCGAAAGTAATCAAGATCGAGTTGAGGTCATAAATGA
1 ATGACTGGATGATGTCGTAAGTTCAAAAGTAATCAAGATCGAGTCAAGGTCATAAATGA
* *
9949389 ATGACTGAGATGATGTCGTAAG-TCTAAAAGTGA-CTAAGA-CTGAGTCAAGGTCATAGATGA
1 ATGACTG-GATGATGTCGTAAGTTC-AAAAGTAATC-AAGATC-GAGTCAAGGTCATAAATGA
9949449 ATGA
1 ATGA
9949453 TCAAGTCGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
59 11 0.20
60 44 0.80
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.26
Consensus pattern (59 bp):
ATGACTGGATGATGTCGTAAGTTCAAAAGTAATCAAGATCGAGTCAAGGTCATAAATGA
Found at i:9961003 original size:33 final size:33
Alignment explanation
Indices: 9960947--9961029 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
9960937 CAAGTAATGA
*
9960947 AAATAAAAA-AAATAGATTAAAAAAT-TGAAAAT
1 AAATAAAAATAAATAAATTAAAAAATCT-AAAAT
*
9960979 AAATTAAAATGAAATAAATT-AAAAATCTAAAAT
1 AAATAAAAAT-AAATAAATTAAAAAATCTAAAAT
*
9961012 AAATAAAAATAAAAAAAT
1 AAATAAAAATAAATAAAT
9961030 AACAAGAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
32 15 0.34
33 20 0.45
34 9 0.20
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (33 bp):
AAATAAAAATAAATAAATTAAAAAATCTAAAAT
Found at i:9961024 original size:23 final size:22
Alignment explanation
Indices: 9960979--9961026 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
9960969 AATTGAAAAT
*
9960979 AAATTAAAATGAAATAAATTAA
1 AAATTAAAATGAAATAAAATAA
9961001 AAATCTAAAAT-AAATAAAAATAA
1 AAAT-TAAAATGAAAT-AAAATAA
9961024 AAA
1 AAA
9961027 AATAACAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AAATTAAAATGAAATAAAATAA
Found at i:9961039 original size:14 final size:15
Alignment explanation
Indices: 9960973--9961048 Score: 59
Period size: 15 Copynumber: 5.0 Consensus size: 15
9960963 TTAAAAAATT
*
9960973 GAAAATAAATTAAAAT
1 GAAAATAAA-TAAAAA
9960989 G-AAATAAATTAAAAA
1 GAAAATAAA-TAAAAA
*
9961004 TCTAAAATAAATAAAAA
1 --GAAAATAAATAAAAA
* *
9961021 TAAAA-AAATAACAA
1 GAAAATAAATAAAAA
9961035 GAAAATAAA-AAAAA
1 GAAAATAAATAAAAA
9961049 CCTATGAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
14 16 0.31
15 21 0.41
16 1 0.02
17 6 0.12
18 7 0.14
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (15 bp):
GAAAATAAATAAAAA
Found at i:9961905 original size:3 final size:3
Alignment explanation
Indices: 9961887--9961973 Score: 87
Period size: 3 Copynumber: 31.0 Consensus size: 3
9961877 GAAGAAAGAA
* * *
9961887 AAT AA- AAT AA- AAT AAT AAT AAT AAT GAC AAG AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9961932 AAT AAA AAT AAT -AT AAT AAT AAT AAT TAT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9961974 TGCAATAGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
2 12 0.17
3 57 0.83
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9961933 original size:37 final size:37
Alignment explanation
Indices: 9961887--9961969 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
9961877 GAAGAAAGAA
* * *
9961887 AATAAAATAA-AATAATAATAATAATGACAAGAATAAT
1 AATATAATAATAAAAATAAT-ATAATAACAAGAATAAT
* * *
9961924 AATATAATAATAAAAATAATATAATAATAATAATTAT
1 AATATAATAATAAAAATAATATAATAACAAGAATAAT
9961961 AATATAATA
1 AATATAATA
9961970 TAATTGCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 31 0.79
38 8 0.21
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (37 bp):
AATATAATAATAAAAATAATATAATAACAAGAATAAT
Found at i:9961941 original size:20 final size:20
Alignment explanation
Indices: 9961895--9961969 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
9961885 AAAATAAAAT
* *
9961895 AAAATAATAATAATAATGACA
1 AAAATAATAAT-ATAATAATA
*
9961916 AGAATAATAATATAATAAT-
1 AAAATAATAATATAATAATA
9961935 -AAA-AATAATATAATAATA
1 AAAATAATAATATAATAATA
* *
9961953 ATAATTATAATATAATA
1 AAAATAATAATATAATA
9961970 TAATTGCAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 14 0.31
18 2 0.04
19 2 0.04
20 17 0.38
21 10 0.22
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATAATAATATAATAATA
Found at i:9962119 original size:16 final size:19
Alignment explanation
Indices: 9962098--9962137 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 19
9962088 AATAGTAGCC
9962098 ATACTAAC-ATAAT-AT-T
1 ATACTAACTATAATAATAT
9962114 ATACT-ACTATAATAATAT
1 ATACTAACTATAATAATAT
9962132 ATACTA
1 ATACTA
9962138 GGAGAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.10
16 10 0.50
17 2 0.10
18 6 0.30
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
ATACTAACTATAATAATAT
Found at i:9971266 original size:54 final size:54
Alignment explanation
Indices: 9971198--9971304 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
9971188 ACAGTTTTAC
* * *
9971198 ATATTGACCCATTGTTTGAGACATAAACATATTATCATATCACTTTGGGTGAAG
1 ATATTAACCCATTGTTCGAGACATAAACATATTATCATATCACTTTAGGTGAAG
* * * * *
9971252 ATATTAACCTATTGTTCGAGAGATGAACATGTTGTCATATCACTTTAGGTGAA
1 ATATTAACCCATTGTTCGAGACATAAACATATTATCATATCACTTTAGGTGAA
9971305 TAATTTAAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (54 bp):
ATATTAACCCATTGTTCGAGACATAAACATATTATCATATCACTTTAGGTGAAG
Found at i:9977646 original size:17 final size:17
Alignment explanation
Indices: 9977624--9977680 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
9977614 ATGTGTCAAA
9977624 AAATTAAAATATTTAAT
1 AAATTAAAATATTTAAT
** *
9977641 AAATTATTACATTTAA-
1 AAATTAAAATATTTAAT
*
9977657 AAATCATAAATATTTAAT
1 AAATTA-AAATATTTAAT
*
9977675 CAATTA
1 AAATTA
9977681 TTACATTCAA
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
16 5 0.17
17 20 0.69
18 4 0.14
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTAAAATATTTAAT
Found at i:9977694 original size:34 final size:33
Alignment explanation
Indices: 9977622--9977697 Score: 116
Period size: 34 Copynumber: 2.3 Consensus size: 33
9977612 TAATGTGTCA
* *
9977622 AAAAATTAAAATATTTAATAAATTATTACATTT
1 AAAAATCAAAATATTTAATAAATTATTACATTC
*
9977655 AAAAATCATAAATATTTAATCAATTATTACATTC
1 AAAAATCA-AAATATTTAATAAATTATTACATTC
9977689 AAAAATCAA
1 AAAAATCAA
9977698 GTAAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 8 0.21
34 31 0.79
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAAATCAAAATATTTAATAAATTATTACATTC
Found at i:9984042 original size:77 final size:77
Alignment explanation
Indices: 9983913--9984066 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
9983903 TGTTAGAGAA
9983913 AGATGAGAAATGGGTTTTCTTGATTTTGTCCATAGCACATTGTTTTCAGCTTTATCCATTTTGTA
1 AGATGAGAAATGGGTTTTCTTGATTTTGTCCATAGCACATTGTTTTCAGCTTTATCCATTTTGTA
9983978 ATTCTAAAAATG
66 ATTCTAAAAATG
* * * *
9983990 AGATGAGAAATGGGTTTTCTTGATTTTTTCCGTATCACATTGTTTTCTGCTTTATCCATTTTGTA
1 AGATGAGAAATGGGTTTTCTTGATTTTGTCCATAGCACATTGTTTTCAGCTTTATCCATTTTGTA
9984055 ATTCTAAAAATG
66 ATTCTAAAAATG
9984067 TGCATATGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (77 bp):
AGATGAGAAATGGGTTTTCTTGATTTTGTCCATAGCACATTGTTTTCAGCTTTATCCATTTTGTA
ATTCTAAAAATG
Found at i:9989725 original size:22 final size:22
Alignment explanation
Indices: 9989697--9989740 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9989687 CTAAATCTTC
*
9989697 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9989719 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9989741 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9993404 original size:23 final size:23
Alignment explanation
Indices: 9993378--9993433 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
9993368 AAGGGTTCGA
9993378 CAATGAAGGCCTAAAAAAGTCGG
1 CAATGAAGGCCTAAAAAAGTCGG
9993401 CAATGAAGGCCTAAAAAAGTCGG
1 CAATGAAGGCCTAAAAAAGTCGG
9993424 CAATGAAGGC
1 CAATGAAGGC
9993434 TGAAGATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.43, C:0.18, G:0.27, T:0.12
Consensus pattern (23 bp):
CAATGAAGGCCTAAAAAAGTCGG
Found at i:9993609 original size:22 final size:22
Alignment explanation
Indices: 9993581--9993624 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9993571 CTAAATCTTC
*
9993581 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9993603 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
9993625 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:9999336 original size:2 final size:2
Alignment explanation
Indices: 9999331--9999360 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9999321 TCTCTCTCTC
9999331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9999361 CACACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10002143 original size:2 final size:2
Alignment explanation
Indices: 10002138--10002175 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
10002128 CATGTGTGTG
*
10002138 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10002176 AAGTTGTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10006661 original size:38 final size:38
Alignment explanation
Indices: 10006610--10006688 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
10006600 TGATACTTAA
10006610 TTAGCTATTTAATATCATATAAAAATTATTTTAAACAT
1 TTAGCTATTTAATATCATATAAAAATTATTTTAAACAT
10006648 TTAGCTATTTAATATCATATAAAAATTATTTTAAACAT
1 TTAGCTATTTAATATCATATAAAAATTATTTTAAACAT
10006686 TTA
1 TTA
10006689 ATTATGGTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (38 bp):
TTAGCTATTTAATATCATATAAAAATTATTTTAAACAT
Found at i:10007026 original size:27 final size:30
Alignment explanation
Indices: 10006995--10007075 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 30
10006985 ATTTATTATT
*
10006995 TTAGTCATGT-TTTATT-T-TATATTCGTG
1 TTAGTCATGTGTCTATTATATATATTCGTG
*
10007022 TTAGT--TGTGTCTATTCATATATATTTGTG
1 TTAGTCATGTGTCTATT-ATATATATTCGTG
10007051 TTAGTCA--TGTCTATTCATATATATT
1 TTAGTCATGTGTCTATT-ATATATATT
10007076 TGTATTATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
25 3 0.07
26 5 0.11
27 5 0.11
28 1 0.02
29 32 0.70
ACGTcount: A:0.22, C:0.09, G:0.14, T:0.56
Consensus pattern (30 bp):
TTAGTCATGTGTCTATTATATATATTCGTG
Found at i:10007051 original size:29 final size:29
Alignment explanation
Indices: 10007012--10007095 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
10007002 TGTTTTATTT
*
10007012 TATATTCGTGTTAGTTGTGTCTATTCATA
1 TATATTTGTGTTAGTTGTGTCTATTCATA
**
10007041 TATATTTGTGTTAGTCATGTCTATTCATA
1 TATATTTGTGTTAGTTGTGTCTATTCATA
* *
10007070 TATATTTGTATTA-TTCGTGTTTATTC
1 TATATTTGTGTTAGTT-GTGTCTATTC
10007096 GTGTCACGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 1 0.02
29 46 0.98
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (29 bp):
TATATTTGTGTTAGTTGTGTCTATTCATA
Found at i:10008311 original size:133 final size:133
Alignment explanation
Indices: 10008069--10008323 Score: 433
Period size: 132 Copynumber: 1.9 Consensus size: 133
10008059 CGATAACATT
*
10008069 TATAAAATTAAATAGGAAATTATCAATTAAGAGTTTTAGAAAAGGTTAAACTAGTTTGCTAAAAA
1 TATAAAATTAAATAGGAAATTATCAATTAAGAGTTCTAGAAAAGGTTAAACTAGTTTGCTAAAAA
* * *
10008134 AATTGATTGGGAAAAAATAAATTGCTTTACCTAGCAGTTCTTTTTTATAGCTAATTCTTTTTTAT
66 AATTGATTAGGAAAAAATAAATTACTTTACCTAGCAATTCTTTTTTATAGCTAATTCTTTTTTAT
10008199 ATC
131 ATC
10008202 TATAAAATTAAATAGGAAATTATCAATTAAGAGTTCTAG-AAAGGTTAAACT-GATTTGCTAAAA
1 TATAAAATTAAATAGGAAATTATCAATTAAGAGTTCTAGAAAAGGTTAAACTAG-TTTGCTAAAA
* *
10008265 AAATTGATTAGGAAAAAATAAATTATTTTACCTATCAATTCTTTTTTATAGCTAATTCT
65 AAATTGATTAGGAAAAAATAAATTACTTTACCTAGCAATTCTTTTTTATAGCTAATTCT
10008324 AGTAGTAAGT
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 76 0.66
133 38 0.33
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (133 bp):
TATAAAATTAAATAGGAAATTATCAATTAAGAGTTCTAGAAAAGGTTAAACTAGTTTGCTAAAAA
AATTGATTAGGAAAAAATAAATTACTTTACCTAGCAATTCTTTTTTATAGCTAATTCTTTTTTAT
ATC
Found at i:10010015 original size:165 final size:165
Alignment explanation
Indices: 10009722--10010055 Score: 434
Period size: 165 Copynumber: 2.0 Consensus size: 165
10009712 CATTGTAAGG
* * ** *
10009722 AATGACAATCACTCTTTGCTTAAGGTAATCTATTTTCAAAAAATTTGCACCCAATGTAGGATAGA
1 AATGACAATCACTCTTTGCTTAAAGTAATCTATCTTCAAAAAATTTAAACCCAATGTAGGATAAA
* * * * ** *
10009787 CAATGGATATTATTCTCTATATTGAATTTTCTAAATATTAGAGTAACAGATCTTTAGGCATTTTA
66 CAATAGATACTATTCTCTATATTAAATTTTCTAAATATGAGAGTAACAGATCTACAAGCATTTTA
*
10009852 ATATAAGAGGCATCTTTCTAATCATCATAATTGAA
131 ATATAAGAGGCATCTTTATAATCATCATAATTGAA
* * * *
10009887 AATGATAATCGCTCTTTGCTTAAAGTAATTTATCTTCAAAAAATTTAAACCTAATGTAGGATAAA
1 AATGACAATCACTCTTTGCTTAAAGTAATCTATCTTCAAAAAATTTAAACCCAATGTAGGATAAA
* * * * **
10009952 CAATAGATACTATTGTCTTTATTAAATTTTTTGAATATGAGAGTAGTAGATCTACAAGCATTTTA
66 CAATAGATACTATTCTCTATATTAAATTTTCTAAATATGAGAGTAACAGATCTACAAGCATTTTA
* * *
10010017 ATATAAGAGGGATCTTTATAATCATTATGATTGAA
131 ATATAAGAGGCATCTTTATAATCATCATAATTGAA
10010052 AATG
1 AATG
10010056 TCACTTTTGC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
165 143 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (165 bp):
AATGACAATCACTCTTTGCTTAAAGTAATCTATCTTCAAAAAATTTAAACCCAATGTAGGATAAA
CAATAGATACTATTCTCTATATTAAATTTTCTAAATATGAGAGTAACAGATCTACAAGCATTTTA
ATATAAGAGGCATCTTTATAATCATCATAATTGAA
Found at i:10020752 original size:22 final size:22
Alignment explanation
Indices: 10020724--10020804 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 22
10020714 AATTTTGTCC
* *
10020724 AATATTTTAATTTTTAACAAAT
1 AATATTTCAATTTTTAAAAAAT
*
10020746 AATATTTGGTCATTTTTTAAAAAAT
1 AATA-TT--TCAATTTTTAAAAAAT
*
10020771 -ATATTTCAATTTCATAAAAAAT
1 AATATTTCAATTT-TTAAAAAAT
10020793 AAT-TTTCAATTT
1 AATATTTCAATTT
10020805 CTAGAATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
21 6 0.12
22 21 0.43
23 6 0.12
24 3 0.06
25 13 0.27
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.48
Consensus pattern (22 bp):
AATATTTCAATTTTTAAAAAAT
Found at i:10020927 original size:29 final size:28
Alignment explanation
Indices: 10020868--10020927 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
10020858 AATATTTTTA
* ** *
10020868 TTTTTTAAAAATCATAATTTTTTTTACT
1 TTTTTTAAAAATCACAATTTTTTAAAAT
*
10020896 TTTTTTATAAATCAGCAATTTTTTAAAAT
1 TTTTTTAAAAATCA-CAATTTTTTAAAAT
10020925 TTT
1 TTT
10020928 AAAATTTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTTTTAAAAATCACAATTTTTTAAAAT
Found at i:10034513 original size:30 final size:30
Alignment explanation
Indices: 10034454--10034584 Score: 160
Period size: 30 Copynumber: 4.4 Consensus size: 30
10034444 TTTATTTAAC
*
10034454 TAAATTTTTATATTTTT-A-TTATATGCAAA
1 TAAATTTTTA-ATTTTTAATTTATATCCAAA
10034483 TAAATTTTTAATTTTTAATTTATA-CTCAAA
1 TAAATTTTTAATTTTTAATTTATATC-CAAA
* *
10034513 TAAATTCTTAATTTTTAATTTGTATCCAAA
1 TAAATTTTTAATTTTTAATTTATATCCAAA
* * **
10034543 TAAATCTTTAATATTTAATTTATATCTGAA
1 TAAATTTTTAATTTTTAATTTATATCCAAA
10034573 TAAATTTTTAAT
1 TAAATTTTTAAT
10034585 AAAAATTAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
28 6 0.07
29 11 0.12
30 70 0.80
31 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (30 bp):
TAAATTTTTAATTTTTAATTTATATCCAAA
Found at i:10034585 original size:30 final size:30
Alignment explanation
Indices: 10034429--10034585 Score: 137
Period size: 30 Copynumber: 5.3 Consensus size: 30
10034419 ATAATAAAAA
* *
10034429 TTTTAAT-TTTATTATTT-TATTTAACTAAAT
1 TTTTAATATTTA--ATTTATATCTAAATAAAT
*
10034459 TTTT-ATATTT-TTATTATATGC-AAATAAAT
1 TTTTAATATTTAAT-TTATAT-CTAAATAAAT
*
10034488 TTTTAATTTTTAATTTATA-CTCAAATAAAT
1 TTTTAATATTTAATTTATATCT-AAATAAAT
* * * *
10034518 TCTTAATTTTTAATTTGTATCCAAATAAAT
1 TTTTAATATTTAATTTATATCTAAATAAAT
* *
10034548 CTTTAATATTTAATTTATATCTGAATAAAT
1 TTTTAATATTTAATTTATATCTAAATAAAT
10034578 TTTTAATA
1 TTTTAATA
10034586 AAAATTAATT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.01
28 3 0.03
29 16 0.16
30 81 0.79
31 2 0.02
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTAATATTTAATTTATATCTAAATAAAT
Found at i:10034656 original size:28 final size:31
Alignment explanation
Indices: 10034607--10034672 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
10034597 TTTATTTAAA
* *
10034607 ATAAAAATTTATTTAGAGATAA-ATTAAAAT
1 ATAAAAATTTATATAGAGATAATATAAAAAT
10034637 ATAAAAATTTATATA-A-ATAATATAAAAAT
1 ATAAAAATTTATATAGAGATAATATAAAAAT
10034666 ATAAAAA
1 ATAAAAA
10034673 ACTTATTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 4 0.12
29 15 0.45
30 14 0.42
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (31 bp):
ATAAAAATTTATATAGAGATAATATAAAAAT
Found at i:10040984 original size:14 final size:15
Alignment explanation
Indices: 10040967--10041000 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10040957 TTTGATATAT
*
10040967 ATATTTTTAA-ATAA
1 ATATTTTTAATAAAA
10040981 ATATTTTTAATAAAA
1 ATATTTTTAATAAAA
10040996 ATATT
1 ATATT
10041001 GATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTTAATAAAA
Found at i:10052601 original size:24 final size:23
Alignment explanation
Indices: 10052570--10052618 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
10052560 AAGTGAAAGT
10052570 TTGTTCATACATACAAGTTT-AAA
1 TTGTTCATACATACAA-TTTCAAA
**
10052593 TTGTGTCATTTATACAATTTCAAA
1 TTGT-TCATACATACAATTTCAAA
10052617 TT
1 TT
10052619 TGTTATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (23 bp):
TTGTTCATACATACAATTTCAAA
Found at i:10052621 original size:48 final size:48
Alignment explanation
Indices: 10052505--10052622 Score: 114
Period size: 48 Copynumber: 2.5 Consensus size: 48
10052495 TTGTTTGTTC
* * * * *
10052505 TTTATATAATTCCATATTTTTTCATTAATACAAGTCAAAATTGTTTCA
1 TTTATACAATTTCAAATTTGTTCATTAATACAAGTCAAAATTGTGTCA
* * * **
10052553 TTTATAGAA-GTGAAAGTTTGTTCA-TACATACAAGTTTAAATTGTGTCA
1 TTTATACAATTTCAAA-TTTGTTCATTA-ATACAAGTCAAAATTGTGTCA
10052601 TTTATACAATTTCAAATTTGTT
1 TTTATACAATTTCAAATTTGTT
10052623 ATATTTATAC
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
47 4 0.07
48 47 0.85
49 4 0.07
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (48 bp):
TTTATACAATTTCAAATTTGTTCATTAATACAAGTCAAAATTGTGTCA
Found at i:10053125 original size:37 final size:38
Alignment explanation
Indices: 10053083--10053167 Score: 127
Period size: 38 Copynumber: 2.3 Consensus size: 38
10053073 ACAAAATGCC
* *
10053083 AATGTAATTATAATATTGAAA-AATACAAAGCAATATG
1 AATGTAATTATAATATTCAAACAATACAAAACAATATG
* *
10053120 AATGTAATTATAATATTCAAACAATCCAAAACATTATG
1 AATGTAATTATAATATTCAAACAATACAAAACAATATG
10053158 AATGTAATTA
1 AATGTAATTA
10053168 CAAACTGCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 20 0.47
38 23 0.53
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (38 bp):
AATGTAATTATAATATTCAAACAATACAAAACAATATG
Found at i:10053247 original size:87 final size:87
Alignment explanation
Indices: 10053101--10053273 Score: 292
Period size: 87 Copynumber: 2.0 Consensus size: 87
10053091 TATAATATTG
* *
10053101 AAAAATACAAAGCAATATGAATGTAATTATAATATTCAAACAATCCAAAACATTATGAATGTAAT
1 AAAAATACAAAACAATATGAATGTAATTATAATATTAAAACAATCCAAAACATTATGAATGTAAT
*
10053166 TACAAACTGCCAATGTAATTAT
66 TACAAAATGCCAATGTAATTAT
* * *
10053188 AAAAATACAAAACATTATGAATGTAATTATGATATTAAAACAATCCAAAGCATTATGAATGTAAT
1 AAAAATACAAAACAATATGAATGTAATTATAATATTAAAACAATCCAAAACATTATGAATGTAAT
10053253 TACAAAATGCCAATGTAATTA
66 TACAAAATGCCAATGTAATTA
10053274 CAATTACAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.29
Consensus pattern (87 bp):
AAAAATACAAAACAATATGAATGTAATTATAATATTAAAACAATCCAAAACATTATGAATGTAAT
TACAAAATGCCAATGTAATTAT
Found at i:10055573 original size:121 final size:121
Alignment explanation
Indices: 10055359--10055605 Score: 422
Period size: 121 Copynumber: 2.0 Consensus size: 121
10055349 CTATTGTAAA
* *
10055359 ACCTTCTCATCTTAGTAAAACATTTATAAATTACATGTTTGGTGTGCAAATACCAAGAATATTAG
1 ACCTTCTCATCCTAGTAAAACATTTATAAATTACATGTTTGGTGTGCAAATACCAAGAACATTAG
*
10055424 TACTAATTTCATTTTTCGTAGTCTTATACCTAGGCCTATCAACTTAATCTACATTC
66 TACTAATTTCATTTTTCGTAGTCTTATACCTAGGCCTATCAACTGAATCTACATTC
* * *
10055480 ACCTTCTTATCCTAGTAAAACATTTATGAATTGCATGTTTGGTGTGCAAATACCAAGAACATTAG
1 ACCTTCTCATCCTAGTAAAACATTTATAAATTACATGTTTGGTGTGCAAATACCAAGAACATTAG
* *
10055545 TAGTAATTTCATTTTTCGTAGTCTTATACCTAGGCTTATCAACTGAATCTACATTC
66 TACTAATTTCATTTTTCGTAGTCTTATACCTAGGCCTATCAACTGAATCTACATTC
10055601 ACCTT
1 ACCTT
10055606 ATATATGTTT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.38
Consensus pattern (121 bp):
ACCTTCTCATCCTAGTAAAACATTTATAAATTACATGTTTGGTGTGCAAATACCAAGAACATTAG
TACTAATTTCATTTTTCGTAGTCTTATACCTAGGCCTATCAACTGAATCTACATTC
Found at i:10059649 original size:15 final size:15
Alignment explanation
Indices: 10059631--10059680 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
10059621 TGTTGTTTTG
*
10059631 TTTTTTATTTTTTAT
1 TTTTTTAATTTTTAT
* *
10059646 TTTTTAAAATTTTAT
1 TTTTTTAATTTTTAT
* *
10059661 TATTTTAATTTTAAT
1 TTTTTTAATTTTTAT
10059676 TTTTT
1 TTTTT
10059681 GTTTGATTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTAATTTTTAT
Found at i:10059673 original size:22 final size:22
Alignment explanation
Indices: 10059633--10059674 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10059623 TTGTTTTGTT
*
10059633 TTTTATTTTTTATTTTTTAAAA
1 TTTTATTTTTTATATTTTAAAA
10059655 TTTTATTATTTTA-ATTTTAA
1 TTTTATT-TTTTATATTTTAA
10059675 TTTTTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATTTTTTATATTTTAAAA
Found at i:10060293 original size:110 final size:108
Alignment explanation
Indices: 10060141--10060481 Score: 298
Period size: 110 Copynumber: 3.2 Consensus size: 108
10060131 AAAATGAAAG
* * * ** *
10060141 TGATTTTTGTTATTTAAAAAAATAATTTTTGTTATTTAACAAAGATGATGTTTCTTATGTCAAAA
1 TGATCTTTATTATTTAAAAAAGTGGTTTTTGTTATTTAACAAAGATGATGTTTCTTATGTAAAAA
10060206 ATGCAGTCTTTGTATTCTTAAAGACTATGTTTCTAACATAAGAAATA
66 AT-CA-TCTTTGTATTCTTAAAGACTAT-TTTCTAACATAA-AAATA
* *
10060253 TGATC-TTAGTTATTT-AAAAAGTGG-TTTTGTTATTTAACAAAGATG-TCGTTTCTTATGTGAG
1 TGATCTTTA-TTATTTAAAAAAGTGGTTTTTGTTATTTAACAAAGATGAT-GTTTCTTATGTAAA
*
10060314 AAATACAATCTTTGTATACTT--A-A--A----CTAACATAAAAATA
64 AAAT-C-ATCTTTGTATTCTTAAAGACTATTTTCTAACATAAAAATA
** * *
10060352 TGATCTTTATTATTTAAAAAAGTGGTTTTTGTTATTTATTAAAAACT-ATGTTTCTTATATAAGA
1 TGATCTTTATTATTTAAAAAAGTGGTTTTTGTTATTTAACAAAGA-TGATGTTTCTTATGTAA-A
* * *
10060416 AACATTATATTTATATTCTTAAAGACTATATTTCTAACATAAAAA-A
64 AA-ATCATCTTTGTATTCTTAAAGACTAT-TTTCTAACATAAAAATA
*
10060462 TGTTATTTTTATTATTTAAA
1 TG--ATCTTTATTATTTAAA
10060482 TTACATTTCT
Statistics
Matches: 187, Mismatches: 20, Indels: 44
0.75 0.08 0.18
Matches are distributed among these distances:
99 16 0.09
100 21 0.11
101 38 0.20
102 4 0.02
103 3 0.02
104 1 0.01
105 1 0.01
106 1 0.01
107 1 0.01
108 1 0.01
109 1 0.01
110 53 0.28
111 21 0.11
112 25 0.13
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.45
Consensus pattern (108 bp):
TGATCTTTATTATTTAAAAAAGTGGTTTTTGTTATTTAACAAAGATGATGTTTCTTATGTAAAAA
ATCATCTTTGTATTCTTAAAGACTATTTTCTAACATAAAAATA
Found at i:10060437 original size:101 final size:100
Alignment explanation
Indices: 10060238--10060438 Score: 237
Period size: 101 Copynumber: 2.0 Consensus size: 100
10060228 GACTATGTTT
* *
10060238 CTAACATAAGAAATATGATCTTAGTTATTTAAAAAGTGGTTTTGTTATTTAACAAAGATGTCGTT
1 CTAACATAAGAAATATGATCTTAGTTATTTAAAAAGTGGTTTTGTTATTTAACAAAAATATCGTT
* * * * *
10060303 TCTTATGTGAGAAATACAATCTTTGTATACTTAAA
66 TCTTATATAAGAAACACAATATTTATATACTTAAA
**
10060338 CTAACATAA-AAATATGATCTTTA-TTATTTAAAAAAGTGGTTTTTGTTATTTATTAAAAACTAT
1 CTAACATAAGAAATATGATC-TTAGTTATTT-AAAAAGTGG-TTTTGTTATTTAACAAAAA-TAT
** *
10060401 -GTTTCTTATATAAGAAACATTATATTTATATTCTTAAA
62 CGTTTCTTATATAAGAAACACAATATTTATATACTTAAA
10060439 GACTATATTT
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
99 16 0.19
100 21 0.25
101 46 0.54
102 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (100 bp):
CTAACATAAGAAATATGATCTTAGTTATTTAAAAAGTGGTTTTGTTATTTAACAAAAATATCGTT
TCTTATATAAGAAACACAATATTTATATACTTAAA
Found at i:10061303 original size:23 final size:23
Alignment explanation
Indices: 10061277--10061321 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10061267 CAAATAATAT
10061277 GAATCTAACTATTCATAAATTTA
1 GAATCTAACTATTCATAAATTTA
* * *
10061300 GAATTTAGCTGTTCATAAATTT
1 GAATCTAACTATTCATAAATTT
10061322 TTAATATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (23 bp):
GAATCTAACTATTCATAAATTTA
Found at i:10062269 original size:16 final size:16
Alignment explanation
Indices: 10062248--10062282 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10062238 AAATAAAGAA
*
10062248 AAAATTTATAACTATT
1 AAAATTTAAAACTATT
*
10062264 AAAATTTAAAATTATT
1 AAAATTTAAAACTATT
10062280 AAA
1 AAA
10062283 TAATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTTAAAACTATT
Found at i:10063976 original size:15 final size:17
Alignment explanation
Indices: 10063947--10063983 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10063937 TAAACACCTT
10063947 AAAATAAAAGGCAAT-A
1 AAAATAAAAGGCAATGA
*
10063963 AAAATAAAA-TCAATGA
1 AAAATAAAAGGCAATGA
10063979 AAAAT
1 AAAAT
10063984 TTGATTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.70, C:0.05, G:0.08, T:0.16
Consensus pattern (17 bp):
AAAATAAAAGGCAATGA
Found at i:10070605 original size:62 final size:62
Alignment explanation
Indices: 10070421--10070606 Score: 144
Period size: 62 Copynumber: 3.0 Consensus size: 62
10070411 CGTTTTTGGT
* * * *
10070421 CATAAACGCCTTGACTAACCCCATTTAATTTTTTCTAAGGAATTATGCAATGTGTTTTTTTGGC
1 CATAAACGCCTTGACTAACCCAATTCAATTTTTTCTAAGGGATTATGCAA-G-GTTTTTTTTGC
* * * * * * * *** * * **
10070485 TAGAAACGCATTAAATAATCCTA-TCGTAA-AAATT-GAAGGGGATTATTCAAGGCATTTTTTGC
1 CATAAACGCCTTGACTAACCCAATTC--AATTTTTTCTAA-GGGATTATGCAAGGTTTTTTTTGC
10070547 CATAAACGCCTTGACTAACCCAATTCAATTTTTTCTAAGGGATTATGCAAGGTTTTTTTT
1 CATAAACGCCTTGACTAACCCAATTCAATTTTTTCTAAGGGATTATGCAAGGTTTTTTTT
10070607 AGTTAAAAAT
Statistics
Matches: 85, Mismatches: 31, Indels: 14
0.65 0.24 0.11
Matches are distributed among these distances:
61 2 0.02
62 45 0.53
63 8 0.09
64 28 0.33
65 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (62 bp):
CATAAACGCCTTGACTAACCCAATTCAATTTTTTCTAAGGGATTATGCAAGGTTTTTTTTGC
Found at i:10070669 original size:125 final size:125
Alignment explanation
Indices: 10070367--10070841 Score: 537
Period size: 125 Copynumber: 3.8 Consensus size: 125
10070357 AAGGCGTATG
* * * * * *
10070367 CCTTTAATAATCCCATCATAAAAAATGAAAGAGATTATTCAAGACGTTTTTGGTCATAAACGCCT
1 CCTTAAATAATCCCATCATAAAAATTGAAGGAGATTATTCAAGACATTTTTTGCCATAAACGCCT
* * * *
10070432 TGACTAACCCCATTTAATTTTTTCT-AAGGAATTATGCAATGTGTTTTTTTGGCTAGAAACG
66 TGACTAACCCCATTCAATTTTTTCTAAAGG-ATTATGCAAGGT-TTTTTTTGGCTAAAAACA
* * * * *
10070493 CATTAAATAATCCTATCGTAAAAATTGAAGGGGATTATTCAAGGCATTTTTTGCCATAAACGCCT
1 CCTTAAATAATCCCATCATAAAAATTGAAGGAGATTATTCAAGACATTTTTTGCCATAAACGCCT
* * * * *
10070558 TGACTAACCCAATTCAATTTTTTCTAAGGGATTATGCAAGGTTTTTTTTAGTTAAAAATA
66 TGACTAACCCCATTCAATTTTTTCTAAAGGATTATGCAAGGTTTTTTTTGGCTAAAAACA
* * * * * * *
10070618 CCTTAAATAATCCTACCATAAAAATTGAAGGAGATTATTTAAGACCTTTTTTGCTATAAATGTCT
1 CCTTAAATAATCCCATCATAAAAATTGAAGGAGATTATTCAAGACATTTTTTGCCATAAACGCCT
* * * *
10070683 TAACTAACCCCATTCAATTTTTT-TGAAAAGATTATGCAAGATGTTTTTTGGCTAAAAACA
66 TGACTAACCCCATTCAATTTTTTCT-AAAGGATTATGCAAGGTTTTTTTTGGCTAAAAACA
* ** *
10070743 CCTTTAATAATCCCATCATAAAAATTGAAGGAGATTATTCAA-AGCATTTTTGTGAGA-AAATGC
1 CCTTAAATAATCCCATCATAAAAATTGAAGGAGATTATTCAAGA-CATTTTT-TGCCATAAACGC
*
10070806 TTTGACTAA-CCCATTCAATTTTTTTCTAAAGGATTA
64 CTTGACTAACCCCATTCAA-TTTTTTCTAAAGGATTA
10070842 GTCAAGGCAT
Statistics
Matches: 293, Mismatches: 50, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
124 11 0.04
125 187 0.64
126 92 0.31
127 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (125 bp):
CCTTAAATAATCCCATCATAAAAATTGAAGGAGATTATTCAAGACATTTTTTGCCATAAACGCCT
TGACTAACCCCATTCAATTTTTTCTAAAGGATTATGCAAGGTTTTTTTTGGCTAAAAACA
Found at i:10075873 original size:293 final size:292
Alignment explanation
Indices: 10075189--10076492 Score: 1271
Period size: 292 Copynumber: 4.5 Consensus size: 292
10075179 ATGGGAGGCA
* * * *
10075189 ATTATTGAATGTGTTTTTGACAAAAAATACCTTCAATAATCTAGGATTTATTCAA-GCATTTTTT
1 ATTATTAAATGTGTTTTTGACAAAAAACATCTTCAATAATC-AAGATTTATTCAAGGCA-TTTTT
* * * **
10075253 GG-TCAAAAATGTCTTCAATAATCC-CATTCAATATTTTGTTAGGGATGATTCAAGGTGTTTTCT
64 GGCT-AGAAACGCCTTCAATAA-CCTCATTCAATATTTTGTTAGGGATGATTCAAGGCATTTTCT
* * ** * *
10075316 AAGTAAAAAGGCCTTCATTAATCTTATCTTAAATGCCT-AAAAGGATTATTCAAGGTGTTTAATC
127 AGGTAAAAACGCCTTCATTAATCTTATCTTAAACACCTGAAAGGGATTATTCAAGGCGTTTAATC
* * * * * *
10075380 AC-AAAACGCCTTGAATGAT-CCAAAAAAATGGGTGGACATTATTGAAGGTATTTTTGATAAAAA
192 ACAAAAACGCCTTCAATGATCCCAAAAAAATGGGTGAAGATTATTGAAAGTATTTTTGGT-AGAA
* * ** *
10075443 AACACCTTGAAAAATCTTTTCCAAAAAATTGAAAAGG
256 AACACCTCGAATAATCCCTTCCAAAAAATTGAAAGGG
* * * * *
10075480 ATTATTAAAAGTGTTTTTGGCCAAAAAA-AGCCTTCAATAATCTAAAATTTATTCAAGGTATTTT
1 ATTATTAAATGTGTTTTT-GACAAAAAACA-TCTTCAATAATC-AAGATTTATTCAAGGCATTTT
*
10075544 TGGCTAGAAACGCCTTCAATAA-CTCCATTCAATATTTTGTTAGGGATGATTCAAGGTATTTTCT
63 TGGCTAGAAACGCCTTCAATAACCT-CATTCAATATTTTGTTAGGGATGATTCAAGGCATTTTCT
* * * ** *
10075608 AGGTAAAAACGCCTTTATTAATCTTGTCTTAAACACTTGAAAGAAATTATTTAAGGCGTTTAATC
127 AGGTAAAAACGCCTTCATTAATCTTATCTTAAACACCTGAAAGGGATTATTCAAGGCGTTTAATC
* * * *
10075673 ACAAAAACACCTTCAATGATCCCAAAAAAATAGGTGAAGATTATTGAAAGCATTTTTGGTCGAAA
192 ACAAAAACGCCTTCAATGATCCCAAAAAAATGGGTGAAGATTATTGAAAGTATTTTTGGTAGAAA
* *
10075738 ACGCCTCGAATAATCCCTTCCAAAAAATT-AGAGGGG
257 ACACCTCGAATAATCCCTTCCAAAAAATTGA-AAGGG
* * * *
10075774 ATTATTAAATGTGTTTTTAACAAAAAATATCTTCAATAATACAAGATTTATTCAAGACATTTTTT
1 ATTATTAAATGTGTTTTTGACAAAAAACATCTTCAATAAT-CAAGATTTATTCAAGGCATTTTTG
* * * * * *
10075839 GTTAGAAACGCCTTCAATAGCCTCATTGAATATTTTGTTATGAATGATTCAAGGCATTTTTTAGG
65 GCTAGAAACGCCTTCAATAACCTCATTCAATATTTTGTTAGGGATGATTCAAGGCATTTTCTAGG
* * ** *
10075904 TAAAAACGCCTTCATTAATCTCATTTTAAATGCCT-AAAGGGGATTATTCAAGGTGTTTAATCAC
130 TAAAAACGCCTTCATTAATCTTATCTTAAACACCTGAAA-GGGATTATTCAAGGCGTTTAATCAC
* * * ** * *
10075968 AAAAATGCCTTCAATGATCTCATAAAAATGGGTGGGGATTATTGAAAG-ATTTATGGCAGAAAAC
194 AAAAACGCCTTCAATGATCCCAAAAAAATGGGTGAAGATTATTGAAAGTATTTTTGGTAGAAAAC
* * * *
10076032 ATCTCAAATAATCCCCTCCAAAAAATT-AGAGGG
259 ACCTCGAATAATCCCTTCCAAAAAATTGAAAGGG
* * ** * *
10076065 ATTATTAAATGTATTTTTGGCTTAAAACATCTTCAATAATCCAGGATTTATTCAAGGTATTTTTG
1 ATTATTAAATGTGTTTTTGACAAAAAACATCTTCAATAAT-CAAGATTTATTCAAGGCATTTTTG
* * * * *
10076130 GCCAGAAACACCTTCAATAACCACACTCAATATTTTATTA-GGATGATTCAAGGCATTTTCTGAC
65 GCTAGAAACGCCTTCAATAACCTCATTCAATATTTTGTTAGGGATGATTCAAGGCATTTTCT-A-
** * * * * *
10076194 CATAAATA--CCTTCAATAATCTTATCATAAACACTTGAAAGGGATTATTCAAGACGTTTAATCA
128 GGTAAAAACGCCTTCATTAATCTTATCTTAAACACCTGAAAGGGATTATTCAAGGCGTTTAATCA
* * * * ** * * * *
10076257 CAAAAATGCCTTGAAAGCTCTTAAAAAAATGGGAGAGGATTATT-AAAGGTGTTTTTGGTATAAA
193 CAAAAACGCCTTCAATGATCCCAAAAAAATGGGTGAAGATTATTGAAA-GTATTTTTGGTAGAAA
* * *
10076321 ACACCTCGAATAATTCCC-TCTAAAAAAATGAAAGAG
257 ACACCTCGAATAA-TCCCTTCCAAAAAATTGAAAGGG
* * * * * * *
10076357 ATTATTGAA-GACGTTTTT-AGCCAAAAACATCTTCAATACTCCAAAATTTATTCGAGGCGTTTT
1 ATTATTAAATG-TGTTTTTGA-CAAAAAACATCTTCAATAAT-CAAGATTTATTCAAGGCATTTT
* * * *
10076420 TGGCTAGAAATGCCTTCAATAACCCCATTCAATATTTTGTTAGGGATTATTCAAGGC-GTTTCAT
63 TGGCTAGAAACGCCTTCAATAACCTCATTCAATATTTTGTTAGGGATGATTCAAGGCATTTTC-T
10076484 AGGTAAAAA
127 AGGTAAAAA
10076493 TATCTTCAAT
Statistics
Matches: 834, Mismatches: 154, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
289 3 0.00
290 100 0.12
291 146 0.18
292 264 0.32
293 222 0.27
294 66 0.08
295 33 0.04
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (292 bp):
ATTATTAAATGTGTTTTTGACAAAAAACATCTTCAATAATCAAGATTTATTCAAGGCATTTTTGG
CTAGAAACGCCTTCAATAACCTCATTCAATATTTTGTTAGGGATGATTCAAGGCATTTTCTAGGT
AAAAACGCCTTCATTAATCTTATCTTAAACACCTGAAAGGGATTATTCAAGGCGTTTAATCACAA
AAACGCCTTCAATGATCCCAAAAAAATGGGTGAAGATTATTGAAAGTATTTTTGGTAGAAAACAC
CTCGAATAATCCCTTCCAAAAAATTGAAAGGG
Found at i:10076391 original size:583 final size:581
Alignment explanation
Indices: 10075189--10076492 Score: 1462
Period size: 583 Copynumber: 2.2 Consensus size: 581
10075179 ATGGGAGGCA
* * * * * *
10075189 ATTATTGAATGTGTTTTTGACAAAAAATACCTTCAATAATCTAGGATTTATTCAAGCATTTTTTG
1 ATTATTAAATGCGTTTTTAACAAAAAACATCTTCAATAATC-AAGATTTATTCAAGCATTTTTT-
* * * * * *
10075254 GTCAAAAATGTCTTCAATAATCCCATTCAATATTTTGTTAGGGATGATTCAAGGTGTTTTCTAAG
64 GTTAGAAATGCCTTCAATAA-CCCATTCAATATTTTGTTAGGGATGATTCAAGGCGTTTTATAGG
* *
10075319 TAAAAAGGCCTTCATTAATCTTATCTTAAATGCCTAAAAGGATTATTCAAGGTGTTTAATCACAA
128 TAAAAACGCCTTCATTAATCTCATCTTAAATGCCTAAAAGGATTATTCAAGGTGTTTAATCACAA
* * * *
10075384 AACGCCTTGAATGATCCAAAAAAATGGGTGGACATTATTGAAGGTATTTTTGATAAAAAAACACC
193 AACGCCTTCAATGATCCAAAAAAATGGGTGGACATTATTGAAAGTATTTATGAGAAAAAAACACC
* *** *
10075449 TTGAAAAATCTTTTCCAAAAAATTGAAAAGGATTATTAAAAGTGTTTTTGGCCAAAAAAAGCCTT
258 TTCAAAAATCCCCTCCAAAAAATTGAAAAGGATTATTAAAAGTATTTTTGGCCAAAAAAAGCCTT
* * * *
10075514 CAATAATCTAAAATTTATTCAAGGTATTTTTGGCTAGAAACGCCTTCAATAACTCCATTCAATAT
323 CAATAATCCAAAATTTATTCAAGGTATTTTTGGCCAGAAACACCTTCAATAACTCCACTCAATAT
* * ** * * * *
10075579 TTTGTTAGGGATGATTCAAGGTATTTTCTAGGTAAAAACGCCTTTATTAATCTTGTCTTAAACAC
388 TTTATTAGGGATGATTCAAGGCATTTTCTACATAAAAAC-CCTTCAATAATCTTATCATAAACAC
* * * *
10075644 TTGAAAGAAATTATTTAAGGCGTTTAATCACAAAAACACCTTCAATGATCCCAAAAAAATAGGTG
452 TTGAAAGAAATTATTCAAGACGTTTAATCACAAAAACACCTTCAAAGATCCCAAAAAAATAGGAG
* * * * * *
10075709 AAGATTATTGAAAGCATTTTTGGTCGAAAACGCCTCGAATAATCCCTTCCAAAAAATTAGAGGGG
517 AAGATTATTGAAAGCATTTTTGGTAGAAAACACCTCGAATAATCCCTTCAAAAAAATGAGAAGAG
* *
10075774 ATTATTAAATGTGTTTTTAACAAAAAATATCTTCAATAATACAAGATTTATTCAAGACATTTTTT
1 ATTATTAAATGCGTTTTTAACAAAAAACATCTTCAATAAT-CAAGATTTATTCAAG-CATTTTTT
* * * * * * *
10075839 GTTAGAAACGCCTTCAATAGCCTCATTGAATATTTTGTTATGAATGATTCAAGGCATTTTTTAGG
64 GTTAGAAATGCCTTCAATAACC-CATTCAATATTTTGTTAGGGATGATTCAAGGCGTTTTATAGG
* *
10075904 TAAAAACGCCTTCATTAATCTCATTTTAAATGCCTAAAGGGGATTATTCAAGGTGTTTAATCACA
128 TAAAAACGCCTTCATTAATCTCATCTTAAATGCCTAAA-AGGATTATTCAAGGTGTTTAATCAC-
* * ** * *
10075969 AAAATGCCTTCAATGATCTCATAAAAATGGGTGGGGATTATTGAAAG-ATTTATG-GCAGAAAAC
191 AAAACGCCTTCAATGATC-CAAAAAAATGGGTGGACATTATTGAAAGTATTTATGAGAAAAAAAC
* * * * ** *
10076032 ATC-TCAAATAATCCCCTCCAAAAAATT-AGAGGGATTATTAAATGTATTTTTGGCTTAAAACA-
255 ACCTTCAAA-AATCCCCTCCAAAAAATTGAAAAGGATTATTAAAAGTATTTTTGGCCAAAAAAAG
* **
10076094 TCTTCAATAATCCAGGATTTATTCAAGGTATTTTTGGCCAGAAACACCTTCAATAAC-CACACTC
319 CCTTCAATAATCCAAAATTTATTCAAGGTATTTTTGGCCAGAAACACCTTCAATAACTC-CACTC
*
10076158 AATATTTTATTA-GGATGATTCAAGGCATTTTCTGACCATAAATA-CCTTCAATAATCTTATCAT
383 AATATTTTATTAGGGATGATTCAAGGCATTTTCT-A-CATAAAAACCCTTCAATAATCTTATCAT
** ** * * **
10076221 AAACACTTGAAAGGGATTATTCAAGACGTTTAATCACAAAAATGCCTTGAAAGCTCTTAAAAAAA
446 AAACACTTGAAAGAAATTATTCAAGACGTTTAATCACAAAAACACCTTCAAAGATCCCAAAAAAA
* * ** *
10076286 TGGGAGAGGATTATT-AAAGGTGTTTTTGGTATAAAACACCTCGAATAATTCCC-TCTAAAAAAA
511 TAGGAGAAGATTATTGAAA-GCATTTTTGGTAGAAAACACCTCGAATAA-TCCCTTC-AAAAAAA
10076349 TGA-AAGAG
573 TGAGAAGAG
* * * * * * *
10076357 ATTATTGAA-GACGTTTTTAGCCAAAAACATCTTCAATACTCCAAAATTTATTCGAGGCGTTTTT
1 ATTATTAAATG-CGTTTTTAACAAAAAACATCTTCAATAAT-CAAGATTTATTC-AAGCATTTTT
* * * *
10076421 GGCTAGAAATGCCTTCAATAACCCCATTCAATATTTTGTTAGGGATTATTCAAGGCGTTTCATAG
63 TGTTAGAAATGCCTTCAATAA-CCCATTCAATATTTTGTTAGGGATGATTCAAGGCGTTTTATAG
10076486 GTAAAAA
127 GTAAAAA
10076493 TATCTTCAAT
Statistics
Matches: 601, Mismatches: 102, Indels: 34
0.82 0.14 0.05
Matches are distributed among these distances:
582 4 0.01
583 238 0.40
584 85 0.14
585 172 0.29
586 56 0.09
587 22 0.04
588 24 0.04
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (581 bp):
ATTATTAAATGCGTTTTTAACAAAAAACATCTTCAATAATCAAGATTTATTCAAGCATTTTTTGT
TAGAAATGCCTTCAATAACCCATTCAATATTTTGTTAGGGATGATTCAAGGCGTTTTATAGGTAA
AAACGCCTTCATTAATCTCATCTTAAATGCCTAAAAGGATTATTCAAGGTGTTTAATCACAAAAC
GCCTTCAATGATCCAAAAAAATGGGTGGACATTATTGAAAGTATTTATGAGAAAAAAACACCTTC
AAAAATCCCCTCCAAAAAATTGAAAAGGATTATTAAAAGTATTTTTGGCCAAAAAAAGCCTTCAA
TAATCCAAAATTTATTCAAGGTATTTTTGGCCAGAAACACCTTCAATAACTCCACTCAATATTTT
ATTAGGGATGATTCAAGGCATTTTCTACATAAAAACCCTTCAATAATCTTATCATAAACACTTGA
AAGAAATTATTCAAGACGTTTAATCACAAAAACACCTTCAAAGATCCCAAAAAAATAGGAGAAGA
TTATTGAAAGCATTTTTGGTAGAAAACACCTCGAATAATCCCTTCAAAAAAATGAGAAGAG
Found at i:10084201 original size:24 final size:24
Alignment explanation
Indices: 10084161--10084207 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10084151 AAAACTTATT
* *
10084161 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
10084184 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
10084208 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:10084435 original size:55 final size:56
Alignment explanation
Indices: 10084299--10084475 Score: 180
Period size: 55 Copynumber: 3.2 Consensus size: 56
10084289 CAAAATATAA
* * * * * *
10084299 TAAAAAAATTAAAACATATAAGTCCATACTGATAATCTCTAATCA-TCGGTAAAGG
1 TAAAAAAATTAAAACATATAAATCTATACTGATAGTTTCTAAGCAGTCGGTATAGG
* * * * *
10084354 TAAAAAAATTAAAGCATACAATTCTATACTGACAGTTTCTAA-CAGTTGGTATAGG
1 TAAAAAAATTAAAACATATAAATCTATACTGATAGTTTCTAAGCAGTCGGTATAGG
* * * *
10084409 TAAAAAAATTAAAAAATATAAATCTATGCTGATAGATGCTAAGC-GTCGGTATAGG
1 TAAAAAAATTAAAACATATAAATCTATACTGATAGTTTCTAAGCAGTCGGTATAGG
*
10084464 AAAAATAAATTA
1 TAAAA-AAATTA
10084476 CAAGTCTATA
Statistics
Matches: 100, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 2 0.02
55 91 0.91
56 7 0.07
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (56 bp):
TAAAAAAATTAAAACATATAAATCTATACTGATAGTTTCTAAGCAGTCGGTATAGG
Found at i:10087937 original size:20 final size:22
Alignment explanation
Indices: 10087909--10087948 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
10087899 TGATTATTGG
10087909 ATATCTTAA-TTTAA-AAAATA
1 ATATCTTAAGTTTAATAAAATA
*
10087929 ATATTTTAAGTTTAATAAAA
1 ATATCTTAAGTTTAATAAAA
10087949 GTGTTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (22 bp):
ATATCTTAAGTTTAATAAAATA
Found at i:10088019 original size:19 final size:19
Alignment explanation
Indices: 10087997--10088034 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10087987 TAATTTTTCC
10087997 TTTTTTT-CATTTTTTTTTA
1 TTTTTTTAC-TTTTTTTTTA
10088016 TTTTTTTACTTTTTTTTTA
1 TTTTTTTACTTTTTTTTTA
10088035 AAATTTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTACTTTTTTTTTA
Found at i:10088174 original size:16 final size:15
Alignment explanation
Indices: 10088145--10088173 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10088135 AATACGTGAA
10088145 TTTTCAATAAAAAAT
1 TTTTCAATAAAAAAT
10088160 TTTTCAATAAAAAA
1 TTTTCAATAAAAAA
10088174 ACTAATTAAG
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:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTTCAATAAAAAAT
Found at i:10090520 original size:67 final size:67
Alignment explanation
Indices: 10090444--10090587 Score: 243
Period size: 67 Copynumber: 2.1 Consensus size: 67
10090434 TGAGAAACTA
* *
10090444 ATCTATTAAACTTATTTAGGTGATTATGAAGACTCATACCTTCTTCTATCTTCAGAGAATATAAA
1 ATCT-TTAAACTTATTCAGGTGATTATGAAGACTCATACATTCTTCTATCTTCAGAGAATATAAA
*
10090509 TCT
65 TCC
*
10090512 ATCTTTAAACTTATTCAGGTGATTATGAAGACTTATACATTCTTCTATCTTCAGAGAATATAAAT
1 ATCTTTAAACTTATTCAGGTGATTATGAAGACTCATACATTCTTCTATCTTCAGAGAATATAAAT
10090577 CC
66 CC
10090579 ATCTTTAAA
1 ATCTTTAAA
10090588 TATAATTTCT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
67 68 0.94
68 4 0.06
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (67 bp):
ATCTTTAAACTTATTCAGGTGATTATGAAGACTCATACATTCTTCTATCTTCAGAGAATATAAAT
CC
Found at i:10103585 original size:3 final size:3
Alignment explanation
Indices: 10103577--10103602 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10103567 GTTGGAGAAA
10103577 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10103603 ACAGCAGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10104972 original size:19 final size:20
Alignment explanation
Indices: 10104941--10104988 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
10104931 ATAATTTTTA
*
10104941 AAATTAACT-ATTTTGTTCTT
1 AAATTAA-TAATTTTGTTATT
*
10104961 -AATTAATAATTTTTTTATT
1 AAATTAATAATTTTGTTATT
10104980 AAATTAATA
1 AAATTAATA
10104989 TATTGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 15 0.62
20 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
AAATTAATAATTTTGTTATT
Found at i:10106208 original size:13 final size:14
Alignment explanation
Indices: 10106178--10106210 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10106168 TTATTAATCT
*
10106178 TAAATTTTTTTAAG
1 TAAAATTTTTTAAG
10106192 TAAAATTTTTTAA-
1 TAAAATTTTTTAAG
10106205 TAAAAT
1 TAAAAT
10106211 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
TAAAATTTTTTAAG
Found at i:10109305 original size:14 final size:14
Alignment explanation
Indices: 10109288--10109318 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10109278 TCCTTGATTA
10109288 TTTCTCTCTCTCTC
1 TTTCTCTCTCTCTC
10109302 TTTCTCTCTCTCTC
1 TTTCTCTCTCTCTC
10109316 TTT
1 TTT
10109319 ATATTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTCTCTCTCTCTC
Found at i:10110413 original size:3 final size:3
Alignment explanation
Indices: 10110407--10110440 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10110397 TTAATTGGTA
10110407 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10110441 TTGGTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10110943 original size:24 final size:24
Alignment explanation
Indices: 10110900--10110945 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10110890 CCCTCTACCC
*
10110900 ATCAAAAAACTAAAAAAAAAAAAA
1 ATCAAAAAACCAAAAAAAAAAAAA
* *
10110924 ATCAAAAAACCCAAACAAAAAA
1 ATCAAAAAACCAAAAAAAAAAA
10110946 CAACATAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.78, C:0.15, G:0.00, T:0.07
Consensus pattern (24 bp):
ATCAAAAAACCAAAAAAAAAAAAA
Found at i:10111770 original size:20 final size:21
Alignment explanation
Indices: 10111745--10111783 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10111735 GAATAATAAC
*
10111745 AAAAAATGCTAA-AAAAATCT
1 AAAAAATGATAATAAAAATCT
10111765 AAAAAATGATAATAAAAAT
1 AAAAAATGATAATAAAAAT
10111784 AAAGTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAAAATGATAATAAAAATCT
Found at i:10112091 original size:30 final size:29
Alignment explanation
Indices: 10112057--10112152 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 29
10112047 CTTAAAGCCC
10112057 TAAAATCGAAACCTTAAACCTTTCAAATCT
1 TAAAATCGAAACCTTAAACC-TTCAAATCT
10112087 TAAAATCGAAA-CTCTAAACCTTCTAAATCT
1 TAAAATCGAAACCT-TAAACCTTC-AAATCT
* *
10112117 TAAAATCGAAACCTTAAACCCTTCAAACCC
1 TAAAATCGAAACCTTAAA-CCTTCAAATCT
10112147 TAAAAT
1 TAAAAT
10112153 TAAACTCTCC
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
29 5 0.08
30 48 0.80
31 7 0.12
ACGTcount: A:0.45, C:0.25, G:0.03, T:0.27
Consensus pattern (29 bp):
TAAAATCGAAACCTTAAACCTTCAAATCT
Done.