Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 114 of 129
Found at i:19163099 original size:13 final size:13
Alignment explanation
Indices: 19163081--19163105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19163071 ATATTAAAAT
19163081 TTAAATATATATA
1 TTAAATATATATA
19163094 TTAAATATATAT
1 TTAAATATATAT
19163106 TAAATGGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAATATATATA
Found at i:19163101 original size:31 final size:30
Alignment explanation
Indices: 19163041--19163109 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
19163031 TTTGAATTTG
19163041 ATATTAAAAATTAATATAGTTATGTAATAT
1 ATATTAAAAATTAATATAGTTATGTAATAT
*
19163071 ATATTAAAATTTAAATATA-TATAT-TAAATAT
1 ATATTAAAAATT-AATATAGT-TATGT-AATAT
19163102 ATATTAAA
1 ATATTAAA
19163110 TGGGTATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 13 0.37
31 22 0.63
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
ATATTAAAAATTAATATAGTTATGTAATAT
Found at i:19167455 original size:20 final size:20
Alignment explanation
Indices: 19167419--19167460 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
19167409 ATCTAAATTC
**
19167419 AAAATAAAAAATTAACA-AA
1 AAAATAAAAAAAAAACATAA
19167438 AAAAGTAAAAAAAAAACATAA
1 AAAA-TAAAAAAAAAACATAA
19167459 AA
1 AA
19167461 GTGTCACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAATAAAAAAAAAACATAA
Found at i:19167638 original size:32 final size:31
Alignment explanation
Indices: 19167563--19167640 Score: 97
Period size: 29 Copynumber: 2.5 Consensus size: 31
19167553 AAATCTTAAT
19167563 TATATATAAATATAAAACTTTTATTAAAATAA
1 TATATATAAATA-AAAACTTTTATTAAAATAA
* *
19167595 TATAT-TAAATAATAA-TTTTATTAATATAA
1 TATATATAAATAAAAACTTTTATTAAAATAA
19167624 TAATATATATAATAAAA
1 T-ATATATA-AATAAAA
19167641 TAAATAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 14 0.35
30 7 0.17
31 8 0.20
32 11 0.28
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (31 bp):
TATATATAAATAAAAACTTTTATTAAAATAA
Found at i:19167669 original size:12 final size:12
Alignment explanation
Indices: 19167618--19167660 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
19167608 AATTTTATTA
*
19167618 ATATAATAATAT
1 ATATAATAAAAT
19167630 ATATAATAAAAT
1 ATATAATAAAAT
*
19167642 AAATAATTAAAA-
1 ATATAA-TAAAAT
19167654 ATATAAT
1 ATATAAT
19167661 TATATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 1 0.04
12 21 0.78
13 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATAATAAAAT
Found at i:19171113 original size:46 final size:45
Alignment explanation
Indices: 19171047--19171156 Score: 166
Period size: 46 Copynumber: 2.4 Consensus size: 45
19171037 TATTATAACC
* * *
19171047 CCGTTAGTCAAGGTCATATGATCATGTCTTCGCTAACTACTATTAA
1 CCGTTAGCCAGGGTCGTATGATCATGTCTTCGCTAACTACTATT-A
*
19171093 CCGTTAGCCAGGGTCGTATGATCATGTCTTTGCTAACTACTATTA
1 CCGTTAGCCAGGGTCGTATGATCATGTCTTCGCTAACTACTATTA
19171138 CCTGTTAGCCAGGGTCGTA
1 CC-GTTAGCCAGGGTCGTA
19171157 GAACTAGTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 3 0.05
46 56 0.95
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (45 bp):
CCGTTAGCCAGGGTCGTATGATCATGTCTTCGCTAACTACTATTA
Found at i:19178685 original size:6 final size:6
Alignment explanation
Indices: 19178669--19178793 Score: 73
Period size: 6 Copynumber: 20.7 Consensus size: 6
19178659 AGGTATATGT
*
19178669 TTTTTA TTTTTTA TTTTCA -TTTTA TTTTCTTA TTTTCT- TATTTTA TTTTTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA -TTT-TTA TTTT-TA T-TTTTA TTTTTA
* * * * *
19178720 TTTTTA -TTCTA TTTCTA -CTTTA TTTTTA TTATTA TTATTA TTTTATA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA
* *
19178767 TATTTT- TTCTT- CTTTTA TTTTTA TTTT
1 T-TTTTA TTTTTA TTTTTA TTTTTA TTTT
19178794 AGCTATTTAC
Statistics
Matches: 95, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
5 17 0.18
6 52 0.55
7 20 0.21
8 6 0.06
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:19178742 original size:28 final size:31
Alignment explanation
Indices: 19178678--19178763 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 31
19178668 TTTTTTATTT
* * *
19178678 TTTATTTTCATTTTATTTTCTTATTTTCTTAT
1 TTTATTTTTATTTT-TATTCTTATTTTCTTAC
19178710 TTTATTTTTATTTTTATTC-TA-TTTC-TAC
1 TTTATTTTTATTTTTATTCTTATTTTCTTAC
* *
19178738 TTTATTTTTATTATTATTATTATTTT
1 TTTATTTTTATTTTTATTCTTATTTT
19178764 ATATATTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 19 0.40
29 6 0.13
30 5 0.11
31 4 0.09
32 13 0.28
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (31 bp):
TTTATTTTTATTTTTATTCTTATTTTCTTAC
Found at i:19178774 original size:11 final size:11
Alignment explanation
Indices: 19178679--19178794 Score: 66
Period size: 11 Copynumber: 10.7 Consensus size: 11
19178669 TTTTTATTTT
19178679 TTATTTTCATT-
1 TTATTTT-ATTA
*
19178690 TTATTTTCTTA
1 TTATTTTATTA
19178701 TT-TTCTTATT-
1 TTATT-TTATTA
*
19178711 TTATTTTTATTT
1 TTA-TTTTATTA
*
19178723 TTATTCTATT-
1 TTATTTTATTA
* *
19178733 TCTACTTTATTT
1 T-TATTTTATTA
19178745 TTATTATTATTA
1 TTATT-TTATTA
19178757 TTATTTTA-TA
1 TTATTTTATTA
*
19178767 -TATTTT-TTC
1 TTATTTTATTA
* *
19178776 TTCTTTTATTT
1 TTATTTTATTA
19178787 TTATTTTA
1 TTATTTTA
19178795 GCTATTTACT
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
9 7 0.08
10 14 0.17
11 46 0.55
12 16 0.19
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:19178846 original size:70 final size:70
Alignment explanation
Indices: 19178701--19178842 Score: 163
Period size: 70 Copynumber: 2.1 Consensus size: 70
19178691 TATTTTCTTA
* *
19178701 TTTTCTTATTTTATTTTTATTTTTATTCTATTTCTACTTTATTTTTATTATTATTATTATTTTAT
1 TTTTCTTATTTTATTTTTATTTTTATGCTATTTCTACTTTATTTTTAATATTATTATTATTTTAT
19178766 ATATT
66 ATATT
*
19178771 TTTTCTTCTTTTATTTTTA-TTTTA-GCTA-TT-TAC-TTATTTATTAATATGTA-TA-TATCTT
1 TTTTCTTATTTTATTTTTATTTTTATGCTATTTCTACTTTATTT-TTAATAT-TATTATTAT-TT
19178829 TATTATTATT
63 TA-TA-TATT
19178839 TTTT
1 TTTT
19178843 TTCTGTTAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
65 9 0.14
66 15 0.23
67 6 0.09
68 11 0.17
69 5 0.08
70 18 0.28
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.70
Consensus pattern (70 bp):
TTTTCTTATTTTATTTTTATTTTTATGCTATTTCTACTTTATTTTTAATATTATTATTATTTTAT
ATATT
Found at i:19178940 original size:4 final size:4
Alignment explanation
Indices: 19178933--19178965 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
19178923 TCTTTTAATT
19178933 TTTA TTTA TTTA TTTA TTTA TTT- TTTGA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA T
19178966 CTGACTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 21 0.78
5 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:19178948 original size:12 final size:11
Alignment explanation
Indices: 19178915--19178965 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
19178905 GATTTATCTG
*
19178915 ATTTATTTTCT
1 ATTTATTTTTT
*
19178926 -TTTAATTTTT
1 ATTTATTTTTT
19178936 ATTTATTTATTT
1 ATTTATTT-TTT
19178948 ATTTATTTTTT
1 ATTTATTTTTT
19178959 GATTTAT
1 -ATTTAT
19178966 CTGACTTGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 9 0.26
12 17 0.50
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (11 bp):
ATTTATTTTTT
Found at i:19179803 original size:16 final size:15
Alignment explanation
Indices: 19179770--19179868 Score: 56
Period size: 16 Copynumber: 6.1 Consensus size: 15
19179760 TTAGATTAGG
* *
19179770 TTTATTTAATATTCTT
1 TTTATTTTAT-TTTTT
19179786 TTTATATTTATTTTTT
1 TTTAT-TTTATTTTTT
*
19179802 TTACTTTCCTTTATTTTTT
1 TT--TAT--TTTATTTTTT
19179821 ATTTATTTTATTTTTT
1 -TTTATTTTATTTTTT
* * *
19179837 TCT-TTTCACTTTTAT
1 TTTATTTTA-TTTTTT
*
19179852 TTTGTTTTATTTTTT
1 TTTATTTTATTTTTT
19179867 TT
1 TT
19179869 CCTCTAAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
14 4 0.06
15 16 0.25
16 25 0.38
17 4 0.06
18 4 0.06
19 10 0.15
20 2 0.03
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTATTTTATTTTTT
Found at i:19179830 original size:5 final size:5
Alignment explanation
Indices: 19179785--19179868 Score: 50
Period size: 5 Copynumber: 16.8 Consensus size: 5
19179775 TTAATATTCT
* * * *
19179785 TTTTA TATTTA TTTT- TTTTA CTTTC CTTTA TTTTT TATTTA TTTTA TTTT-
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA
* *
19179835 TTTCT- TTTCA CTTTTA TTTTG TTTTA TTTT- TTTT
1 TTT-TA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
19179869 CCTCTAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
4 11 0.17
5 39 0.62
6 13 0.21
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:19179861 original size:35 final size:33
Alignment explanation
Indices: 19179785--19179868 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 33
19179775 TTAATATTCT
*
19179785 TTTTATATTTATTTTTTTTACTTTCCTTTATTTTT
1 TTTTAT-TTTATTTTTTTTA-TTTCCTTTATTTTG
19179820 TATTTATTTTATTTTTTTCT-TTTCACTTTTATTTTG
1 T-TTTATTTTATTTTTTT-TATTTC-C-TTTATTTTG
19179856 TTTTATTTT-TTTT
1 TTTTATTTTATTTT
19179869 CCTCTAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
34 8 0.18
35 21 0.48
36 15 0.34
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (33 bp):
TTTTATTTTATTTTTTTTATTTCCTTTATTTTG
Found at i:19179963 original size:60 final size:60
Alignment explanation
Indices: 19179864--19180107 Score: 303
Period size: 60 Copynumber: 4.0 Consensus size: 60
19179854 TGTTTTATTT
* * * * *
19179864 TTTTTCCTCTAAAAATAAAATTTCAAAAAAA-AGAGTTTTTGAGAAAAAGTTGAAGGTATCAA
1 TTTTT-CT-TAAAAATAAATTTTCAAAAAAATATA-TTTTTGGGGAAAAGTTGAAAGTATCAA
*
19179926 TTTTTCTTAAAAATAAATTTTTAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTTCTTAAAAATAAATTTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAA
* *
19179986 TTTTTCTTAAAAAATAAATTTCCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTTCTT-AAAAATAAATTTTC-AAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAA
* ** * *
19180048 TTTTCCTTGGAAATAAAAGTTTCAAAAAAATAT-TTTTGGGGGAAAAGTTGAAAGTATCAA
1 TTTTTCTTAAAAAT-AAATTTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAA
19180108 AAAATATTTT
Statistics
Matches: 162, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
60 78 0.48
61 29 0.18
62 55 0.34
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (60 bp):
TTTTTCTTAAAAATAAATTTTCAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAA
Found at i:19180026 original size:122 final size:121
Alignment explanation
Indices: 19179874--19180107 Score: 328
Period size: 122 Copynumber: 1.9 Consensus size: 121
19179864 TTTTTCCTCT
* * * *
19179874 AAAAATAAAATTTCAAAAAAAAGAGTTTTTGAGAAAAAGTTGAAGGTATCAATTTTTCTTAAAAA
1 AAAAATAAAATTTCAAAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
* * *
19179939 T-AAATTTTTAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTA
66 TAAAAGTTTCAAAAAAATAT-TTTTGGGGGAAAAGTTGAAAGTATCAATTTTTCTTA
* * **
19179995 AAAAAT-AAATTTCCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGGA
1 AAAAATAAAATTT-CAAAAAAAAAA-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAA
19180059 AATAAAAGTTTCAAAAAAATATTTTTGGGGGAAAAGTTGAAAGTATCAA
64 AATAAAAGTTTCAAAAAAATATTTTTGGGGGAAAAGTTGAAAGTATCAA
19180108 AAAATATTTT
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
120 6 0.06
121 16 0.16
122 61 0.62
123 16 0.16
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.33
Consensus pattern (121 bp):
AAAAATAAAATTTCAAAAAAAAAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
TAAAAGTTTCAAAAAAATATTTTTGGGGGAAAAGTTGAAAGTATCAATTTTTCTTA
Found at i:19180115 original size:34 final size:35
Alignment explanation
Indices: 19180063--19180130 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
19180053 CTTGGAAATA
*
19180063 AAAGTTTCAAAAAAATATTTTTGGGGGAAAAGTTG
1 AAAGTATCAAAAAAATATTTTTGGGGGAAAAGTTG
*
19180098 AAAGTATC-AAAAAATATTTTTGGGGGAATAGTT
1 AAAGTATCAAAAAAATATTTTTGGGGGAAAAGTT
19180131 TTCTTGCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 24 0.77
35 7 0.23
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (35 bp):
AAAGTATCAAAAAAATATTTTTGGGGGAAAAGTTG
Found at i:19183582 original size:7 final size:7
Alignment explanation
Indices: 19183555--19183585 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
19183545 GGGTAATTTA
*
19183555 AAAAAAA
1 AAAAAAG
19183562 AAAAAAG
1 AAAAAAG
19183569 AAAAAAG
1 AAAAAAG
19183576 AAAAAAG
1 AAAAAAG
19183583 AAA
1 AAA
19183586 CACCACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:19185283 original size:41 final size:40
Alignment explanation
Indices: 19185225--19185727 Score: 620
Period size: 41 Copynumber: 12.2 Consensus size: 40
19185215 ATGATTGTTA
*
19185225 AGGAGCAATTTATTTTTCAAAGTTTCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG--TCGTGTGCCTCTGTTTAG
19185266 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* *
19185307 AGGAGCATTTTACTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
19185348 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAG
*
19185390 AGGAGCAATTTA-ATTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAG
19185431 AGGAGCAATTTACTTTTCAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTG-TGCCTCTGTTTAG
*
19185472 AGGAGCAATTTACTTTTCTAAAAGCCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC--AAAGTCGT-GTGCCTCTGTTTAG
*
19185515 AGGAGCATTTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* *
19185556 AAGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAG
* *
19185597 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTATGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
*
19185638 AGGAGCAATTTA-TTTTCCAAAGTCGT-TGACCCTCTGATTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGTG--CCTCTGTTTAG
* * * * **
19185679 AGAAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTACTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCG-TGTGCCTCTGTTTAG
19185722 AGGAGC
1 AGGAGC
19185728 TTTGGTCAAA
Statistics
Matches: 421, Mismatches: 23, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
39 6 0.01
40 9 0.02
41 298 0.71
42 42 0.10
43 62 0.15
44 3 0.01
45 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (40 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAG
Found at i:19185362 original size:82 final size:81
Alignment explanation
Indices: 19185225--19185727 Score: 686
Period size: 82 Copynumber: 6.1 Consensus size: 81
19185215 ATGATTGTTA
19185225 AGGAGCAATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
1 AGGAGCAATTTA-TTTTCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
19185288 TCGTGGTGCCTCTGTTTAG
63 TCGTGGTGCCTCTGTTTAG
* *
19185307 AGGAGCATTTTACTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTA-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGT
19185372 CGTGGTGCCTCTGTTTAG
64 CGTGGTGCCTCTGTTTAG
*
19185390 AGGAGCAATTTAATTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTATTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
19185455 GTGATGCCTCTGTTTAG
65 GTGGTGCCTCTGTTTAG
* *
19185472 AGGAGCAATTTACTTTTCTAAAAGCCGTGGTGCCTCTGTTTAGAGGAGCATTTTACTTTTCAAAG
1 AGGAGCAATTTA-TTTTC--AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG
19185537 TCGTGGTGCCTCTGTTTAG
63 TCGTGGTGCCTCTGTTTAG
* * *
19185556 AAGAGCAATTTATTTTCCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTTCAAAGTC
1 AGGAGCAATTTATTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
19185621 GTGGTGCCTATGTTTAG
65 GTGGTGCCTCTGTTTAG
* ** * * * *
19185638 AGGAGCAATTTATTTTCCAAAGTCGTTGACCCTCTGATTAGAGAAGCCATTTATGTTTCTCAAAG
1 AGGAGCAATTTATTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTT-TCAAAG
* * **
19185703 TCGTTGAGCCTCTACTTAG
63 TCGTGGTGCCTCTGTTTAG
19185722 AGGAGC
1 AGGAGC
19185728 TTTGGTCAAA
Statistics
Matches: 381, Mismatches: 31, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
80 4 0.01
82 192 0.50
83 85 0.22
84 100 0.26
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (81 bp):
AGGAGCAATTTATTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCG
TGGTGCCTCTGTTTAG
Found at i:19185703 original size:166 final size:166
Alignment explanation
Indices: 19185227--19185715 Score: 670
Period size: 166 Copynumber: 3.0 Consensus size: 166
19185217 GATTGTTAAG
*
19185227 GAGCAATTTATTTTTCAAAGTTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 GAGCAATTTATTTTCCAAAG--TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
19185290 GTGGTGCCTCTGTTTAGAGGAGCATTTTACTTTT-CAAAGTCGTGGTGCCTCT-ATTTAGAGGAG
64 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGA-TTAGAGGAG
* * *
19185353 CAATTTACTTTTC-AAAAGTCGTGGTGCCTCTGTTTAGAG
128 CCATTTA-TTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAA
* *
19185392 GAGCAATTTAATTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
1 GAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
* * * *
19185457 GATGCCTCTGTTTAGAGGAGCAATTTACTTTTCTAAAAGCCGTGGTGCCTCTGTTTAGAGGAG-C
66 GGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-CAAAGTCGTGGTGCCTCTGATTAGAGGAGCC
*
19185521 ATTTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAA
130 A-TTTATTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAA
* *
19185558 GAGCAATTTATTTTCCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGT
1 GAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
* * ** *
19185623 GGTGCCTATGTTTAGAGGAGCAATTTA-TTTTCCAAAGTCGTTGACCCTCTGATTAGAGAAGCCA
66 GGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGATTAGAGGAGCCA
* *
19185687 TTTATGTTTCTCAAAGTCGTTGAGCCTCT
131 TTTAT-TTTCTCAAAGTCGTGGTGCCTCT
19185716 ACTTAGAGGA
Statistics
Matches: 286, Mismatches: 28, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
163 4 0.01
164 26 0.09
165 96 0.34
166 131 0.46
167 29 0.10
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (166 bp):
GAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT
GGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGATTAGAGGAGCCA
TTTATTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAA
Found at i:19185914 original size:6 final size:6
Alignment explanation
Indices: 19185898--19185985 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
19185888 AGGTATATGT
* *
19185898 TTTTTA TTTTT- TATTTTC GTTTTA TTTTCTTA TTTTT- TATTTTA TTTTTA
1 TTTTTA TTTTTA T-TTTTA TTTTTA -TTT-TTA TTTTTA T-TTTTA TTTTTA
* * * *
19185948 TTTTTA -TTCTA TTTCTA -CTTTA TTTTTA TTATTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
19185986 ATATATATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 9 0.14
6 47 0.72
7 6 0.09
8 3 0.05
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:19185932 original size:26 final size:25
Alignment explanation
Indices: 19185897--19185952 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
19185887 TAGGTATATG
*
19185897 TTTTTTATTTTTTATTTTCGTTTTA
1 TTTTTTATTTTTTATTTTAGTTTTA
*
19185922 TTTTCTTATTTTTTATTTTATTTTTA
1 TTTT-TTATTTTTTATTTTAGTTTTA
19185948 TTTTT
1 TTTTT
19185953 ATTCTATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (25 bp):
TTTTTTATTTTTTATTTTAGTTTTA
Found at i:19185945 original size:11 final size:11
Alignment explanation
Indices: 19185899--19186024 Score: 80
Period size: 11 Copynumber: 11.5 Consensus size: 11
19185889 GGTATATGTT
19185899 TTTTATTTTTTA
1 TTTTA-TTTTTA
**
19185911 TTTTCGTTTTA
1 TTTTATTTTTA
* *
19185922 TTTTCTTATT-
1 TTTTATTTTTA
19185932 TTTTA-TTTTA
1 TTTTATTTTTA
19185942 TTTTTATTTTTA
1 -TTTTATTTTTA
* *
19185954 TTCTATTTCTA
1 TTTTATTTTTA
*
19185965 CTTTATTTTTA
1 TTTTATTTTTA
19185976 TTATTA-TTTTA
1 TT-TTATTTTTA
* * *
19185987 TATATATATATA
1 T-TTTATTTTTA
* *
19185999 TTTT-TTCTTC
1 TTTTATTTTTA
19186009 TTTTATTTTTA
1 TTTTATTTTTA
19186020 TTTTA
1 TTTTA
19186025 GCTATTTACT
Statistics
Matches: 85, Mismatches: 22, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
9 3 0.04
10 10 0.12
11 55 0.65
12 17 0.20
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.75
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:19185953 original size:17 final size:17
Alignment explanation
Indices: 19185899--19186023 Score: 74
Period size: 17 Copynumber: 6.9 Consensus size: 17
19185889 GGTATATGTT
**
19185899 TTTTATTTTTTATTTTCG
1 TTTTA-TTTTTATTTTTA
19185917 TTTTATTTTCTTATTTTTTA
1 TTTTA-TTT-TTA-TTTTTA
19185937 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
* * *
19185954 TTCTATTTCTA-CTTTA
1 TTTTATTTTTATTTTTA
*
19185970 TTTTTATTATTATTTTATA
1 -TTTTATTTTTATTTT-TA
* *
19185989 TATATATATATTTT-TTCTTC
1 T-T-T-TAT-TTTTATTTTTA
19186009 TTTTATTTTTATTTT
1 TTTTATTTTTATTTT
19186024 AGCTATTTAC
Statistics
Matches: 84, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
16 8 0.10
17 29 0.35
18 16 0.19
19 10 0.12
20 12 0.14
21 6 0.07
22 3 0.04
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTATTTTTA
Found at i:19186170 original size:22 final size:22
Alignment explanation
Indices: 19186145--19186196 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
19186135 GATTTATCTA
19186145 ATTTATTT-TCTT-TTGATTTTT
1 ATTTATTTAT-TTATTGATTTTT
*
19186166 GATTTATTTATTTATTTATTTTT
1 -ATTTATTTATTTATTGATTTTT
19186189 ATTTATTT
1 ATTTATTT
19186197 GACTTGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (22 bp):
ATTTATTTATTTATTGATTTTT
Found at i:19186984 original size:4 final size:4
Alignment explanation
Indices: 19186977--19187079 Score: 54
Period size: 4 Copynumber: 25.0 Consensus size: 4
19186967 TTTTTTTTGA
* * *
19186977 ATTT ATTT ATTT GTTT ATTT TTTT ATTT A-TT AGATT AGGTTT ATTT AATATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT A--TTT ATTT -AT-TT
* *
19187029 CTTT -TTAT ATTT ATTT -TTT -TTT ACTTT CCTTT ATTT -TTT ATTT ATTT
1 ATTT ATT-T ATTT ATTT ATTT ATTT A-TTT -ATTT ATTT ATTT ATTT ATTT
19187076 ATTT
1 ATTT
19187080 TTTTCTTTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
3 14 0.17
4 46 0.57
5 14 0.17
6 6 0.08
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:19187048 original size:15 final size:15
Alignment explanation
Indices: 19187030--19187082 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
19187020 TTTAATATTC
19187030 TTTTTATATTTATTT-
1 TTTTT-TATTTATTTA
*
19187045 TTTTTTACTTTCCTTTA
1 TTTTTTA-TTT-ATTTA
19187062 TTTTTTATTTATTTA
1 TTTTTTATTTATTTA
19187077 TTTTTT
1 TTTTTT
19187083 TCTTTTCACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 2 0.06
15 18 0.55
16 6 0.18
17 7 0.21
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTATTTA
Found at i:19187083 original size:16 final size:16
Alignment explanation
Indices: 19186977--19187083 Score: 67
Period size: 16 Copynumber: 6.5 Consensus size: 16
19186967 TTTTTTTTGA
* *
19186977 ATTTATTTATTTGTTT
1 ATTTTTTTATTTATTT
*
19186993 ATTTTTTTATTTATTAG
1 ATTTTTTTATTTATT-T
**
19187010 ATTAGGTTTATTTAATATT
1 ATT-TTTTTATTT-AT-TT
* *
19187029 CTTTTTATATTTA-TT
1 ATTTTTTTATTTATTT
*
19187044 -TTTTTTTACTTTCCTTT
1 ATTTTTTTA-TTT-ATTT
19187061 A-TTTTTTATTTATTT
1 ATTTTTTTATTTATTT
19187076 ATTTTTTT
1 ATTTTTTT
19187084 CTTTTCACTT
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
14 7 0.10
15 9 0.13
16 22 0.32
17 13 0.19
18 13 0.19
19 4 0.06
20 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (16 bp):
ATTTTTTTATTTATTT
Found at i:19187097 original size:35 final size:31
Alignment explanation
Indices: 19187030--19187113 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 31
19187020 TTTAATATTC
19187030 TTTTTATATTTATTTTTTTTTACTTTCCTTTA
1 TTTTT-TATTTATTTTTTTTTACTTTCCTTTA
*
19187062 TTTTTTATTTATTTATTTTTTTCTTTTCACTTTTA
1 TTTTTTATTTATTT-TTTTTTAC-TTTC-C-TTTA
*
19187097 TTTTGT-TTTATTTTTTT
1 TTTTTTATTTATTTTTTT
19187114 CCTCTAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
31 9 0.20
32 12 0.26
33 8 0.17
34 8 0.17
35 9 0.20
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (31 bp):
TTTTTTATTTATTTTTTTTTACTTTCCTTTA
Found at i:19187255 original size:119 final size:118
Alignment explanation
Indices: 19187110--19187412 Score: 427
Period size: 119 Copynumber: 2.5 Consensus size: 118
19187100 TGTTTTATTT
*
19187110 TTTTCCTCTAAAAATAAATTTTAAAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTT
1 TTTTCCT-TAAAAATAAATTTCAAAAAAAAAAA--TTTTTG-GGAAAAGTTGAAAGTATCAATTT
*
19187175 TCCTT-AAAAATAAATTTTC-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA
62 TCCTTAAAAAATAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA
19187230 TTTTCCTTAAAAATAAATTTCAAAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTC
1 TTTTCCTTAAAAATAAATTTCAAAAAAAAAA-ATTTTTGG-GAAAAGTTGAAAGTATCAATTTTC
*
19187295 CTTAAAAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
64 CTTAAAAAATAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA
** *
19187350 TTTTCCTTGGAAATAAAAGTTTC---AAAAAATATTTTTGGGGAAAAAGTTGAAAGTATCAATTT
1 TTTTCCTTAAAAAT-AAA-TTTCAAAAAAAAAAATTTTT-GGG-AAAAGTTGAAAGTATCAATTT
19187412 T
62 T
19187413 TCCTACACAA
Statistics
Matches: 169, Mismatches: 6, Indels: 17
0.88 0.03 0.09
Matches are distributed among these distances:
117 1 0.01
118 40 0.24
119 66 0.39
120 55 0.33
121 3 0.02
122 4 0.02
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (118 bp):
TTTTCCTTAAAAATAAATTTCAAAAAAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
TAAAAAATAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA
Found at i:19187416 original size:60 final size:57
Alignment explanation
Indices: 19187110--19187412 Score: 401
Period size: 60 Copynumber: 5.1 Consensus size: 57
19187100 TGTTTTATTT
* * *
19187110 TTTTCCTCTAAAAATAAATTTTAAAAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCCT-TAAAAATAAA-TTT-CAAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAA
*
19187172 TTTTCCTTAAAAATAAATTTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAA-TTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
*
19187230 TTTTCCTTAAAAATAAATTTCAAAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAATAAATTTC---AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
19187290 TTTTCCTTAAAAAATAAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
1 TTTTCCTT-AAAAATAAATTT-C-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
**
19187350 TTTTCCTTGGAAATAAAAGTTTC-AAAAAATATTTTTGGGGAAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAAAAT-AAA-TTTCAAAAAAATATTTTTGGGG-AAAAGTTGAAAGTATCAA
19187409 TTTT
1 TTTT
19187413 TCCTACACAA
Statistics
Matches: 224, Mismatches: 9, Indels: 19
0.89 0.04 0.08
Matches are distributed among these distances:
57 4 0.02
58 59 0.26
59 26 0.12
60 98 0.44
61 29 0.13
62 8 0.04
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (57 bp):
TTTTCCTTAAAAATAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA
Found at i:19188477 original size:55 final size:57
Alignment explanation
Indices: 19188411--19188527 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 57
19188401 TCTATATATT
* * *
19188411 TTTTTGAAAATTTTATTTTCAAAG-GAAATTGATACTTTCAAC-TTTT-CCTAAAATA
1 TTTTTGAAAATTTTATTTT-AAAGAAAAATAGATACTTTCAACTTTTTCCCAAAAATA
* *
19188466 TTTTTGGAAATTTTATTTTTAAGAAAAATAGATACTTTCAACTTTTTCCCAAAAATA
1 TTTTTGAAAATTTTATTTTAAAGAAAAATAGATACTTTCAACTTTTTCCCAAAAATA
19188523 TTTTT
1 TTTTT
19188528 TTTTGAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
54 3 0.06
55 34 0.63
56 4 0.07
57 13 0.24
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (57 bp):
TTTTTGAAAATTTTATTTTAAAGAAAAATAGATACTTTCAACTTTTTCCCAAAAATA
Found at i:19189404 original size:11 final size:11
Alignment explanation
Indices: 19189388--19189445 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
19189378 CCAAAGAAAA
19189388 AAATAATAGAT
1 AAATAATAGAT
*
19189399 AAATAATAAAAT
1 AAATAAT-AGAT
*
19189411 AAATATATA-TT
1 AAATA-ATAGAT
* *
19189422 TACTAATAGAT
1 AAATAATAGAT
19189433 AAATAATAGAT
1 AAATAATAGAT
19189444 AA
1 AA
19189446 TAGTTAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 3 0.08
11 23 0.62
12 9 0.24
13 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (11 bp):
AAATAATAGAT
Found at i:19189482 original size:24 final size:24
Alignment explanation
Indices: 19189449--19189517 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
19189439 TAGATAATAG
19189449 TTAATA-ATAAAAATTTATATACA
1 TTAATAGATAAAAATTTATATACA
* * *
19189472 TTAATGGATAAATAA-TAATATATA
1 TTAATAGATAAA-AATTTATATACA
*
19189496 TTAATAGATAAAAATATATATA
1 TTAATAGATAAAAATTTATATA
19189518 TTGATAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 7 0.19
24 28 0.76
25 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (24 bp):
TTAATAGATAAAAATTTATATACA
Found at i:19189482 original size:48 final size:47
Alignment explanation
Indices: 19189388--19189517 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 47
19189378 CCAAAGAAAA
* * *
19189388 AAATAATAGATAAATAATAA-AATAAATATATAT-T-TACTAATAGAT
1 AAATAATAGAT-AATATTAATAATAAAAATATATATACACTAATAGAT
* * *
19189433 AAATAATAGATAATAGTTAATAATAAAAATTTATATACATTAATGGAT
1 AAATAATAGATAATA-TTAATAATAAAAATATATATACACTAATAGAT
19189481 AAATAATA-ATATATATTAATAGATAAAAATATATATA
1 AAATAATAGATA-ATATTAATA-ATAAAAATATATATA
19189518 TTGATAAATA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
44 4 0.06
45 14 0.19
46 11 0.15
47 10 0.14
48 33 0.46
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (47 bp):
AAATAATAGATAATATTAATAATAAAAATATATATACACTAATAGAT
Found at i:19189913 original size:44 final size:44
Alignment explanation
Indices: 19189765--19189945 Score: 181
Period size: 44 Copynumber: 4.2 Consensus size: 44
19189755 AAATTTTGAT
* ** *
19189765 CAAAGCTCCTTTAAGTAGAGGCTCAACAACTTTGAAAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTG-AAAAAATAAA
* * * * *
19189810 CAAAGTTCCTCTAAACAAAGGCTCCATGACCTTG--AAAAT-AA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAA
** * * *
19189851 -ATGGCTCCTCTAATCAGAGGCTCAATGATTTTGAAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAA
* *
19189894 TAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAACAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAA
19189938 CAAAGCTC
1 CAAAGCTC
19189946 ATTTAATTAG
Statistics
Matches: 108, Mismatches: 24, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
40 25 0.23
41 2 0.02
42 10 0.09
43 2 0.02
44 44 0.41
45 25 0.23
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (44 bp):
CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAA
Found at i:19189958 original size:44 final size:44
Alignment explanation
Indices: 19189781--19189974 Score: 137
Period size: 44 Copynumber: 4.5 Consensus size: 44
19189771 TCCTTTAAGT
* * * * *
19189781 AGAGGCTCAACAACTTTGAAAAAAATAAACAAAGTTCCTCTAAAC
1 AGAGGCTCAACGACTTTG-AAAAAACAAACAAAGCTCATCTAATC
* * * * * ** *
19189826 AAAGGCTCCATGACCTTG--AAAA-TAA-ATGGCTCCTCTAATC
1 AGAGGCTCAACGACTTTGAAAAAACAAACAAAGCTCATCTAATC
* * * * * *
19189866 AGAGGCTCAATGATTTTGAAAAAATAAATAAAGCTCCTCTAAAC
1 AGAGGCTCAACGACTTTGAAAAAACAAACAAAGCTCATCTAATC
* *
19189910 AGAGGCTCAACGACTTTGAAAAAACAAACAAAGCTCATTTAATT
1 AGAGGCTCAACGACTTTGAAAAAACAAACAAAGCTCATCTAATC
*
19189954 AGAGGCATC-ACAACTTTGAAA
1 AGAGGC-TCAACGACTTTGAAA
19189975 GTAAATGCTC
Statistics
Matches: 117, Mismatches: 27, Indels: 11
0.75 0.17 0.07
Matches are distributed among these distances:
40 25 0.21
41 2 0.02
42 8 0.07
43 2 0.02
44 65 0.56
45 15 0.13
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.23
Consensus pattern (44 bp):
AGAGGCTCAACGACTTTGAAAAAACAAACAAAGCTCATCTAATC
Found at i:19198069 original size:21 final size:22
Alignment explanation
Indices: 19198031--19198079 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
19198021 CATTCTTAAT
19198031 CTTTTCTTATGTTTTTTTTTAG
1 CTTTTCTTATGTTTTTTTTTAG
19198053 CTTTTCTTATG-TTTTTTTTAG
1 CTTTTCTTATGTTTTTTTTTAG
19198074 CTTTTC
1 CTTTTC
19198080 AAATCTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.71
Consensus pattern (22 bp):
CTTTTCTTATGTTTTTTTTTAG
Found at i:19201141 original size:54 final size:54
Alignment explanation
Indices: 19201012--19201208 Score: 270
Period size: 55 Copynumber: 3.6 Consensus size: 54
19201002 TGTTTTTATA
*
19201012 TAAGGAAAATTGATACTTTCAACTTTCCCTAAAATGTTTTTGAAAGTTTTACTTT
1 TAAGGAAAATTGATACTTTCAACTTTCCCTAAAATGTTTTTGAAAATTTTA-TTT
* * * * ** *
19201067 TAAAGAAAATTGATATTTTCAACTTTTCCTTAAA-GCATTTAAAAATTTTATTT
1 TAAGGAAAATTGATACTTTCAACTTTCCCTAAAATGTTTTTGAAAATTTTATTT
19201120 TCAAGGAAAATTGATACTTTCAACTTTCCCTAAAATGTTTTTGAAAATTTTATTTT
1 T-AAGGAAAATTGATACTTTCAACTTTCCCTAAAATGTTTTTGAAAATTTTA-TTT
*
19201176 TAAGAAAAATTGATACTTTCAACTTTTCCCTAA
1 TAAGGAAAATTGATACTTTCAAC-TTTCCCTAA
19201209 GAATATATAT
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.03
54 41 0.34
55 64 0.52
56 13 0.11
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (54 bp):
TAAGGAAAATTGATACTTTCAACTTTCCCTAAAATGTTTTTGAAAATTTTATTT
Found at i:19201297 original size:68 final size:68
Alignment explanation
Indices: 19201157--19201297 Score: 203
Period size: 68 Copynumber: 2.1 Consensus size: 68
19201147 CCCTAAAATG
*
19201157 TTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAGAATATATATATA
1 TTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATATATA
***
19201222 TTT
66 AAA
* * *
19201225 TTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTT
1 TTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATATATAT
19201289 AAAA
65 AAAA
19201293 TTTTT
1 TTTTT
19201298 TTTATTTTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 58 0.89
69 7 0.11
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (68 bp):
TTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATATATA
AAA
Found at i:19202211 original size:48 final size:47
Alignment explanation
Indices: 19202153--19202267 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 47
19202143 AATAGATAAA
* *
19202153 TAATAA-AAAAATATGTATAGACTAATAGATAAATAATAGATA-ATAGT
1 TAATAATAAAAATATATATACACTAATAGATAAATAATA-ATATATA-T
* * *
19202200 TAATAATAAAAATTTATATACATTAATGGATAAATAATAATATATAT
1 TAATAATAAAAATATATATACACTAATAGATAAATAATAATATATAT
19202247 TAATAGATAAAAATATATATA
1 TAATA-ATAAAAATATATATA
19202268 TTAATAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 15 0.25
48 44 0.75
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (47 bp):
TAATAATAAAAATATATATACACTAATAGATAAATAATAATATATAT
Found at i:19202268 original size:24 final size:24
Alignment explanation
Indices: 19202159--19202268 Score: 109
Period size: 24 Copynumber: 4.6 Consensus size: 24
19202149 TAAATAATAA
* * *
19202159 AAAAATATGTATAGACTAATAGAT
1 AAAAATATATATATATTAATAGAT
*
19202183 AAATAATAGATA-ATAGTTAATA-AT
1 AAA-AATATATATATA-TTAATAGAT
* * *
19202207 AAAAATTTATATACATTAATGGAT
1 AAAAATATATATATATTAATAGAT
19202231 AAATAATA-ATATATATTAATAGAT
1 AAA-AATATATATATATTAATAGAT
19202255 AAAAATATATATAT
1 AAAAATATATATAT
19202269 TAATAAATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
23 15 0.22
24 40 0.58
25 14 0.20
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (24 bp):
AAAAATATATATATATTAATAGAT
Found at i:19202296 original size:4 final size:4
Alignment explanation
Indices: 19202289--19202337 Score: 66
Period size: 4 Copynumber: 12.5 Consensus size: 4
19202279 TAATACTAGC
*
19202289 AATA AATA AATA AAT- AATA AATA AATA AATA AATA AGATA CA-A AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA AATA
19202336 AA
1 AA
19202338 AATATAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
3 5 0.12
4 32 0.80
5 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:19202300 original size:23 final size:22
Alignment explanation
Indices: 19202229--19202324 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 22
19202219 ACATTAATGG
* *
19202229 ATAAATAATAATATATATTAATAG
1 ATAAATAATAATA-A-ATAAATAA
* *
19202253 ATAAA-AATATATATATTAATAA
1 ATAAATAATA-ATAAATAAATAA
*
19202275 AT-AATAATACTAGCAATAAATAA
1 ATAAATAATAATA--AATAAATAA
19202298 ATAAATAATAAATAAATAAATAA
1 ATAAATAAT-AATAAATAAATAA
19202321 ATAA
1 ATAA
19202325 GATACAAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.07
22 13 0.22
23 26 0.43
24 14 0.23
25 3 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
ATAAATAATAATAAATAAATAA
Found at i:19207164 original size:48 final size:48
Alignment explanation
Indices: 19207112--19207208 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
19207102 TTATCCGATT
*
19207112 TAAATTTGTAAAGAGTATGCTAGACTAATGACTAAGTTGGGATTTGAA
1 TAAATTTGTAAAGAGTATGCTAGACTAATGACTAAGTTGAGATTTGAA
19207160 TAAATTTGTAAAGAGTATGCTAGACTAATGACTAAGTTGAGATTTGAA
1 TAAATTTGTAAAGAGTATGCTAGACTAATGACTAAGTTGAGATTTGAA
19207208 T
1 T
19207209 TCCACTATAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (48 bp):
TAAATTTGTAAAGAGTATGCTAGACTAATGACTAAGTTGAGATTTGAA
Found at i:19209968 original size:341 final size:342
Alignment explanation
Indices: 19209338--19210019 Score: 1125
Period size: 341 Copynumber: 2.0 Consensus size: 342
19209328 TAGAAACTAT
* * *
19209338 AATTTGCAACTCGTGCACTTGGTCCATGATTGGTTTGTCATTAGTTATTGAAAATTCAAAGTATT
1 AATTTACAACTCGTGCACTTGGTCAATGATTGGTTTGTCATCAGTTATTGAAAATTCAAAGTATT
* * * **
19209403 TCAAAGTCATAAACTTATTAGTACCTTTCTTTTTGTTCATGTATTTGTGTTCAAAAGCAGTCCAT
66 TCAAAGTCAAAAACTTATTAGTACATTTCTTTTCGTTCATGTATTTGCATTCAAAAGCAGTCCAT
* * *
19209468 ATCTCTTTTGGTGTTTTCATATTTCTGTATAGATCATATAGATGATCAGATAATGAATTTAAAAT
131 ATCTCTTTTGGTGTTTTCATACTTCTATATAGATCATATAGATGATCAGATAATGAATTCAAAAT
* *
19209533 ATAATCTCGATAGACTAGTTCATTTTCTTCACGTTTGCTTGTTATTGCCTTAACAGCATCAGAAT
196 ATAATCTCGACAAACTAGTTCATTTTCTTCACGTTTGCTTGTTATTGCCTTAACAGCATCAGAAT
*
19209598 CTTCAAGAGTTGGTTTTGGAATTGGTTCCAAATTTGGATCAAATACATAAAACATCTTCAATGCA
261 CTTCAAGAGTTGGTTTTGAAATTGGTTCCAAATTTGGATCAAATACATAAAACATCTTCAATGCA
*
19209663 GTTAACAGAAAAACCAG
326 ATTAACAGAAAAACCAG
*
19209680 AATTTACAACTCGTGCACTTGGTCAATGATTGGTTTGTCATCAGTTATTG-AAATTCAAAGTTTT
1 AATTTACAACTCGTGCACTTGGTCAATGATTGGTTTGTCATCAGTTATTGAAAATTCAAAGTATT
* *
19209744 TCAAAGTTAAAAACTTATTAGTACATTTCTTTTCGTTCATGTATTTGCATTCAAAAGCAGTCTAT
66 TCAAAGTCAAAAACTTATTAGTACATTTCTTTTCGTTCATGTATTTGCATTCAAAAGCAGTCCAT
* *
19209809 ATCTTTTTTGGTGTTTTCATACTTCTATATA-AGTCATATAGATGATCAGATAATGAATTCAAGA
131 ATCTCTTTTGGTGTTTTCATACTTCTATATAGA-TCATATAGATGATCAGATAATGAATTCAAAA
*
19209873 TATAATCTCGACAAACTAGTTCATTTTCTTCATGTTTGCTTGTTATTGCCTTAACAGCATCAGAA
195 TATAATCTCGACAAACTAGTTCATTTTCTTCACGTTTGCTTGTTATTGCCTTAACAGCATCAGAA
* *
19209938 TTTTCAGGAGTTGGTTTTGAAATTGGTTCCAAATTTGGATCAAATACATAAAACATCTTCAATGC
260 TCTTCAAGAGTTGGTTTTGAAATTGGTTCCAAATTTGGATCAAATACATAAAACATCTTCAATGC
*
19210003 AATTAATAGAAAAACCA
325 AATTAACAGAAAAACCA
19210020 TTTTGTTTTT
Statistics
Matches: 315, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
340 1 0.00
341 267 0.85
342 47 0.15
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (342 bp):
AATTTACAACTCGTGCACTTGGTCAATGATTGGTTTGTCATCAGTTATTGAAAATTCAAAGTATT
TCAAAGTCAAAAACTTATTAGTACATTTCTTTTCGTTCATGTATTTGCATTCAAAAGCAGTCCAT
ATCTCTTTTGGTGTTTTCATACTTCTATATAGATCATATAGATGATCAGATAATGAATTCAAAAT
ATAATCTCGACAAACTAGTTCATTTTCTTCACGTTTGCTTGTTATTGCCTTAACAGCATCAGAAT
CTTCAAGAGTTGGTTTTGAAATTGGTTCCAAATTTGGATCAAATACATAAAACATCTTCAATGCA
ATTAACAGAAAAACCAG
Found at i:19214594 original size:17 final size:16
Alignment explanation
Indices: 19214562--19214604 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
19214552 CTTGATGGTC
*
19214562 AAAAAAA-TTTACAGA
1 AAAAAAATTTTAAAGA
19214577 AAAAAAATTTTAAAAGA
1 AAAAAAATTTT-AAAGA
19214594 AAAAAAATTTT
1 AAAAAAATTTT
19214605 TAATAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.28
16 3 0.12
17 15 0.60
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (16 bp):
AAAAAAATTTTAAAGA
Found at i:19214648 original size:52 final size:52
Alignment explanation
Indices: 19214570--19214671 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
19214560 TCAAAAAAAT
* *
19214570 TTACAGAAAAAAAATTTTAAAAGAAAAAAAATTTTTAATAGGTAAGTTTGAC
1 TTACAGAAAAAAAATTTTAAAAGAAAAAAAATTCTTAATAGGCAAGTTTGAC
**
19214622 TTACAGAAAAAAAATTTTAAAAGAAAAATGATTCTTAATAGGCAAGTTTG
1 TTACAGAAAAAAAATTTTAAAAGAAAAAAAATTCTTAATAGGCAAGTTTG
19214672 TATGATTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (52 bp):
TTACAGAAAAAAAATTTTAAAAGAAAAAAAATTCTTAATAGGCAAGTTTGAC
Found at i:19215501 original size:52 final size:52
Alignment explanation
Indices: 19215436--19215540 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
19215426 TGGACAATAA
* *
19215436 GACTTGTAGAAGAAGAATTCTAAAAGGAAATG-GATTCTTAATAGTCAAGTTT
1 GACTTGTAAAAGAAGAATTCTAAAAGGAAA-GAGATTCTTAATAGGCAAGTTT
* * *
19215488 GACTTGTAAAAGAAGAATTCTAAGATGAAAGAGATTTTTAATAGGCAAGTTT
1 GACTTGTAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
19215540 G
1 G
19215541 TATGGTTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 1 0.02
52 46 0.98
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (52 bp):
GACTTGTAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:19215606 original size:134 final size:134
Alignment explanation
Indices: 19215442--19215694 Score: 402
Period size: 134 Copynumber: 1.9 Consensus size: 134
19215432 ATAAGACTTG
* *
19215442 TAGAAGAAGAATTCTAAAAGGAAATGGATTCTTAATAGTCAAGTTTGACTTGTAAAAGAAGAATT
1 TAGAAGAAGAATTCTAAAAGGAAATGGATTCTTAATAATCAAGTTTGACTTGCAAAAGAAGAATT
* * * *
19215507 CTAAGATGAAAGA-GATTTTTAATAGGCAAGTTTGTATGGTTATAAATATGTGAAATCTGTACAG
66 CTAAGAGGAAA-ATGATTCTTAATAGGCAAATTTGTATAGTTATAAATATGTGAAATCTGTACAG
19215571 AGTTA
130 AGTTA
*
19215576 TAGAAGAAGAATTCTAAAAGGAAAAT-GATTCTTAATAATTAAGTTTGACTTGCAAAAGAAGAAT
1 TAGAAGAAGAATTCTAAAAGG-AAATGGATTCTTAATAATCAAGTTTGACTTGCAAAAGAAGAAT
*
19215640 TTTAAGAGGAAAATGATTCTTAATAGGCAAATTTGTATAGTTATAAATATGTGAA
65 TCTAAGAGGAAAATGATTCTTAATAGGCAAATTTGTATAGTTATAAATATGTGAA
19215695 GTCTCTATAA
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
133 1 0.01
134 104 0.95
135 4 0.04
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (134 bp):
TAGAAGAAGAATTCTAAAAGGAAATGGATTCTTAATAATCAAGTTTGACTTGCAAAAGAAGAATT
CTAAGAGGAAAATGATTCTTAATAGGCAAATTTGTATAGTTATAAATATGTGAAATCTGTACAGA
GTTA
Found at i:19222773 original size:2 final size:2
Alignment explanation
Indices: 19222766--19222790 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19222756 CAACACATGC
19222766 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19222791 CATGTTCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19224082 original size:22 final size:22
Alignment explanation
Indices: 19224030--19224076 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
19224020 CTCAAAATTA
19224030 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
19224052 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
19224073 ATAA
1 ATAA
19224077 TTATATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:19224094 original size:18 final size:18
Alignment explanation
Indices: 19224071--19224126 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
19224061 TATTTTTTAA
*
19224071 ATATAATTATATAATTAT
1 ATATAATTAAATAATTAT
19224089 ATATAATTAAATAATTA-
1 ATATAATTAAATAATTAT
* *
19224106 AT-TAA-AAAATAATTTT
1 ATATAATTAAATAATTAT
19224122 ATATA
1 ATATA
19224127 TTGGGTCAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 8 0.24
16 5 0.15
17 4 0.12
18 16 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAATTAAATAATTAT
Found at i:19230820 original size:34 final size:35
Alignment explanation
Indices: 19230746--19230821 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 35
19230736 TTCGTAAATC
* * * *
19230746 TCAAAAATAAATTTTTGAAAATTATATTGTGTTCT
1 TCAAAAATAAATTTTCGAAAATCATATTATATTCT
19230781 T-AAAAATAAATTTTCGAAAATCATATTATATT-T
1 TCAAAAATAAATTTTCGAAAATCATATTATATTCT
19230814 TCAAAAAT
1 TCAAAAAT
19230822 TCATTTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 2 0.06
34 33 0.92
35 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (35 bp):
TCAAAAATAAATTTTCGAAAATCATATTATATTCT
Found at i:19231956 original size:2 final size:2
Alignment explanation
Indices: 19231949--19231990 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
19231939 AAGTCTACTA
19231949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19231990 A
1 A
19231991 GTTTTGAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19232216 original size:2 final size:2
Alignment explanation
Indices: 19232209--19232234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19232199 CTCAAAACTA
19232209 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19232235 TGCAATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19246312 original size:30 final size:30
Alignment explanation
Indices: 19246192--19246303 Score: 106
Period size: 30 Copynumber: 3.8 Consensus size: 30
19246182 TTAATTTAAG
* *
19246192 TAAATT-TTATATTTTT-A-TTATATTTAAA
1 TAAATTATTA-ATTTTTAATTTGTATTCAAA
* ** *
19246220 T-AATTCTTAATTTTTAATTTACATCCAAA
1 TAAATTATTAATTTTTAATTTGTATTCAAA
* *
19246249 TAAATTATTAATTTTTACTTTTTATTCAAA
1 TAAATTATTAATTTTTAATTTGTATTCAAA
*
19246279 TAAATTTTTAATTTTTAATTTGTAT
1 TAAATTATTAATTTTTAATTTGTAT
19246304 ATGAATAAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 10 0.14
28 5 0.07
29 9 0.13
30 45 0.65
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (30 bp):
TAAATTATTAATTTTTAATTTGTATTCAAA
Found at i:19246367 original size:17 final size:17
Alignment explanation
Indices: 19246331--19246365 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19246321 ATAAATTAAT
*
19246331 ATTTTATTTGATTTAAA
1 ATTTTATTTGATATAAA
19246348 ATTTTATTTTGATATAAA
1 ATTTTA-TTTGATATAAA
19246366 TTAAAAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTTTATTTGATATAAA
Found at i:19246384 original size:30 final size:30
Alignment explanation
Indices: 19246344--19246415 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
19246334 TTATTTGATT
*
19246344 TAAAATTTTATTTTG-ATATAAATTAAAAG-A
1 TAAAAATTTATTTTGAATAT-AA-TAAAAGTA
19246374 TAAAAATTTA-TTTGAATATAATAAAAGTA
1 TAAAAATTTATTTTGAATATAATAAAAGTA
*
19246403 TCAAAATTTATTT
1 TAAAAATTTATTT
19246416 AACAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 6 0.16
29 16 0.43
30 15 0.41
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (30 bp):
TAAAAATTTATTTTGAATATAATAAAAGTA
Found at i:19246425 original size:29 final size:28
Alignment explanation
Indices: 19246344--19246428 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
19246334 TTATTTGATT
* * *
19246344 TAAAATTTTATTTTGATATAAATTAAAAGA
1 TAAAAATTTA-TTTGA-AAAAAATAAAAGA
* *
19246374 TAAAAATTTATTTGAATATAATAAAAGTA
1 TAAAAATTTATTTGAAAAAAATAAAAG-A
*
19246403 TCAAAATTTATTT-AACAAAAATAAAA
1 TAAAAATTTATTTGAA-AAAAATAAAA
19246429 TAATTTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
28 12 0.26
29 26 0.55
30 9 0.19
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (28 bp):
TAAAAATTTATTTGAAAAAAATAAAAGA
Found at i:19246590 original size:2 final size:2
Alignment explanation
Indices: 19246579--19246615 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
19246569 TATCTTCCTC
*
19246579 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19246616 CAATCAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19256730 original size:52 final size:52
Alignment explanation
Indices: 19256660--19256759 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
19256650 GAGTGTGTAC
* *
19256660 AAAAAATTAATAATAATAAATTAATAGAAATAATTTAGAAAATGATGTAGCA
1 AAAAAAATAATAACAATAAATTAATAGAAATAATTTAGAAAATGATGTAGCA
* * *
19256712 AAAAAAATAATAACAATAAATTAGTAGGAGTAATTTAGAAAATGATGT
1 AAAAAAATAATAACAATAAATTAATAGAAATAATTTAGAAAATGATGT
19256760 GGCTCATACC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.28
Consensus pattern (52 bp):
AAAAAAATAATAACAATAAATTAATAGAAATAATTTAGAAAATGATGTAGCA
Found at i:19263086 original size:31 final size:31
Alignment explanation
Indices: 19263048--19263110 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
19263038 GTCGCCTACA
*
19263048 TCTTTAACACCAATTGTTTTGTTCAACAAAC
1 TCTTTAACACCAATTGTTTTGTCCAACAAAC
19263079 TCTTTAACACCAATTGTTTTGTCCAACAAAC
1 TCTTTAACACCAATTGTTTTGTCCAACAAAC
19263110 T
1 T
19263111 TGTCCAATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (31 bp):
TCTTTAACACCAATTGTTTTGTCCAACAAAC
Found at i:19270156 original size:22 final size:22
Alignment explanation
Indices: 19270110--19270155 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
19270100 CTTTTGAATA
*
19270110 TTTAAAATTCTTATTTTCATAT
1 TTTAAAATTATTATTTTCATAT
19270132 TTTAAAATTATT-TTTT-ATGAT
1 TTTAAAATTATTATTTTCAT-AT
19270153 TTT
1 TTT
19270156 TTTTTTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 9 0.41
22 11 0.50
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTAAAATTATTATTTTCATAT
Found at i:19272667 original size:7 final size:7
Alignment explanation
Indices: 19272655--19272701 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
19272645 GTTTTTGGTA
19272655 TATTTTC
1 TATTTTC
19272662 TATTTTC
1 TATTTTC
*
19272669 TATTTTT
1 TATTTTC
19272676 TATTTTC
1 TATTTTC
*
19272683 T-TATT-
1 TATTTTC
19272688 TATTTATC
1 TATTT-TC
19272696 TATTTT
1 TATTTT
19272702 AAAAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 1 0.03
6 5 0.15
7 22 0.67
8 5 0.15
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTTTC
Found at i:19277352 original size:16 final size:17
Alignment explanation
Indices: 19277315--19277353 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
19277305 AATTTTGCTT
*
19277315 TGTATTTTATATTTTTA
1 TGTATATTATATTTTTA
19277332 T-TATATTATA-TTTTA
1 TGTATATTATATTTTTA
19277347 TGTATAT
1 TGTATAT
19277354 ATTTTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 13 0.65
17 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TGTATATTATATTTTTA
Found at i:19277435 original size:10 final size:10
Alignment explanation
Indices: 19277422--19277452 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
19277412 TTTATTATTC
19277422 TTTTTTTCTTT
1 TTTTTTTC-TT
19277433 TTTTTTTCTT
1 TTTTTTTCTT
19277443 TTTTTTTCTT
1 TTTTTTTCTT
19277453 AATATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:19277438 original size:11 final size:11
Alignment explanation
Indices: 19277422--19277449 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
19277412 TTTATTATTC
19277422 TTTTTTTCTTT
1 TTTTTTTCTTT
19277433 TTTTTTTCTTT
1 TTTTTTTCTTT
19277444 TTTTTT
1 TTTTTT
19277450 CTTAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:19278470 original size:17 final size:16
Alignment explanation
Indices: 19278450--19278527 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 16
19278440 TTTAATATTC
19278450 TTTTATCTTTATTTTAT
1 TTTTAT-TTTATTTTAT
*
19278467 TTTTATTTTTGTTTTACT
1 TTTTA-TTTTATTTTA-T
*
19278485 TTTT-TTTTATTTTCAC
1 TTTTATTTTATTTT-AT
*
19278501 TTTTATTTTGTTTTATT
1 TTTTATTTTATTTTA-T
19278518 ATTTTATTTT
1 -TTTTATTTT
19278528 CTTTAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
16 13 0.26
17 22 0.44
18 15 0.30
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:19278475 original size:22 final size:21
Alignment explanation
Indices: 19278450--19278517 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
19278440 TTTAATATTC
19278450 TTTTATCTTTATTTTATTTTTA
1 TTTTATCTTTATTTT-TTTTTA
*
19278472 TTTT-TGTTTTACTTTTTTTTTA
1 TTTTAT-CTTTA-TTTTTTTTTA
*
19278494 TTTTCA-CTTTTATTTTGTTTTA
1 TTTT-ATC-TTTATTTTTTTTTA
19278516 TT
1 TT
19278518 ATTTTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 1 0.03
22 29 0.76
23 8 0.21
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTATCTTTATTTTTTTTTA
Found at i:19278586 original size:57 final size:58
Alignment explanation
Indices: 19278544--19278987 Score: 385
Period size: 57 Copynumber: 7.7 Consensus size: 58
19278534 ATAAAAATAA
* *
19278544 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTT
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTT
* * * *
19278601 CAAAAAAAATTTTTTTTGAAGAAAAATTGAAAGTATCAATTTTT-TTCGAAATTAAAGTTTT
1 --AAAAAAA-TATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTT-GAAATTAAAATTTT
* * * * *
19278662 CAAAAAATATTTTTGG-GAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTT
1 AAAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTT
** * * ** *
19278720 --AAAACGATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTC
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTT
* * * * *
19278776 CAAAAAATATTTTT-GAAAAAAGTTAAAAGTATCAATTTTT-TCTAAAAAT-AAATTTT
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCT-TGAAATTAAAATTTT
* *
19278832 CAAAAAAA-AGTTTTT-GAGGGAAAGTTGAAAGTATCAATTTTT-TTCGAAATTAAAGTTTT
1 -AAAAAAATA-TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTT-GAAATTAAAATTTT
** * * * * *
19278891 CGAAAGATA-TTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAATTTTT
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAA-TTTT
* *
19278949 TAAAAAA-A-TTTTGGAGAAAAGTTAAAAGTATCAATTTTT
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTT
19278988 TCTGCACAAA
Statistics
Matches: 307, Mismatches: 60, Indels: 38
0.76 0.15 0.09
Matches are distributed among these distances:
56 49 0.16
57 105 0.34
58 88 0.29
59 24 0.08
60 35 0.11
61 6 0.02
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTT
Found at i:19278782 original size:114 final size:114
Alignment explanation
Indices: 19278545--19278988 Score: 538
Period size: 114 Copynumber: 3.9 Consensus size: 114
19278535 TAAAAATAAA
* *
19278545 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGA-AAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTT-AAAAAAAA
*
19278610 TTTTTTTTGAAGAAAAATTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTTC
64 --TTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTTC
**
19278663 AAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAATTTT-AAAACGA
1 AAAAAATATTTTT-GGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAAT-AAATTTTAAAAAAAA
* * *
19278727 -TTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTCC
64 TTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTTC
* *
19278777 AAAAAATATTTTTGAAAAAAGTTAAAAGTATCAATTTT-TTCTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGAAAAAGTTAAAAGTATCAATTTTCCT-TAAAAATAAATTTT-AAAAAAAA
* * *
19278841 GTTTTTGAGGGAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTTC
64 TTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTTC
* * * * * * ** * *
19278892 GAAAGATATTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAATTTTTTAAAAAAA
1 AAAAAATATTTTTGGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTAAAAAAAA
* *
19278957 --TTTTGGAGAAAAGTTAAAAGTATCAATTTTTT
64 TTTTTTGAAGAAAAGTTGAAAGTATCAATTTTTT
19278989 CTGCACAAAA
Statistics
Matches: 284, Mismatches: 33, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
112 8 0.03
113 31 0.11
114 92 0.32
115 80 0.28
116 11 0.04
117 9 0.03
118 43 0.15
119 10 0.04
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (114 bp):
AAAAAATATTTTTGGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAATT
TTTTGAAGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTTC
Found at i:19287649 original size:20 final size:19
Alignment explanation
Indices: 19287613--19287651 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
19287603 ACTATGCTTA
19287613 AAAAAAAATAATAAAAAAT
1 AAAAAAAATAATAAAAAAT
19287632 AAAAAAAATGAATGAAAAAA
1 AAAAAAAAT-AAT-AAAAAA
19287652 GAGAACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (19 bp):
AAAAAAAATAATAAAAAAT
Found at i:19288705 original size:41 final size:41
Alignment explanation
Indices: 19288643--19288918 Score: 401
Period size: 41 Copynumber: 6.7 Consensus size: 41
19288633 ATGATTGTCA
* * *
19288643 AGGAGTAATTTACTTTTCAAAGTGGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
19288684 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
19288725 AGGAGCAATTTATTTTTCAAAGTCTTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
19288766 AAGAGCAATTTATTTTTCAAAGTCGTAGTGCCTCTATTTAT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
19288807 ATGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
19288848 AGGAGTAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
19288889 AGGAGCAATTTAC-TTTCTAAAGTCGAGGTG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTG
19288919 AGCAATTTAT
Statistics
Matches: 211, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 4 0.02
41 207 0.98
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:19289205 original size:6 final size:6
Alignment explanation
Indices: 19289194--19289237 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
19289184 TGCTTTGTAT
*
19289194 TTTATA TTTATA TTTATA TTTTATA TTTTATA TTT-TA TGTATA T
1 TTTATA TTTATA TTTATA -TTTATA -TTTATA TTTATA TTTATA T
19289238 ATTTTCCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
5 4 0.11
6 18 0.51
7 13 0.37
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:19289216 original size:7 final size:7
Alignment explanation
Indices: 19289191--19289231 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
19289181 TTTTGCTTTG
19289191 TATTTTA
1 TATTTTA
19289198 TA-TTTA
1 TATTTTA
19289204 TA-TTTA
1 TATTTTA
19289210 TATTTTA
1 TATTTTA
19289217 TATTTTA
1 TATTTTA
19289224 TATTTTA
1 TATTTTA
19289231 T
1 T
19289232 GTATATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.36
7 21 0.64
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTTA
Found at i:19289216 original size:13 final size:13
Alignment explanation
Indices: 19289194--19289242 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
19289184 TGCTTTGTAT
19289194 TTTATA-TTTATA
1 TTTATATTTTATA
19289206 TTTATATTTTATA
1 TTTATATTTTATA
*
19289219 TTTTATATTTTATG
1 -TTTATATTTTATA
*
19289233 TATATATTTT
1 TTTATATTTT
19289243 CCTTTGTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 6 0.18
13 15 0.45
14 12 0.36
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTATATTTTATA
Found at i:19289225 original size:20 final size:19
Alignment explanation
Indices: 19289191--19289242 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
19289181 TTTTGCTTTG
19289191 TATTTTATA-TTTATATTT
1 TATTTTATATTTTATATTT
19289209 ATATTTTATATTTTATATTT
1 -TATTTTATATTTTATATTT
*
19289229 TATGTATATATTTT
1 TAT-TTTATATTTT
19289243 CCTTTGTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTTTATATTTTATATTT
Found at i:19289276 original size:15 final size:15
Alignment explanation
Indices: 19289253--19289293 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
19289243 CCTTTGTATC
*
19289253 TTATGTATTTATTAT
1 TTATTTATTTATTAT
19289268 TTATTTATTTATTAT
1 TTATTTATTTATTAT
19289283 TACTATTTATT
1 T--TATTTATT
19289294 AATATATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.65
17 8 0.35
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTTATTTATTAT
Found at i:19289327 original size:11 final size:10
Alignment explanation
Indices: 19289311--19289338 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
19289301 ATCTTTATTA
19289311 TTTTTTTTCT
1 TTTTTTTTCT
19289321 TTTTTTTTCT
1 TTTTTTTTCT
19289331 TTTTTTTT
1 TTTTTTTT
19289339 GTTAATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:19289404 original size:12 final size:12
Alignment explanation
Indices: 19289370--19289410 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
19289360 AGATTATATG
19289370 TTATCTGTT-AT
1 TTATCTGTTAAT
19289381 TTAAT-T-TTAAT
1 TT-ATCTGTTAAT
19289392 TTATCTGTTAAT
1 TTATCTGTTAAT
19289404 TTATCTG
1 TTATCTG
19289411 ATTTATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 4 0.15
11 8 0.31
12 14 0.54
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.61
Consensus pattern (12 bp):
TTATCTGTTAAT
Found at i:19289451 original size:23 final size:23
Alignment explanation
Indices: 19289424--19289469 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19289414 TATTTGACTT
19289424 ATTTTCATTAGTATTTTTATTTA
1 ATTTTCATTAGTATTTTTATTTA
** * *
19289447 ATTTTTTTTATTTTTTTTATTTA
1 ATTTTCATTAGTATTTTTATTTA
19289470 TCCGAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (23 bp):
ATTTTCATTAGTATTTTTATTTA
Found at i:19289462 original size:8 final size:9
Alignment explanation
Indices: 19289435--19289468 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
19289425 TTTTCATTAG
19289435 TATTTTTATT
1 TATTTTT-TT
19289445 TAATTTTTTT
1 T-ATTTTTTT
19289455 TATTTTTTT
1 TATTTTTTT
19289464 TATTT
1 TATTT
19289469 ATCCGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 4 0.17
11 6 0.26
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TATTTTTTT
Found at i:19290288 original size:11 final size:10
Alignment explanation
Indices: 19290264--19290306 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
19290254 TTCTTTTATC
19290264 TTTATTTTATT
1 TTTATTTT-TT
19290275 TTTATTTTTGT
1 TTTATTTTT-T
*
19290286 TTTACTTTTT
1 TTTATTTTTT
19290296 TTTATTTTTT
1 TTTATTTTTT
19290306 T
1 T
19290307 ATTTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 12 0.41
11 17 0.59
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:19290336 original size:37 final size:36
Alignment explanation
Indices: 19290265--19290348 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 36
19290255 TCTTTTATCT
**
19290265 TTATTTTA-TTTTTATTTTTGTTTTACTTTTTTTTA
1 TTATTTTATTTTTTATTTTACTTTTACTTTTTTTTA
*
19290300 TTTTTTTATTTTTTATTTTCACTTTTA-TTTTGTTTTA
1 TTATTTTATTTTTTATTTT-ACTTTTACTTTT-TTTTA
19290337 TTATTTTATTTT
1 TTATTTTATTTT
19290349 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 7 0.17
36 14 0.33
37 21 0.50
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (36 bp):
TTATTTTATTTTTTATTTTACTTTTACTTTTTTTTA
Found at i:19290407 original size:57 final size:56
Alignment explanation
Indices: 19290345--19290751 Score: 216
Period size: 57 Copynumber: 7.1 Consensus size: 56
19290335 TATTATTTTA
*
19290345 TTTTCTTTAAATAAAAATAAAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAATAAAAATTAAAAAAAATA-TTTTTGAGAAAAGTTGAAAGTATCAAT
* ** * *
19290402 TTTTCTTAAAAATAAATTTTCAAAAAAATTTTTTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTT-TAAATAAAAATT-AAAAAAA-ATATTTTTGAG-AAAAGTTGAAAGTATCAAT
* ** **
19290462 TTTTC-TTAAAAATAAAATT-TTAAAACGATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAATA-AAAATTAAAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAAT
* ** *** ** * *
19290518 TTTCCTCGAAATTAAGGTTTCCAAAAAATATTTTTGAAAAAAATTGAAAGTATCAAT
1 TTTTCTTTAAA-TAAAAATTAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAAT
* * * *
19290575 TTTTC-CTAAA-AACAAATTTTCAAAAAAAA-GTTTTTGAGGGAAAGTTGAAATTATCAAT
1 TTTTCTTTAAATAA-AAA--TT-AAAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAAT
* ** ** *** * * *
19290633 TTTCCTCGAAATTAAAGTTTTCGAAAGATA-TTTTGAGAAAAAATTAAAAGTATCAAT
1 TTTTCTTTAAA-TAAAAATTAAAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAAT
** * * ** * *
19290690 TTTTCTCGAGATTAAAATTTCTAAAAAATA-TTTCGAAAAAAAGTTGAAAGTATCAAT
1 TTTTCTTTA-AATAAAAATTAAAAAAAATATTTTTG-AGAAAAGTTGAAAGTATCAAT
19290747 TTTTC
1 TTTTC
19290752 CTGCACAAAA
Statistics
Matches: 265, Mismatches: 64, Indels: 42
0.71 0.17 0.11
Matches are distributed among these distances:
54 2 0.01
56 35 0.13
57 121 0.46
58 55 0.21
59 24 0.09
60 26 0.10
61 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (56 bp):
TTTTCTTTAAATAAAAATTAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAAT
Found at i:19290411 original size:56 final size:54
Alignment explanation
Indices: 19290345--19290635 Score: 208
Period size: 56 Copynumber: 5.1 Consensus size: 54
19290335 TATTATTTTA
*
19290345 TTTTCTTTAAATAAAAATAAAAAAAAATATTTTTTGAGAAAAGTTGAAAGTATCAAT
1 TTTTC-TTAAA-AAAAATTAAAAAAAATA-TTTTTGAGAAAAGTTGAAAGTATCAAT
* *
19290402 TTTTCTTAAAAATAAATTTTCAAAAAAATTTTTTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAA-AAA--TT-AAAAAAA-ATATTTTTGAG-AAAAGTTGAAAGTATCAAT
** **
19290462 TTTTCTTAAAAATAAAATT-TTAAAACGATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTT-AAAA-AAAATTAAAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAAT
* * *** ** * *
19290518 TTTCCTCGAAATTAAGGTTTCCAAAAAATATTTTTGAAAAAAATTGAAAGTATCAAT
1 TTTTCT-TAAA--AAAAATTAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAAT
* * * *
19290575 TTTTCCTAAAAACAAATTTTCAAAAAAAA-GTTTTTGAGGGAAAGTTGAAATTATCAAT
1 TTTTCTTAAAAA-AAA--TT-AAAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAAT
19290633 TTT
1 TTT
19290636 CCTCGAAATT
Statistics
Matches: 184, Mismatches: 32, Indels: 35
0.73 0.13 0.14
Matches are distributed among these distances:
54 2 0.01
55 2 0.01
56 45 0.24
57 44 0.24
58 39 0.21
59 17 0.09
60 27 0.15
61 7 0.04
62 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (54 bp):
TTTTCTTAAAAAAAATTAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAAT
Found at i:19290631 original size:115 final size:115
Alignment explanation
Indices: 19290365--19290749 Score: 415
Period size: 115 Copynumber: 3.3 Consensus size: 115
19290355 ATAAAAATAA
* ** * * *
19290365 AAAAAAATATTTTTTGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAA-A-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAA
* * *
19290429 ATTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTT
64 A--TATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCCTAAAAATAAAATTTT
** *
19290483 -AAAACGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCCAAAAAAT
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAAT
*
19290547 ATTTTTGA-AAAAAATTGAAAGTATCAATTTTTCCTAAAAA-CAAATTTT
66 ATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCCTAAAAATAAAATTTT
* * * * *
19290595 CAAAAAAAAGTTTTTGAGGGAAAGTTGAAATTATCAATTTTCCTCGAAATTAAAGTTTTCGAAAG
1 -AAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAA
* * * *
19290660 ATA-TTTTGAGAAAAAATTAAAAGTATCAATTTTT-CTCGAGATTAAAATTTCT
64 ATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCCT-AAAAATAAAATTT-T
* * **
19290712 AAAAAATA-TTTCGAAAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
19290750 TCCTGCACAA
Statistics
Matches: 227, Mismatches: 32, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
112 7 0.03
113 30 0.13
114 46 0.20
115 84 0.37
116 55 0.24
117 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (115 bp):
AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAAT
ATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCCTAAAAATAAAATTTT
Found at i:19290739 original size:172 final size:173
Alignment explanation
Indices: 19290366--19290753 Score: 489
Period size: 172 Copynumber: 2.2 Consensus size: 173
19290356 TAAAAATAAA
* * * *
19290366 AAAAAATATTTTTTG-AGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAATA-TTTTCGAAAAAAAGTTGAAAGTATCAATTTTTCCTAAAAACAAATTTTCAAAAAAA
** * *
19290430 TTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTAAAACGATTTTT
65 -TAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTTAAAACGATTTTT
* * * **
19290495 GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
129 GAGAAAAAATTAAAAGTATCAATTTTCCTCGAAATTAAAATTTCC
*
19290540 AAAAAATATTTTTGAAAAAAA-TTGAAAGTATCAATTTTTCCTAAAAACAAATTTTCAAAAAAA-
1 AAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTTCCTAAAAACAAATTTTCAAAAAAAT
** * * * * *
19290603 AGTTTTTGAGGGAAAGTTGAAATTATCAATTTTCCTCGAAATTAAAGTTTTCGAAA-GATATTTT
66 AGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTT-AAAACGAT-TTTT
* * *
19290667 GAGAAAAAATTAAAAGTATCAATTTTTCTCGAGATTAAAATTTCT
129 GAGAAAAAATTAAAAGTATCAATTTTCCTCGAAATTAAAATTTCC
19290712 AAAAAATA-TTTCGAAAAAAAGTTGAAAGTATCAATTTTTCCT
1 AAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTTCCT
19290754 GCACAAAAAT
Statistics
Matches: 187, Mismatches: 23, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
171 55 0.29
172 73 0.39
173 46 0.25
174 13 0.07
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (173 bp):
AAAAAATATTTTCGAAAAAAAGTTGAAAGTATCAATTTTTCCTAAAAACAAATTTTCAAAAAAAT
AGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTTAAAACGATTTTTGA
GAAAAAATTAAAAGTATCAATTTTCCTCGAAATTAAAATTTCC
Found at i:19291334 original size:5 final size:6
Alignment explanation
Indices: 19291312--19291342 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
19291302 AAAGATGTGA
19291312 AAAAAT GAAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT
19291343 GGAAGACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:19292514 original size:26 final size:26
Alignment explanation
Indices: 19292447--19292536 Score: 73
Period size: 26 Copynumber: 3.6 Consensus size: 26
19292437 TTTTTAGTTA
* *
19292447 AGAATCTCTAATTTTTTTTTCAAATG
1 AGAATATCTAAATTTTTTTTCAAATG
* *
19292473 AAAATA-CTTGAA---TTTTT-AAATG
1 AGAATATC-TAAATTTTTTTTCAAATG
* *
19292495 TGAATATCTAATTTTTTTTTCAAATG
1 AGAATATCTAAATTTTTTTTCAAATG
*
19292521 AGAATATTTAAATTTT
1 AGAATATCTAAATTTT
19292537 GGATGTGAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
22 11 0.23
23 6 0.13
25 6 0.13
26 24 0.51
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.49
Consensus pattern (26 bp):
AGAATATCTAAATTTTTTTTCAAATG
Found at i:19292543 original size:47 final size:48
Alignment explanation
Indices: 19292448--19292546 Score: 137
Period size: 48 Copynumber: 2.1 Consensus size: 48
19292438 TTTTAGTTAA
* *
19292448 GAATCTCTAATTTTTTTTTCAAATGAAAATACTTGAATTTTTAAATGT
1 GAATATCTAATTTTTTTTTCAAATGAAAATACTTGAAATTTTAAATGT
* * **
19292496 GAATATCTAATTTTTTTTTCAAATGAGAATA-TTTAAATTTTGGATGT
1 GAATATCTAATTTTTTTTTCAAATGAAAATACTTGAAATTTTAAATGT
19292543 GAAT
1 GAAT
19292547 CTTTGACTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
47 16 0.36
48 29 0.64
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.47
Consensus pattern (48 bp):
GAATATCTAATTTTTTTTTCAAATGAAAATACTTGAAATTTTAAATGT
Found at i:19294478 original size:20 final size:21
Alignment explanation
Indices: 19294426--19294479 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
19294416 TTCAAATGCA
19294426 AATCTTTGA-AATTCATTTGTG
1 AATCTTT-ATAATTCATTTGTG
**
19294447 AATCTTCGTAATT-ATTTGTG
1 AATCTTTATAATTCATTTGTG
19294467 AATCTTTATAATT
1 AATCTTTATAATT
19294480 GTGAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (21 bp):
AATCTTTATAATTCATTTGTG
Found at i:19294499 original size:58 final size:58
Alignment explanation
Indices: 19294430--19294568 Score: 165
Period size: 58 Copynumber: 2.4 Consensus size: 58
19294420 AATGCAAATC
** *
19294430 TTTGAAA-TTCATTTGTGAATCTTCGTAATTATTTGTGAATCTTTATAATTGTGAAAA
1 TTTGAAATTTCATTTGTGAATCTTCAAAATTATTTGTGAATCTTTATAATTGAGAAAA
** * * **
19294487 TTTGAAATTTCATTAATAAATCTTTAAAATTATTTGTGAATCTTTATAATTGAGAATC
1 TTTGAAATTTCATTTGTGAATCTTCAAAATTATTTGTGAATCTTTATAATTGAGAAAA
*
19294545 TTTGAAATTAT-TTTTGTGAATCTT
1 TTTGAAATT-TCATTTGTGAATCTT
19294569 TGCAATTGCA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
57 7 0.10
58 59 0.88
59 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (58 bp):
TTTGAAATTTCATTTGTGAATCTTCAAAATTATTTGTGAATCTTTATAATTGAGAAAA
Found at i:19294530 original size:20 final size:20
Alignment explanation
Indices: 19294426--19294537 Score: 61
Period size: 20 Copynumber: 5.7 Consensus size: 20
19294416 TTCAAATGCA
*
19294426 AATCTTTGAAATTCATTTGTG
1 AATCTTTAAAATT-ATTTGTG
***
19294447 AATCTTCGTAATTATTTGTG
1 AATCTTTAAAATTATTTGTG
*
19294467 AATCTTT---A-TAATTGTG
1 AATCTTTAAAATTATTTGTG
** * ** *
19294483 AAAATTTGAAATTTCATTAATA
1 AATCTTT-AAAATT-ATTTGTG
19294505 AATCTTTAAAATTATTTGTG
1 AATCTTTAAAATTATTTGTG
*
19294525 AATCTTTATAATT
1 AATCTTTAAAATT
19294538 GAGAATCTTT
Statistics
Matches: 67, Mismatches: 18, Indels: 13
0.68 0.18 0.13
Matches are distributed among these distances:
16 12 0.18
17 1 0.01
20 29 0.43
21 17 0.25
22 8 0.12
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (20 bp):
AATCTTTAAAATTATTTGTG
Found at i:19294555 original size:22 final size:22
Alignment explanation
Indices: 19294530--19294575 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
19294520 TTGTGAATCT
19294530 TTATAATTGAGAATCTTTGAAA
1 TTATAATTGAGAATCTTTGAAA
** * *
19294552 TTATTTTTGTGAATCTTTGCAA
1 TTATAATTGAGAATCTTTGAAA
19294574 TT
1 TT
19294576 GCAAATCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (22 bp):
TTATAATTGAGAATCTTTGAAA
Found at i:19294576 original size:38 final size:36
Alignment explanation
Indices: 19294504--19294612 Score: 139
Period size: 38 Copynumber: 3.0 Consensus size: 36
19294494 TTTCATTAAT
* *
19294504 AAATCTTTAAAATTATTTGTGAATCTTTATAATTG-
1 AAATCTTTGAAATTATTTGTGAATCTTTACAATTGC
*
19294539 AGAATCTTTGAAATTATTTTTGTGAATCTTTGCAATTGC
1 A-AATCTTTGAAATTA--TTTGTGAATCTTTACAATTGC
* *
19294578 AAATCTTTGAAATTATTTGTGAATTTTTTCAATTG
1 AAATCTTTGAAATTATTTGTGAATCTTTACAATTG
19294613 TTAATCTTGA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
35 1 0.02
36 31 0.48
38 32 0.49
39 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (36 bp):
AAATCTTTGAAATTATTTGTGAATCTTTACAATTGC
Found at i:19294620 original size:36 final size:36
Alignment explanation
Indices: 19294504--19294612 Score: 130
Period size: 36 Copynumber: 3.0 Consensus size: 36
19294494 TTTCATTAAT
* *
19294504 AAATCTTTAAAATTATTTGTGAATCTTTAT-AATTGA
1 AAATCTTTGAAATTATTTGTGAAT-TTTTTCAATTGA
* * * *
19294540 GAATCTTTGAAATTATTTTTGTGAATCTTTGCAATTGC
1 AAATCTTTGAAATTA--TTTGTGAATTTTTTCAATTGA
19294578 AAATCTTTGAAATTATTTGTGAATTTTTTCAATTG
1 AAATCTTTGAAATTATTTGTGAATTTTTTCAATTG
19294613 TTAATCTTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
36 31 0.51
37 2 0.03
38 28 0.46
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (36 bp):
AAATCTTTGAAATTATTTGTGAATTTTTTCAATTGA
Found at i:19294912 original size:19 final size:19
Alignment explanation
Indices: 19294888--19294928 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19294878 ATTTGAATCT
*
19294888 TTTTGCAAATTCTTGTATA
1 TTTTGCAAATTCTTGAATA
* *
19294907 TTTTGCAACTTTTTGAATA
1 TTTTGCAAATTCTTGAATA
19294926 TTT
1 TTT
19294929 GCTAACCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTGCAAATTCTTGAATA
Found at i:19294977 original size:22 final size:22
Alignment explanation
Indices: 19294952--19295024 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
19294942 TTTAATTGTA
19294952 AATCTTTGAATTTCAAATTATG
1 AATCTTTGAATTTCAAATTATG
**
19294974 AATCTTTGAATTTCAAATTAAA
1 AATCTTTGAATTTCAAATTATG
* **
19294996 AAACTTTGAATTTTGAATTATG
1 AATCTTTGAATTTCAAATTATG
19295018 AATCTTT
1 AATCTTT
19295025 ATTTCAGTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.45
Consensus pattern (22 bp):
AATCTTTGAATTTCAAATTATG
Found at i:19295508 original size:15 final size:16
Alignment explanation
Indices: 19295471--19295548 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
19295461 CTATTAAAAT
*
19295471 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
19295487 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
* *
19295502 ATATTAAAAAATAATTA
1 ATATT-AAAATTATTTA
*
19295519 TATTTTAATAATATTATTTA
1 -ATATT-A-AA-ATTATTTA
19295539 ATATTAAAAT
1 ATATTAAAAT
19295549 ATTATGTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
15 7 0.14
16 18 0.37
17 5 0.10
18 7 0.14
19 6 0.12
20 6 0.12
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:19295511 original size:16 final size:17
Alignment explanation
Indices: 19295477--19295566 Score: 78
Period size: 18 Copynumber: 5.2 Consensus size: 17
19295467 AAATATATTG
*
19295477 AAATTATTTATTATT-A
1 AAATTATTTAATATTAA
19295493 AAATTA-TTAATATTAA
1 AAATTATTTAATATTAA
* * *
19295509 AAAATAATTATATTTTAA
1 AAATTATTTA-ATATTAA
19295527 TAATATTATTTAATATTAA
1 -AA-ATTATTTAATATTAA
19295546 AATATTATGTTAATA-TAA
1 AA-ATTAT-TTAATATTAA
19295564 AAA
1 AAA
19295567 AAAACTTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.11
16 12 0.19
17 4 0.06
18 19 0.31
19 14 0.23
20 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (17 bp):
AAATTATTTAATATTAA
Found at i:19295566 original size:19 final size:18
Alignment explanation
Indices: 19295528--19295566 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
19295518 ATATTTTAAT
*
19295528 AATATTATTTAATATTAA
1 AATATTATTTAATATAAA
19295546 AATATTATGTTAATATAAA
1 AATATTAT-TTAATATAAA
19295565 AA
1 AA
19295567 AAAACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATTATTTAATATAAA
Found at i:19295616 original size:15 final size:15
Alignment explanation
Indices: 19295598--19295626 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19295588 TATTATTCTT
19295598 TATATTATTTATTAC
1 TATATTATTTATTAC
19295613 TATATTATTTATTA
1 TATATTATTTATTA
19295627 ATAGTGTATT
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:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTATTTATTAC
Found at i:19295660 original size:22 final size:22
Alignment explanation
Indices: 19295617--19295661 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19295607 TATTACTATA
**
19295617 TTATTTATTAATAGTGTATTAT
1 TTATTTATTAATAGCATATTAT
19295639 TTATTTATATAATAGCAT-TTAT
1 TTATTTAT-TAATAGCATATTAT
19295661 T
1 T
19295662 ACCATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (22 bp):
TTATTTATTAATAGCATATTAT
Found at i:19295676 original size:18 final size:17
Alignment explanation
Indices: 19295599--19295678 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 17
19295589 ATTATTCTTT
19295599 ATATTATTTATTAC-T-
1 ATATTATTTATTACATA
19295614 ATATTATTTATTA-ATA
1 ATATTATTTATTACATA
* *
19295630 GTGTATTATTTATTTATATA
1 --ATATTATTTA-TTACATA
**
19295650 ATAGCATTTATTACCATA
1 ATATTATTTATTA-CATA
19295668 ATATTATTTAT
1 ATATTATTTAT
19295679 AAGTAAAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
15 14 0.27
17 3 0.06
18 28 0.55
19 3 0.06
20 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (17 bp):
ATATTATTTATTACATA
Found at i:19295888 original size:13 final size:14
Alignment explanation
Indices: 19295863--19295889 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19295853 TTAAAAATAA
19295863 AAAAATTATTTTTC
1 AAAAATTATTTTTC
19295877 AAAAATTATTTTT
1 AAAAATTATTTTT
19295890 TGCAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAAATTATTTTTC
Found at i:19295890 original size:15 final size:15
Alignment explanation
Indices: 19295863--19295896 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19295853 TTAAAAATAA
19295863 AAAAATTATTTTT-C
1 AAAAATTATTTTTGC
19295877 AAAAATTATTTTTTGC
1 AAAAATTA-TTTTTGC
19295893 AAAA
1 AAAA
19295897 CAAATCAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (15 bp):
AAAAATTATTTTTGC
Found at i:19297838 original size:21 final size:20
Alignment explanation
Indices: 19297814--19297857 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
19297804 TTCAAATGCA
* *
19297814 AATCTTTGAAATTCATTTGTG
1 AATCTTCGAAATT-ATGTGTG
*
19297835 AATCTTCGTAATTATGTGTG
1 AATCTTCGAAATTATGTGTG
19297855 AAT
1 AAT
19297858 TTATAATTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (20 bp):
AATCTTCGAAATTATGTGTG
Found at i:19297885 original size:56 final size:57
Alignment explanation
Indices: 19297817--19297954 Score: 149
Period size: 58 Copynumber: 2.4 Consensus size: 57
19297807 AAATGCAAAT
**
19297817 CTTTGAAA-TTCATTTGTGAATCTTCGTAATTATGTGTGAA-TTTATAATT-ACGAAA
1 CTTTGAAATTTCATTTGTGAATCTTCAAAATTATGTGTGAACTTTATAATTGA-GAAA
** * * *
19297872 CTTTGAAATTTCATTAATGAATCTTTAAAATTATTTGTGAATCTTTATAATTGAGAAT
1 CTTTGAAATTTCATTTGTGAATCTTCAAAATTATGTGTGAA-CTTTATAATTGAGAAA
*
19297930 CTTTGAAATTAT-TTTTGTGAATCTT
1 CTTTGAAATT-TCATTTGTGAATCTT
19297955 TGCAATTGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
55 8 0.12
56 26 0.38
58 32 0.47
59 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (57 bp):
CTTTGAAATTTCATTTGTGAATCTTCAAAATTATGTGTGAACTTTATAATTGAGAAA
Found at i:19297941 original size:22 final size:22
Alignment explanation
Indices: 19297916--19297961 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
19297906 TTGTGAATCT
19297916 TTATAATTGAGAATCTTTGAAA
1 TTATAATTGAGAATCTTTGAAA
** * *
19297938 TTATTTTTGTGAATCTTTGCAA
1 TTATAATTGAGAATCTTTGAAA
19297960 TT
1 TT
19297962 GCAAACCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (22 bp):
TTATAATTGAGAATCTTTGAAA
Found at i:19297962 original size:38 final size:36
Alignment explanation
Indices: 19297890--19298010 Score: 138
Period size: 36 Copynumber: 3.3 Consensus size: 36
19297880 TTTCATTAAT
* *
19297890 GAATCTTTAAAATTATTTGTGAATCTTTATAATTGA
1 GAATCTTTGAAATTATTTGTGAATCTTTACAATTGA
*
19297926 GAATCTTTGAAATTATTTTTGTGAATCTTTGCAATTGCA
1 GAATCTTTGAAATTA--TTTGTGAATCTTTACAATTG-A
* * * *
19297965 -AACCTTTGAAATTATTTGTGAATTTTTTCAATTGT
1 GAATCTTTGAAATTATTTGTGAATCTTTACAATTGA
19298000 GAATC-TTGAAA
1 GAATCTTTGAAA
19298011 CTCTTAGAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
35 6 0.08
36 35 0.48
38 31 0.42
39 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.46
Consensus pattern (36 bp):
GAATCTTTGAAATTATTTGTGAATCTTTACAATTGA
Found at i:19298076 original size:19 final size:19
Alignment explanation
Indices: 19298048--19298117 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
19298038 ATCTTGGATA
19298048 TTTTGTGAATCTTAAAATC
1 TTTTGTGAATCTTAAAATC
* * *
19298067 TTTTGAGAATTTTTAAA-C
1 TTTTGTGAATCTTAAAATC
* * **
19298085 TTTTTGCGAATCCTAGTATC
1 -TTTTGTGAATCTTAAAATC
19298105 TTTTGTGAATCTT
1 TTTTGTGAATCTT
19298118 TGAACTCCTG
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
18 1 0.03
19 36 0.95
20 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTTGTGAATCTTAAAATC
Found at i:19298096 original size:38 final size:38
Alignment explanation
Indices: 19298048--19298123 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
19298038 ATCTTGGATA
* * *
19298048 TTTTGTGAATCTTAAAATCTTTTGAGAATTTTTAAACT
1 TTTTGCGAATCCTAAAATCTTTTGAGAATCTTTAAACT
** * *
19298086 TTTTGCGAATCCTAGTATCTTTTGTGAATCTTTGAACT
1 TTTTGCGAATCCTAAAATCTTTTGAGAATCTTTAAACT
19298124 CCTGTAAATC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (38 bp):
TTTTGCGAATCCTAAAATCTTTTGAGAATCTTTAAACT
Found at i:19298298 original size:19 final size:19
Alignment explanation
Indices: 19298274--19298314 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19298264 ATTTGAATCC
*
19298274 TTTTGCAAATTCTTGTATA
1 TTTTGCAAATTCTTGAATA
* *
19298293 TTTTGCAACTTTTTGAATA
1 TTTTGCAAATTCTTGAATA
19298312 TTT
1 TTT
19298315 GCTAACCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTGCAAATTCTTGAATA
Found at i:19298363 original size:22 final size:22
Alignment explanation
Indices: 19298338--19298407 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
19298328 TTTAATTGTA
19298338 AATCTTTGAATTTCAAATTATG
1 AATCTTTGAATTTCAAATTATG
19298360 AATCTTTGAATTTCAAATTA-G
1 AATCTTTGAATTTCAAATTATG
* **
19298381 AAAACTTTGAATTTTGAATTATG
1 -AATCTTTGAATTTCAAATTATG
19298404 AATC
1 AATC
19298408 CTTATTTCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.02
22 40 0.95
23 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.43
Consensus pattern (22 bp):
AATCTTTGAATTTCAAATTATG
Found at i:19298937 original size:18 final size:17
Alignment explanation
Indices: 19298863--19298952 Score: 69
Period size: 18 Copynumber: 5.2 Consensus size: 17
19298853 AAATATATTG
*
19298863 AAATTATTTATTATT-A
1 AAATTATTTAATATTAA
*
19298879 AAATGA-TTAATATTAA
1 AAATTATTTAATATTAA
* * *
19298895 AAAATAATTATATTTTAA
1 AAATTATTTA-ATATTAA
19298913 TAATATTATTTAATATTAA
1 -AA-ATTATTTAATATTAA
19298932 AATATTATGTTAATA-TAA
1 AA-ATTAT-TTAATATTAA
19298950 AAA
1 AAA
19298953 AAAAACTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
15 7 0.12
16 10 0.17
17 4 0.07
18 19 0.32
19 14 0.23
20 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AAATTATTTAATATTAA
Found at i:19298952 original size:19 final size:18
Alignment explanation
Indices: 19298914--19298952 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
19298904 ATATTTTAAT
*
19298914 AATATTATTTAATATTAA
1 AATATTATTTAATATAAA
19298932 AATATTATGTTAATATAAA
1 AATATTAT-TTAATATAAA
19298951 AA
1 AA
19298953 AAAAACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATTATTTAATATAAA
Done.