Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 52 of 206
Found at i:14634116 original size:71 final size:69
Alignment explanation
Indices: 14633817--14634187 Score: 246
Period size: 70 Copynumber: 5.3 Consensus size: 69
14633807 ACAATTATTT
* * * * * * * * * *
14633817 TTTTAAAAAACGAAAATTTATGAAACACGAGATTTTTTTGAAAACACGAAAA-TTTTCAAAACAC
1 TTTTAAAACACAAAAATTTTTAAAACACGACA-ATTGTTGAAAAGACAAAAATTTTTGAAAACA-
*
14633881 CAAAAT
64 CAAAAA
* ** * * * * **
14633887 TTTTGAAAACACGAGGATTTTTGAAATACGAAAAATT-TTGAAAACACTTAAATTTTTGAAAACA
1 TTTT-AAAACACAAAAATTTTTAAAACACG-ACAATTGTTGAAAAGACAAAAATTTTTGAAAACA
* *
14633951 CGGAAAT
64 C-AAAAA
* * * * * * *
14633958 TTTTAAAACACAAGAATTTTTGAAACGCGCAAAATT-TTGAAAACACGAAAATTTTTG-AAATAC
1 TTTTAAAACACAAAAATTTTTAAAACACG-ACAATTGTTGAAAAGACAAAAATTTTTGAAAACAC
*
14634021 GAAAA
65 AAAAA
* ** *
14634026 TTTTACAAACACAAAAATTTTTAAAACACGACAATTTTTGAAACACGACAAATTTTTTTTAAAAC
1 TTTTA-AAACACAAAAATTTTTAAAACACGACAATTGTTGAAA-A-GACAAAAATTTTTGAAAAC
*
14634091 ATAAAAA
63 ACAAAAA
* * * * * *
14634098 ATTTAAAACACGAAAATTTATGAAACACGAGAATTGTTGAAAATACAAAAATTTTTGAAAACACA
1 TTTTAAAACACAAAAATTTTTAAAACACGACAATTGTTGAAAAGACAAAAATTTTTGAAAACACA
14634163 AAAA
66 AAAA
*
14634167 TTTTTGAAACACAAAAATTTT
1 -TTTTAAAACACAAAAATTTT
14634188 AGAAACATGG
Statistics
Matches: 244, Mismatches: 47, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
68 14 0.06
69 53 0.22
70 82 0.34
71 81 0.33
72 14 0.06
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (69 bp):
TTTTAAAACACAAAAATTTTTAAAACACGACAATTGTTGAAAAGACAAAAATTTTTGAAAACACA
AAAA
Found at i:14634278 original size:19 final size:18
Alignment explanation
Indices: 14633615--14634279 Score: 437
Period size: 17 Copynumber: 37.3 Consensus size: 18
14633605 ACAATTATTT
14633615 TTTTTCGAAAACACGAAAAA
1 TTTTT-GAAAACACG-AAAA
*
14633635 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
14633652 TTTTAG-AGACACAAAAA
1 TTTTTGAAAACACGAAAA
**
14633669 TTCTTAAAAAACACGAAAA
1 TT-TTTGAAAACACGAAAA
* *
14633688 TTTTT-AAAACACGGTAAT
1 TTTTTGAAAACAC-GAAAA
* * *
14633706 TTTTTGAAAACATGACAG
1 TTTTTGAAAACACGAAAA
*
14633724 TTTTTGAAAACATCG-GAA
1 TTTTTGAAAACA-CGAAAA
* * *
14633742 TTTTTGAAGACATGAAGA
1 TTTTTGAAAACACGAAAA
* **
14633760 TTTTTGAAACACAGGAATTTT
1 TTTTTGAAA-ACACGAA--AA
*
14633781 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
14633799 TTTTTG-AAACA--ATTAT
1 TTTTTGAAAACACGA-AAA
* *
14633815 TTTTTTAAAAAACGAAAA
1 TTTTTGAAAACACGAAAA
* **
14633833 TTTATG-AAACACGAGATT
1 TTTTTGAAAACACGA-AAA
14633851 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
14633869 -TTTTCAAAACACCAAAA
1 TTTTTGAAAACACGAAAA
**
14633886 TTTTTGAAAACACGAGGA
1 TTTTTGAAAACACGAAAA
*
14633904 TTTTTG-AAATACGAAAA
1 TTTTTGAAAACACGAAAA
* **
14633921 ATTTTGAAAACACTTAAA
1 TTTTTGAAAACACGAAAA
*
14633939 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
14633957 TTTTT-AAAACAC-AAGAA
1 TTTTTGAAAACACGAA-AA
*
14633974 TTTTTG-AAACGCGCAAAA
1 TTTTTGAAAACACG-AAAA
14633992 -TTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
14634009 TTTTTG-AAATACGAAAA
1 TTTTTGAAAACACGAAAA
*
14634026 -TTTT-ACAAACACAAAAA
1 TTTTTGA-AAACACGAAAA
*
14634043 TTTTT-AAAACACGACAA
1 TTTTTGAAAACACGAAAA
14634060 TTTTTG-AAACACGACAAA
1 TTTTTGAAAACACGA-AAA
* *
14634078 TTTTTTTTAAAACA-TAAAA
1 --TTTTTGAAAACACGAAAA
**
14634097 AATTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
14634114 TTTATG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
14634131 TTGTTGAAAATACAAAAA
1 TTTTTGAAAACACGAAAA
*
14634149 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
*
14634167 TTTTTG-AAACACAAAAA
1 TTTTTGAAAACACGAAAA
* * *
14634184 TTTTAG-AAACATGGAAA
1 TTTTTGAAAACACGAAAA
14634201 TTTTTAGAAAACACGGAAAA
1 TTTTT-GAAAACAC-GAAAA
* *** *
14634221 TTTTGGATCGC-CG-GAA
1 TTTTTGAAAACACGAAAA
14634237 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
14634255 TTTTTGAAAACGCGGAAAGA
1 TTTTTGAAAACAC-GAAA-A
14634275 TTTTT
1 TTTTT
14634280 TTTTACACAA
Statistics
Matches: 500, Mismatches: 103, Indels: 84
0.73 0.15 0.12
Matches are distributed among these distances:
15 1 0.00
16 25 0.05
17 192 0.38
18 187 0.37
19 50 0.10
20 31 0.06
21 14 0.03
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:14634482 original size:18 final size:21
Alignment explanation
Indices: 14634461--14634503 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
14634451 ACACAAAAAA
14634461 TTTTGAAAA-AT-A-ATTTTT
1 TTTTGAAAACATGAGATTTTT
14634479 TTTTGAAAACATGAGATTTTT
1 TTTTGAAAACATGAGATTTTT
14634500 TTTT
1 TTTT
14634504 TGAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 1 0.05
21 10 0.45
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTTGAAAACATGAGATTTTT
Found at i:14634834 original size:10 final size:10
Alignment explanation
Indices: 14634819--14634889 Score: 79
Period size: 10 Copynumber: 7.0 Consensus size: 10
14634809 CAAATTAAAA
14634819 CTTTTTTTTT
1 CTTTTTTTTT
*
14634829 CTTTTTTTTC
1 CTTTTTTTTT
*
14634839 CTTCTTTTTT
1 CTTTTTTTTT
*
14634849 CTTCTCTTTTT
1 CTT-TTTTTTT
*
14634860 CTTCTTTTTT
1 CTTTTTTTTT
* *
14634870 CTCTCTTTTT
1 CTTTTTTTTT
14634880 CTTTTTTTTT
1 CTTTTTTTTT
14634890 TCTGGACTGG
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
10 40 0.83
11 8 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:14634836 original size:11 final size:11
Alignment explanation
Indices: 14634820--14634892 Score: 58
Period size: 13 Copynumber: 6.0 Consensus size: 11
14634810 AAATTAAAAC
14634820 TTTTTTTTTCT
1 TTTTTTTTTCT
14634831 TTTTTTTCCTTCT
1 TTTTTTT--TTCT
*
14634844 TTTTTCTTCTCT
1 TTTTT-TTTTCT
14634856 TTTTCTTCTTT-T
1 TTTT-TT-TTTCT
14634868 TTCTCTCTTTTTCT
1 TT-T-T-TTTTTCT
14634882 TTTTTTTTTCT
1 TTTTTTTTTCT
14634893 GGACTGGGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
11 14 0.27
12 12 0.23
13 17 0.33
14 9 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:14634848 original size:20 final size:20
Alignment explanation
Indices: 14634823--14634892 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
14634813 TTAAAACTTT
14634823 TTTTTTCTTTTTTTTCCTTC
1 TTTTTTCTTTTTTTTCCTTC
14634843 TTTTTTCTTCTCTTTTT-CTTC
1 TTTTTTCTT-T-TTTTTCCTTC
* * *
14634864 TTTTTTCTCTCTTTTTCTTTT
1 TTTTTTCT-TTTTTTTCCTTC
14634885 TTTTTTCT
1 TTTTTTCT
14634893 GGACTGGGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 14 0.33
21 23 0.53
22 6 0.14
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTCCTTC
Found at i:14634861 original size:31 final size:31
Alignment explanation
Indices: 14634824--14634892 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
14634814 TAAAACTTTT
14634824 TTTTTCTT-TTTTTTC-CTTCTTTTTTCTTCTC
1 TTTTTCTTCTTTTTTCTC-TC-TTTTTCTTCTC
* *
14634855 TTTTTCTTCTTTTTTCTCTCTTTTTCTTTTT
1 TTTTTCTTCTTTTTTCTCTCTTTTTCTTCTC
14634886 TTTTTCT
1 TTTTTCT
14634893 GGACTGGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 24 0.71
32 9 0.26
33 1 0.03
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (31 bp):
TTTTTCTTCTTTTTTCTCTCTTTTTCTTCTC
Found at i:14635123 original size:5 final size:5
Alignment explanation
Indices: 14635110--14635153 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
14635100 ATCAGGTCGT
* * *
14635110 GGGTT GGGTC GGGTC -GGCC GGTTC GGGTC GGGTC GGGTC GGGTC
1 GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC GGGTC
14635154 AGCCCGATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
4 3 0.09
5 30 0.91
ACGTcount: A:0.00, C:0.20, G:0.57, T:0.23
Consensus pattern (5 bp):
GGGTC
Found at i:14635200 original size:3 final size:3
Alignment explanation
Indices: 14635179--14635274 Score: 86
Period size: 3 Copynumber: 30.0 Consensus size: 3
14635169 AAAAATTATT
* * * *
14635179 TTC TTT TTC TTT TTT TTC TTC TTTC TTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC -TTC TTC -TTC TTC TTC TTC TTC TTC
14635225 TTC TTTC TTTC TTC TTTC TTC TTTC TTC TTTC TTC TTC TTC TTC TTC
1 TTC -TTC -TTC TTC -TTC TTC -TTC TTC -TTC TTC TTC TTC TTC TTC
14635272 TTC
1 TTC
14635275 CTTGAACCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
2 2 0.03
3 56 0.70
4 22 0.28
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:14635203 original size:7 final size:7
Alignment explanation
Indices: 14635179--14635273 Score: 110
Period size: 7 Copynumber: 13.7 Consensus size: 7
14635169 AAAAATTATT
14635179 TTCTTT-
1 TTCTTTC
14635185 TTCTTT-
1 TTCTTTC
14635191 TT-TTTC
1 TTCTTTC
14635197 TTCTTTC
1 TTCTTTC
14635204 TTCTTTC
1 TTCTTTC
14635211 TTCTTCCTC
1 TTCTT--TC
*
14635220 TTTTCTTC
1 TTCT-TTC
14635228 TTTCTTTC
1 -TTCTTTC
14635236 TTCTTTC
1 TTCTTTC
14635243 TTCTTTC
1 TTCTTTC
14635250 TTCTTTC
1 TTCTTTC
14635257 TTC-TTC
1 TTCTTTC
14635263 TTC-TTC
1 TTCTTTC
14635269 TTCTT
1 TTCTT
14635274 CCTTGAACCT
Statistics
Matches: 80, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
5 3 0.04
6 22 0.28
7 41 0.51
8 5 0.06
9 8 0.10
10 1 0.01
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCTTTC
Found at i:14635707 original size:29 final size:29
Alignment explanation
Indices: 14635605--14635776 Score: 157
Period size: 30 Copynumber: 5.8 Consensus size: 29
14635595 GCAAACACAG
* ** *
14635605 GAAAAGTTTTA-GGGCCAAAACATAATTTT
1 GAAAA-TTTTAGGGGTCAAAATGTAATTTA
* * *
14635634 GAGAAAGTTTAGGGGTTAAAATGTAATTTT
1 GA-AAATTTTAGGGGTCAAAATGTAATTTA
14635664 GAGAAATTTTAAGGGGTCAAAATGTAATTTA
1 GA-AAATTTT-AGGGGTCAAAATGTAATTTA
**
14635695 GAAAATTTTAGGGGTTGAAATGTAATTTTA
1 GAAAATTTTAGGGGTCAAAATGTAA-TTTA
* **
14635725 AAAAAAATTAGGGGTCAAAATGTAATTTTA
1 GAAAATTTTAGGGGTCAAAATGTAA-TTTA
* *
14635755 GAAAAGTTCAGGGGTCAAAATG
1 GAAAATTTTAGGGGTCAAAATG
14635777 CAAATTTTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
29 20 0.17
30 80 0.67
31 20 0.17
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (29 bp):
GAAAATTTTAGGGGTCAAAATGTAATTTA
Found at i:14635716 original size:60 final size:59
Alignment explanation
Indices: 14635627--14635776 Score: 192
Period size: 60 Copynumber: 2.5 Consensus size: 59
14635617 GGCCAAAACA
* * * **
14635627 TAATTTTGAGAAAGTTTAGGGGTTAAAATGTAATTTTGAGAAATTTTAAGGGGTCAAAATG
1 TAATTTAGA-AAAGTTTAGGGGTTAAAATGTAATTTTAAAAAAAATT-AGGGGTCAAAATG
* *
14635688 TAATTTAGAAAATTTTAGGGGTTGAAATGTAATTTTAAAAAAAATTAGGGGTCAAAATG
1 TAATTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTAAAAAAAATTAGGGGTCAAAATG
* *
14635747 TAATTTTAGAAAAGTTCAGGGGTCAAAATG
1 TAA-TTTAGAAAAGTTTAGGGGTTAAAATG
14635777 CAAATTTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
59 16 0.21
60 53 0.69
61 8 0.10
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.34
Consensus pattern (59 bp):
TAATTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTAAAAAAAATTAGGGGTCAAAATG
Found at i:14635738 original size:30 final size:30
Alignment explanation
Indices: 14635627--14635776 Score: 158
Period size: 30 Copynumber: 5.0 Consensus size: 30
14635617 GGCCAAAACA
* * * *
14635627 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
1 TAATTTTAAAAAATTTTAGGGGTCAAAATG
* *
14635657 TAATTTTGAGAAATTTTAAGGGGTCAAAATG
1 TAATTTTAAAAAATTTT-AGGGGTCAAAATG
* **
14635688 TAA-TTTAGAAAATTTTAGGGGTTGAAATG
1 TAATTTTAAAAAATTTTAGGGGTCAAAATG
**
14635717 TAATTTTAAAAAAAATTAGGGGTCAAAATG
1 TAATTTTAAAAAATTTTAGGGGTCAAAATG
* * *
14635747 TAATTTTAGAAAAGTTCAGGGGTCAAAATG
1 TAATTTTAAAAAATTTTAGGGGTCAAAATG
14635777 CAAATTTTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
29 14 0.14
30 73 0.72
31 15 0.15
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.34
Consensus pattern (30 bp):
TAATTTTAAAAAATTTTAGGGGTCAAAATG
Found at i:14635931 original size:24 final size:21
Alignment explanation
Indices: 14635887--14635936 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
14635877 TTTGATAGAG
14635887 AGAGATGTTGCAAACAAGTGA
1 AGAGATGTTGCAAACAAGTGA
* *
14635908 ACGAGATGTTTCGAAATAAGGTGA
1 A-GAGATGTTGC-AAACAA-GTGA
14635932 AGAGA
1 AGAGA
14635937 AAAACTAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.38
23 9 0.38
24 5 0.21
ACGTcount: A:0.42, C:0.08, G:0.30, T:0.20
Consensus pattern (21 bp):
AGAGATGTTGCAAACAAGTGA
Found at i:14641133 original size:6 final size:6
Alignment explanation
Indices: 14641132--14641162 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
14641122 CAAAAATTAA
14641132 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
14641163 GAAAGATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:14643710 original size:89 final size:90
Alignment explanation
Indices: 14643564--14643810 Score: 331
Period size: 89 Copynumber: 2.7 Consensus size: 90
14643554 GTAAAAAATT
* *
14643564 CTCAAACTT-AAAAAAAAAAAGCAATTAAGACC-TGCTTTTTTTTTTGCACTCACTTGGGTACTT
1 CTCAAACTTAAAAAAAAAAAAGCAATTAAGCCCTTGC--TTTTTTTTGCACTCAATTGGGTACTT
* * *
14643627 GAACTTTTACAATGCATAAAAAATACC
64 GAACTTTCAAAATGCATAAAAAAGACC
* * *
14643654 CTCAAATTTAAAAAAAAAAAAGCAATTAAGCCCTTGCATTTTTTTG-ACTCAATTGGGCACTTGA
1 CTCAAACTTAAAAAAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTGCACTCAATTGGGTACTTGA
*
14643718 ACTTTCAAAATGCATAAAAAGGACC
66 ACTTTCAAAATGCATAAAAAAGACC
* *
14643743 CTCAAACTTAAAAAAAAAAAAGCAATTAAGCCTCTAT-CTTTTTTTTGCACTCAACTGAGTACTT
1 CTCAAACTTAAAAAAAAAAAAGCAATTAAGCC-CT-TGCTTTTTTTTGCACTCAATTGGGTACTT
14643807 GAAC
64 GAAC
14643811 CGCCCTTAGT
Statistics
Matches: 138, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
89 68 0.49
90 27 0.20
91 40 0.29
92 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (90 bp):
CTCAAACTTAAAAAAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTGCACTCAATTGGGTACTTGA
ACTTTCAAAATGCATAAAAAAGACC
Found at i:14643919 original size:28 final size:28
Alignment explanation
Indices: 14643870--14643944 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
14643860 TGAAATGTGG
*
14643870 CAAAAAATGATAAAAA-AATAAAAATTAA
1 CAAAAAAT-ATAAAAATATTAAAAATTAA
* ** **
14643898 TAAAAGTTATAAAAATATTAAATTTTAA
1 CAAAAAATATAAAAATATTAAAAATTAA
14643926 CAAAAAATATAAAAATATT
1 CAAAAAATATAAAAATATT
14643945 TAAATTTTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 7 0.19
28 30 0.81
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (28 bp):
CAAAAAATATAAAAATATTAAAAATTAA
Found at i:14643968 original size:29 final size:28
Alignment explanation
Indices: 14643894--14643969 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
14643884 AAAATAAAAA
14643894 TTAA-TAAAAGTTATAAAAATATTAAATT
1 TTAACTAAAA-TTATAAAAATATTAAATT
* *
14643922 TTAACAAAAAATATAAAAATATTTAAATT
1 TTAACTAAAATTATAAAAATA-TTAAATT
** *
14643951 TTATTTAAAATTAGAAAAA
1 TTAACTAAAATTATAAAAA
14643970 ACTACAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 14 0.36
29 25 0.64
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (28 bp):
TTAACTAAAATTATAAAAATATTAAATT
Found at i:14643990 original size:20 final size:20
Alignment explanation
Indices: 14643965--14644007 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14643955 TTAAAATTAG
14643965 AAAAAACTACAAAAATCGTA
1 AAAAAACTACAAAAATCGTA
* * *
14643985 AAAAAATTATAAAAATTGTA
1 AAAAAACTACAAAAATCGTA
14644005 AAA
1 AAA
14644008 TTTTATGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAAACTACAAAAATCGTA
Found at i:14643998 original size:8 final size:9
Alignment explanation
Indices: 14643986--14644106 Score: 57
Period size: 9 Copynumber: 12.7 Consensus size: 9
14643976 AAAATCGTAA
14643986 AAAAATTAT
1 AAAAATTAT
*
14643995 AAAAATTGT
1 AAAAATTAT
*
14644004 AAAATTTTAT
1 AAAA-ATTAT
* **
14644014 GAAAATCGT
1 AAAAATTAT
14644023 AAAAACTTAT
1 AAAAA-TTAT
*
14644033 -AAAATTTT
1 AAAAATTAT
*
14644041 ATAAAGTTAT
1 A-AAAATTAT
14644051 AAGAAAATTAT
1 -A-AAAATTAT
* *
14644062 AAAAAATGT
1 AAAAATTAT
*
14644071 AAAGAAATAT
1 AAA-AATTAT
14644081 -AAAATTCAT
1 AAAAATT-AT
14644090 AAAAAGTATAT
1 AAAAA-T-TAT
14644101 AAAAAT
1 AAAAAT
14644107 GATCGTACTA
Statistics
Matches: 83, Mismatches: 19, Indels: 19
0.69 0.16 0.16
Matches are distributed among these distances:
8 6 0.07
9 35 0.42
10 25 0.30
11 16 0.19
12 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14643998 original size:19 final size:19
Alignment explanation
Indices: 14643965--14644036 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
14643955 TTAAAATTAG
* *
14643965 AAAAAACTACAAAAATCGT
1 AAAAAATTATAAAAATCGT
*
14643984 AAAAAAATTATAAAAATTGT
1 -AAAAAATTATAAAAATCGT
** *
14644004 AAAATTTTATGAAAATCGT
1 AAAAAATTATAAAAATCGT
*
14644023 AAAAACTTATAAAA
1 AAAAAATTATAAAA
14644037 TTTTATAAAG
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 26 0.62
20 16 0.38
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.26
Consensus pattern (19 bp):
AAAAAATTATAAAAATCGT
Found at i:14644018 original size:29 final size:29
Alignment explanation
Indices: 14643987--14644065 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
14643977 AAATCGTAAA
* *
14643987 AAAATTATAAAAA-TTGTAAAATTTTATG
1 AAAATCATAAAAACTTATAAAATTTTATG
*
14644015 AAAATCGTAAAAACTTATAAAATTTTAT-
1 AAAATCATAAAAACTTATAAAATTTTATG
* * *
14644043 AAAGTTATAAGAAAATTATAAAA
1 AAAATCATAA-AAACTTATAAAA
14644066 AATGTAAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAATCATAAAAACTTATAAAATTTTATG
Found at i:14644057 original size:39 final size:39
Alignment explanation
Indices: 14643976--14644067 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 39
14643966 AAAAACTACA
* *
14643976 AAAATCGTAAAAAAATTATAAAAATTGTAAAATTTTATG
1 AAAATCGTAAAAAAATTATAAAAATTGTAAAATTATAAG
* *
14644015 AAAATCGT-AAAAACTTAT-AAAATTTTATAAAGTTATAAG
1 AAAATCGTAAAAAAATTATAAAAATTGTA-AAA-TTATAAG
**
14644054 AAAATTATAAAAAA
1 AAAATCGTAAAAAA
14644068 TGTAAAGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 8 0.18
38 12 0.27
39 19 0.43
40 5 0.11
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.32
Consensus pattern (39 bp):
AAAATCGTAAAAAAATTATAAAAATTGTAAAATTATAAG
Found at i:14644330 original size:9 final size:9
Alignment explanation
Indices: 14644298--14644425 Score: 71
Period size: 9 Copynumber: 13.6 Consensus size: 9
14644288 TTTATAATTT
*
14644298 TTTTTATGA
1 TTTTTATAA
14644307 TTTTTATAAA
1 TTTTTAT-AA
*
14644317 ATTTTATAA
1 TTTTTATAA
*
14644326 TTTTTTACAA
1 -TTTTTATAA
**
14644336 TTTTTTCTATTT
1 --TTTT-TATAA
*
14644348 TTTTTCTAA
1 TTTTTATAA
14644357 TTTTTAT-A
1 TTTTTATAA
14644365 TTTTTATTATA
1 TTTTTA-TA-A
* *
14644376 ATTTAATAA
1 TTTTTATAA
*
14644385 TTGTTATAA
1 TTTTTATAA
*
14644394 ATTTTATTAA
1 TTTTTA-TAA
*
14644404 TTTTTAT-T
1 TTTTTATAA
14644412 TTTTTATAA
1 TTTTTATAA
14644421 TTTTT
1 TTTTT
14644426 TGCCACATGT
Statistics
Matches: 89, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
8 14 0.16
9 35 0.39
10 28 0.31
11 10 0.11
12 2 0.02
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:14644331 original size:10 final size:10
Alignment explanation
Indices: 14644288--14644426 Score: 71
Period size: 10 Copynumber: 14.3 Consensus size: 10
14644278 TTTTATGCAC
14644288 TTTATAATTT
1 TTTATAATTT
*
14644298 TTT-TTATGATT
1 TTTATAAT--TT
**
14644309 TTTATAAAAT
1 TTTATAATTT
14644319 TTTATAATTT
1 TTTATAATTT
*
14644329 TTTACAATTT
1 TTTATAATTT
* *
14644339 TTTCTATTTTT
1 TTTATA-ATTT
*
14644350 TTTCTAA-TT
1 TTTATAATTT
*
14644359 TTTATATTTT
1 TTTATAATTT
14644369 TATTATAA--T
1 T-TTATAATTT
*
14644378 TTAATAA-TT
1 TTTATAATTT
* *
14644387 GTTATAA-AT
1 TTTATAATTT
14644396 TTTATTAA-TT
1 TTTA-TAATTT
14644406 TTTAT--TTT
1 TTTATAATTT
14644414 TTTATAATTT
1 TTTATAATTT
14644424 TTT
1 TTT
14644427 GCCACATGTC
Statistics
Matches: 98, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
8 12 0.12
9 23 0.23
10 42 0.43
11 19 0.19
12 2 0.02
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (10 bp):
TTTATAATTT
Found at i:14644340 original size:19 final size:18
Alignment explanation
Indices: 14644298--14644426 Score: 66
Period size: 19 Copynumber: 6.8 Consensus size: 18
14644288 TTTATAATTT
*
14644298 TTTTTATGATTTTTATAAA
1 TTTTTATAATTTTT-TAAA
*
14644317 ATTTTATAATTTTTTACAA
1 TTTTTATAATTTTTTA-AA
* * *
14644336 TTTTTTCTATTTTTTTTCTAA
1 -TTTTTATA-ATTTTTT-AAA
*
14644357 TTTTTATATTTTTATTATAA
1 TTTTTATAATTTT-TTA-AA
* *
14644377 -TTTAATAATTGTTATAAA
1 TTTTTATAATT-TTTTAAA
**
14644395 -TTTTATTAA-TTTTTATT
1 TTTTTA-TAATTTTTTAAA
14644412 TTTTTATAATTTTTT
1 TTTTTATAATTTTTT
14644427 GCCACATGTC
Statistics
Matches: 85, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
17 7 0.08
18 19 0.22
19 32 0.38
20 19 0.22
21 8 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATAATTTTTTAAA
Found at i:14644635 original size:94 final size:94
Alignment explanation
Indices: 14644525--14644722 Score: 276
Period size: 94 Copynumber: 2.1 Consensus size: 94
14644515 TAATGGTCAA
* *
14644525 AAGGCCTTTTTGATGCA-TTTGATAA-TTCAAGTAACCAATTGGGTGAAAAAAAAATAAAAATCA
1 AAGGCCTTTTTGATGCATTTTGA-AAGTTCAAGTAACCAATTGAGTGAAAAAAAAA-AAAAAGCA
* *
14644588 GGGACTTAATTGCTTTTCTTGAAAAAGTTTG
64 AGGACTTAATTGCTTTTCTTAAAAAAGTTTG
* * * *
14644619 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAAGAGCAAG
1 AAGGCCTTTTTGATGCATTTTGAAAGTTCAAGTAACCAATTGAGTGAAAAAAAAAAAAAAGCAAG
*
14644684 GACTTAATTGCTTTTGTTAAAAAAGTTTG
66 GACTTAATTGCTTTTCTTAAAAAAGTTTG
14644713 AAGG-CTTTTT
1 AAGGCCTTTTT
14644723 ACACAGCCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 6 0.07
94 55 0.60
95 31 0.34
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (94 bp):
AAGGCCTTTTTGATGCATTTTGAAAGTTCAAGTAACCAATTGAGTGAAAAAAAAAAAAAAGCAAG
GACTTAATTGCTTTTCTTAAAAAAGTTTG
Found at i:14651675 original size:21 final size:21
Alignment explanation
Indices: 14651631--14651676 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
14651621 TAGCTTGGTT
* *
14651631 AATTGTATTAATCATAATTGA
1 AATTGTATGAATCATAATTAA
14651652 AATTGT-TGAATCATAATTCAA
1 AATTGTATGAATCATAATT-AA
14651673 AATT
1 AATT
14651677 ATATAGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (21 bp):
AATTGTATGAATCATAATTAA
Found at i:14653493 original size:15 final size:15
Alignment explanation
Indices: 14653473--14653504 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14653463 GAAGAAAAAA
14653473 AAGAAGAAAAACGTG
1 AAGAAGAAAAACGTG
*
14653488 AAGAAGAAAAATGTG
1 AAGAAGAAAAACGTG
14653503 AA
1 AA
14653505 ATTTTATTTT
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:0.62, C:0.03, G:0.25, T:0.09
Consensus pattern (15 bp):
AAGAAGAAAAACGTG
Found at i:14653570 original size:13 final size:14
Alignment explanation
Indices: 14653552--14653581 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
14653542 AAAATAAAAT
14653552 AAAATAAC-ATAAA
1 AAAATAACTATAAA
14653565 AAAATAACTATAAA
1 AAAATAACTATAAA
14653579 AAA
1 AAA
14653582 CACTTACAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATAACTATAAA
Found at i:14657367 original size:2 final size:2
Alignment explanation
Indices: 14657360--14657387 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14657350 ATCCAATAAT
14657360 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
14657388 AAACAACCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14657820 original size:31 final size:30
Alignment explanation
Indices: 14657785--14657844 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
14657775 GGAGGTGGGA
*
14657785 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
14657816 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
14657845 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:14658070 original size:9 final size:9
Alignment explanation
Indices: 14658056--14658092 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14658046 TATAGTTTGA
14658056 TATTCGAAT
1 TATTCGAAT
14658065 TATTCGAAT
1 TATTCGAAT
*
14658074 TATTCGAGT
1 TATTCGAAT
14658083 TATTCGAAT
1 TATTCGAAT
14658092 T
1 T
14658093 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14658162 original size:9 final size:9
Alignment explanation
Indices: 14658145--14658175 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14658135 TCGAGTTGAT
14658145 TCGAATAAC
1 TCGAATAAC
*
14658154 TCGATTAAC
1 TCGAATAAC
14658163 TCGAATAAC
1 TCGAATAAC
14658172 TCGA
1 TCGA
14658176 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:14658372 original size:8 final size:7
Alignment explanation
Indices: 14658345--14658370 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14658335 GTTGAGTAAG
14658345 AAAAATT
1 AAAAATT
14658352 AAAAATT
1 AAAAATT
14658359 AAAAATT
1 AAAAATT
14658366 AAAAA
1 AAAAA
14658371 ATCGACTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:14663584 original size:15 final size:14
Alignment explanation
Indices: 14663558--14663597 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
14663548 GAGCCCAATA
14663558 TTTTATTTATTATG
1 TTTTATTTATTATG
*
14663572 TTTTATATTATTATT
1 TTTTAT-TTATTATG
14663587 TTTTATTTATT
1 TTTTATTTATT
14663598 CCAAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTATTTATTATG
Found at i:14671855 original size:12 final size:12
Alignment explanation
Indices: 14671838--14671863 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14671828 AAAAATCAAG
14671838 AATGACCCAAAC
1 AATGACCCAAAC
14671850 AATGACCCAAAC
1 AATGACCCAAAC
14671862 AA
1 AA
14671864 CGTCTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (12 bp):
AATGACCCAAAC
Found at i:14678911 original size:27 final size:27
Alignment explanation
Indices: 14678840--14679111 Score: 296
Period size: 27 Copynumber: 10.1 Consensus size: 27
14678830 CAGTCATATC
* * * *
14678840 ATTTTACCCTTAGGGGGTATTACAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
14678867 A-GTTACCCTTCAAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
** * *
14678893 ATTTTACCCTTTAAAGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
14678920 A-TTTACCCTTCGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
14678946 ATTTTACCATTCGAGGATATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * * *
14678973 ATTTTATCCTTGGAGGGCATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
14679000 ATTTTACCCTTCGAGGATATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
14679027 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
14679054 ATTTTACCTTTCAAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
14679081 ATTTTACCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
14679108 ATTT
1 ATTT
14679112 ACTCATGAAT
Statistics
Matches: 202, Mismatches: 41, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
26 41 0.20
27 161 0.80
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:14682671 original size:21 final size:22
Alignment explanation
Indices: 14682629--14682681 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
14682619 GCCCTACTTT
*
14682629 ACCAAATTTT-TAACCATCAAA
1 ACCATATTTTATAACCATCAAA
*
14682650 ACACTTATTTTATAACC-T-AAA
1 AC-CATATTTTATAACCATCAAA
14682671 ACCATATTTTA
1 ACCATATTTTA
14682682 CTTTTAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 8 0.30
21 7 0.26
22 7 0.26
23 5 0.19
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (22 bp):
ACCATATTTTATAACCATCAAA
Found at i:14686301 original size:26 final size:29
Alignment explanation
Indices: 14686272--14686328 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
14686262 TAGGCTAGAA
14686272 TTCTTCTT-TTAA-TTTCA-ATTTATTTT
1 TTCTTCTTCTTAAGTTTCAGATTTATTTT
*
14686298 TTCTTCTTCTTAAGGTTTTAGATTTATTTT
1 TTCTTCTTCTTAA-GTTTCAGATTTATTTT
14686328 T
1 T
14686329 AGTTGTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 8 0.31
27 4 0.15
29 4 0.15
30 10 0.38
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.67
Consensus pattern (29 bp):
TTCTTCTTCTTAAGTTTCAGATTTATTTT
Found at i:14701907 original size:20 final size:20
Alignment explanation
Indices: 14701880--14701919 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14701870 ATGATTAACT
*
14701880 TTAATTAATTAAGTC-TTAA
1 TTAATTAAATAAGTCATTAA
14701899 TTAAGTTAAATAAGTCATTAA
1 TTAA-TTAAATAAGTCATTAA
14701920 ATATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (20 bp):
TTAATTAAATAAGTCATTAA
Found at i:14703087 original size:2 final size:2
Alignment explanation
Indices: 14703080--14703107 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14703070 CATATCAATC
14703080 AT 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 AT
14703108 TACTACTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14717690 original size:26 final size:27
Alignment explanation
Indices: 14717645--14717696 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
14717635 AAACCCCAAA
*
14717645 TTTTCTTTCCTTCCTTCCCT-TTTTCT
1 TTTTCTTTCCTTCCTCCCCTGTTTTCT
* *
14717671 TTTTCTTTTCTTTCTCCCCTGTTTTC
1 TTTTCTTTCCTTCCTCCCCTGTTTTC
14717697 GTTTGCCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTCTTTCCTTCCTCCCCTGTTTTCT
Found at i:14719988 original size:34 final size:34
Alignment explanation
Indices: 14719945--14720012 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
14719935 TTACCTTAAT
14719945 CCTAAGTAAGTAACCGACTATGTGTATGTAACTC
1 CCTAAGTAAGTAACCGACTATGTGTATGTAACTC
14719979 CCTAAGTAAGTAACCGACTATGTGTATGTAACTC
1 CCTAAGTAAGTAACCGACTATGTGTATGTAACTC
14720013 GTATACTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (34 bp):
CCTAAGTAAGTAACCGACTATGTGTATGTAACTC
Found at i:14722388 original size:2 final size:2
Alignment explanation
Indices: 14722381--14722412 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14722371 AAATAACTTC
14722381 AT AT AT 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 AT AT AT
14722413 TATGTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14725152 original size:2 final size:2
Alignment explanation
Indices: 14725145--14725178 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14725135 TTTATGGAGA
14725145 AT AT AT AT 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 AT AT AT AT
14725179 TAAAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14732834 original size:2 final size:2
Alignment explanation
Indices: 14732824--14732867 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
14732814 AAAACTATTA
14732824 AT AT A- AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
14732865 AT A
1 AT A
14732868 AAGCAAGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14736126 original size:2 final size:2
Alignment explanation
Indices: 14736121--14736151 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14736111 ATTATATATA
14736121 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
14736152 TCTATTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14738619 original size:2 final size:2
Alignment explanation
Indices: 14738612--14738641 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14738602 AGTATGAATG
14738612 AT AT 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 AT AT
14738642 GTATCATGTT
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):
AT
Found at i:14739418 original size:41 final size:41
Alignment explanation
Indices: 14739353--14739437 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
14739343 TTATTGTCAA
* * * *
14739353 TGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCGG
1 TGAAATAATTCACACTATAAGTCTAGCAGGCTTAATGCCGG
*
14739394 TGAAATTATTCACACTATAAGTCTAGCAGGCTTAATGCCGG
1 TGAAATAATTCACACTATAAGTCTAGCAGGCTTAATGCCGG
14739435 TGA
1 TGA
14739438 TTCATTTCGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (41 bp):
TGAAATAATTCACACTATAAGTCTAGCAGGCTTAATGCCGG
Found at i:14739455 original size:41 final size:40
Alignment explanation
Indices: 14739373--14739466 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
14739363 CAGACTTTAT
* *
14739373 GTCTAGCAGGCTTGATGCCGGTGAAATTATTCACACTATAA
1 GTCTAGCAGGCTTAATGCCGGTG-AATTATTCACACAATAA
**
14739414 GTCTAGCAGGCTTAATGCCGGTG-ATTCATTTCGGACAATAA
1 GTCTAGCAGGCTTAATGCCGGTGAATT-A-TTCACACAATAA
*
14739455 GTCTAGTAGGCT
1 GTCTAGCAGGCT
14739467 AAAAGTCGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.07
40 1 0.02
41 42 0.91
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGAATTATTCACACAATAA
Found at i:14745672 original size:2 final size:2
Alignment explanation
Indices: 14745665--14745725 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
14745655 TATGAATGAT
14745665 TA TA TA TA TA TA 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 TA TA TA TA TA TA
14745707 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
14745726 GTATCATGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14746486 original size:41 final size:42
Alignment explanation
Indices: 14746432--14746554 Score: 117
Period size: 41 Copynumber: 3.0 Consensus size: 42
14746422 ATTGTTAGTG
* *
14746432 AATTAATTCAGACT-TTATGTCTAGCAGGCTTGATGCCGGTGA
1 AATTAATTCAGACTATAAT-TCTAGCAGGCTTAATGCCGGTGA
*
14746474 AATT-ATTTAGACTATAATTCTAGCAGGCTTAATGCCGGTGA
1 AATTAATTCAGACTATAATTCTAGCAGGCTTAATGCCGGTGA
* * * * * * * *
14746515 TA-CATTTCGGACAATAAGTCTAGCAGGCTAAAAGCCGGTG
1 AATTAATTCAGACTATAATTCTAGCAGGCTTAATGCCGGTG
14746555 TACCGAATCA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 60 0.90
42 7 0.10
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
AATTAATTCAGACTATAATTCTAGCAGGCTTAATGCCGGTGA
Found at i:14760862 original size:18 final size:18
Alignment explanation
Indices: 14760839--14760876 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14760829 ATAAAACATG
14760839 TTATTCGAATTATTTGAA
1 TTATTCGAATTATTTGAA
*
14760857 TTATTCGAGTTATTTGAA
1 TTATTCGAATTATTTGAA
14760875 TT
1 TT
14760877 GTAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (18 bp):
TTATTCGAATTATTTGAA
Found at i:14762427 original size:15 final size:15
Alignment explanation
Indices: 14762403--14762462 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
14762393 TTTTATAAGA
*
14762403 AAAAATAAAATTGAAG
1 AAAAA-AAATTTGAAG
14762419 AGAAAAAAATTTGAAG
1 A-AAAAAAATTTGAAG
14762435 AAAAAAAGAATTT-AA-
1 -AAAAAA-AATTTGAAG
*
14762450 AAAAAATATTTGA
1 AAAAAAAATTTGA
14762463 GAATTGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 4 0.11
14 7 0.18
16 17 0.45
17 10 0.26
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.22
Consensus pattern (15 bp):
AAAAAAAATTTGAAG
Found at i:14762434 original size:16 final size:16
Alignment explanation
Indices: 14762399--14762455 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
14762389 AAAATTTTAT
*
14762399 AAGAAAAAATAAAATTG
1 AAGAAAAAA-AAATTTG
*
14762416 AAGAGAAAAAAATTTG
1 AAGAAAAAAAAATTTG
14762432 AAGAAAAAAAGAATTT-
1 AAGAAAAAAA-AATTTG
14762448 AA-AAAAAA
1 AAGAAAAAA
14762456 TATTTGAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 6 0.17
16 17 0.47
17 13 0.36
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (16 bp):
AAGAAAAAAAAATTTG
Found at i:14762510 original size:21 final size:23
Alignment explanation
Indices: 14762469--14762510 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14762459 TTGAGAATTG
*
14762469 AAAATGAAAATTTGAAGATTGAA
1 AAAATGAAAATTAGAAGATTGAA
14762492 AAAAT-AAAATTAGAA-ATTG
1 AAAATGAAAATTAGAAGATTG
14762511 GAGATTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (23 bp):
AAAATGAAAATTAGAAGATTGAA
Found at i:14767181 original size:25 final size:26
Alignment explanation
Indices: 14767126--14767181 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
14767116 AGAATGACAT
* * *
14767126 CGTTATAGTAGTACAATTAATAACAT
1 CGTTATAGTAGCACAAGTAATAACAA
*
14767152 C-TTATAGTAGCACAAGTCA-AACAA
1 CGTTATAGTAGCACAAGTAATAACAA
14767176 CGTTAT
1 CGTTAT
14767182 TAAATAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 5 0.20
25 19 0.76
26 1 0.04
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (26 bp):
CGTTATAGTAGCACAAGTAATAACAA
Found at i:14783157 original size:20 final size:21
Alignment explanation
Indices: 14783132--14783176 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
14783122 TATTTTTGAA
* * *
14783132 TTTTTATACTTTTT-ATTTAT
1 TTTTTAAAATTTTTAATCTAT
14783152 TTTTTAAAATTTTTAATCTAT
1 TTTTTAAAATTTTTAATCTAT
14783173 TTTT
1 TTTT
14783177 ATTGTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTAAAATTTTTAATCTAT
Found at i:14787345 original size:3 final size:3
Alignment explanation
Indices: 14787337--14787367 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
14787327 TATAAATGAC
14787337 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
14787368 TAAATAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14788415 original size:15 final size:15
Alignment explanation
Indices: 14788395--14788426 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14788385 TATCTTTACT
14788395 ATTATTTTGATTTTA
1 ATTATTTTGATTTTA
*
14788410 ATTATTTTTATTTTA
1 ATTATTTTGATTTTA
14788425 AT
1 AT
14788427 CAAATTTAAT
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:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
ATTATTTTGATTTTA
Found at i:14795064 original size:2 final size:2
Alignment explanation
Indices: 14795057--14795093 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14795047 AAAACTTATT
14795057 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14795094 TACTATAATN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14810339 original size:16 final size:16
Alignment explanation
Indices: 14810318--14810350 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14810308 TTCGTTGTAT
14810318 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
14810334 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
14810350 T
1 T
14810351 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:14810624 original size:17 final size:18
Alignment explanation
Indices: 14810583--14810617 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14810573 TTATTATTAA
*
14810583 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
14810601 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
14810618 TATTAATAAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:14810676 original size:61 final size:61
Alignment explanation
Indices: 14810611--14810798 Score: 161
Period size: 61 Copynumber: 3.1 Consensus size: 61
14810601 ATATAATTTA
* *
14810611 ATAAAATTATTAATAATCAATATTGTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATATGATACT
* * * * * ** * * * *
14810672 ATAAAA-TA-TAAT-TTAAGATAATTATTAT-TAAATATATTTTAATTAAAATATATTAT-TT
1 ATAAAATTATTAATAATCA-AT-ATTATTATATGAATTTACTAAAATCATAATATATGATACT
* * * *
14810730 AATAAAACTCTTAATAATCAATATTATTATATGAATTTCCTAAAATCATAATATATGATAGT
1 -ATAAAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATATGATACT
14810792 ATAAAAT
1 ATAAAAT
14810799 ATAATTTGAA
Statistics
Matches: 93, Mismatches: 26, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
58 3 0.03
59 32 0.34
60 18 0.19
61 37 0.40
62 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (61 bp):
ATAAAATTATTAATAATCAATATTATTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:14810697 original size:120 final size:119
Alignment explanation
Indices: 14810563--14810858 Score: 493
Period size: 120 Copynumber: 2.5 Consensus size: 119
14810553 TTAATCATAT
14810563 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAAT
* *
14810628 CAATATTGTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
65 CAATATTATTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* * *
14810683 TTTAAGATAATTATTATTAAATATATTTTAATTAAAATATATTATTTAATAAAACTCTTAATAAT
1 TTTAA-ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAAT
* *
14810748 CAATATTATTATATGAATTTCCTAAAATCATAATATATGATAGTATAAAATATAA
65 CAATATTATTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
14810803 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
14810859 TAAAATAATT
Statistics
Matches: 165, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (119 bp):
TTTAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATC
AATATTATTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:14810844 original size:18 final size:17
Alignment explanation
Indices: 14810821--14810857 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
14810811 AATTATTATT
14810821 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
14810837 AAATATATGATTTAATA
1 AAATATATGATTTAATA
14810854 AAAT
1 AAAT
14810858 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:14810911 original size:52 final size:51
Alignment explanation
Indices: 14810796--14810940 Score: 152
Period size: 49 Copynumber: 2.8 Consensus size: 51
14810786 GATAGTATAA
* * * * *
14810796 AATATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTT
1 AATATAATTT-AAATAATTATTATT-ATTA-AATATAATTTAATTATATGATTT
*
14810850 AATAAAATTTAAAATAATTATTATTATTAAATATAATTTAATTATATGAATTT
1 AATATAATTT-AAATAATTATTATTATTAAATATAATTTAATTATATG-ATTT
* *
14810903 -GTATAATTT-AAT-ATAATTATTATTAAATATAATTTAAT
1 AATATAATTTAAATAATTATTATTATTAAATATAATTTAAT
14810941 AATAATATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
49 25 0.31
50 3 0.04
52 22 0.28
53 7 0.09
54 23 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (51 bp):
AATATAATTTAAATAATTATTATTATTAAATATAATTTAATTATATGATTT
Found at i:14810919 original size:10 final size:10
Alignment explanation
Indices: 14810841--14810946 Score: 53
Period size: 10 Copynumber: 10.7 Consensus size: 10
14810831 TAATTAAAAT
*
14810841 ATATGATTTA
1 ATATAATTTA
*
14810851 ATAAAATTTA
1 ATATAATTTA
*
14810861 AAATAA-TTA
1 ATATAATTTA
* * *
14810870 TTATTATTAA
1 ATATAATTTA
14810880 ATATAATTTAA
1 ATATAATTT-A
14810891 TTATATGAATTT-
1 --ATAT-AATTTA
*
14810903 GTATAATTTA
1 ATATAATTTA
14810913 ATATAA-TT-
1 ATATAATTTA
*
14810921 AT-T-ATTAA
1 ATATAATTTA
14810929 ATATAATTTA
1 ATATAATTTA
14810939 ATAATAAT
1 AT-ATAAT
14810947 ATATAACTTC
Statistics
Matches: 70, Mismatches: 15, Indels: 21
0.66 0.14 0.20
Matches are distributed among these distances:
6 1 0.01
7 2 0.03
8 4 0.06
9 14 0.20
10 34 0.49
11 6 0.09
13 4 0.06
14 5 0.07
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (10 bp):
ATATAATTTA
Found at i:14810924 original size:226 final size:238
Alignment explanation
Indices: 14810569--14810993 Score: 547
Period size: 226 Copynumber: 1.8 Consensus size: 238
14810559 ATATTTTAAC
14810569 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
* *
14810634 TGTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAAGATAATTATTA
66 TATTATATGAATATACT-AAATCATAATATATGATACTAT-AAATATAATTTAAGATAATTATTA
* * * *
14810699 TTAAATATATTTTAATTAA-AATATATTATTTAATAAAACTCTTAATAATCAATATTATTATATG
129 TTAAATATAATTTAA-TAATAATATATAACTTAATAAAACTCTTAATAATAAATATTATTATATG
14810763 AATTTCCTAAAATCATAATATATGATAGTATAAAATATAATTTGAA
193 AATTTCCTAAAATCATAATATATGATAGTATAAAATATAATTTGAA
*
14810809 ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAA-T-TTAA-AAT-AATTA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAA-TA
* ** *
14810870 TTATTAT-T-AA-ATA-T-AAT-TTAATTATATGA-A-T-T-TGTATAATTTAATATAATTATTA
65 TTATTATATGAATATACTAAATCATAA-TATATGATACTATAAATATAATTTAAGATAATTATTA
* * * * * *
14810925 TTAAATATAATTTAATAATAATATATAACTTCATCAAATTCTTGATAATAAATTTTGTTATATGA
129 TTAAATATAATTTAATAATAATATATAACTTAATAAAACTCTTAATAATAAATATTATTATATGA
14810990 ATTT
194 ATTT
14810994 ATATAATTTA
Statistics
Matches: 165, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
225 3 0.02
226 75 0.45
228 1 0.01
229 1 0.01
230 4 0.02
231 10 0.06
233 1 0.01
234 2 0.01
235 2 0.01
236 3 0.02
237 11 0.07
238 4 0.02
239 1 0.01
240 47 0.28
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (238 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATCAATAT
TATTATATGAATATACTAAATCATAATATATGATACTATAAATATAATTTAAGATAATTATTATT
AAATATAATTTAATAATAATATATAACTTAATAAAACTCTTAATAATAAATATTATTATATGAAT
TTCCTAAAATCATAATATATGATAGTATAAAATATAATTTGAA
Found at i:14810979 original size:91 final size:90
Alignment explanation
Indices: 14810891--14811175 Score: 462
Period size: 91 Copynumber: 3.1 Consensus size: 90
14810881 TATAATTTAA
* * * *
14810891 TTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAATAATATATAACTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAA-TT
* *
14810956 CATCAAATTCTTGATAATAAATTTTG
65 CATAAAATTCTTGATAATAAATTTTC
14810982 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTT
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAA-TT
14811047 CATAAAATTCTTGATAATAAATTTTC
65 CATAAAATTCTTGATAATAAATTTTC
* *
14811073 TGATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATATAATAATGATATATAATTC
1 TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTC
* *
14811138 ATAAAATTCTTAATAATAAATATTC
66 ATAAAATTCTTGATAATAAATTTTC
14811163 TTATATGAATTTA
1 TTATATGAATTTA
14811176 CTAAAATCAT
Statistics
Matches: 182, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 38 0.21
91 144 0.79
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (90 bp):
TTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTC
ATAAAATTCTTGATAATAAATTTTC
Found at i:14810999 original size:47 final size:45
Alignment explanation
Indices: 14810946--14811175 Score: 159
Period size: 44 Copynumber: 5.0 Consensus size: 45
14810936 TTAATAATAA
*
14810946 TATATAACTTCATCAAATTCTTGATAATAAATTTTGTTATATGAATT
1 TATATAA-TTCATAAAATTCTTGATAATAAATTTT-TTATATGAATT
** * * * *
14810993 TATATAATT--TAAAATAATTAATATTAAATATAATTTA-AT-AATGA
1 TATATAATTCATAAAATTCTTGATAATAAAT-T-TTTTATATGAAT-T
*
14811037 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTGATATGAATT
1 TATATAA-TTCATAAAATTCTTGATAATAAATTTT-TTATATGAATT
** * * * ** *
14811084 TATATAATT--TAAAATAATTAATATTAAATATAATATAAT-AATGA
1 TATATAATTCATAAAATTCTTGATAATAAATTTTTTAT-ATGAAT-T
* *
14811128 TATATAATTCATAAAATTCTTAATAATAAATATTCTTATATGAATT
1 TATATAATTCATAAAATTCTTGATAATAAAT-TTTTTATATGAATT
14811174 TA
1 TA
14811176 CTAAAATCAT
Statistics
Matches: 138, Mismatches: 30, Indels: 31
0.69 0.15 0.16
Matches are distributed among these distances:
43 8 0.06
44 52 0.38
45 7 0.05
46 29 0.21
47 39 0.28
48 3 0.02
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (45 bp):
TATATAATTCATAAAATTCTTGATAATAAATTTTTTATATGAATT
Found at i:14819048 original size:21 final size:21
Alignment explanation
Indices: 14818996--14819053 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
14818986 AATTTAAAAT
14818996 TAATAAGCCTTAATT-AATTAA
1 TAATAAG-CTTAATTAAATTAA
* *
14819017 -ACTAAACCTTAATTAAATTAA
1 TAAT-AAGCTTAATTAAATTAA
14819038 TAATAAGCTTAATTAA
1 TAATAAGCTTAATTAA
14819054 CATAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 9 0.30
21 19 0.63
22 2 0.07
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.36
Consensus pattern (21 bp):
TAATAAGCTTAATTAAATTAA
Found at i:14824355 original size:72 final size:72
Alignment explanation
Indices: 14824234--14824380 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
14824224 ACCTTTTTCC
14824234 TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAG
1 TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAG
14824299 TTTCTTT
66 TTTCTTT
*
14824306 TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACTTTGAAGGTTGCAGATCTGAG
1 TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAG
*
14824371 TTTGTTT
66 TTTCTTT
14824378 TTT
1 TTT
14824381 TAGCTATTGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (72 bp):
TTTATTGTGATATCCATCATCGATCTTTGCAGAGACTTCTTCACGTTGAAGGTTGCAGATCTGAG
TTTCTTT
Found at i:14824952 original size:22 final size:21
Alignment explanation
Indices: 14824910--14825011 Score: 108
Period size: 22 Copynumber: 4.9 Consensus size: 21
14824900 TTATGAAATG
14824910 TTTTATAATATTATTTTTTAAAA
1 TTTTA-AATA-TATTTTTTAAAA
14824933 TTTTAAATATATTTTCTTAAAA
1 TTTTAAATATATTTT-TTAAAA
*
14824955 --TT-ATTA-ATTTTTTAAAA
1 TTTTAAATATATTTTTTAAAA
14824972 -TTTAAATAT-TATTTTTAAAA
1 TTTTAAATATAT-TTTTTAAAA
14824992 TTTTAAATATACTTTTTTAA
1 TTTTAAATATA-TTTTTTAA
14825012 TAATATAAAC
Statistics
Matches: 69, Mismatches: 2, Indels: 17
0.78 0.02 0.19
Matches are distributed among these distances:
17 6 0.09
18 7 0.10
19 7 0.10
20 11 0.16
21 15 0.22
22 17 0.25
23 6 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAAATATATTTTTTAAAA
Found at i:14824976 original size:38 final size:38
Alignment explanation
Indices: 14824910--14824997 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
14824900 TTATGAAATG
*
14824910 TTTTATAA-TATT-ATTTTTTAAAATTTTAAATA-TATT
1 TTTTAAAATTATTAATTTTTTAAAATTTTAAATATTA-T
14824946 TTCTTAAAATTATTAATTTTTTAAAA-TTTAAATATTAT
1 TT-TTAAAATTATTAATTTTTTAAAATTTTAAATATTAT
14824984 TTTTAAAATT-TTAA
1 TTTTAAAATTATTAA
14824998 ATATACTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
36 6 0.13
37 13 0.28
38 15 0.32
39 13 0.28
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (38 bp):
TTTTAAAATTATTAATTTTTTAAAATTTTAAATATTAT
Found at i:14825007 original size:20 final size:20
Alignment explanation
Indices: 14824910--14825008 Score: 91
Period size: 21 Copynumber: 4.8 Consensus size: 20
14824900 TTATGAAATG
14824910 TTTTATAATATTATTTTTTAAAA
1 TTTTA-AATA-TA-TTTTTAAAA
14824933 TTTTAAATATATTTTCTTAAAA
1 TTTTAAATATA-TTT-TTAAAA
14824955 TTATT--A-AT-TTTTTAAAA
1 TT-TTAAATATATTTTTAAAA
14824972 -TTTAAATATTATTTTTAAAA
1 TTTTAAATA-TATTTTTAAAA
14824992 TTTTAAATATACTTTTT
1 TTTTAAATATA-TTTTT
14825009 TAATAATATA
Statistics
Matches: 67, Mismatches: 0, Indels: 20
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.03
16 1 0.01
17 7 0.10
18 4 0.06
19 1 0.01
20 13 0.19
21 20 0.30
22 12 0.18
23 7 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAATATATTTTTAAAA
Found at i:14825043 original size:35 final size:34
Alignment explanation
Indices: 14825004--14825086 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
14824994 TTAAATATAC
14825004 TTTTTTAATAATATA-AACATTTAAAATATATATTA
1 TTTTTTAATAATATATAACATTTAAAAT-T-TATTA
* * *
14825039 TTTTTTAA-AAGATATGACCTTTAAAATTTATTA
1 TTTTTTAATAATATATAACATTTAAAATTTATTA
*
14825072 TTTGTTTTATAATAT
1 TTT-TTTAATAATAT
14825087 TTTTAAACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
33 8 0.20
34 10 0.25
35 22 0.55
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (34 bp):
TTTTTTAATAATATATAACATTTAAAATTTATTA
Found at i:14825111 original size:22 final size:23
Alignment explanation
Indices: 14825076--14825127 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
14825066 TTATTATTTG
14825076 TTTTATAATATTTTTAAACATATA
1 TTTTATAATATTTTTAAA-ATATA
14825100 TTTTA-AA-ATTTTTAAAATATA
1 TTTTATAATATTTTTAAAATATA
14825121 TATTTAT
1 T-TTTAT
14825128 TTGATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.23
22 13 0.50
23 2 0.08
24 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTATAATATTTTTAAAATATA
Found at i:14825112 original size:23 final size:24
Alignment explanation
Indices: 14825076--14825125 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
14825066 TTATTATTTG
* *
14825076 TTTTATAATATTTTTAAACATATA
1 TTTTAAAATATTTTAAAACATATA
*
14825100 TTTTAAAAT-TTTTAAAATATATA
1 TTTTAAAATATTTTAAAACATATA
14825123 TTT
1 TTT
14825126 ATTTGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTAAAATATTTTAAAACATATA
Found at i:14825163 original size:15 final size:14
Alignment explanation
Indices: 14825132--14825170 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
14825122 ATTTATTTGA
*
14825132 TTTTAAA-TATAAT
1 TTTTAAATTATGAT
14825145 TTTTAAAATTATGAT
1 TTTT-AAATTATGAT
14825160 TTTTAAATTAT
1 TTTTAAATTAT
14825171 TTTTAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 10 0.43
15 9 0.39
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTAAATTATGAT
Found at i:14825229 original size:20 final size:22
Alignment explanation
Indices: 14825206--14825246 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14825196 AAATTCTATT
14825206 TAAA-ATT-TTTTTTAAAAAAA
1 TAAATATTATTTTTTAAAAAAA
*
14825226 TAAATTTTATTTTTTAAAAAA
1 TAAATATTATTTTTTAAAAAA
14825247 GTGAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 2 0.11
22 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATATTATTTTTTAAAAAAA
Found at i:14825368 original size:19 final size:21
Alignment explanation
Indices: 14825322--14825368 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
14825312 TTGTAAATAT
*
14825322 ATATATATTAAAAACGTAAAA
1 ATATATATTAAAAACATAAAA
* *
14825343 ATTTATATTAAAAA-AT-TAA
1 ATATATATTAAAAACATAAAA
14825362 ATATATA
1 ATATATA
14825369 ATTATAATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.36
20 1 0.05
21 13 0.59
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATATATATTAAAAACATAAAA
Found at i:14827508 original size:5 final size:6
Alignment explanation
Indices: 14827456--14827513 Score: 71
Period size: 6 Copynumber: 9.2 Consensus size: 6
14827446 ACCAATTTAG
* *
14827456 TTTATC TTTATTT TTTATT TTTATT TTTATT TGTAATGT TTTATT TTTATT
1 TTTATT TTTA-TT TTTATT TTTATT TTTATT T-TTAT-T TTTATT TTTATT
14827507 TTTATT T
1 TTTATT T
14827514 GAAGTCCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 33 0.72
7 11 0.24
8 2 0.04
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:14827546 original size:3 final size:3
Alignment explanation
Indices: 14827538--14827613 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
14827528 TTTTTAATCC
14827538 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14827586 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14827614 CATTCTTTAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14830132 original size:42 final size:43
Alignment explanation
Indices: 14830071--14830180 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
14830061 GATTTGAGAT
* * *
14830071 TTACGTGTAAGACCATGTCTGGGACATTAG-CGTCA-TATATGA
1 TTACATGTAAGACCATGTCTGGGACAGT-GTCATCATTATATGA
*
14830113 TTACATGTAAGACTC-TGTCTGGGACAGTGTCATCATTATTTGA
1 TTACATGTAAGAC-CATGTCTGGGACAGTGTCATCATTATATGA
*
14830156 TTACATGTAAGACCATGTCTCGGAC
1 TTACATGTAAGACCATGTCTGGGAC
14830181 GTTGGCGTTG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.02
42 29 0.49
43 29 0.49
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGTCATCATTATATGA
Found at i:14835101 original size:34 final size:34
Alignment explanation
Indices: 14835063--14835129 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
14835053 TAACATTTTA
*
14835063 AAAATTGTGGTATCACCTTAGAAATTATGGTATG
1 AAAATTGTGATATCACCTTAGAAATTATGGTATG
* *
14835097 AAAATTGTGATATCACCTTAGTAATTTTGGTAT
1 AAAATTGTGATATCACCTTAGAAATTATGGTAT
14835130 ATACCAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (34 bp):
AAAATTGTGATATCACCTTAGAAATTATGGTATG
Found at i:14837104 original size:20 final size:20
Alignment explanation
Indices: 14837064--14837101 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14837054 GATCGTAAAT
*
14837064 TGAGCCCAAGAGCCCAAAAC
1 TGAGACCAAGAGCCCAAAAC
14837084 TGAGACCAAGA-CCCAAAA
1 TGAGACCAAGAGCCCAAAA
14837102 ACTAGTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.32, G:0.18, T:0.05
Consensus pattern (20 bp):
TGAGACCAAGAGCCCAAAAC
Found at i:14838739 original size:12 final size:12
Alignment explanation
Indices: 14838722--14838756 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14838712 ATATTACAAT
14838722 AACAATAATAAC
1 AACAATAATAAC
14838734 AACAATAATAAC
1 AACAATAATAAC
* *
14838746 CATAATAATAA
1 AACAATAATAA
14838757 ATCTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (12 bp):
AACAATAATAAC
Found at i:14846927 original size:2 final size:2
Alignment explanation
Indices: 14846922--14846970 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14846912 GAAAAAACCA
14846922 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
14846964 AT AT AT A
1 AT AT AT A
14846971 CACAACTTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14847847 original size:21 final size:20
Alignment explanation
Indices: 14847823--14847872 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14847813 AAAATATATT
*
14847823 AATAATATTTTATTAAATGAA
1 AATAATATTTTAGTAAAT-AA
*
14847844 AATAAT-CTTTAGTAAATAA
1 AATAATATTTTAGTAAATAA
*
14847863 AATGATATTT
1 AATAATATTT
14847873 GTAAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.29
20 11 0.46
21 6 0.25
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (20 bp):
AATAATATTTTAGTAAATAA
Found at i:14847878 original size:18 final size:20
Alignment explanation
Indices: 14847823--14847878 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
14847813 AAAATATATT
*
14847823 AATAATATTTTATTAAATGAA
1 AATAATA-TTTAGTAAATGAA
*
14847844 AATAATCTTTAGTAAAT-AA
1 AATAATATTTAGTAAATGAA
*
14847863 AATGATATTT-GTAAAT
1 AATAATATTTAGTAAAT
14847879 TTTATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 9 0.29
21 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (20 bp):
AATAATATTTAGTAAATGAA
Found at i:14858472 original size:17 final size:17
Alignment explanation
Indices: 14858450--14858484 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14858440 ACTAGACTTA
14858450 ACTTGTCCAAGTGAGAG
1 ACTTGTCCAAGTGAGAG
*
14858467 ACTTGTCTAAGTGAGAG
1 ACTTGTCCAAGTGAGAG
14858484 A
1 A
14858485 TTAGTTGTTG
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:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (17 bp):
ACTTGTCCAAGTGAGAG
Found at i:14860085 original size:20 final size:20
Alignment explanation
Indices: 14860023--14860103 Score: 74
Period size: 22 Copynumber: 3.9 Consensus size: 20
14860013 AATTGAGATA
*
14860023 AATATTAAATTAAATTAAATAT
1 AATATTAAATT-AA-TAAATTT
* *
14860045 AATACTATATTAAATTAAATTT
1 AATATTAAATT-AA-TAAATTT
14860067 AATATTAAGA-TAATAAATTT
1 AATATTAA-ATTAATAAATTT
*
14860087 AGTATTAAATTAATAAA
1 AATATTAAATTAATAAA
14860104 ATAAAATCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
19 1 0.02
20 21 0.41
21 2 0.04
22 26 0.51
23 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (20 bp):
AATATTAAATTAATAAATTT
Found at i:14868371 original size:22 final size:22
Alignment explanation
Indices: 14868346--14868390 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14868336 AATTAATTTT
*
14868346 TATAATTTTAATGATTTTAAAA
1 TATAATTTTAATAATTTTAAAA
* * *
14868368 TATATTTTTTATAATTTTCAAA
1 TATAATTTTAATAATTTTAAAA
14868390 T
1 T
14868391 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TATAATTTTAATAATTTTAAAA
Found at i:14872219 original size:2 final size:2
Alignment explanation
Indices: 14872214--14872243 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14872204 ACACACACAC
14872214 AT AT 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 AT AT
14872244 GAATTGGATT
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):
AT
Found at i:14877843 original size:8 final size:8
Alignment explanation
Indices: 14877830--14877860 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
14877820 CTTGTTTTAT
14877830 TATAATAA
1 TATAATAA
*
14877838 TATAATAT
1 TATAATAA
14877846 TATAATAA
1 TATAATAA
14877854 TATAATA
1 TATAATA
14877861 TAACAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TATAATAA
Found at i:14877846 original size:16 final size:16
Alignment explanation
Indices: 14877827--14877861 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
14877817 TTTCTTGTTT
14877827 TATTATAATAATATAA
1 TATTATAATAATATAA
14877843 TATTATAATAATATAA
1 TATTATAATAATATAA
14877859 TAT
1 TAT
14877862 AACAATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTATAATAATATAA
Found at i:14877862 original size:13 final size:15
Alignment explanation
Indices: 14877827--14877870 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
14877817 TTTCTTGTTT
14877827 TATTATAATAATATAA
1 TATTATAATAATAT-A
14877843 TATTATAATAATATA
1 TATTATAATAATATA
*
14877858 -A-TATAACAATATA
1 TATTATAATAATATA
14877871 CTTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.41
14 1 0.04
15 1 0.04
16 14 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTATAATAATATA
Found at i:14885241 original size:192 final size:191
Alignment explanation
Indices: 14884914--14885293 Score: 679
Period size: 192 Copynumber: 2.0 Consensus size: 191
14884904 CAAACTGATA
*
14884914 ATAAGTGGTGTAACACCCCCAAACCTAGCCCAGAAGTTATAACTAGATATTGAGGAATTACATCA
1 ATAAGTGGTGTAACACCCCCAAACCTAGCACAGAAGTTATAACTAGATATTGAGGAATTACATCA
* *
14884979 ACTTGTTCAGAAGCTTTTGTTTTAATCAAACTCAGTGCATGTTTTGAAAGAATAAAAAATTGGAA
66 ACTTGTTCAGAAGCTTTTATTTTAATCAAACCCAGTGCATGTTTTGAAAGAATAAAAAATTGGAA
* *
14885044 AAACTCTTATAGATGTTTAGCAAAACTAAAGTCAGAAAACACTTATTTAAAACCTAGAAGTT
131 AAACTCTCATAGATGTTTAGCAAAACTAAAGTCAG-AAACACTTATTTAAAACCCAGAAGTT
14885106 ATAAGTGGTGTAACACCCCCAAACCTAGCACAGAAGTTATAACTAGATATTGAGGAATTACATCA
1 ATAAGTGGTGTAACACCCCCAAACCTAGCACAGAAGTTATAACTAGATATTGAGGAATTACATCA
* *
14885171 ACTTGTTCAGAAGTTTTTATTTTAATCAAACCCAGTGCATGTTTTGAAAGAATAAAAAATTGGCA
66 ACTTGTTCAGAAGCTTTTATTTTAATCAAACCCAGTGCATGTTTTGAAAGAATAAAAAATTGGAA
*
14885236 AAACTCTCATAGATGTTTAGCAAAACTAAAGTTAGAAACACTTATTTAAAACCCAGAA
131 AAACTCTCATAGATGTTTAGCAAAACTAAAGTCAGAAACACTTATTTAAAACCCAGAA
14885294 TTTGAATTCA
Statistics
Matches: 180, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
191 22 0.12
192 158 0.88
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (191 bp):
ATAAGTGGTGTAACACCCCCAAACCTAGCACAGAAGTTATAACTAGATATTGAGGAATTACATCA
ACTTGTTCAGAAGCTTTTATTTTAATCAAACCCAGTGCATGTTTTGAAAGAATAAAAAATTGGAA
AAACTCTCATAGATGTTTAGCAAAACTAAAGTCAGAAACACTTATTTAAAACCCAGAAGTT
Found at i:14886030 original size:59 final size:59
Alignment explanation
Indices: 14885938--14886052 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 59
14885928 AATTGTGGAC
*
14885938 ATTGCCACCAGAATTGCAATTAAAACTGTCATATAAGATATATGTGGTCAAGCCACTAT
1 ATTGCCACCAGAATTGCAATTAAAACTGTCATATAAGATATATGTGGTCAAACCACTAT
*
14885997 ATTGCCACCAGGATTGCAATTAAAACTGTCATATAAGATATATGTGGTCAAACCAC
1 ATTGCCACCAGAATTGCAATTAAAACTGTCATATAAGATATATGTGGTCAAACCAC
14886053 CAGATAGTGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (59 bp):
ATTGCCACCAGAATTGCAATTAAAACTGTCATATAAGATATATGTGGTCAAACCACTAT
Found at i:14887853 original size:22 final size:22
Alignment explanation
Indices: 14887791--14887876 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
14887781 ATTGTTCAAA
* **
14887791 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
14887813 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
14887835 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * *
14887857 CATGAGGGTTTAGTTCGTTA
1 CATGAGAGCTTAGTACGTTA
14887877 AACATGGGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:14899724 original size:96 final size:89
Alignment explanation
Indices: 14899555--14899810 Score: 279
Period size: 84 Copynumber: 2.9 Consensus size: 89
14899545 CTAGGAAGTT
* * ** * **
14899555 TGAGGCATGGTCTTGACAGACAATTGGTAGAGGTGCGGAGAACCTTGAATGGTAACTTGCCTTAC
1 TGAGGCATAGTCTTGACAGACAAATGGTAGAGGTGCCAAGAACCTTAAATGGTAACTTGTATTAC
14899620 ATGCATGAGCACAAGCATGGGCATGAACAAG
66 ATGCATGAG--C-AG-A---GCATGAACAAG
* * * *
14899651 TGAGGCATAGTCTTGACAGACAAGTGGTAGGGGTGCCAAGAACCATAAATGATAACTTGTATTAC
1 TGAGGCATAGTCTTGACAGACAAATGGTAGAGGTGCCAAGAACCTTAAATGGTAACTTGTATTAC
*
14899716 ATG--T-A--TGAGCATGAACAAG
66 ATGCATGAGCAGAGCATGAACAAG
* * *
14899735 CGAGGCATAGTCTTGACAGACAAAAGGTAGAGGTGCCAAGAACCTTACATGGTAACTTGTATTAC
1 TGAGGCATAGTCTTGACAGACAAATGGTAGAGGTGCCAAGAACCTTAAATGGTAACTTGTATTAC
14899800 ATGCATGAGCA
66 ATGCATGAGCA
14899811 TGAAAATAGT
Statistics
Matches: 136, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
84 72 0.53
86 1 0.01
87 2 0.01
88 1 0.01
93 1 0.01
94 1 0.01
96 58 0.43
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (89 bp):
TGAGGCATAGTCTTGACAGACAAATGGTAGAGGTGCCAAGAACCTTAAATGGTAACTTGTATTAC
ATGCATGAGCAGAGCATGAACAAG
Found at i:14899791 original size:84 final size:84
Alignment explanation
Indices: 14899634--14899972 Score: 385
Period size: 84 Copynumber: 4.1 Consensus size: 84
14899624 ATGAGCACAA
* * * * * *
14899634 GCATGGGCATGAACAAGTGAGGCATAGTCTTGACAGACAAGTGGTAGGGGTGCCAAGAACCATAA
1 GCATGAGCATGAACAAGCGAGGCATAGTCTTGACAGACAAATGGTAGAGATGCCAAGAACCTTAA
14899699 ATGATAACTTGTATTACAT
66 ATGATAACTTGTATTACAT
* * * *
14899718 GTATGAGCATGAACAAGCGAGGCATAGTCTTGACAGACAAAAGGTAGAGGTGCCAAGAACCTTAC
1 GCATGAGCATGAACAAGCGAGGCATAGTCTTGACAGACAAATGGTAGAGATGCCAAGAACCTTAA
*
14899783 ATGGTAACTTGTATTACAT
66 ATGATAACTTGTATTACAT
* * *
14899802 GCATGAGCATG---AA---A---ATAGTCTTGACAGACAAATGATAAAGATGCCAAGAGCCTTAA
1 GCATGAGCATGAACAAGCGAGGCATAGTCTTGACAGACAAATGGTAGAGATGCCAAGAACCTTAA
* *
14899858 ATGGTAACTCGTATTACAT
66 ATGATAACTTGTATTACAT
* * * *
14899877 GCATTAGCA-CAAGCCAGCGAGGCATAGTGTTGACAGACAAATGGTAGAGATGCCAA-AAGCCTT
1 GCATGAGCATGAA-CAAGCGAGGCATAGTCTTGACAGACAAATGGTAGAGATGCCAAGAA-CCTT
* *
14899940 GAATGATAACTTGTACTACAT
64 AAATGATAACTTGTATTACAT
14899961 GCATGAGCATGA
1 GCATGAGCATGA
14899973 GCATGAGCAT
Statistics
Matches: 213, Mismatches: 30, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
75 62 0.29
78 2 0.01
81 3 0.01
83 1 0.00
84 144 0.68
85 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (84 bp):
GCATGAGCATGAACAAGCGAGGCATAGTCTTGACAGACAAATGGTAGAGATGCCAAGAACCTTAA
ATGATAACTTGTATTACAT
Found at i:14899847 original size:75 final size:75
Alignment explanation
Indices: 14899741--14899885 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 75
14899731 CAAGCGAGGC
* * * * *
14899741 ATAGTCTTGACAGACAAAAGGTAGAGGTGCCAAGAACCTTACATGGTAACTTGTATTACATGCAT
1 ATAGTCTTGACAGACAAAAGATAAAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
14899806 GAGCATGAAA
66 GAGCATGAAA
* *
14899816 ATAGTCTTGACAGACAAATGATAAAGATGCCAAGAGCCTTAAATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAAAGATAAAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
*
14899881 TAGCA
66 GAGCA
14899886 CAAGCCAGCG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (75 bp):
ATAGTCTTGACAGACAAAAGATAAAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
GAGCATGAAA
Found at i:14899950 original size:159 final size:159
Alignment explanation
Indices: 14899657--14899972 Score: 422
Period size: 159 Copynumber: 2.0 Consensus size: 159
14899647 CAAGTGAGGC
* * ** * * *
14899657 ATAGTCTTGACAGACAAGTGGTAGGGGTGCCAAGAACCATAAATGATAACTTGTATTACATGTAT
1 ATAGTCTTGACAGACAAATGATAAAGATGCCAAGAACCATAAATGATAACTCGTATTACATGCAT
* * *
14899722 GAGCATGAACAAGCGAGGCATAGTCTTGACAGACAAAAGGTAGAGGTGCCAAGAACCTTACATGG
66 GAGCATCAACAAGCGAGGCATAGTCTTGACAGACAAAAGGTAGAGATGCCAAGAACCTTACATGA
*
14899787 TAACTTGTATTACATGCATGAGCATGAAA
131 TAACTTGTACTACATGCATGAGCATGAAA
* * *
14899816 ATAGTCTTGACAGACAAATGATAAAGATGCCAAGAGCCTTAAATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAATGATAAAGATGCCAAGAACCATAAATGATAACTCGTATTACATGCAT
* * * *
14899881 TAGCA-CAAGCCAGCGAGGCATAGTGTTGACAGACAAATGGTAGAGATGCCAA-AAGCCTTGA-A
66 GAGCATCAA-CAAGCGAGGCATAGTCTTGACAGACAAAAGGTAGAGATGCCAAGAA-CCTT-ACA
14899943 TGATAACTTGTACTACATGCATGAGCATGA
128 TGATAACTTGTACTACATGCATGAGCATGA
14899973 GCATGAGCAT
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
158 4 0.03
159 131 0.96
160 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (159 bp):
ATAGTCTTGACAGACAAATGATAAAGATGCCAAGAACCATAAATGATAACTCGTATTACATGCAT
GAGCATCAACAAGCGAGGCATAGTCTTGACAGACAAAAGGTAGAGATGCCAAGAACCTTACATGA
TAACTTGTACTACATGCATGAGCATGAAA
Found at i:14901051 original size:78 final size:78
Alignment explanation
Indices: 14900917--14901067 Score: 284
Period size: 78 Copynumber: 1.9 Consensus size: 78
14900907 CAAGCTAAAG
*
14900917 CTTGATTAGATGTAGTCAATAATCATATGAATTTAGAATTAGTTAGGCGCTAAACATCAAGTAAA
1 CTTGATTAGATGTAGTCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAACATCAAGTAAA
14900982 GCAAAGCATGCAA
66 GCAAAGCATGCAA
*
14900995 CTTGTTTAGATGTAGTCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAACATCAAGTAAA
1 CTTGATTAGATGTAGTCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAACATCAAGTAAA
14901060 GCAAAGCA
66 GCAAAGCA
14901068 ACCAAAGATA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (78 bp):
CTTGATTAGATGTAGTCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAACATCAAGTAAA
GCAAAGCATGCAA
Found at i:14901507 original size:84 final size:82
Alignment explanation
Indices: 14901366--14901698 Score: 367
Period size: 84 Copynumber: 4.1 Consensus size: 82
14901356 ATGCTCACGG
* * * * *
14901366 TCATGCATGTAGTACAAGTTACCATTCAAGGCTCTTGGCATCTCTACCAGTTGTCTGTCAACACT
1 TCATGCATGTAATACAAGTTACCATTTAAGGCTCTTGGCACCTCTACCACTTGTCTGTCAAGACT
*
14901431 ATGCCTCGCTGGCTTGTGC
66 ATGCCTCGCT-G-TTATGC
* * * *
14901450 TCATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTATCA-TTCGTCTGTCAAGAC
1 TCATGCATGTAATACAAGTTACCATTTAAGGCTCTTGGCACCTCTACCACTT-GTCTGTCAAGAC
*
14901514 TAT---T---T-TCATGC
65 TATGCCTCGCTGTTATGC
* **
14901525 TCATGCATGTAATACAAGTTACCATGTAAGGCTCTTGGCACCTCTACCTTTTGTCTGTCAAGACT
1 TCATGCATGTAATACAAGTTACCATTTAAGGCTCTTGGCACCTCTACCACTTGTCTGTCAAGACT
14901590 ATGCCTCGCTTGTTCATGC
66 ATGCCTCGC-TGTT-ATGC
* * * * *
14901609 TCATACATGTAATACAAGTTATCATTTATGGTTCTTGGCACCCCTACCACTTGTCTGTCAAGACT
1 TCATGCATGTAATACAAGTTACCATTTAAGGCTCTTGGCACCTCTACCACTTGTCTGTCAAGACT
*
14901674 ATGCCTCACTTGTTCATGC
66 ATGCCTCGC-TGTT-ATGC
14901693 TCATGC
1 TCATGC
14901699 TTGTGCTCAT
Statistics
Matches: 213, Mismatches: 25, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
75 62 0.29
76 2 0.01
78 2 0.01
81 1 0.00
82 1 0.00
83 3 0.01
84 142 0.67
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (82 bp):
TCATGCATGTAATACAAGTTACCATTTAAGGCTCTTGGCACCTCTACCACTTGTCTGTCAAGACT
ATGCCTCGCTGTTATGC
Found at i:14901665 original size:159 final size:159
Alignment explanation
Indices: 14901366--14901675 Score: 446
Period size: 159 Copynumber: 1.9 Consensus size: 159
14901356 ATGCTCACGG
* *
14901366 TCATGCATGTAGTACAAGTTACCATTCAAGGCTCTTGGCATCTCTACCAGTTGTCTGTCAACACT
1 TCATGCATGTAATACAAGTTACCATTCAAGGCTCTTGGCACCTCTACCAGTTGTCTGTCAACACT
* * * * *
14901431 ATGCCTCGCTGGCTTGTGCTCATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTA
66 ATGCCTCGCTGGCTTATGCTCATACATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCCCTA
*
14901496 TCATTCGTCTGTCAAGACTATTTTCATGC
131 CCATTCGTCTGTCAAGACTATTTTCATGC
** *
14901525 TCATGCATGTAATACAAGTTACCATGT-AAGGCTCTTGGCACCTCTACCTTTTGTCTGTCAAGAC
1 TCATGCATGTAATACAAGTTACCAT-TCAAGGCTCTTGGCACCTCTACCAGTTGTCTGTCAACAC
* * *
14901589 TATGCCTCGCTTG-TTCATGCTCATACATGTAATACAAGTTATCATTTATGGTTCTTGGCACCCC
65 TATGCCTCGCTGGCTT-ATGCTCATACATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCCC
14901653 TACCACTT-GTCTGTCAAGACTAT
129 TACCA-TTCGTCTGTCAAGACTAT
14901676 GCCTCACTTG
Statistics
Matches: 134, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
158 2 0.01
159 129 0.96
160 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (159 bp):
TCATGCATGTAATACAAGTTACCATTCAAGGCTCTTGGCACCTCTACCAGTTGTCTGTCAACACT
ATGCCTCGCTGGCTTATGCTCATACATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCCCTA
CCATTCGTCTGTCAAGACTATTTTCATGC
Found at i:14905279 original size:3 final size:3
Alignment explanation
Indices: 14905271--14905322 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
14905261 GTAGACGAGG
14905271 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14905319 ATA A
1 ATA A
14905323 AGCGGGTGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14931314 original size:151 final size:152
Alignment explanation
Indices: 14930255--14931290 Score: 1472
Period size: 151 Copynumber: 6.8 Consensus size: 152
14930245 AAATTTTCTT
* * * * *
14930255 TTTCTGTTTTTTAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGTCTCGAGTCGCACGCCGGG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
* * * * *
14930320 GTATTTTTCAATTTCTATTTTTTAAAAATCAACTCATAATCTGATAGATGAGTTGAGCCTCGGGT
66 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
* *
14930385 CGCGCG-CTGAGGTATTTTTCAA
131 CACACGTC-GAGGTATTTTTCAA
* * *
14930407 TTTCTGTTTTTCAAAAATCAACTCATAATTCGAGATGTGAGTTGAGCCTCGGGTCACACGCCGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
* *
14930472 GTATTTTTCAATTTCTGTTTTTCAAAAATTCAACTCATAGTACGAGAGGTGAGTTGAGCCTCGGG
66 GTATTTTTCAATTTCTGTTTTTCAAAAA-TCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGG
*
14930537 TCACACGTTGAGGTATTTTTCAA
130 TCACACGTCGAGGTATTTTTCAA
* * * * * *
14930560 TTTTTATTTTTCAAAAATCAACTCATAATCCGAGTGGTAAGTTGAGCATCGGGTCACACGCCGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
* * * *
14930625 GTATTTTTCCATTTCTGTTTTTCAAAAAATCAACTCATAATACGAGAGGAGAGTTGAGCCTCGAG
66 GTATTTTTCAATTTCTGTTTTTC-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGG
* *
14930690 TCACATGCCGAGGTA-TTTTCAA
130 TCACACGTCGAGGTATTTTTCAA
* * *
14930712 TTTCTATTTTTCAAAAATCAACTCATAGTTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
14930777 GTATTTTT-AATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
66 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
* *
14930841 CACACGCCGGGGTA-TTTTCAA
131 CACACGTCGAGGTATTTTTCAA
* * * *
14930862 TTTATATTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCCA
1 TTTCT-GTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGA
*
14930927 GGTATTTTTCAATTTCTGTTTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTT
65 GGTATTTTTCAATTTCTG---TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTC
*
14930992 GGGTCACACGTCGAGATATTTTTCAA
127 GGGTCACACGTCGAGGTATTTTTCAA
* ** *
14931018 TTTCTGTTTTTCAAAAATCAAATCATAATCCGAGAGGTGAGTTGAGCCTCAAGTCGCACGCTGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
14931083 GTATTTTT-AATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGT
66 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
*
14931147 CACACGTCGAGGTATTTTTTAA
131 CACACGTCGAGGTATTTTTCAA
* ** *
14931169 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGACTTGAGCCTCGGGTCGTGCGCTGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
* **
14931234 GTA-TTTTCAATTTCTATTTTTCAAGGATCAACTCATAATCCGAGAGGTGAGTTGAGC
66 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGC
14931291 TTTGAGTCGA
Statistics
Matches: 796, Mismatches: 78, Indels: 21
0.89 0.09 0.02
Matches are distributed among these distances:
150 66 0.08
151 249 0.31
152 163 0.20
153 175 0.22
154 13 0.02
155 119 0.15
156 11 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (152 bp):
TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
CACACGTCGAGGTATTTTTCAA
Found at i:14931332 original size:75 final size:76
Alignment explanation
Indices: 14930255--14931290 Score: 1461
Period size: 76 Copynumber: 13.6 Consensus size: 76
14930245 AAATTTTCTT
* * * * * *
14930255 TTTCTGTTTTTTAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGTCTCGAGTCGCACGCCGGG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
14930320 GTATTTTTCAA
66 GTATTTTTCAA
* * * * * * * *
14930331 TTTCTATTTTTTAAAAATCAACTCATAATCTGATAGATGAGTTGAGCCTCGGGTCGCGCGCTGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
14930396 GTATTTTTCAA
66 GTATTTTTCAA
* *
14930407 TTTCTGTTTTTCAAAAATCAACTCATAATTCGAGATGTGAGTTGAGCCTCGGGTCACACGCCGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
14930472 GTATTTTTCAA
66 GTATTTTTCAA
* * **
14930483 TTTCTGTTTTTCAAAAATTCAACTCATAGTACGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGA
1 TTTCTGTTTTTCAAAAA-TCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGA
14930548 GGTATTTTTCAA
65 GGTATTTTTCAA
* * * * *
14930560 TTTTTATTTTTCAAAAATCAACTCATAATCCGAGTGGTAAGTTGAGCATCGGGTCACACGCCGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
*
14930625 GTATTTTTCCA
66 GTATTTTTCAA
* * * *
14930636 TTTCTGTTTTTCAAAAAATCAACTCATAATACGAGAGGAGAGTTGAGCCTCGAGTCACATGCCGA
1 TTTCTGTTTTTC-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGA
14930701 GGTA-TTTTCAA
65 GGTATTTTTCAA
* * * *
14930712 TTTCTATTTTTCAAAAATCAACTCATAGTTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
14930777 GTATTTTT-AA
66 GTATTTTTCAA
* *
14930787 TTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGGG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
14930852 GTA-TTTTCAA
66 GTATTTTTCAA
* * *
14930862 TTTATATTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCCA
1 TTTCT-GTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGA
14930927 GGTATTTTTCAA
65 GGTATTTTTCAA
* *
14930939 TTTCTGTTTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACGTC
1 TTTCTG---TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCC
*
14931004 GAGATATTTTTCAA
63 GAGGTATTTTTCAA
* ** * *
14931018 TTTCTGTTTTTCAAAAATCAAATCATAATCCGAGAGGTGAGTTGAGCCTCAAGTCGCACGCTGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
14931083 GTATTTTT-AA
66 GTATTTTTCAA
* *
14931093 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCACACGTCGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
*
14931158 GTATTTTTTAA
66 GTATTTTTCAA
* *** *
14931169 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGACTTGAGCCTCGGGTCGTGCGCTGAG
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
14931234 GTA-TTTTCAA
66 GTATTTTTCAA
* **
14931244 TTTCTATTTTTCAAGGATCAACTCATAATCCGAGAGGTGAGTTGAGC
1 TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGC
14931291 TTTGAGTCGA
Statistics
Matches: 856, Mismatches: 94, Indels: 21
0.88 0.10 0.02
Matches are distributed among these distances:
74 4 0.00
75 238 0.28
76 413 0.48
77 129 0.15
79 72 0.08
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (76 bp):
TTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
GTATTTTTCAA
Found at i:14931668 original size:30 final size:29
Alignment explanation
Indices: 14931632--14931741 Score: 130
Period size: 30 Copynumber: 3.7 Consensus size: 29
14931622 ATACAAAATT
*
14931632 TAAAATTATATTTTGACCCCTTAACTTTTC
1 TAAAATTACATTTTGACCCCTTAA-TTTTC
* * *
14931662 TAAAATTACATTTTAACCCATAAATTTTCC
1 TAAAATTACATTTTGACCCCTTAATTTT-C
* *
14931692 TAAAATTATATTTTGCCCCCTTAATTTTC
1 TAAAATTACATTTTGACCCCTTAATTTTC
*
14931721 ATAAAATTACATTTTGGCCCC
1 -TAAAATTACATTTTGACCCC
14931742 AGAAGTTTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 5 0.07
30 62 0.93
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.43
Consensus pattern (29 bp):
TAAAATTACATTTTGACCCCTTAATTTTC
Found at i:14932209 original size:22 final size:22
Alignment explanation
Indices: 14932180--14932252 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
14932170 CTAGGGTTTG
14932180 AAAA-GAAGAGGAAAAAGGAAA
1 AAAAGGAAGAGGAAAAAGGAAA
* * *
14932201 GAAAGGAAGAAGATAAAAGAAAA
1 AAAAGGAAGAGGA-AAAAGGAAA
*
14932224 AAAAGGAAAAAGG-AAAA-GAAA
1 AAAAGG-AAGAGGAAAAAGGAAA
14932245 AAAAGGAA
1 AAAAGGAA
14932253 AAAAATAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 2 0.05
21 12 0.29
22 11 0.26
23 13 0.31
24 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (22 bp):
AAAAGGAAGAGGAAAAAGGAAA
Found at i:14932236 original size:30 final size:32
Alignment explanation
Indices: 14932191--14932257 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
14932181 AAAGAAGAGG
*
14932191 AAAAAGGAAAGAAAGGAAGAAG-ATAAAAGAAA
1 AAAAAGGAAAGAAAGGAA-AAGAAAAAAAGAAA
*
14932223 AAAAAGG-AA-AAAGGAAAAGAAAAAAAGGAA
1 AAAAAGGAAAGAAAGGAAAAGAAAAAAAGAAA
14932253 AAAAA
1 AAAAA
14932258 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 3 0.09
30 20 0.62
31 2 0.06
32 7 0.22
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (32 bp):
AAAAAGGAAAGAAAGGAAAAGAAAAAAAGAAA
Found at i:14932256 original size:22 final size:22
Alignment explanation
Indices: 14932192--14932255 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
14932182 AAGAAGAGGA
* * * *
14932192 AAAAGGAAAGAAAGGAAGAAGAT
1 AAAAGAAAAAAAAGGAAAAAG-G
14932215 AAAAGAAAAAAAAGGAAAAAGG
1 AAAAGAAAAAAAAGGAAAAAGG
14932237 AAAAG-AAAAAAAGGAAAAA
1 AAAAGAAAAAAAAGGAAAAA
14932256 AATAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.38
22 5 0.14
23 18 0.49
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAAAAAGGAAAAAGG
Found at i:14932262 original size:22 final size:22
Alignment explanation
Indices: 14932192--14932271 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
14932182 AAGAAGAGGA
* * *
14932192 AAAAGGAAAGAAAGGAAGAAGAT
1 AAAA-GAAAAAAAGGAAAAAAAT
**
14932215 AAAAGAAAAAAAAGG-AAAAAGG
1 AAAAG-AAAAAAAGGAAAAAAAT
14932237 AAAAGAAAAAAAGGAAAAAAAT
1 AAAAGAAAAAAAGGAAAAAAAT
14932259 AAAA-AAAATAAAG
1 AAAAGAAAA-AAAG
14932272 AACAGTCGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
21 13 0.28
22 22 0.47
23 12 0.26
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (22 bp):
AAAAGAAAAAAAGGAAAAAAAT
Found at i:14932263 original size:39 final size:39
Alignment explanation
Indices: 14932179--14932266 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 39
14932169 CCTAGGGTTT
* **
14932179 GAAAAGAAGAGGAAAAAGGAAAGAAAGGAAGAAGATAAAA
1 GAAAA-AAAAGGAAAAAGGAAAGAAAAAAAGAAGATAAAA
14932219 GAAAAAAAAGGAAAAAGGAAAAGAAAAAAAGGAA-A-AAAA
1 GAAAAAAAAGGAAAAAGG-AAAGAAAAAAA-GAAGATAAAA
*
14932258 TAAAAAAAA
1 GAAAAAAAA
14932267 TAAAGAACAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 24 0.57
40 15 0.36
41 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (39 bp):
GAAAAAAAAGGAAAAAGGAAAGAAAAAAAGAAGATAAAA
Found at i:14932601 original size:15 final size:15
Alignment explanation
Indices: 14932580--14932615 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
14932570 CCCAGCAGCA
*
14932580 AAAAAAAAGAGAAAAG
1 AAAAAAAGGA-AAAAG
14932596 AAAAAAAGGAAAAAG
1 AAAAAAAGGAAAAAG
14932611 AAAAA
1 AAAAA
14932616 GAGCCCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGGAAAAAG
Found at i:14932754 original size:14 final size:15
Alignment explanation
Indices: 14932726--14932757 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
14932716 CCCATTTTAA
14932726 TTAAATTAGTATTTT
1 TTAAATTAGTATTTT
14932741 TTAAA-TAGT-TTTT
1 TTAAATTAGTATTTT
14932754 TTAA
1 TTAA
14932758 TATTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (15 bp):
TTAAATTAGTATTTT
Done.