Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 77 of 130
Found at i:15723860 original size:51 final size:53
Alignment explanation
Indices: 15723768--15723882 Score: 146
Period size: 51 Copynumber: 2.2 Consensus size: 53
15723758 AGAAATTACC
* * *
15723768 GTTTTTGTAAATTTTTTTTAATTAAAGACTAAATTTCTACTTAT-AAAAACCTA
1 GTTTTTGTAAATTTTTTTTAATCAAAAACTAAATTTCTACTT-TCAAAAACATA
** *
15723821 G-TTTTGTAAA-TTTTTTTAATCAAAAACTACGTTTGTACTTTCAAAAACATA
1 GTTTTTGTAAATTTTTTTTAATCAAAAACTAAATTTCTACTTTCAAAAACATA
15723872 GTTTTTGTAAA
1 GTTTTTGTAAA
15723883 ATCTTTTCAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 1 0.02
51 34 0.63
52 18 0.33
53 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (53 bp):
GTTTTTGTAAATTTTTTTTAATCAAAAACTAAATTTCTACTTTCAAAAACATA
Found at i:15725510 original size:18 final size:18
Alignment explanation
Indices: 15725474--15725511 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15725464 CTAAATCAAA
*
15725474 TTATATATTTTTCTTAAT
1 TTATATATTTTTCTAAAT
15725492 TTATATATATTTT-TAAAT
1 TTATATAT-TTTTCTAAAT
15725510 TT
1 TT
15725512 TTAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATATATTTTTCTAAAT
Found at i:15726057 original size:50 final size:49
Alignment explanation
Indices: 15725959--15726061 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 49
15725949 AACATAGGTT
* * *
15725959 TTTTTTAATCAAAAACTACATTTTTAATAGAGGAAACGTAATTATTGTA
1 TTTTTTAATCAAAAACTACATTCTTAATAGAAGAAACGTAATGATTGTA
* * * *
15726008 CTTTTTTATTCAAATACTACATTCTTAA-AGGAAGAAATGTAATGGTTGTA
1 -TTTTTTAATCAAAAACTACATTCTTAATA-GAAGAAACGTAATGATTGTA
15726058 TTTT
1 TTTT
15726062 CTAGTTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 5 0.11
50 40 0.89
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.43
Consensus pattern (49 bp):
TTTTTTAATCAAAAACTACATTCTTAATAGAAGAAACGTAATGATTGTA
Found at i:15726438 original size:16 final size:16
Alignment explanation
Indices: 15726407--15726437 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15726397 CATGTGTTAT
15726407 TCATATATAATAAAAA
1 TCATATATAATAAAAA
15726423 TCAT-TATAATAAAAA
1 TCATATATAATAAAAA
15726438 AATTTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
TCATATATAATAAAAA
Found at i:15727137 original size:3 final size:3
Alignment explanation
Indices: 15727129--15727154 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15727119 TTACTTTCTT
15727129 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
15727155 TTGCAGCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15728419 original size:59 final size:57
Alignment explanation
Indices: 15728309--15728419 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 57
15728299 ATAGATATTG
* * *
15728309 AAAACAAAGTTGCCCATATATTTACAATCGCATGAGATTTAATTCTTTAGATGATATC
1 AAAACAAAGTTGCCCATATATGTA-AATAGCATGAGATTTAATTCTATAGATGATATC
15728367 AAAACCAAAGTTGCCCATATATGT-AATAGCATGAGATTTAATTACTCATAGAT
1 AAAA-CAAAGTTGCCCATATATGTAAATAGCATGAGATTTAATT-CT-ATAGAT
15728420 CCTAACTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
57 18 0.38
58 6 0.13
59 23 0.49
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (57 bp):
AAAACAAAGTTGCCCATATATGTAAATAGCATGAGATTTAATTCTATAGATGATATC
Found at i:15728697 original size:17 final size:16
Alignment explanation
Indices: 15728651--15728690 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
15728641 ACTATTAGAA
15728651 TTAAGAAAAACA-TTT
1 TTAAGAAAAACATTTT
15728666 TTAAGAAAAACATTTT
1 TTAAGAAAAACATTTT
15728682 TTAATGAAA
1 TTAA-GAAA
15728691 GCCATTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 12 0.52
16 7 0.30
17 4 0.17
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (16 bp):
TTAAGAAAAACATTTT
Found at i:15729829 original size:33 final size:33
Alignment explanation
Indices: 15729792--15729857 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
15729782 TATCTAATAC
15729792 TTCATACAGACTAATTTTCCCCTGTGCTATTCT
1 TTCATACAGACTAATTTTCCCCTGTGCTATTCT
* *
15729825 TTCATACAGATTAGTTTTCCCCTGTGCTATTCT
1 TTCATACAGACTAATTTTCCCCTGTGCTATTCT
15729858 GCTGGAGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.26, G:0.11, T:0.44
Consensus pattern (33 bp):
TTCATACAGACTAATTTTCCCCTGTGCTATTCT
Found at i:15731193 original size:31 final size:33
Alignment explanation
Indices: 15731132--15731199 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 33
15731122 ACAGGGATGG
15731132 AAAGAAGAAGAAATAAGAAGAAAGGAAAGAA-A
1 AAAGAAGAAGAAATAAGAAGAAAGGAAAGAAGA
* * *
15731164 AAAG-AGAAGAAA-AAGGAGGAATGAGAAGAAGA
1 AAAGAAGAAGAAATAAGAAGAAAGGA-AAGAAGA
15731196 AAAG
1 AAAG
15731200 GTGGCATTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 9 0.29
31 13 0.42
32 9 0.29
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (33 bp):
AAAGAAGAAGAAATAAGAAGAAAGGAAAGAAGA
Found at i:15741588 original size:27 final size:27
Alignment explanation
Indices: 15741540--15741596 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
15741530 GTTATGCTAG
*
15741540 GATCAATGCTTTGATAAACGGATCAGT
1 GATCAATGCTTTGAAAAACGGATCAGT
* *
15741567 GATCAATG-TTTTAAAAACCGGATCGGT
1 GATCAATGCTTTGAAAAA-CGGATCAGT
15741594 GAT
1 GAT
15741597 TGTACCAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (27 bp):
GATCAATGCTTTGAAAAACGGATCAGT
Found at i:15742066 original size:26 final size:25
Alignment explanation
Indices: 15742031--15742090 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
15742021 TCATAAACAT
*
15742031 TAAATGAATATGT-TCATGAATATATA
1 TAAATAAATATGTATCATG-ATA-ATA
* *
15742057 TAAATAAATATGTATGATGATAATC
1 TAAATAAATATGTATCATGATAATA
15742082 TAAATAAAT
1 TAAATAAAT
15742091 TCATTCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.37
26 15 0.50
27 4 0.13
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (25 bp):
TAAATAAATATGTATCATGATAATA
Found at i:15743241 original size:28 final size:29
Alignment explanation
Indices: 15743182--15743238 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
15743172 TCACATAATC
15743182 ATTAAAAGAAATTTTCAAAAAAATTTAAA
1 ATTAAAAGAAATTTTCAAAAAAATTTAAA
**
15743211 ATTAAAA-AAATTTT-AAAAATCTTTAAA
1 ATTAAAAGAAATTTTCAAAAAAATTTAAA
15743238 A
1 A
15743239 ATTCTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 12 0.46
28 7 0.27
29 7 0.27
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (29 bp):
ATTAAAAGAAATTTTCAAAAAAATTTAAA
Found at i:15743365 original size:10 final size:10
Alignment explanation
Indices: 15743350--15743446 Score: 65
Period size: 10 Copynumber: 9.9 Consensus size: 10
15743340 AATTTTCTTT
*
15743350 AAAAATTATA
1 AAAAATTTTA
*
15743360 AAAAA-TCT-
1 AAAAATTTTA
*
15743368 AAAAATTTTT
1 AAAAATTTTA
*
15743378 AAAAATTTTT
1 AAAAATTTTA
*
15743388 AAAAATTCTA
1 AAAAATTTTA
* **
15743398 ACAAATTTGC
1 AAAAATTTTA
*
15743408 AAAAATTCT-
1 AAAAATTTTA
*
15743417 AAAATTTTTA
1 AAAAATTTTA
*
15743427 AAATAATTTCA
1 AAA-AATTTTA
15743438 AAAAATTTT
1 AAAAATTTT
15743447 TAGAAAATTC
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
8 5 0.07
9 11 0.16
10 43 0.64
11 8 0.12
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:15743389 original size:38 final size:37
Alignment explanation
Indices: 15743347--15743429 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
15743337 CAAAATTTTC
*
15743347 TTTAAAAATTATAAAAAATCT-AAAAATTTTTAAAAATT
1 TTTAAAAATTATAAAAAATCTCAAAAA-TTCT-AAAATT
* * *
15743385 TTTAAAAATTCTAACAAATTTGCAAAAATTCTAAAATT
1 TTTAAAAATTATAAAAAATCT-CAAAAATTCTAAAATT
15743423 TTTAAAA
1 TTTAAAA
15743430 TAATTTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 31 0.79
39 3 0.08
40 5 0.13
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (37 bp):
TTTAAAAATTATAAAAAATCTCAAAAATTCTAAAATT
Found at i:15743390 original size:20 final size:20
Alignment explanation
Indices: 15743367--15743455 Score: 85
Period size: 20 Copynumber: 4.4 Consensus size: 20
15743357 ATAAAAAATC
*
15743367 TAAAAATTTTTAAAAATTTT
1 TAAAAATTTCTAAAAATTTT
*
15743387 TAAAAA-TTCTAACAAATTTG
1 TAAAAATTTCTAA-AAATTTT
*
15743407 CAAAAA-TTCT-AAAATTTT
1 TAAAAATTTCTAAAAATTTT
*
15743425 TAAAATAATTTCAAAAAATTTT
1 T-AAA-AATTTCTAAAAATTTT
15743447 TAGAAAATT
1 TA-AAAATT
15743456 CAAAAAAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.11
19 9 0.16
20 23 0.40
21 8 0.14
22 11 0.19
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAAATTTCTAAAAATTTT
Found at i:15743419 original size:29 final size:28
Alignment explanation
Indices: 15743350--15743420 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
15743340 AATTTTCTTT
**
15743350 AAAAATTATAAAAAATCTAAAAATTTTT
1 AAAAATTATAAAAAATCTAAAAATTTGC
* *
15743378 AAAAATTTTTAAAAATTCTAACAAATTTGC
1 AAAAA-TTATAAAAAATCTAA-AAATTTGC
*
15743408 AAAAATTCTAAAA
1 AAAAATTATAAAA
15743421 TTTTTAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.14
29 20 0.56
30 11 0.31
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAAATTATAAAAAATCTAAAAATTTGC
Found at i:15743532 original size:18 final size:16
Alignment explanation
Indices: 15743511--15743554 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 16
15743501 CTAAAATCTT
15743511 TTAAAATTTTGGAAAAAA
1 TTAAAATTTT--AAAAAA
15743529 TTAAAAAATTTTAAAAAA
1 TT--AAAATTTTAAAAAA
15743547 TTAAAATT
1 TTAAAATT
15743555 AAACATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.25
18 10 0.42
20 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (16 bp):
TTAAAATTTTAAAAAA
Found at i:15743621 original size:19 final size:19
Alignment explanation
Indices: 15743593--15743633 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
15743583 TAAAATCTTC
*
15743593 AAAAAATTAA-AGAATTTA
1 AAAAAATTAAGAAAATTTA
15743611 AAAAGAATTAAGAAAATTTA
1 AAAA-AATTAAGAAAATTTA
15743631 AAA
1 AAA
15743634 TTTTTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
20 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAAAATTAAGAAAATTTA
Found at i:15743630 original size:20 final size:18
Alignment explanation
Indices: 15743523--15743633 Score: 59
Period size: 18 Copynumber: 6.2 Consensus size: 18
15743513 AAAATTTTGG
*
15743523 AAAAAATTAAAAAATTTT
1 AAAAAATTAAAAAATTTA
15743541 AAAAAATT--AAAA-TTA
1 AAAAAATTAAAAAATTTA
* ** * * *
15743556 AACATTTTCTAAAACTTTT
1 AAAAAATT-AAAAAATTTA
* * *
15743575 TAAAAATT-TAAAATCTTC
1 AAAAAATTAAAAAAT-TTA
*
15743593 AAAAAATTAAAGAATTTA
1 AAAAAATTAAAAAATTTA
15743611 AAAAGAATTAAGAAAATTTA
1 AAAA-AATTAA-AAAATTTA
15743631 AAA
1 AAA
15743634 TTTTTCATAA
Statistics
Matches: 67, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
15 7 0.10
16 4 0.06
17 4 0.06
18 26 0.39
19 16 0.24
20 10 0.15
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAAATTAAAAAATTTA
Found at i:15743724 original size:18 final size:19
Alignment explanation
Indices: 15743703--15743741 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
15743693 TAAAAATGAT
15743703 AATTTTAATAAAA-TTTAA
1 AATTTTAATAAAATTTTAA
**
15743721 AATTTTGTTAAAATTTTAA
1 AATTTTAATAAAATTTTAA
15743740 AA
1 AA
15743742 AATTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AATTTTAATAAAATTTTAA
Found at i:15743776 original size:22 final size:20
Alignment explanation
Indices: 15743751--15743794 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
15743741 AAATTAAAAT
15743751 AAAAAATAAAAATGTTTTTGAA
1 AAAAAATAAAAAT-TTTTT-AA
* *
15743773 AAAATATAATAATTTTTTAA
1 AAAAAATAAAAATTTTTTAA
15743793 AA
1 AA
15743795 TATGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAAAATAAAAATTTTTTAA
Found at i:15743805 original size:61 final size:63
Alignment explanation
Indices: 15743682--15743806 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 63
15743672 AATTTTTTAA
* * *
15743682 AAAATAAAAAATAAAAATGATAATTTTAATAAAATTTAAAATTTTGTTAAAATTTTAAAAAATT
1 AAAATAAAAAATAAAAATGAT-ATTTTAATAAAATATAAAATTTTGTTAAAATATGAAAAAATT
15743746 AAAATAAAAAATAAAAATG-T-TTTTGAA-AAAATATAATAATTTT-TTAAAATATGAAAAAATT
1 AAAATAAAAAATAAAAATGATATTTT-AATAAAATATAA-AATTTTGTTAAAATATGAAAAAATT
15743807 CTCAATTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
61 28 0.50
62 8 0.14
63 1 0.02
64 19 0.34
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (63 bp):
AAAATAAAAAATAAAAATGATATTTTAATAAAATATAAAATTTTGTTAAAATATGAAAAAATT
Found at i:15743992 original size:26 final size:27
Alignment explanation
Indices: 15743951--15744006 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
15743941 TTAAAGAATG
15743951 TTTCAAAATTTAAAAT-TATTTA-ATT
1 TTTCAAAATTTAAAATGTATTTAGATT
* *
15743976 TTTCAAAAATTTTAAATGTTTTTAGATT
1 TTTC-AAAATTTAAAATGTATTTAGATT
15744004 TTT
1 TTT
15744007 TCTTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 11 0.42
27 5 0.19
28 6 0.23
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (27 bp):
TTTCAAAATTTAAAATGTATTTAGATT
Found at i:15744293 original size:21 final size:22
Alignment explanation
Indices: 15744269--15744320 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
15744259 ATTTTTATAT
15744269 TTTTTGATAAAAT-TTTAAAAA
1 TTTTTGATAAAATGTTTAAAAA
* * **
15744290 TTTTTTA-AAAATGTTTTAGTA
1 TTTTTGATAAAATGTTTAAAAA
15744311 TTTTTGATAA
1 TTTTTGATAA
15744321 TTTTTTGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 5 0.21
21 17 0.71
22 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (22 bp):
TTTTTGATAAAATGTTTAAAAA
Found at i:15744332 original size:50 final size:48
Alignment explanation
Indices: 15744248--15744348 Score: 116
Period size: 49 Copynumber: 2.0 Consensus size: 48
15744238 ATTGTTTTTG
*
15744248 AAATGTTTAGCATTTTTATATTTTTTGATAAAATTTTAAAAATTTTT-TAA
1 AAATGTTTAGCATTTTTATATTTTTTG--AAAA-TTAAAAAATTTTTATAA
*
15744298 AAATGTTTTAGTATTTTTGATAATTTTTTG-AAATTAAAAAATTTTTATAA
1 AAATG-TTTAGCATTTTT-AT-ATTTTTTGAAAATTAAAAAATTTTTATAA
15744348 A
1 A
15744349 TGTAAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
49 12 0.27
50 12 0.27
51 11 0.24
52 2 0.04
53 8 0.18
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (48 bp):
AAATGTTTAGCATTTTTATATTTTTTGAAAATTAAAAAATTTTTATAA
Found at i:15744343 original size:19 final size:19
Alignment explanation
Indices: 15744319--15744361 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
15744309 TATTTTTGAT
15744319 AATTTTT-TGAAAT-TAAAA
1 AATTTTTAT-AAATGTAAAA
15744337 AATTTTTATAAATGTAAAA
1 AATTTTTATAAATGTAAAA
15744356 AATTTT
1 AATTTT
15744362 AGAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
AATTTTTATAAATGTAAAA
Found at i:15744498 original size:19 final size:20
Alignment explanation
Indices: 15744474--15744528 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
15744464 TTAATTTTTT
*
15744474 TAATTTATAAAAAAATTT-A
1 TAATTTTTAAAAAAATTTAA
**
15744493 TAATTTTTATGAAAATTTAA
1 TAATTTTTAAAAAAATTTAA
*
15744513 GAATTTTTAAAAAAAT
1 TAATTTTTAAAAAAAT
15744529 ATTTGAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (20 bp):
TAATTTTTAAAAAAATTTAA
Found at i:15744517 original size:20 final size:19
Alignment explanation
Indices: 15744485--15744550 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
15744475 AATTTATAAA
*
15744485 AAAATTTATAATTTTTATG
1 AAAATTTAGAATTTTTATG
**
15744504 AAAATTTAAGAATTTTTAAA
1 AAAATTT-AGAATTTTTATG
* * *
15744524 AAAATATTTGAATTTTTTTA
1 AAAAT-TTAGAATTTTTATG
15744544 AAAATTT
1 AAAATTT
15744551 TTTATACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 9 0.23
20 28 0.72
21 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
AAAATTTAGAATTTTTATG
Found at i:15744742 original size:27 final size:27
Alignment explanation
Indices: 15744689--15744744 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
15744679 TAACGAATTT
*
15744689 AAAATTTTAAATACAAATATGATAAAA
1 AAAATTTTAAATACAAATATGACAAAA
* *
15744716 AAAATTTTAGATA-ATAATGTGACAAAA
1 AAAATTTTAAATACA-AATATGACAAAA
15744743 AA
1 AA
15744745 TATAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAATTTTAAATACAAATATGACAAAA
Found at i:15745212 original size:61 final size:61
Alignment explanation
Indices: 15745041--15745252 Score: 163
Period size: 61 Copynumber: 3.5 Consensus size: 61
15745031 CAAAAGTACA
* * * * *
15745041 TTAAATAATCCCTTTTTAAAAAATATTAGAGATTATTTAAAGCAT-TTTTTG-TAAAAAAAACC
1 TTAAATAATCCCTTTTAAAAAAATATTATAAATTATTTAAA--ATATTTTTGAT-AAAAAGATC
* * * *
15745103 TTAAATCATACCC--TT-CAAAAAT-TTGA-AGAATATGATTTAAAGTGTTTTTGATCAAAAACG
1 TTAAATAAT-CCCTTTTAAAAAAATATT-ATA-AAT-T-ATTTAAAATATTTTTGAT-AAAAA-G
*
15745163 CT-
59 ATC
* *
15745165 TTAAATAATCTCTTTT-AAAAAATATTATAAATTATTTAAAATATTTTTGATAAAAATATC
1 TTAAATAATCCCTTTTAAAAAAATATTATAAATTATTTAAAATATTTTTGATAAAAAGATC
15745225 TTAAATAATCCCTTTTAAAAAAATATTA
1 TTAAATAATCCCTTTTAAAAAAATATTA
15745253 ATCATTATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 29
0.73 0.10 0.18
Matches are distributed among these distances:
59 4 0.03
60 30 0.25
61 38 0.32
62 30 0.25
63 15 0.12
64 3 0.03
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (61 bp):
TTAAATAATCCCTTTTAAAAAAATATTATAAATTATTTAAAATATTTTTGATAAAAAGATC
Found at i:15746530 original size:16 final size:18
Alignment explanation
Indices: 15746496--15746530 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15746486 TTCAACATTT
15746496 AAATAATAGAATATTAAA
1 AAATAATAGAATATTAAA
15746514 AAATAATA-AAT-TTAAA
1 AAATAATAGAATATTAAA
15746530 A
1 A
15746531 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAATAATAGAATATTAAA
Found at i:15747656 original size:2 final size:2
Alignment explanation
Indices: 15747649--15747677 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15747639 ACGCTTTGTA
15747649 AT AT 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 AT AT A
15747678 ATAAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15748532 original size:97 final size:98
Alignment explanation
Indices: 15748416--15748598 Score: 253
Period size: 97 Copynumber: 1.9 Consensus size: 98
15748406 TTAGAAGATA
* * * *
15748416 AAAAGATATATATTTAAATTATATATAAATTATTAGAAAATTAATTTTAGATACCT-T-ATTTTT
1 AAAAGATATACATTAAAATTAGATATAAATTATTAGAAAATTAATTTTAGATAACTATAATTTTT
* *
15748479 AAAATATTTTTATTTATTTGAGATTTTCAAAAAT
66 -AAATACTTTTATTTAATTGAGATTTTCAAAAAT
* * *
15748513 AAAAGATATACATTAAAATTAGATATATATTATTAGGAAATTAATTTTGGATAACTAATAATTTT
1 AAAAGATATACATTAAAATTAGATATAAATTATTAGAAAATTAATTTTAGATAACT-ATAATTTT
15748578 TAAATACTTTTATTTAATTGA
65 TAAATACTTTTATTTAATTGA
15748599 TAAATACCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
97 49 0.66
99 19 0.26
100 6 0.08
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (98 bp):
AAAAGATATACATTAAAATTAGATATAAATTATTAGAAAATTAATTTTAGATAACTATAATTTTT
AAATACTTTTATTTAATTGAGATTTTCAAAAAT
Found at i:15749681 original size:131 final size:129
Alignment explanation
Indices: 15749442--15749691 Score: 347
Period size: 131 Copynumber: 1.9 Consensus size: 129
15749432 ATATATATCT
* **
15749442 AAATTTTTAAAAAATTAATTTTAAAAGATAAAAAAATATATACTTAAATTATATATCTAAATTGT
1 AAATTATTAAAAAATTAATTTTAAAAGATAAAAAAATATATACTTAAATTATATATCTAAATTAC
* *
15749507 TAGAAAATTAATTTTTGATAACTAATAATTTTTAAACACTTTTATTTATTTGATAAATACTATA
66 TAGAAAATTAATTTTAGATAACTAAAAATTTTTAAACACTTTTATTTATTTGATAAATACTATA
* * * ** * *
15749571 AAATTATTAGAAAATTATTTTTAGAAGATAAAAGGATATATATTTAAATTATATGTATGTAAATT
1 AAATTATTAAAAAATTAATTTTAAAAGATAAAAAAATATATACTTAAATTATA--TATCTAAATT
***
15749636 ACTAGAAAATTAATTTTAGATAACTAAAAATTTTTAAATGTTTTTATTTATTTGAT
64 ACTAGAAAATTAATTTTAGATAACTAAAAATTTTTAAACACTTTTATTTATTTGAT
15749692 TATTTTTAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 46 0.44
131 58 0.56
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (129 bp):
AAATTATTAAAAAATTAATTTTAAAAGATAAAAAAATATATACTTAAATTATATATCTAAATTAC
TAGAAAATTAATTTTAGATAACTAAAAATTTTTAAACACTTTTATTTATTTGATAAATACTATA
Found at i:15752601 original size:125 final size:128
Alignment explanation
Indices: 15752453--15752681 Score: 306
Period size: 127 Copynumber: 1.8 Consensus size: 128
15752443 ATTTAAGATG
* *
15752453 TTTTTGGACTAAAAACAACTTAAATAATCTGCTTTAAAATGTCAAC-G-A-ATTTTTTAAAGCAC
1 TTTTTGGACTAAAAACAACTTAAATAATCTCCTTTAAAATAT-AACAGCAGATTTTTTAAAGCAC
* * * *
15752515 TTTTAGTTTAAAAATGTTTTAAATAATACCCTTCAATTTTTTTTTATTTGGCTTATTTAAAGCA
65 TTTTAATCTAAAAATATCTTAAATAATACCCTTCAATTTTTTTTTATTTGGCTTATTTAAAGCA
* * ***
15752579 TTTTTGGAC-AAAAAC-ACATTAAATAATCTCCTTTAAAATATATCAGCAGATTTTTTAAGGTGT
1 TTTTTGGACTAAAAACAAC-TTAAATAATCTCCTTTAAAATATAACAGCAGATTTTTTAAAGCAC
15752642 TTTTAATCTAAAAATATCTTAAATAATACCCTTCAATTTT
65 TTTTAATCTAAAAATATCTTAAATAATACCCTTCAATTTT
15752682 GAAAAAGGCT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
124 4 0.05
125 28 0.32
126 10 0.11
127 46 0.52
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (128 bp):
TTTTTGGACTAAAAACAACTTAAATAATCTCCTTTAAAATATAACAGCAGATTTTTTAAAGCACT
TTTAATCTAAAAATATCTTAAATAATACCCTTCAATTTTTTTTTATTTGGCTTATTTAAAGCA
Found at i:15754521 original size:29 final size:30
Alignment explanation
Indices: 15754489--15754628 Score: 137
Period size: 29 Copynumber: 4.8 Consensus size: 30
15754479 AGGTTGACGT
*
15754489 TTTAAGATTTCAATTTTAGGGTTT-GAGGG
1 TTTAGGATTTCAATTTTAGGGTTTAGAGGG
* ** *
15754518 TTTAGGGTTTCAATTTCGGGGTTTAGAGGT
1 TTTAGGATTTCAATTTTAGGGTTTAGAGGG
* * * *
15754548 TTTAGGGTATC-ATTTTAAGATTTAGAGGG
1 TTTAGGATTTCAATTTTAGGGTTTAGAGGG
* *
15754577 TTTAGGATTT-TATTTTAGGGTTTGGAGGG
1 TTTAGGATTTCAATTTTAGGGTTTAGAGGG
15754606 TTTAGAGA-TTCAA-TTTAGGGTTT
1 TTTAG-GATTTCAATTTTAGGGTTT
15754629 GTATTATTAT
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
29 73 0.81
30 17 0.19
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.45
Consensus pattern (30 bp):
TTTAGGATTTCAATTTTAGGGTTTAGAGGG
Found at i:15756220 original size:12 final size:12
Alignment explanation
Indices: 15756205--15756229 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15756195 CAATATTATT
15756205 ATTATTATTAAA
1 ATTATTATTAAA
15756217 ATTATTATTAAA
1 ATTATTATTAAA
15756229 A
1 A
15756230 ATAAAAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:15757948 original size:29 final size:28
Alignment explanation
Indices: 15757916--15757971 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
15757906 ATATTTAACG
*
15757916 TGATATTTAAATTTAAAAATTTTTTAATA
1 TGATATTTAAA-TTAAAAATTTATTAATA
* *
15757945 TGATTTTTAAATTATAAATTTATTAAT
1 TGATATTTAAATTAAAAATTTATTAAT
15757972 TAAGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TGATATTTAAATTAAAAATTTATTAATA
Found at i:15763751 original size:20 final size:20
Alignment explanation
Indices: 15763728--15763766 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15763718 AAATAATCAC
15763728 ATAAATAAAAAAACATTTAA
1 ATAAATAAAAAAACATTTAA
*
15763748 ATAAATAAATAAACATTTA
1 ATAAATAAAAAAACATTTA
15763767 GTTATCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAATAAAAAAACATTTAA
Found at i:15763833 original size:58 final size:56
Alignment explanation
Indices: 15763771--15763987 Score: 172
Period size: 58 Copynumber: 3.6 Consensus size: 56
15763761 CATTTAGTTA
*
15763771 TCTAAAAATAATTTTCTAATAATTTACATATATATAATTAAATATAATCCTTTTATCT
1 TCTAAAAATAATTTTCTAATAATTTA-ATATATATAATTAAATATAAT-TTTTTATCT
* *
15763829 TCTAAAAATAATTTTCTAATAATTTTATAGTATTATCGAATAAATAAAAGTATTTAAAATTTTTA
1 TCTAAAAATAATTTTCTAATAA-TTTA-A-TA-TAT---AT-AATTAAA-TA--T-AATTTTTTA
15763894 GT-T
54 -TCT
* *
15763897 ATC-AAAAATCAATTTTCTAATAATTT-AGATATATAATTAAGTATATATTTTTTATCT
1 -TCTAAAAAT-AATTTTCTAATAATTTAATATATATAATTAAATATA-ATTTTTTATCT
* *
15763954 TTTAAAATTAATTTT-TAATAATTTAGATATATAT
1 TCTAAAAATAATTTTCTAATAATTTA-ATATATAT
15763988 CTTTTAAAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 39
0.72 0.06 0.22
Matches are distributed among these distances:
55 9 0.07
56 9 0.07
57 21 0.16
58 22 0.17
59 7 0.05
60 7 0.05
61 5 0.04
64 5 0.04
65 7 0.05
66 3 0.02
68 16 0.12
69 18 0.14
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (56 bp):
TCTAAAAATAATTTTCTAATAATTTAATATATATAATTAAATATAATTTTTTATCT
Found at i:15763874 original size:36 final size:32
Alignment explanation
Indices: 15763832--15763922 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 32
15763822 TTTATCTTCT
15763832 AAAAAT-AATTTTCTAATAATTTTATAGTATTATC
1 AAAAATAAATTTTCTAATAATTTT-TAG--TTATC
*
15763866 GAATAAATAAAAGTATT-TAA-AATTTTTAGTTATC
1 -AA-AAAT-AAA-TTTTCTAATAATTTTTAGTTATC
*
15763900 AAAAATCAATTTTCTAATAATTT
1 AAAAATAAATTTTCTAATAATTT
15763923 AGATATATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
30 3 0.06
31 5 0.11
32 9 0.19
33 2 0.04
34 5 0.11
35 2 0.04
36 7 0.15
37 6 0.13
38 5 0.11
39 3 0.06
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.44
Consensus pattern (32 bp):
AAAAATAAATTTTCTAATAATTTTTAGTTATC
Found at i:15764007 original size:22 final size:22
Alignment explanation
Indices: 15763939--15764007 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
15763929 ATAATTAAGT
* **
15763939 ATATATTTTTTATCTTTTAAAA
1 ATATATTTTTAATAATTTAAAA
* * *
15763961 TTA-ATTTTTAATAATTTAGAT
1 ATATATTTTTAATAATTTAAAA
15763982 ATATATCTTTTAA-AATTTAAAA
1 ATATAT-TTTTAATAATTTAAAA
15764004 ATAT
1 ATAT
15764008 CGAACTTAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
21 15 0.42
22 15 0.42
23 6 0.17
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (22 bp):
ATATATTTTTAATAATTTAAAA
Found at i:15764918 original size:133 final size:131
Alignment explanation
Indices: 15764651--15764888 Score: 291
Period size: 133 Copynumber: 1.8 Consensus size: 131
15764641 GGACAATTTC
* *
15764651 TAATTTTACAGTATTTATCAACTAAATAAAAACATTTAAAAATTATTAGTTATTCAAAGTTAATT
1 TAATTTTACAGTATTTATCAACTAAATAAAAACATTTAAAAATTATTAGTTATCCAAAATTAA-T
** * ** **
15764716 TTTTTTAATAATTTACACATATATAATTTAATATATATCTTTTTATCTCATAAAATTAATTTTTT
65 TTTCATAATAATTTA-ACATATATAATTAAATATATATCTTTTTATCTCATAAAATTAATAATAA
15764781 AAA
129 AAA
** * **
15764784 TAATTTTATGGTATTTATCAATTAAATAAAAGTATTTAAAAATTATTAGTTATCCAAAATTAA-T
1 TAATTTTACAGTATTTATCAACTAAATAAAAACATTTAAAAATTATTAGTTATCCAAAATTAATT
* *
15764848 TTCATAATAATTT-ATATATCTAATTGAAATATATATCTTTT
66 TTCATAATAATTTAACATATATAATT-AAATATATATCTTTT
15764889 ACTTTTTAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
129 10 0.11
130 14 0.15
131 12 0.13
133 56 0.61
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (131 bp):
TAATTTTACAGTATTTATCAACTAAATAAAAACATTTAAAAATTATTAGTTATCCAAAATTAATT
TTCATAATAATTTAACATATATAATTAAATATATATCTTTTTATCTCATAAAATTAATAATAAAA
A
Found at i:15764956 original size:99 final size:99
Alignment explanation
Indices: 15764801--15764980 Score: 276
Period size: 99 Copynumber: 1.8 Consensus size: 99
15764791 ATGGTATTTA
* * *
15764801 TCAATTAAATAAAAGTATTTAAAAATTATTAGTTATCCAAAATTAATTTCATAATAATTTATATA
1 TCAAATAAATAAAAATATTTAAAAATTATAAGTTATCCAAAATTAATTTCATAATAATTTATATA
15764866 TCTAATTGAAATATATATCTTTTACTTTTTAAAATC
66 --TAATTGAAATATATATCTTTTACTTTTTAAAATC
15764902 TCAAATAAATAAAAATATTTAAAAA-TA-AAGTTATCCAAAATTAATTTTC-TAATAATTTATAT
1 TCAAATAAATAAAAATATTTAAAAATTATAAGTTATCCAAAATTAA-TTTCATAATAATTTATAT
*
15764964 ATAATTTAAATATATAT
65 ATAATTGAAATATATAT
15764981 ATATCTTTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
97 15 0.20
99 30 0.41
100 6 0.08
101 23 0.31
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (99 bp):
TCAAATAAATAAAAATATTTAAAAATTATAAGTTATCCAAAATTAATTTCATAATAATTTATATA
TAATTGAAATATATATCTTTTACTTTTTAAAATC
Found at i:15765077 original size:230 final size:232
Alignment explanation
Indices: 15764668--15765129 Score: 634
Period size: 230 Copynumber: 2.0 Consensus size: 232
15764658 ACAGTATTTA
* * * * *
15764668 TCAACTAAATAAAAACATTTAAAAATTATTAGTTATTCAAAGTTAATTTTTTTTAATAATTTACA
1 TCAAATAAATAAAAACATTTAAAAATTATAAGTTATCCAAAATTAA-TTTTTCTAATAATTTACA
* * *
15764733 CATATATAATTTAATATATATCTTTTTATCTCATAAAATTAATTTTTTAAATAATTTTATGGTAT
65 CATATATAATATAATATATATCTTTTTATCTCATAAAACTAATTTATTAAATAATTTTATGGTAT
* * *
15764798 TTATCAATTAAATAAAAGTATTTAAAAATTATTAGTTATCCAAAATTAATTTCATAATAATTTAT
130 TTATCAAATAAATAAAAGTATTAAAAAATTATTAGTTATCCAAAATTAATTTCATAATAA-TTAA
*
15764863 ATATCTAATTGAAATATATATC-TTTTACTTTTTAAAATC
194 ATATATAATTGAAATATATATCTTTTTA-TTTTTAAAATC
* * *
15764902 TCAAATAAATAAAAATATTTAAAAA-TA-AAGTTATCCAAAATTAA-TTTTCTAATAATTTATAT
1 TCAAATAAATAAAAACATTTAAAAATTATAAGTTATCCAAAATTAATTTTTCTAATAATTTACAC
*
15764964 ATAATTTAA-ATATATATATATCTTTTTATCTTC-TAAAACTAATTTATT-AATAATTTTATGGT
66 AT-ATATAATATA-ATATATATCTTTTTATC-TCATAAAACTAATTTATTAAATAATTTTATGGT
**
15765026 ATTTATCAAATAAATAAACA-TATTAAAAAATTATTAGTTATCCAAAATTAATTTTTTAATAATT
128 ATTTATCAAATAAATAAA-AGTATTAAAAAATTATTAGTTATCCAAAATTAATTTCATAATAATT
*
15765090 AAATATATAATTTAAATATATATCTTTTTATTTTTAAAAT
192 AAATATATAATTGAAATATATATCTTTTTATTTTTAAAAT
15765130 TAGTTTTTTA
Statistics
Matches: 204, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
229 33 0.16
230 94 0.46
231 36 0.18
232 16 0.08
233 2 0.01
234 23 0.11
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (232 bp):
TCAAATAAATAAAAACATTTAAAAATTATAAGTTATCCAAAATTAATTTTTCTAATAATTTACAC
ATATATAATATAATATATATCTTTTTATCTCATAAAACTAATTTATTAAATAATTTTATGGTATT
TATCAAATAAATAAAAGTATTAAAAAATTATTAGTTATCCAAAATTAATTTCATAATAATTAAAT
ATATAATTGAAATATATATCTTTTTATTTTTAAAATC
Found at i:15765740 original size:2 final size:2
Alignment explanation
Indices: 15765733--15765761 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15765723 ACTTTGATTT
15765733 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 T
15765762 TACGAAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15768207 original size:63 final size:61
Alignment explanation
Indices: 15767966--15768226 Score: 208
Period size: 63 Copynumber: 4.2 Consensus size: 61
15767956 AAATATGAGA
* * * * *
15767966 AGATTATTTAAGGGT-TTTTTGGTCCAATAATATTTTAAATAATCTCTAATATTTTTTAAAAGG
1 AGATTATTTAA-GGTATTTTT-G-ACAAAAATATCTTAAATAATCTTTAATATTTTTTTAAAGG
* * *** * * **
15768029 -GATTATTTAAGGTGTTTTTGATAAAAACGCCTTAAAAAATACTCTTCA-A-TTTTTTAAAAC
1 AGATTATTTAAGGTATTTTTGACAAAAATATCTTAAATAAT-CT-TTAATATTTTTTTAAAGG
* * * *
15768089 ATATTATTTAAGGTATTTTTTTTATAAAAA-ATGCTTAAATCATCTTTAATATTTTTTTAAAGG
1 AGATTATTTAAGGTA--TTTTTGACAAAAATAT-CTTAAATAATCTTTAATATTTTTTTAAAGG
* * *
15768152 AGATTATTTAAGGTATTTTTGACCAAAAATATCATAAATAATCTTTTATATTTTTTTTAAAGA
1 AGATTATTTAAGGTATTTTTGA-CAAAAATATCTTAAATAATCTTTAATA-TTTTTTTAAAGG
15768215 AGATTATTTAAG
1 AGATTATTTAAG
15768227 ACTCTTTTTT
Statistics
Matches: 156, Mismatches: 30, Indels: 24
0.74 0.14 0.11
Matches are distributed among these distances:
60 20 0.13
61 28 0.18
62 40 0.26
63 68 0.44
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (61 bp):
AGATTATTTAAGGTATTTTTGACAAAAATATCTTAAATAATCTTTAATATTTTTTTAAAGG
Found at i:15768773 original size:19 final size:18
Alignment explanation
Indices: 15768722--15768778 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
15768712 AAAAAATTAA
*
15768722 AAAAATTCAAATATATTTTT
1 AAAAATTC--ATAAATTTTT
*
15768742 AAAAATTCTTAAAATTTTCT
1 AAAAATTCAT-AAATTTT-T
15768762 AAAAATT-ATAAATTTTT
1 AAAAATTCATAAATTTTT
15768779 TTTCATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.03
18 8 0.25
19 7 0.22
20 16 0.50
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAAATTCATAAATTTTT
Found at i:15768835 original size:11 final size:11
Alignment explanation
Indices: 15768819--15768870 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
15768809 TATAAAAAAA
15768819 TTAAAAATTTC
1 TTAAAAATTTC
15768830 TT-AAAATTTC
1 TTAAAAATTTC
*
15768840 TT-AAAATTTT
1 TTAAAAATTTC
*
15768850 TTCAAAACTTT-
1 TT-AAAAATTTC
15768861 TTAAAAATTT
1 TTAAAAATTT
15768871 TAAAAACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 26 0.72
11 4 0.11
12 6 0.17
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (11 bp):
TTAAAAATTTC
Found at i:15768843 original size:21 final size:22
Alignment explanation
Indices: 15768819--15768870 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
15768809 TATAAAAAAA
15768819 TTAAAAATTTCTT-AAAA-TTT
1 TTAAAAATTTCTTCAAAACTTT
*
15768839 CTT-AAAATTTTTTCAAAACTTT
1 -TTAAAAATTTCTTCAAAACTTT
15768861 TTAAAAATTT
1 TTAAAAATTT
15768871 TAAAAACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.33
21 8 0.30
22 10 0.37
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAAAATTTCTTCAAAACTTT
Found at i:15768871 original size:21 final size:20
Alignment explanation
Indices: 15768819--15768875 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
15768809 TATAAAAAAA
15768819 TTAAAAATTTCTTAAAATTTC
1 TTAAAAATTT-TTAAAATTTC
*
15768840 TTAAAATTTTTTCAAAACTTT-
1 TTAAAAATTTTT-AAAA-TTTC
15768861 TTAAAAA-TTTTAAAA
1 TTAAAAATTTTTAAAA
15768876 ACCTAAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.12
20 6 0.19
21 19 0.59
22 3 0.09
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAAAATTTTTAAAATTTC
Found at i:15768929 original size:11 final size:10
Alignment explanation
Indices: 15768908--15769045 Score: 77
Period size: 10 Copynumber: 14.0 Consensus size: 10
15768898 AAAAAAATTC
15768908 TAAAATTTTT
1 TAAAATTTTT
*
15768918 TGAAATTATTT
1 TAAAATT-TTT
15768929 TAAAA-TTTT
1 TAAAATTTTT
*
15768938 TAGAATTTTT
1 TAAAATTTTT
* *
15768948 GAAAATTTGT
1 TAAAATTTTT
*
15768958 TAGAA-TTTT
1 TAAAATTTTT
*
15768967 TAAAA-ATTT
1 TAAAATTTTT
*
15768976 TCAAATTTTT
1 TAAAATTTTT
* *
15768986 TTAATTTTTT
1 TAAAATTTTT
* *
15768996 TAGATTTTTT
1 TAAAATTTTT
**
15769006 TTTAATTTTT
1 TAAAATTTTT
*
15769016 ACAAAATTTTT
1 -TAAAATTTTT
**
15769027 TTGAA-TTTT
1 TAAAATTTTT
*
15769036 CAAAATTTTT
1 TAAAATTTTT
15769046 GAAATTTTAG
Statistics
Matches: 94, Mismatches: 29, Indels: 10
0.71 0.22 0.08
Matches are distributed among these distances:
9 27 0.29
10 53 0.56
11 14 0.15
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:15768944 original size:20 final size:19
Alignment explanation
Indices: 15768908--15769016 Score: 94
Period size: 19 Copynumber: 5.6 Consensus size: 19
15768898 AAAAAAATTC
*
15768908 TAAAATTTTTTGAAATTATTT
1 TAAAATTTTTAG-AATT-TTT
15768929 TAAAATTTTTAGAATTTTT
1 TAAAATTTTTAGAATTTTT
*
15768948 GAAAATTTGTTAGAATTTTT
1 TAAAATTT-TTAGAATTTTT
* *
15768968 AAAAATTTTCA-AATTTTTT
1 TAAAATTTTTAGAA-TTTTT
** *
15768987 TAATTTTTTTAGATTTTTT
1 TAAAATTTTTAGAATTTTT
**
15769006 TTTAATTTTTA
1 TAAAATTTTTA
15769017 CAAAATTTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
18 2 0.03
19 36 0.50
20 23 0.32
21 11 0.15
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.60
Consensus pattern (19 bp):
TAAAATTTTTAGAATTTTT
Found at i:15768954 original size:10 final size:9
Alignment explanation
Indices: 15768926--15768985 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
15768916 TTTGAAATTA
15768926 TTTTAAAAT
1 TTTTAAAAT
*
15768935 TTTTAGAAT
1 TTTTAAAAT
15768944 TTTTGAAAAT
1 TTTT-AAAAT
*
15768954 TTGTTAGAAT
1 TT-TTAAAAT
*
15768964 TTTTAAAAA
1 TTTTAAAAT
*
15768973 TTTTCAAAT
1 TTTTAAAAT
15768982 TTTT
1 TTTT
15768986 TTAATTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 28 0.67
10 12 0.29
11 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.55
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:15769025 original size:21 final size:20
Alignment explanation
Indices: 15768973--15769045 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 20
15768963 TTTTTAAAAA
15768973 TTTTC-AAA-TTTTTTTAATT
1 TTTTCAAAATTTTTTTTAA-T
* * *
15768992 TTTTTAGATTTTTTTTTAAT
1 TTTTCAAAATTTTTTTTAAT
*
15769012 TTTTACAAAATTTTTTTGAA-
1 TTTT-CAAAATTTTTTTTAAT
15769032 TTTTCAAAATTTTT
1 TTTTCAAAATTTTT
15769046 GAAATTTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 14 0.32
20 10 0.23
21 20 0.45
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTCAAAATTTTTTTTAAT
Found at i:15769548 original size:17 final size:17
Alignment explanation
Indices: 15769526--15769564 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15769516 TATTATAAAA
15769526 TTAATTATGAAACTCAT
1 TTAATTATGAAACTCAT
* *
15769543 TTAATTATGATACTTAT
1 TTAATTATGAAACTCAT
15769560 TTAAT
1 TTAAT
15769565 AATTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (17 bp):
TTAATTATGAAACTCAT
Found at i:15770475 original size:18 final size:18
Alignment explanation
Indices: 15770453--15770503 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
15770443 TATAAGAAAT
15770453 AAATTTAATAATTTT-TA
1 AAATTTAATAATTTTATA
*
15770470 ATAATTTATTAATTTTATA
1 A-AATTTAATAATTTTATA
*
15770489 AATATTAAATAATTT
1 AA-ATTTAATAATTT
15770504 AAAACTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.04
18 14 0.50
19 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATTTAATAATTTTATA
Found at i:15771565 original size:17 final size:17
Alignment explanation
Indices: 15771543--15771575 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15771533 ATAAAATTAA
15771543 TTATGATACTCATTTAG
1 TTATGATACTCATTTAG
*
15771560 TTATGATATTCATTTA
1 TTATGATACTCATTTA
15771576 ACAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (17 bp):
TTATGATACTCATTTAG
Found at i:15771708 original size:21 final size:22
Alignment explanation
Indices: 15771668--15771709 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15771658 TTTTTTAATC
* *
15771668 TTTAATTCTTTATTATTTTATT
1 TTTAATTCTTTAATAGTTTATT
15771690 TTTAA-TCTTTAATAGTTTAT
1 TTTAATTCTTTAATAGTTTAT
15771710 CATTTGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTAATTCTTTAATAGTTTATT
Found at i:15771708 original size:29 final size:30
Alignment explanation
Indices: 15771642--15771714 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 30
15771632 ATATTATCTT
15771642 ATACTTTATTATTTTATTTTTTAATCTTTA
1 ATACTTTATTATTTTATTTTTTAATCTTTA
*
15771672 ATTCTTTATTATTTTA-TTTTTAATCTTTA
1 ATACTTTATTATTTTATTTTTTAATCTTTA
* *
15771701 ATAGTTTATCATTT
1 ATACTTTATTATTT
15771715 GAATTTGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 24 0.62
30 15 0.38
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (30 bp):
ATACTTTATTATTTTATTTTTTAATCTTTA
Found at i:15771785 original size:30 final size:29
Alignment explanation
Indices: 15771725--15771788 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
15771715 GAATTTGATG
*
15771725 TTAAAAATTAATATAATTATGTAAATATA
1 TTAAAAATTAAAATAATTATGTAAATATA
15771754 TTAAAAATTAAAAATAA-TAT-TAAATACATA
1 TTAAAAATT-AAAATAATTATGTAAAT--ATA
15771784 TTAAA
1 TTAAA
15771789 TTAGTATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 5 0.16
29 12 0.39
30 14 0.45
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (29 bp):
TTAAAAATTAAAATAATTATGTAAATATA
Found at i:15773993 original size:43 final size:43
Alignment explanation
Indices: 15773929--15774019 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
15773919 GTAAGTATAT
15773929 ATTTT-TATATGCTTACGATTTAATAAATCAAAGATAATAAAA
1 ATTTTCTATATGCTTACGATTTAATAAATCAAAGATAATAAAA
* **
15773971 ATTTTCTATATGCTTACTATTTAATACTTCAAAGATAATAAAA
1 ATTTTCTATATGCTTACGATTTAATAAATCAAAGATAATAAAA
15774014 ATTTTC
1 ATTTTC
15774020 CGAAATATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 5 0.11
43 40 0.89
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (43 bp):
ATTTTCTATATGCTTACGATTTAATAAATCAAAGATAATAAAA
Found at i:15775180 original size:170 final size:170
Alignment explanation
Indices: 15774890--15775230 Score: 637
Period size: 170 Copynumber: 2.0 Consensus size: 170
15774880 TAACGCACTT
*
15774890 GTTGGCTGCCTTGCTGCATTCCTTTGAATGGGAATTGCCTAACGGAGTAATGCCTGATATAAAGG
1 GTTGGCTGCCTTGCTGCATTCCTTTGAACGGGAATTGCCTAACGGAGTAATGCCTGATATAAAGG
*
15774955 ACAAACTTGGAATAGTCTTATCGAGAGTGGAACCACTTGTTGTCATCCCCACTGCACGACTATCC
66 ACAAACTTGGAATAGTCTTATCGAGAGTGGAACCACTTGTTGCCATCCCCACTGCACGACTATCC
*
15775020 AATTCATTGTCATATCAATAAATGGAGAAAACAATCGCAG
131 AATTCATTGTCATATCAATAAATGGAGAAAACAAGCGCAG
15775060 GTTGGCTGCCTTGCTGCATTCCTTTGAACGGGAATTGCCTAACGGAGTAATGCCTGATATAAAGG
1 GTTGGCTGCCTTGCTGCATTCCTTTGAACGGGAATTGCCTAACGGAGTAATGCCTGATATAAAGG
* *
15775125 ACAAACTTGGAATAGTCTTATCGAGAGTGGAACGACTTGTTGCCATCCTCACTGCACGACTATCC
66 ACAAACTTGGAATAGTCTTATCGAGAGTGGAACCACTTGTTGCCATCCCCACTGCACGACTATCC
15775190 AATTCATTGTCATATCAATAAATGGAGAAAACAAGCGCAG
131 AATTCATTGTCATATCAATAAATGGAGAAAACAAGCGCAG
15775230 G
1 G
15775231 AAGAGATTAT
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 166 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (170 bp):
GTTGGCTGCCTTGCTGCATTCCTTTGAACGGGAATTGCCTAACGGAGTAATGCCTGATATAAAGG
ACAAACTTGGAATAGTCTTATCGAGAGTGGAACCACTTGTTGCCATCCCCACTGCACGACTATCC
AATTCATTGTCATATCAATAAATGGAGAAAACAAGCGCAG
Found at i:15776107 original size:28 final size:27
Alignment explanation
Indices: 15776068--15776125 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
15776058 ATATAAAAAT
*
15776068 AAACTTAATT-AATAAA-TTTATAATTC
1 AAACTTAATTAAAAAAATTTTA-AATTC
15776094 AAACATTATATTAAAAAAATTTTAAATTC
1 AAAC-TTA-ATTAAAAAAATTTTAAATTC
15776123 AAA
1 AAA
15776126 TATCACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.15
27 3 0.11
28 3 0.11
29 13 0.48
30 4 0.15
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (27 bp):
AAACTTAATTAAAAAAATTTTAAATTC
Found at i:15779485 original size:16 final size:16
Alignment explanation
Indices: 15779466--15779503 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15779456 ACTTTTTCTC
15779466 AAAAATAT-TTTTTAA
1 AAAAATATATTTTTAA
*
15779481 AAAAATTTATTTTTAA
1 AAAAATATATTTTTAA
15779497 GAAAAAT
1 -AAAAAT
15779504 TGATACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATATATTTTTAA
Found at i:15779509 original size:59 final size:57
Alignment explanation
Indices: 15779384--15779676 Score: 311
Period size: 57 Copynumber: 5.0 Consensus size: 57
15779374 TTTTTTTTTT
* ** * * * *
15779384 AAATTGGTACTTTCAAC-TTTTCTTTAAAATATTTTTCTGAAACTTTAATTTTGAGAA
1 AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT-TAAAAATTTATTTTTAAGAA
15779441 AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAAATTTATTTTTAAGAA
1 AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT--AAAAATTTATTTTTAAGAA
* *
15779500 AAATTGATACTTTCAAC-TTTTCTTCAAAAATATTTTTTTAAAAAATTTTATTTTCAAGGA
1 AAATTGATACTTTCAACTTTTTC-TCAAAAATA-TTTTTT-AAAAA-TTTATTTTTAAGAA
* * * * * ** *
15779560 AAATTGATACTTTTACCTTTTCCTCGAAAATATTTTTTAGAAGCTTATTTTTAAGGA
1 AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATTTATTTTTAAGAA
* * * *
15779617 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAGAATTTTTTTTTAAGAA
1 AAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTAAAAATTTATTTTTAAGAA
15779675 AA
1 AA
15779677 TCATTAAAAA
Statistics
Matches: 201, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
57 58 0.29
58 45 0.22
59 53 0.26
60 41 0.20
61 4 0.02
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (57 bp):
AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAATTTATTTTTAAGAA
Found at i:15779630 original size:117 final size:116
Alignment explanation
Indices: 15779384--15779676 Score: 356
Period size: 117 Copynumber: 2.5 Consensus size: 116
15779374 TTTTTTTTTT
* * * * * *
15779384 AAATTGGTACTTTCAACTTTTCTT-TAAAATATTTTTCTGAAACTTTAATTTTGAGAAAAATTGA
1 AAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTAAAAATTTAATTTTAAGAAAAATTGA
* *
15779448 TACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAAATTTATTTTTAAGAA
66 TACTTTCAACTTTTCCTCAAAAATATTTTTT-AAAAAACTTATTTTTAAGAA
* *
15779500 AAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTAAAAAATTTTATTTTCAAGGAAAATT
1 AAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTT-AAAAATTTAATTTT-AAGAAAAATT
* * * * * *
15779565 GATACTTTTACCTTTTCCTCGAAAATATTTTTT-AGAAGCTTATTTTTAAGGA
64 GATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTTAAGAA
* * * **
15779617 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAGAATTTTTTTTTAAGAAAA
1 AAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTAAAAATTTAATTTTAAGAAAA
15779677 TCATTAAAAA
Statistics
Matches: 153, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
115 6 0.04
116 34 0.22
117 65 0.42
118 11 0.07
119 37 0.24
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (116 bp):
AAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTAAAAATTTAATTTTAAGAAAAATTGA
TACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTTAAGAA
Found at i:15779668 original size:57 final size:58
Alignment explanation
Indices: 15779384--15779677 Score: 317
Period size: 59 Copynumber: 5.1 Consensus size: 58
15779374 TTTTTTTTTT
* ** * * * * *
15779384 AAATTGGTACTTTCAACTTTT-CTTTAAAATATTTTTCT-GAAACTTTAATTTTGAGAA
1 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTT-TTTTTAAGGA
* * * *
15779441 AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAAATTTATTTTTAAGAA
1 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTT-TTTTTAAGGA
* *
15779500 AAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTAAAAAATTTTATTTTCAAGGA
1 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTTT-TTTT-AAGGA
* * * * * *
15779560 AAATTGATACTTTTACCTTTTCCTCGAAAATA-TTTTTTAGAAGCTTATTTTTAAGGA
1 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTTTTTTTAAGGA
* * *
15779617 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAGAATTTTTTTTTAA-GA
1 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTTTTTTTAAGGA
15779674 AAAT
1 AAAT
15779678 CATTAAAAAA
Statistics
Matches: 202, Mismatches: 30, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
57 60 0.30
58 34 0.17
59 76 0.38
60 32 0.16
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (58 bp):
AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAAAAACTTTTTTTTAAGGA
Found at i:15779695 original size:6 final size:6
Alignment explanation
Indices: 15779684--15779717 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15779674 AAATCATTAA
**
15779684 AAAAAT AAAAAT AGTAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
15779718 TAAGGAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:15779726 original size:18 final size:18
Alignment explanation
Indices: 15779684--15779720 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15779674 AAATCATTAA
*
15779684 AAAAATAAAAATAGTAAT
1 AAAAATAAAAATAGAAAT
15779702 AAAAATAAAAATA-AAAT
1 AAAAATAAAAATAGAAAT
15779719 AA
1 AA
15779721 GGAATACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAATAGAAAT
Found at i:15779760 original size:3 final size:3
Alignment explanation
Indices: 15779752--15779786 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15779742 CTAATCAATA
15779752 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15779787 GAAAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15780099 original size:17 final size:19
Alignment explanation
Indices: 15780060--15780097 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15780050 CAGATTTTCC
15780060 TTCTTTTTTTCTCTCTCTT
1 TTCTTTTTTTCTCTCTCTT
15780079 TTCTTTTTTTCTC-CTCTT
1 TTCTTTTTTTCTCTCTCTT
15780097 T
1 T
15780098 CTCTCTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTTTTTCTCTCTCTT
Found at i:15780517 original size:9 final size:9
Alignment explanation
Indices: 15780505--15780559 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
15780495 TAATATAAGA
15780505 AATAAATTT
1 AATAAATTT
*
15780514 AATAATTTT
1 AATAAATTT
15780523 AAT-AATTT
1 AATAAATTT
15780531 AAT-AATTT
1 AATAAATTT
*
15780539 TATAAATATT
1 AATAAAT-TT
15780549 AA-ATAATTT
1 AATA-AATTT
15780558 AA
1 AA
15780560 AATTTTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 14 0.36
9 19 0.49
10 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AATAAATTT
Found at i:15780531 original size:8 final size:8
Alignment explanation
Indices: 15780509--15780564 Score: 60
Period size: 8 Copynumber: 6.6 Consensus size: 8
15780499 ATAAGAAATA
15780509 AATTTAAT
1 AATTTAAT
15780517 AATTTTAAT
1 AA-TTTAAT
15780526 AATTTAAT
1 AATTTAAT
*
15780534 AATTTTAT
1 AATTTAAT
15780542 AAATATTAAAT
1 -AAT-TT-AAT
15780553 AATTTAA-
1 AATTTAAT
15780560 AATTT
1 AATTT
15780565 TTAATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
7 5 0.12
8 17 0.40
9 13 0.31
10 5 0.12
11 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTAAT
Found at i:15780570 original size:17 final size:17
Alignment explanation
Indices: 15780511--15780570 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
15780501 AAGAAATAAA
15780511 TTTAATAATTTTAATAA-
1 TTTAATAATTTTAA-AAT
15780528 TTTAATAATTTTATAAAT
1 TTTAATAATTTTA-AAAT
*
15780546 ATTAAATAA-TTTAAAATT
1 -TTTAATAATTTTAAAA-T
15780564 TTTAATA
1 TTTAATA
15780571 TATATAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 24 0.65
18 6 0.16
19 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAATAATTTTAAAAT
Found at i:15788438 original size:13 final size:13
Alignment explanation
Indices: 15788420--15788445 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15788410 TTTACATCAG
15788420 GTGATTTTTATTT
1 GTGATTTTTATTT
15788433 GTGATTTTTATTT
1 GTGATTTTTATTT
15788446 ATTTATTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (13 bp):
GTGATTTTTATTT
Found at i:15789545 original size:13 final size:15
Alignment explanation
Indices: 15789516--15789547 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15789506 TAATTTTCTA
15789516 ATAATTTACATATAT
1 ATAATTTACATATAT
*
15789531 ATAATTTAAATATAT
1 ATAATTTACATATAT
15789546 AT
1 AT
15789548 CCTTTTATCT
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTTACATATAT
Found at i:15789604 original size:131 final size:127
Alignment explanation
Indices: 15789467--15789709 Score: 378
Period size: 131 Copynumber: 1.9 Consensus size: 127
15789457 AAATAATCAC
* *
15789467 ATAAATAAAAACATTTAAAAATTATTAGTTATCTAAAATTAATTTTCTAATAATTTACATATATA
1 ATAAATAAAAACATTTAAAAATTATTAGTTATCAAAAATTAATTTTCTAATAATTT--AGATATA
15789532 TAATTTAAATATATATCCTTTTATCTTCTAAAAATAATTTTCTAATAATTTTATAACATTTATAA
64 TAATTTAAATATATAT-CTTTTATCTTCTAAAAATAATTTT-TAATAATTTTATAACATTTATAA
15789597 A
127 A
**
15789598 ATAAATAAAAGTATTTAAAAATTATTAGTTATCAAAAATTAATTTTCTAATAATTTAGATATATA
1 ATAAATAAAAACATTTAAAAATTATTAGTTATCAAAAATTAATTTTCTAATAATTTAGATATATA
* * * *
15789663 ATTTAAGTATATATTTTTTATCTTTTAAAATTAATTTTTAATAATTT
66 ATTTAAATATATATCTTTTATCTTCTAAAAATAATTTTTAATAATTT
15789710 AGATATATAT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
127 9 0.09
128 21 0.20
129 21 0.20
131 53 0.51
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (127 bp):
ATAAATAAAAACATTTAAAAATTATTAGTTATCAAAAATTAATTTTCTAATAATTTAGATATATA
ATTTAAATATATATCTTTTATCTTCTAAAAATAATTTTTAATAATTTTATAACATTTATAAA
Found at i:15789740 original size:23 final size:23
Alignment explanation
Indices: 15789671--15789740 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 23
15789661 TAATTTAAGT
* *
15789671 ATATATTTTTTAT-CTTTTAAAA
1 ATATATTTTTAATAATTTTAAAA
* * *
15789693 TTA-ATTTTTAATAA-TTTAGAT
1 ATATATTTTTAATAATTTTAAAA
15789714 ATATATCTTTTAA-AATTTTAAAA
1 ATATAT-TTTTAATAATTTTAAAA
15789737 ATAT
1 ATAT
15789741 CAAACTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
21 15 0.42
22 6 0.17
23 15 0.42
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (23 bp):
ATATATTTTTAATAATTTTAAAA
Found at i:15790451 original size:6 final size:6
Alignment explanation
Indices: 15790440--15790469 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15790430 ATTATTCATG
*
15790440 CTCGAA CTCGAA CTCGAA CTCGGA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
15790470 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (6 bp):
CTCGAA
Found at i:15791165 original size:98 final size:97
Alignment explanation
Indices: 15791013--15791195 Score: 271
Period size: 98 Copynumber: 1.9 Consensus size: 97
15791003 ATGGTATTTA
* * * *
15791013 TCAATTAAATAAAAGTATTTAAAAATTATTAGTTATCTAAAATTAATTTCCTAATAATTTATATA
1 TCAAATAAATAAAAATATTTAAAAA-TATAAGTTATCCAAAATTAATTTCCTAATAATTTATATA
15791078 TCTAATTTAAATATATATCTTTTATTTTTTAAAATC
65 --TAA-TTAAATATATATCTTTTATTTTTTAAAATC
*
15791114 TCAAATAAATAAAAATA-TTAAAAA-ATAAGTTATCCAAAATTAATTTTCTAATAATTTATATAT
1 TCAAATAAATAAAAATATTTAAAAATATAAGTTATCCAAAATTAATTTCCTAATAATTTATATAT
15791177 AATTAAATATATATCTTTT
66 AATTAAATATATATCTTTT
15791196 TATCTTCTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
95 17 0.22
96 3 0.04
98 35 0.45
100 7 0.09
101 15 0.19
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (97 bp):
TCAAATAAATAAAAATATTTAAAAATATAAGTTATCCAAAATTAATTTCCTAATAATTTATATAT
AATTAAATATATATCTTTTATTTTTTAAAATC
Found at i:15791216 original size:114 final size:120
Alignment explanation
Indices: 15791099--15791323 Score: 287
Period size: 125 Copynumber: 1.8 Consensus size: 120
15791089 TATATATCTT
* *
15791099 TTATTTTTTA-AAATCTCAAATAAATAAAAATATTAAAAAA-TAAGTTATCCAAAATTAATTTTC
1 TTATATTTTAGAAATATCAAATAAATAAAAA-ATTAAAAAATTAAGTTATCCAAAATTAATTTTC
*
15791162 TAATAATT-TATATATAA-TTAAATATATATCTTTTTATCTTCTAAAACTAATTTA
65 TAATAATTAAATATATAATTTAAATATATATCTTTTTATCTTCTAAAACTAATTTA
** *
15791216 TTAATAATTTTATGGTATTTATCAAATAAATAAAAAATTAAAAAATTGTTAGTTATCCAAAATTA
1 TT-AT-ATTTTA--G-AAATATCAAATAAATAAAAAATTAAAAAA-T-TAAGTTATCCAAAATTA
*
15791281 ATTTTTTAATAATTAAATATATAATTTAAATATATATCTTTTT
59 ATTTTCTAATAATTAAATATATAATTTAAATATATATCTTTTT
15791324 TTTAAAATTA
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
117 2 0.02
118 2 0.02
119 5 0.06
122 9 0.10
123 17 0.19
125 29 0.32
126 8 0.09
127 18 0.20
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (120 bp):
TTATATTTTAGAAATATCAAATAAATAAAAAATTAAAAAATTAAGTTATCCAAAATTAATTTTCT
AATAATTAAATATATAATTTAAATATATATCTTTTTATCTTCTAAAACTAATTTA
Found at i:15792660 original size:17 final size:18
Alignment explanation
Indices: 15792638--15792672 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15792628 TTAGCCTTAA
15792638 TTAAAATGATT-TTTATT
1 TTAAAATGATTATTTATT
*
15792655 TTAAAATTATTATTTATT
1 TTAAAATGATTATTTATT
15792673 AATATTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTAAAATGATTATTTATT
Found at i:15794056 original size:63 final size:62
Alignment explanation
Indices: 15793907--15794113 Score: 253
Period size: 62 Copynumber: 3.4 Consensus size: 62
15793897 TACTCTTCAA
* * * * * *
15793907 TTTTTTAAAA-CACATTATTTAAAGCGTTTTTA-TAAAAAATGCTTTAAATCATCTTTAATAT
1 TTTTTTAAAAGGAGATTATTTAAAGTG-TTTTAGTAAAAAATACCTTAAATAATCTTTAATAT
*
15793968 TTTTTTAAAAGG-GATTATTTAAAGTGTTTTAAGTAAAAAATACCTTAAATAATCTCTAATAT
1 TTTTTTAAAAGGAGATTATTTAAAGTGTTTT-AGTAAAAAATACCTTAAATAATCTTTAATAT
* * * *
15794030 TTTTTTAAAAGGAGATTATTTTAAGTGTTTTTGATCAAAAATATCTTAAATAATCTTTAATA-
1 TTTTTTAAAAGGAGATTATTTAAAGTGTTTTAG-TAAAAAATACCTTAAATAATCTTTAATAT
15794092 TTTTTT-AAAGGAGATTATTTAA
1 TTTTTTAAAAGGAGATTATTTAA
15794114 GGCTATTTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
60 4 0.03
61 38 0.30
62 44 0.34
63 42 0.33
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (62 bp):
TTTTTTAAAAGGAGATTATTTAAAGTGTTTTAGTAAAAAATACCTTAAATAATCTTTAATAT
Found at i:15794635 original size:19 final size:18
Alignment explanation
Indices: 15794613--15794653 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
15794603 TTCAAATATT
*
15794613 TTTTAAAAAATTCTTAAAA
1 TTTTAAAAAATT-GTAAAA
*
15794632 TTTTTAAAAATTGTAAAA
1 TTTTAAAAAATTGTAAAA
15794650 TTTT
1 TTTT
15794654 TTTTCATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTTAAAAAATTGTAAAA
Found at i:15794654 original size:19 final size:21
Alignment explanation
Indices: 15794597--15794655 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
15794587 AAGAAAATTA
15794597 AAAAAATTC--AAATATTTTTT
1 AAAAAATTCGTAAA-ATTTTTT
*
15794617 AAAAAATTCTTAAAA-TTTTT
1 AAAAAATTCGTAAAATTTTTT
15794637 -AAAAATT-GTAAAATTTTTT
1 AAAAAATTCGTAAAATTTTTT
15794656 TTCATATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 5 0.14
19 12 0.34
20 14 0.40
21 1 0.03
22 3 0.09
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (21 bp):
AAAAAATTCGTAAAATTTTTT
Found at i:15794711 original size:10 final size:10
Alignment explanation
Indices: 15794697--15794744 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
15794687 ACAAAAAACA
15794697 TTAAAAATTT
1 TTAAAAATTT
*
15794707 CTAAAAATTTT
1 TTAAAAA-TTT
15794718 TTCAAAAATTT
1 TT-AAAAATTT
15794729 TTAAAAA-TT
1 TTAAAAATTT
15794738 TTAAAAA
1 TTAAAAA
15794745 CCTAAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 9 0.26
10 11 0.32
11 9 0.26
12 5 0.15
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:15794713 original size:32 final size:31
Alignment explanation
Indices: 15794668--15794744 Score: 73
Period size: 32 Copynumber: 2.5 Consensus size: 31
15794658 CATATATTCA
* *
15794668 AAAAAATTAAAAAAATTTAACAAAAAACATT
1 AAAAATTTTAAAAAATTTAACAAAAAACATT
* ** ***
15794699 AAAAATTTCTAAAAATTTTTTCAAAAATTTTT
1 AAAAATTT-TAAAAAATTTAACAAAAAACATT
15794731 AAAAATTTTAAAAA
1 AAAAATTTTAAAAA
15794745 CCTAAAAACA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 13 0.35
32 24 0.65
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAAATTTTAAAAAATTTAACAAAAAACATT
Found at i:15794780 original size:10 final size:9
Alignment explanation
Indices: 15794767--15794891 Score: 52
Period size: 9 Copynumber: 13.0 Consensus size: 9
15794757 TAAAAATTAA
15794767 AAAATTTTCT
1 AAAATTTT-T
15794777 AAAATTTTTT
1 AAAA-TTTTT
* *
15794787 GAATTTATTTT
1 AAAATT--TTT
*
15794798 AGAATTTTT
1 AAAATTTTT
* *
15794807 AGAGTTTTT
1 AAAATTTTT
15794816 GAAAATTTGTT
1 -AAAATTT-TT
*
15794827 AGAATTTTTT
1 A-AAATTTTT
*
15794837 AAAATTTTCA
1 AAAATTTT-T
15794847 AAAATTTTT
1 AAAATTTTT
**
15794856 AATTTTTTT
1 AAAATTTTT
* *
15794865 ATATTTTTT
1 AAAATTTTT
* *
15794874 AGATTTTTT
1 AAAATTTTT
*
15794883 TAAATTTTT
1 AAAATTTTT
15794892 TTGAAAATTT
Statistics
Matches: 88, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
9 47 0.53
10 24 0.27
11 17 0.19
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (9 bp):
AAAATTTTT
Found at i:15794806 original size:9 final size:9
Alignment explanation
Indices: 15794794--15794928 Score: 51
Period size: 9 Copynumber: 14.4 Consensus size: 9
15794784 TTTGAATTTA
15794794 TTTTAGAAT
1 TTTTAGAAT
*
15794803 TTTTAGAGT
1 TTTTAGAAT
*
15794812 TTTTGAAAAT
1 TTTT-AGAAT
15794822 TTGTTAGAATT
1 TT-TTAGAA-T
*
15794833 TTTTAAAAT
1 TTTTAGAAT
* *
15794842 TTTCAAAAAT
1 TTT-TAGAAT
*
15794852 TTTTA-ATTT
1 TTTTAGA-AT
* *
15794861 TTTTATATT
1 TTTTAGAAT
*
15794870 TTTTAGATTT
1 TTTTAGA-AT
15794880 TTTTA-AATT
1 TTTTAGAA-T
* *
15794889 TTTTTGAAAA
1 TTTTAG-AAT
* *
15794899 TTTCA-AAA
1 TTTTAGAAT
*
15794907 TTTTAGAAG
1 TTTTAGAAT
15794916 TTTTAGAAT
1 TTTTAGAAT
15794925 TTTT
1 TTTT
15794929 GTTTTGAATT
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
8 8 0.08
9 51 0.52
10 32 0.33
11 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (9 bp):
TTTTAGAAT
Found at i:15794834 original size:20 final size:19
Alignment explanation
Indices: 15794777--15794844 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
15794767 AAAATTTTCT
* *
15794777 AAAATTTTTTGAATTTATTTT
1 AAAATTTTTAGAA-TT-TTTG
* *
15794798 AGAATTTTTAGAGTTTTTG
1 AAAATTTTTAGAATTTTTG
*
15794817 AAAATTTGTTAGAATTTTTT
1 AAAATTT-TTAGAATTTTTG
15794837 AAAATTTT
1 AAAATTTT
15794845 CAAAAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 10 0.26
20 19 0.49
21 10 0.26
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
AAAATTTTTAGAATTTTTG
Found at i:15794873 original size:19 final size:19
Alignment explanation
Indices: 15794851--15794892 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
15794841 TTTTCAAAAA
*
15794851 TTTTTA-ATTTTTTTATAT
1 TTTTTAGATTTTTTTAAAT
15794869 TTTTTAGATTTTTTTAAAT
1 TTTTTAGATTTTTTTAAAT
15794888 TTTTT
1 TTTTT
15794893 TGAAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTAGATTTTTTTAAAT
Found at i:15794901 original size:12 final size:10
Alignment explanation
Indices: 15794851--15794893 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
15794841 TTTTCAAAAA
15794851 TTTTT-AATT
1 TTTTTAAATT
*
15794860 TTTTTATA-T
1 TTTTTAAATT
*
15794869 TTTTTAGATT
1 TTTTTAAATT
15794879 TTTTTAAATT
1 TTTTTAAATT
15794889 TTTTT
1 TTTTT
15794894 GAAAATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:15795479 original size:11 final size:11
Alignment explanation
Indices: 15795465--15795494 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
15795455 TTTTATATTA
15795465 ATAATATAAAT
1 ATAATATAAAT
15795476 ATAATATAAAT
1 ATAATATAAAT
15795487 ATTAATAT
1 A-TAATAT
15795495 TAGTCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:15795569 original size:22 final size:23
Alignment explanation
Indices: 15795528--15795570 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15795518 TTTTTTAATC
* *
15795528 TTTAATTCTTTATTATTTTATTT
1 TTTAATTCTTTAATAGTTTATTT
15795551 TTTAA-TCTTTAATAGTTTAT
1 TTTAATTCTTTAATAGTTTAT
15795571 CGTTTGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTAATTCTTTAATAGTTTATTT
Found at i:15795570 original size:30 final size:30
Alignment explanation
Indices: 15795502--15795570 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
15795492 TATTAGTCTT
15795502 ATACTTTATTATTTTATTTTTTAATCTTTA
1 ATACTTTATTATTTTATTTTTTAATCTTTA
*
15795532 ATTCTTTATTATTTTATTTTTTAATCTTTA
1 ATACTTTATTATTTTATTTTTTAATCTTTA
*
15795562 ATAGTTTAT
1 ATACTTTAT
15795571 CGTTTGAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (30 bp):
ATACTTTATTATTTTATTTTTTAATCTTTA
Found at i:15795639 original size:29 final size:30
Alignment explanation
Indices: 15795586--15795650 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
15795576 GAATTTGATG
* *
15795586 TTAAAAATTAATATAATTATGTAAAT-ATA
1 TTAAAAATTAAAATAAATATGTAAATAATA
15795615 TTAAAAATTAAAAATAAATAT-TAAATACATA
1 TTAAAAATT-AAAATAAATATGTAAATA-ATA
15795646 TTAAA
1 TTAAA
15795651 TTAGTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 14 0.45
30 9 0.29
31 8 0.26
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (30 bp):
TTAAAAATTAAAATAAATATGTAAATAATA
Found at i:15796576 original size:6 final size:6
Alignment explanation
Indices: 15796565--15796603 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15796555 TAATAATTAA
* * *
15796565 TTTTAT TTTTAT TATTAT TTTTAA TTTTAT TATTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
15796604 AAAAAGCATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:15796586 original size:18 final size:18
Alignment explanation
Indices: 15796560--15796603 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
15796550 CAATATAATA
* *
15796560 ATTAATTTTATTTTTATT
1 ATTATTTTTAATTTTATT
15796578 ATTATTTTTAATTTTATT
1 ATTATTTTTAATTTTATT
15796596 ATTATTTT
1 ATTATTTT
15796604 AAAAAGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTATTTTTAATTTTATT
Found at i:15796719 original size:2 final size:2
Alignment explanation
Indices: 15796712--15796736 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15796702 TTCTAAAGCA
15796712 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
15796737 CAATCGGTTG
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:15796850 original size:9 final size:11
Alignment explanation
Indices: 15796812--15796862 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 11
15796802 TAATATAATT
15796812 TAAAATTATAA
1 TAAAATTATAA
15796823 TAAAATTATATA
1 TAAAATTATA-A
15796835 TAAAATTA-AA
1 TAAAATTATAA
15796845 -AAAATTA-AA
1 TAAAATTATAA
15796854 -AAAATTATA
1 TAAAATTATA
15796863 TTTTTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.42
10 2 0.05
11 11 0.29
12 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAATTATAA
Found at i:15798409 original size:29 final size:28
Alignment explanation
Indices: 15798360--15798414 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
15798350 TAAATTTAAA
**
15798360 ATATTTAAAATTTTCCTTTTTAATTTGTT
1 ATATTTAAAATTTTCAATTTT-ATTTGTT
*
15798389 ATATTTCAAATTTTCAATTTTATTTG
1 ATATTTAAAATTTTCAATTTTATTTG
15798415 AGTTCTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (28 bp):
ATATTTAAAATTTTCAATTTTATTTGTT
Found at i:15799396 original size:170 final size:170
Alignment explanation
Indices: 15799106--15799446 Score: 628
Period size: 170 Copynumber: 2.0 Consensus size: 170
15799096 TAACGCACTT
*
15799106 GTTGGCTGCCTTGCTGCATTCCTTTGAATGGGAATTGCCTAACGGAGTAATGCCTGATATAAAAG
1 GTTGGCTGCCTTGCTGCATTCCTTTGAACGGGAATTGCCTAACGGAGTAATGCCTGATATAAAAG
*
15799171 ACAAACTTGGAATAGTCTTATCGAGAGTGGAACCACTTGTTGTCATCCCCACTGCACGACTATCC
66 ACAAACTTGGAATAGTCTTATCGAGAGTGGAACCACTTGTTGCCATCCCCACTGCACGACTATCC
15799236 AATTCATTGTCATATCAATAAATGGAGAAAACAATCGCAG
131 AATTCATTGTCATATCAATAAATGGAGAAAACAATCGCAG
* *
15799276 GTTGGCTGCCTTGCTGCATTCCTTTGAACGGGAATTGCCTAATGGAGTAATGCCTGATATAAAGG
1 GTTGGCTGCCTTGCTGCATTCCTTTGAACGGGAATTGCCTAACGGAGTAATGCCTGATATAAAAG
* *
15799341 ACAAACTTGGAATAGTCTTATCGAGAGTGGAACGACTTGTTGCCATCCTCACTGCACGACTATCC
66 ACAAACTTGGAATAGTCTTATCGAGAGTGGAACCACTTGTTGCCATCCCCACTGCACGACTATCC
15799406 AATTCATTGTCATATCAATAAATGGAGAAAACAATCGCAG
131 AATTCATTGTCATATCAATAAATGGAGAAAACAATCGCAG
15799446 G
1 G
15799447 AAGAGATTAT
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 165 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (170 bp):
GTTGGCTGCCTTGCTGCATTCCTTTGAACGGGAATTGCCTAACGGAGTAATGCCTGATATAAAAG
ACAAACTTGGAATAGTCTTATCGAGAGTGGAACCACTTGTTGCCATCCCCACTGCACGACTATCC
AATTCATTGTCATATCAATAAATGGAGAAAACAATCGCAG
Found at i:15800298 original size:28 final size:27
Alignment explanation
Indices: 15800259--15800316 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
15800249 ATATAAAAAT
*
15800259 AAACATAATT-AATAAA-TTTATAATTC
1 AAACATAATTAAAAAAATTTTA-AATTC
15800285 AAACATTATATTAAAAAAATTTTAAATTC
1 AAACA-TA-ATTAAAAAAATTTTAAATTC
15800314 AAA
1 AAA
15800317 TATCACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
27 2 0.07
28 3 0.11
29 13 0.48
30 4 0.15
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (27 bp):
AAACATAATTAAAAAAATTTTAAATTC
Found at i:15804347 original size:20 final size:21
Alignment explanation
Indices: 15804311--15804350 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
15804301 AAATAATCAC
15804311 ATAAATAAAAAAAACATTTAA
1 ATAAATAAAAAAAACATTTAA
*
15804332 ATAAAT-AAATAAACATTTA
1 ATAAATAAAAAAAACATTTA
15804351 GTTATCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAATAAAAAAAACATTTAA
Found at i:15804402 original size:13 final size:15
Alignment explanation
Indices: 15804373--15804404 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15804363 TAATTTTCTA
15804373 ATAATTTACATATAT
1 ATAATTTACATATAT
*
15804388 ATAATTTAAATATAT
1 ATAATTTACATATAT
15804403 AT
1 AT
15804405 CCTTTTATCT
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTTACATATAT
Found at i:15804568 original size:22 final size:23
Alignment explanation
Indices: 15804543--15804597 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
15804533 TTTTTTATCT
*
15804543 TTTAAAAT-TA-ATTTTTTAATAA
1 TTTAAAATATATATCTTTTAA-AA
*
15804565 TTT-AGATATATATCTTTTAAAA
1 TTTAAAATATATATCTTTTAAAA
15804587 TTTAAAA-ATAT
1 TTTAAAATATAT
15804598 CAAACTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
21 3 0.11
22 14 0.52
23 10 0.37
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTAAAATATATATCTTTTAAAA
Found at i:15804610 original size:131 final size:130
Alignment explanation
Indices: 15804347--15804578 Score: 319
Period size: 131 Copynumber: 1.8 Consensus size: 130
15804337 TAAATAAACA
* * *
15804347 TTTAGTTATCTAAAATTAATTTTCTAATAATTTACATATATATAATTTAAATATATATCCTTTTA
1 TTTAGTTATCAAAAATCAATTTTCTAATAATTTA-AGATATATAATTTAAATATATATCCTTTTA
* * * *
15804412 TCTTCTAAAAATAATTTTCTAATAATTTTATAGTATTTATCGAATAAATAAAAGTATTTAAAAAT
65 TCTTCTAAAAATAATTTTCTAATAATTTTAGAGTATATATCGAATAAATAAAAATATTCAAAAAT
15804477 T
130 T
* *
15804478 TTTAGTTATCAAAAATCAATTTTCTAATAATTT-AGATATATAATTTAAGTATATAT-TTTTTAT
1 TTTAGTTATCAAAAATCAATTTTCTAATAATTTAAGATATATAATTTAAATATATATCCTTTTAT
* * *
15804541 CTTTTAAAATTAATTTTTTAATAA-TTTAGA-TATATATC
66 CTTCTAAAAATAATTTTCTAATAATTTTAGAGTATATATC
15804579 TTTTAAAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
126 7 0.08
127 5 0.05
128 27 0.30
129 21 0.23
131 31 0.34
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.49
Consensus pattern (130 bp):
TTTAGTTATCAAAAATCAATTTTCTAATAATTTAAGATATATAATTTAAATATATATCCTTTTAT
CTTCTAAAAATAATTTTCTAATAATTTTAGAGTATATATCGAATAAATAAAAATATTCAAAAATT
Found at i:15805513 original size:133 final size:131
Alignment explanation
Indices: 15805246--15805483 Score: 293
Period size: 133 Copynumber: 1.8 Consensus size: 131
15805236 GGACAATTTC
* *
15805246 TAATTTTACAGTATTTATCAACTAAATAAAAACATTTAAAAATTATTAGTTATTCAAAGTTAATT
1 TAATTTTACAGTATTTATCAACTAAATAAAAACATTTAAAAATTATTAGTTATCCAAAATTAA-T
** * ** **
15805311 TTTTTTAATAATTTACACATATATAATTTAATATATATCTTTTGATCTCATAAAATTAATTTTTT
65 TTTCATAATAATTTA-ACATATATAATTAAATATATATCTTTTGATCTCATAAAATTAATAATAA
15805376 AAA
129 AAA
** *
15805379 TAATTTTATGGTATTTATCAATTAAAT-AAAACTATTTAAAAATTATTAGTTATCCAAAATTAA-
1 TAATTTTACAGTATTTATCAACTAAATAAAAAC-ATTTAAAAATTATTAGTTATCCAAAATTAAT
* *
15805442 TTTCATAATAATTT-ATATATCTAATTGAAATATATATCTTTT
65 TTTCATAATAATTTAACATATATAATT-AAATATATATCTTTT
15805484 ACTTTTTAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
129 10 0.11
130 14 0.15
131 12 0.13
132 5 0.05
133 52 0.56
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (131 bp):
TAATTTTACAGTATTTATCAACTAAATAAAAACATTTAAAAATTATTAGTTATCCAAAATTAATT
TTCATAATAATTTAACATATATAATTAAATATATATCTTTTGATCTCATAAAATTAATAATAAAA
A
Found at i:15805575 original size:98 final size:99
Alignment explanation
Indices: 15805396--15805582 Score: 274
Period size: 98 Copynumber: 1.9 Consensus size: 99
15805386 ATGGTATTTA
* *
15805396 TCAATTAAATAAAACTATTTAAAAATTATTAGTTATCCAAAATTAATTTCATAATAATTTATATA
1 TCAAATAAATAAAAATATTTAAAAATTA-TAGTTATCCAAAATTAATTTCATAATAATTTATATA
*
15805461 TCTAATTGAAATATATATCTTTTACTTTTTAAAATC
65 -CTAATTAAAATATATATCTTTTACTTTTTAAAATC
15805497 TCAAATAAATAAAAATATTTAAAAA-TA-AGTTATCCAAAATTAATTTTC-TAATAATTTATATA
1 TCAAATAAATAAAAATATTTAAAAATTATAGTTATCCAAAATTAA-TTTCATAATAATTTATATA
15805559 -TAATTTAAATATATATATCTTTTA
65 CTAA-TTAAA-ATATATATCTTTTA
15805583 TCTTCTAAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
96 3 0.04
97 4 0.05
98 44 0.55
99 4 0.05
100 2 0.03
101 23 0.29
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (99 bp):
TCAAATAAATAAAAATATTTAAAAATTATAGTTATCCAAAATTAATTTCATAATAATTTATATAC
TAATTAAAATATATATCTTTTACTTTTTAAAATC
Found at i:15805628 original size:125 final size:124
Alignment explanation
Indices: 15805497--15805735 Score: 340
Period size: 125 Copynumber: 1.9 Consensus size: 124
15805487 TTTTAAAATC
* *
15805497 TCAAATAAATAAAAATATTTAAAAA-TA-AGTTATCCAAAATTAATTTTCTAATAATT-TATATA
1 TCAAATAAATAAAAATATTAAAAAATTATAGTTATCCAAAATTAATTTTCTAATAATTAAATATA
15805559 TAATTTAAATATATATATCTTTTATCTTCTAAAACTAATTTATTAATAATTTTATGGTATTTA
66 TAATTT-AA-ATATATATCTTTT-T-TTCTAAAACTAATTTATTAATAATTTTATGGTATTTA
* *
15805622 TCAAATAAATAAACATATTAAAAAATTATTAGTTATCCAAAATTAATTTTTTAATAATTAAATAT
1 TCAAATAAATAAAAATATTAAAAAATTA-TAGTTATCCAAAATTAATTTTCTAATAATTAAATAT
* * * *
15805687 ATAATTTAAATATATATCTTTTTTTTTAAAATTAGTTTTTTAATAATTT
65 ATAATTTAAATATATATCTTTTTTTCTAAAACTAATTTATTAATAATTT
15805736 AGATATCTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
125 45 0.44
126 3 0.03
127 13 0.13
128 30 0.29
129 11 0.11
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (124 bp):
TCAAATAAATAAAAATATTAAAAAATTATAGTTATCCAAAATTAATTTTCTAATAATTAAATATA
TAATTTAAATATATATCTTTTTTTCTAAAACTAATTTATTAATAATTTTATGGTATTTA
Found at i:15806330 original size:2 final size:2
Alignment explanation
Indices: 15806323--15806349 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15806313 ATTGTGATTT
15806323 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 T
15806350 TACGAAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15808757 original size:63 final size:62
Alignment explanation
Indices: 15808598--15808821 Score: 167
Period size: 62 Copynumber: 3.6 Consensus size: 62
15808588 ATAATATTTT
* * * * * *
15808598 AAATAATCTCTAATATTTTTTAAAAG-GGATTATTTAAGGTGTTTTTGA-TAAAAA-CGCTTTAA
1 AAATAATCTTTAATATTTTTTTAAAGAAGATTATTTAAGGTATTTTTGACCAAAAATAGC---AA
* * * * *
15808660 AAA-AATACTCTTCA-A-TTTTTTAAA-ACATATTATTTAAGGCATTTTTTTTATCAAAAAT-GC
1 AAATAAT-CT-TTAATATTTTTTTAAAGA-AGATTATTTAAGG--TATTTTTGACCAAAAATAGC
**
15808720 TT
61 AA
* * *
15808722 AAATCATCTTTAATATTTTTTTAAAGGAGATTATTTAAGGTATTTTTGACCAAAAATATCAA
1 AAATAATCTTTAATATTTTTTTAAAGAAGATTATTTAAGGTATTTTTGACCAAAAATAGCAA
*
15808784 AAATAATCTTTTATATTTTTTTAAAGAAGATTATTTAA
1 AAATAATCTTTAATATTTTTTTAAAGAAGATTATTTAA
15808822 TACTCTTTTT
Statistics
Matches: 126, Mismatches: 23, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
61 28 0.22
62 59 0.47
63 25 0.20
64 7 0.06
65 7 0.06
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (62 bp):
AAATAATCTTTAATATTTTTTTAAAGAAGATTATTTAAGGTATTTTTGACCAAAAATAGCAA
Found at i:15808819 original size:125 final size:122
Alignment explanation
Indices: 15808596--15808821 Score: 271
Period size: 125 Copynumber: 1.8 Consensus size: 122
15808586 CAATAATATT
* * *
15808596 TTAAATAATCTCTAATATTTTTTAAAAGGGATTATTTAAGGTGTTTTTGATAAAAACGCTTTAAA
1 TTAAATAATCTCTAATATTTTTTAAAAGGGATTATTTAAGGTATTTTTGACAAAAA--CTTCAAA
*
15808661 AAAATACTCTTCAATTTTTTAAAACATATTATTTAAGGCATTTTTTTTATCAAAAATGC
64 AAAATACTCTTCAATTTTTTAAAACAGATTATTTAAGGCATTTTTTTTATCAAAAATGC
* * *
15808720 TTAAATCATCTTTAATATTTTTTTAAAGGAGATTATTTAAGGTATTTTTGACCAAAAA-TATCAA
1 TTAAATAATCTCTAATATTTTTTAAAAGG-GATTATTTAAGGTATTTTTGA-CAAAAACT-TCAA
*
15808784 AAATAAT-CT-TTTATATTTTTTTAAAGA-AGATTATTTAA
63 AAA-AATACTCTTCA-A-TTTTTTAAA-ACAGATTATTTAA
15808822 TACTCTTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
123 4 0.05
124 35 0.40
125 42 0.48
126 6 0.07
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (122 bp):
TTAAATAATCTCTAATATTTTTTAAAAGGGATTATTTAAGGTATTTTTGACAAAAACTTCAAAAA
AATACTCTTCAATTTTTTAAAACAGATTATTTAAGGCATTTTTTTTATCAAAAATGC
Found at i:15809393 original size:20 final size:19
Alignment explanation
Indices: 15809321--15809393 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
15809311 AAAAAATTAA
*
15809321 AAAAATTCAAATATTTTTT
1 AAAAATTCAAAAATTTTTT
* *
15809340 AAAAAATTCTTAAAATTTTCT
1 -AAAAATTC-AAAAATTTTTT
15809361 AAAAATT-ATAAAATTTTTT
1 AAAAATTCA-AAAATTTTTT
*
15809380 CATAAATTCAAAAA
1 -AAAAATTCAAAAA
15809394 AATTAAACAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.21
20 25 0.58
21 9 0.21
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTCAAAAATTTTTT
Found at i:15809531 original size:9 final size:9
Alignment explanation
Indices: 15809513--15809641 Score: 60
Period size: 9 Copynumber: 13.3 Consensus size: 9
15809503 TTTGAAATTA
15809513 TTTTAAAAT
1 TTTTAAAAT
*
15809522 TTTTAGAAT
1 TTTTAAAAT
15809531 TTTTGAAAAT
1 TTTT-AAAAT
*
15809541 TTGTTAGAAT
1 TT-TTAAAAT
15809551 TTTTAAAAAT
1 TTTT-AAAAT
* *
15809561 TTTCAAAGTT
1 TTTTAAA-AT
**
15809571 TTTTAATTTT
1 TTTTAA-AAT
* *
15809581 TTTTAGATT
1 TTTTAAAAT
*
15809590 TTTTATAAT
1 TTTTAAAAT
15809599 TTTTACAAAATT
1 TTTT--AAAA-T
**
15809611 TGTTTGGAAT
1 T-TTTAAAAT
*
15809621 TTTCAAAAT
1 TTTTAAAAT
*
15809630 TTTTGAAAT
1 TTTTAAAAT
15809639 TTT
1 TTT
15809642 AGACTTTTTG
Statistics
Matches: 91, Mismatches: 20, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
9 45 0.49
10 34 0.37
11 7 0.08
12 2 0.02
13 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:15809531 original size:20 final size:19
Alignment explanation
Indices: 15809513--15809563 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
15809503 TTTGAAATTA
15809513 TTTT-AAAATTTTTAGAAT
1 TTTTAAAAATTTTTAGAAT
*
15809531 TTTTGAAAATTTGTTAGAAT
1 TTTTAAAAATTT-TTAGAAT
15809551 TTTTAAAAATTTT
1 TTTTAAAAATTTT
15809564 CAAAGTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 4 0.13
19 8 0.27
20 18 0.60
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
TTTTAAAAATTTTTAGAAT
Found at i:15809563 original size:29 final size:29
Alignment explanation
Indices: 15809502--15809563 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
15809492 ATTCTATTTT
* * *
15809502 TTTTGAAATTATTTTAAAATTTTTAGAAT
1 TTTTGAAATTATGTTAAAATTTTTAAAAA
*
15809531 TTTTGAAAATT-TGTTAGAATTTTTAAAAA
1 TTTTG-AAATTATGTTAAAATTTTTAAAAA
15809560 TTTT
1 TTTT
15809564 CAAAGTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (29 bp):
TTTTGAAATTATGTTAAAATTTTTAAAAA
Found at i:15809583 original size:11 final size:10
Alignment explanation
Indices: 15809569--15809602 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
15809559 ATTTTCAAAG
15809569 TTTTTTAATT
1 TTTTTTAATT
15809579 TTTTTTAGATT
1 TTTTTTA-ATT
*
15809590 TTTTATAATT
1 TTTTTTAATT
15809600 TTT
1 TTT
15809603 ACAAAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:15810452 original size:16 final size:18
Alignment explanation
Indices: 15810426--15810466 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
15810416 ATAATGTATA
15810426 ATTTATAATTAT-TTATT
1 ATTTATAATTATGTTATT
15810443 ATTT-TAATTATGTTATT
1 ATTTATAATTATGTTATT
*
15810460 ATATATA
1 ATTTATA
15810467 TTCGTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 7 0.33
17 12 0.57
18 2 0.10
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTTATAATTATGTTATT
Done.