Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 117 of 172
Found at i:33589224 original size:22 final size:22
Alignment explanation
Indices: 33589197--33589243 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
33589187 TAGGGGTTAG
**
33589197 GGGTTAAAGGTTAGGGATTTAA
1 GGGTTAAAGGTTAGAAATTTAA
*
33589219 GGGTTAGAGGTTAGAAATTTAA
1 GGGTTAAAGGTTAGAAATTTAA
33589241 GGG
1 GGG
33589244 CTATGAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30
Consensus pattern (22 bp):
GGGTTAAAGGTTAGAAATTTAA
Found at i:33589276 original size:37 final size:37
Alignment explanation
Indices: 33589186--33589276 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 37
33589176 GACTAGAGAT
* * *
33589186 TTAGGGGTTAGGG-GTTAAAGGTTAGGGATTTAAGGG
1 TTAGGGGTTAGGGATTTAAAGGCTAGAGATTTAAGGG
* ** *
33589222 TTAGAGGTTAGAAATTTAAGGGCTATGAGATTTAA-GG
1 TTAGGGGTTAGGGATTTAAAGGCTA-GAGATTTAAGGG
33589259 TTAGGGGTTAGGGATTTA
1 TTAGGGGTTAGGGATTTA
33589277 GGGTTTAGGG
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 10 0.23
37 25 0.58
38 8 0.19
ACGTcount: A:0.29, C:0.01, G:0.37, T:0.33
Consensus pattern (37 bp):
TTAGGGGTTAGGGATTTAAAGGCTAGAGATTTAAGGG
Found at i:33592860 original size:11 final size:11
Alignment explanation
Indices: 33592844--33592876 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
33592834 TAATTGATTG
*
33592844 ACTGTCAGTGA
1 ACTGTCAATGA
33592855 ACTGTCAATGA
1 ACTGTCAATGA
33592866 A-TGTCAATGA
1 ACTGTCAATGA
33592876 A
1 A
33592877 TTATTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (11 bp):
ACTGTCAATGA
Found at i:33592957 original size:13 final size:13
Alignment explanation
Indices: 33592911--33593002 Score: 89
Period size: 13 Copynumber: 6.9 Consensus size: 13
33592901 TATAACTTAC
33592911 ATTACTTAAATAT
1 ATTACTTAAATAT
* *
33592924 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
*
33592939 -TTACTTAATTAT
1 ATTACTTAAATAT
*
33592951 ATTACTTAAATAC
1 ATTACTTAAATAT
*
33592964 ATTACTT-ACTAT
1 ATTACTTAAATAT
33592976 AATTTACTTAAATAT
1 -A-TTACTTAAATAT
33592991 ATTACTTAAATA
1 ATTACTTAAATA
33593003 CATGACTTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
12 6 0.10
13 36 0.57
14 13 0.21
15 8 0.13
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:33592959 original size:40 final size:38
Alignment explanation
Indices: 33592894--33593138 Score: 239
Period size: 40 Copynumber: 6.3 Consensus size: 38
33592884 TATATATTTT
* *
33592894 TAAAATTTATAACTTACATTACTTAAATATATTAATTAC
1 TAAAATTTATAA-TTACATTACTTAAATACATTACTTAC
*
33592933 TAAAATTTACTTAATTATATTACTTAAATACATTACTTAC
1 TAAAATTTA--TAATTACATTACTTAAATACATTACTTAC
* * * *
33592973 TATAATTTACTTAAATATATTACTTAAATACATGACTTAC
1 TAAAATTTA--TAATTACATTACTTAAATACATTACTTAC
* **
33593013 TAAAA-TTA-AAGTATATATTACATTACTTACATTACTTAC
1 TAAAATTTATAA-T-TACATTAC-TTAAATACATTACTTAC
*
33593052 TAAAA--TAT-ATTACATTACTTAAATATATTACTTAC
1 TAAAATTTATAATTACATTACTTAAATACATTACTTAC
* *
33593087 AAAAATTTATAACTTACATTACTTAAATATATTACATTAC
1 TAAAATTTATAA-TTACATTACTTAAATACATTAC-TTAC
33593127 TTAAAATTTATA
1 -TAAAATTTATA
33593139 TATATATATT
Statistics
Matches: 177, Mismatches: 17, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
35 18 0.10
36 9 0.05
37 4 0.02
38 12 0.07
39 53 0.30
40 68 0.38
41 13 0.07
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (38 bp):
TAAAATTTATAATTACATTACTTAAATACATTACTTAC
Found at i:33593010 original size:13 final size:13
Alignment explanation
Indices: 33592908--33593011 Score: 79
Period size: 13 Copynumber: 7.8 Consensus size: 13
33592898 ATTTATAACT
33592908 TACATTACTTAAA
1 TACATTACTTAAA
* *
33592921 TATATTAATTACTAA
1 TACATTACTTA--AA
*
33592936 -A-ATTTACTTAAT
1 TACA-TTACTTAAA
*
33592948 TATATTACTTAAA
1 TACATTACTTAAA
*
33592961 TACATTACTTACTA
1 TACATTACTTA-AA
33592975 TA-ATTTACTTAAA
1 TACA-TTACTTAAA
*
33592988 TATATTACTTAAA
1 TACATTACTTAAA
*
33593001 TACATGACTTA
1 TACATTACTTA
33593012 CTAAAATTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
12 1 0.01
13 51 0.70
14 19 0.26
15 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (13 bp):
TACATTACTTAAA
Found at i:33593067 original size:22 final size:21
Alignment explanation
Indices: 33593039--33593129 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 21
33593029 ATTACATTAC
33593039 TTACATTACTTACTAAAATATA
1 TTACATTACTTA-TAAAATATA
33593061 TTACATTAC-T-T-AAATATA
1 TTACATTACTTATAAAATATA
*
33593079 TTAC-TTAC--A-AAAATTTA
1 TTACATTACTTATAAAATATA
* *
33593096 TAAC-TTACATTACTTAAATATA
1 TTACATTAC-TTA-TAAAATATA
33593118 TTACATTACTTA
1 TTACATTACTTA
33593130 AAATTTATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 17 0.30
18 11 0.20
19 1 0.02
20 1 0.02
21 1 0.02
22 21 0.38
23 4 0.07
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (21 bp):
TTACATTACTTATAAAATATA
Found at i:33593069 original size:18 final size:18
Alignment explanation
Indices: 33593043--33593133 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
33593033 CATTACTTAC
33593043 ATTAC-TTACTAAAATAT
1 ATTACATTACTAAAATAT
*
33593060 ATTACATTACTTAAATAT
1 ATTACATTACTAAAATAT
*
33593078 ATTAC-TTACAAAAATTTAT
1 ATTACATTACTAAAA--TAT
*
33593097 AACTTACATTACTTAAATAT
1 -A-TTACATTACTAAAATAT
33593117 ATTACATTACTTAAAAT
1 ATTACATTAC-TAAAAT
33593134 TTATATATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.20
18 25 0.41
19 9 0.15
20 4 0.07
21 4 0.07
22 7 0.11
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTACATTACTAAAATAT
Found at i:33593092 original size:17 final size:17
Alignment explanation
Indices: 33593043--33593104 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
33593033 CATTACTTAC
*
33593043 ATTACTTACTAAAATAT
1 ATTACTTACAAAAATAT
**
33593060 ATTACATTACTTAAATAT
1 ATTAC-TTACAAAAATAT
*
33593078 ATTACTTACAAAAATTT
1 ATTACTTACAAAAATAT
*
33593095 ATAACTTACA
1 ATTACTTACA
33593105 TTACTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTACTTACAAAAATAT
Found at i:33593286 original size:121 final size:121
Alignment explanation
Indices: 33593159--33593477 Score: 577
Period size: 121 Copynumber: 2.6 Consensus size: 121
33593149 TAAAATTTAT
33593159 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAATAAATTTTATAATTTTAAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAATAAATTTTATAATTTTAAAA
*
33593224 ATAATTGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCC
66 ATAATTATAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCC
33593280 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAATAAATTTTATAATTTTAAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAATAAATTTTATAATTTTAAAA
*
33593345 ATAATTCTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCC
66 ATAATTATAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCC
* * *
33593401 ATATATGGTATGGATATATATCCTACATTTCAATTTTATTAGT-AATGAATTTTATAATTTTAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATT-GTCAATAAATTTTATAATTTTAAA
33593465 AATAATTATAAAT
65 AATAATTATAAAT
33593478 AAGATACATA
Statistics
Matches: 192, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
121 190 0.99
122 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (121 bp):
ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAATAAATTTTATAATTTTAAAA
ATAATTATAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCC
Found at i:33593542 original size:9 final size:9
Alignment explanation
Indices: 33593524--33593942 Score: 223
Period size: 9 Copynumber: 48.8 Consensus size: 9
33593514 CTTATATATA
*
33593524 AACTTGCAT
1 AACTTACAT
33593533 AACTTACAT
1 AACTTACAT
*
33593542 AA-TAACATAAT
1 AACTTAC---AT
33593553 AACTTACAT
1 AACTTACAT
33593562 AA--TACAT
1 AACTTACAT
* *
33593569 AGCCTACAT
1 AACTTACAT
33593578 AACTTACAT
1 AACTTACAT
*
33593587 AA--TACAC
1 AACTTACAT
33593594 AACTTACAT
1 AACTTACAT
*
33593603 AACTTAAAT
1 AACTTACAT
33593612 AACTTACAT
1 AACTTACAT
33593621 AA--TACAT
1 AACTTACAT
**
33593628 AACTTTGAT
1 AACTTACAT
*
33593637 AACTAACAT
1 AACTTACAT
* *
33593646 TA--TACAC
1 AACTTACAT
33593653 AACTTACAT
1 AACTTACAT
*
33593662 AA--TACGT
1 AACTTACAT
* *
33593669 TACTTACTT
1 AACTTACAT
*
33593678 AACATACAT
1 AACTTACAT
* *
33593687 AGCCTACAT
1 AACTTACAT
33593696 AACTTACAT
1 AACTTACAT
*
33593705 AA--TACAC
1 AACTTACAT
33593712 AACTTACAT
1 AACTTACAT
*
33593721 AACTTAAAT
1 AACTTACAT
33593730 AACTTACAT
1 AACTTACAT
33593739 AA--TACAT
1 AACTTACAT
**
33593746 AACTTTGAT
1 AACTTACAT
*
33593755 GAAGCTGATTATACAC
1 -AA-C----T-TACAT
33593771 AACTTACAT
1 AACTTACAT
33593780 AA--TACAT
1 AACTTACAT
*
33593787 TACTTACAT
1 AACTTACAT
33593796 AACTTACAT
1 AACTTACAT
33593805 AA--TA-AT
1 AACTTACAT
33593811 AACTTACAT
1 AACTTACAT
33593820 AA--TACAT
1 AACTTACAT
**
33593827 AACTTTGAT
1 AACTTACAT
*
33593836 AACTAACAT
1 AACTTACAT
* *
33593845 TA--TACAC
1 AACTTACAT
33593852 AACTTACAT
1 AACTTACAT
33593861 AA--TACAT
1 AACTTACAT
* *
33593868 TACTTACTT
1 AACTTACAT
*
33593877 AACATACAT
1 AACTTACAT
* *
33593886 AGCCTACAT
1 AACTTACAT
33593895 AACTTACAT
1 AACTTACAT
*
33593904 AA--TACAC
1 AACTTACAT
33593911 AACTTACAT
1 AACTTACAT
*
33593920 AGCTTACAT
1 AACTTACAT
33593929 AA--TACAT
1 AACTTACAT
33593936 AACTTAC
1 AACTTAC
33593943 CCGTGCAATT
Statistics
Matches: 305, Mismatches: 65, Indels: 80
0.68 0.14 0.18
Matches are distributed among these distances:
6 4 0.01
7 79 0.26
8 5 0.02
9 200 0.66
10 3 0.01
11 5 0.02
12 3 0.01
14 1 0.00
15 3 0.01
16 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:33593556 original size:20 final size:19
Alignment explanation
Indices: 33593531--33593629 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 19
33593521 ATAAACTTGC
33593531 ATAACTTACATAATAACATA
1 ATAACTTACATAAT-ACATA
33593551 ATAACTTACATAATACATAGCCTA
1 ATAACTTACATAATAC--A---TA
33593575 CATAACTTACATAATAC---
1 -ATAACTTACATAATACATA
* *
33593592 ACAACTTACAT-A-ACTTAA
1 ATAACTTACATAATACAT-A
33593610 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
33593629 A
1 A
33593630 CTTTGATAAC
Statistics
Matches: 64, Mismatches: 3, Indels: 25
0.70 0.03 0.27
Matches are distributed among these distances:
14 2 0.03
15 1 0.02
16 10 0.16
18 10 0.16
19 5 0.08
20 17 0.27
21 1 0.02
24 2 0.03
25 16 0.25
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:33593581 original size:25 final size:24
Alignment explanation
Indices: 33593525--33593746 Score: 120
Period size: 25 Copynumber: 9.0 Consensus size: 24
33593515 TTATATATAA
*
33593525 ACTTGCATAACTTACATAAT--A-
1 ACTTACATAACTTACATAATACAT
*
33593546 ACATA-ATAACTTACATAATACAT
1 ACTTACATAACTTACATAATACAT
* *
33593569 AGCCTACATAACTTACATAATACACA
1 A-CTTACATAACTTACATAATACA-T
*
33593595 ACTTACATAACTTAAATAACTTACAT
1 ACTTACATAACTTACATAA--TACAT
* **
33593621 A-ATACATAACTTTGATAACTAACAT
1 ACTTACATAACTTACATAA-T-ACAT
* *
33593646 --TATACACAACTTACATAATACGTT
1 ACT-TACATAACTTACATAATAC-AT
* * *
33593670 ACTTACTTAACATACATAGCCTACAT
1 ACTTACATAACTTACATA--ATACAT
*
33593696 AACTTACATAA--TACACAACTTACAT
1 -ACTTACATAACTTACATAA--TACAT
*
33593721 AACTTAAATAACTTACATAATACAT
1 -ACTTACATAACTTACATAATACAT
33593746 A
1 A
33593747 ACTTTGATGA
Statistics
Matches: 155, Mismatches: 26, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
20 14 0.09
21 3 0.02
22 1 0.01
23 3 0.02
24 7 0.05
25 101 0.65
26 4 0.03
27 22 0.14
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (24 bp):
ACTTACATAACTTACATAATACAT
Found at i:33593620 original size:59 final size:59
Alignment explanation
Indices: 33593550--33593746 Score: 272
Period size: 59 Copynumber: 3.3 Consensus size: 59
33593540 ATAATAACAT
33593550 AATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
* * ** * *
33593609 AATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACTTACATAA--TA
1 AATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
** * *
33593666 CGTTACTTACTTAACATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACAT-A-ATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
33593727 AATAACTTACATAATACATA
1 AATAACTTACATAATACATA
33593747 ACTTTGATGA
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
57 10 0.09
58 1 0.01
59 92 0.81
60 1 0.01
61 10 0.09
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (59 bp):
AATAACTTACATAATACATAGCCTACATAACTTACATAATACACAACTTACATAACTTA
Found at i:33593698 original size:118 final size:118
Alignment explanation
Indices: 33593533--33593831 Score: 441
Period size: 118 Copynumber: 2.5 Consensus size: 118
33593523 AAACTTGCAT
33593533 AACTTACATAATAACATAATAACTTACAT-A-ATACATAGCCTACATAACTTACATAATACACAA
1 AACTTACATAAT-ACAT--T-ACTTACATAACATACATAGCCTACATAACTTACATAATACACAA
33593596 CTTACATAACTTAAATAACTTACATAATACATAACTTTGAT-AA-CTAACATTATACAC
62 CTTACATAACTTAAATAACTTACATAATACATAACTTTGATGAAGCT--CATTATACAC
* *
33593653 AACTTACATAATACGTTACTTACTTAACATACATAGCCTACATAACTTACATAATACACAACTTA
1 AACTTACATAATACATTACTTACATAACATACATAGCCTACATAACTTACATAATACACAACTTA
*
33593718 CATAACTTAAATAACTTACATAATACATAACTTTGATGAAGCTGATTATACAC
66 CATAACTTAAATAACTTACATAATACATAACTTTGATGAAGCTCATTATACAC
* * *
33593771 AACTTACATAATACATTACTTACATAACTTACATA--ATA-ATAACTTACATAATACATAACTT
1 AACTTACATAATACATTACTTACATAACATACATAGCCTACATAACTTACATAATACACAACTT
33593832 TGATAACTAA
Statistics
Matches: 167, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
115 22 0.13
116 9 0.05
117 2 0.01
118 115 0.69
119 5 0.03
120 14 0.08
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (118 bp):
AACTTACATAATACATTACTTACATAACATACATAGCCTACATAACTTACATAATACACAACTTA
CATAACTTAAATAACTTACATAATACATAACTTTGATGAAGCTCATTATACAC
Found at i:33593794 original size:25 final size:24
Alignment explanation
Indices: 33593766--33593818 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
33593756 AAGCTGATTA
*
33593766 TACACAACTTACATAATACATTACT
1 TACACAACTTACATAATA-ATAACT
*
33593791 TACATAACTTACATAATAATAACT
1 TACACAACTTACATAATAATAACT
33593815 TACA
1 TACA
33593819 TAATACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (24 bp):
TACACAACTTACATAATAATAACT
Found at i:33593814 original size:15 final size:16
Alignment explanation
Indices: 33593791--33593942 Score: 90
Period size: 16 Copynumber: 9.8 Consensus size: 16
33593781 ATACATTACT
33593791 TACATAACTTACATAA
1 TACATAACTTACATAA
33593807 TA-ATAACTTACATAA
1 TACATAACTTACATAA
33593822 TACATAAC-T---T--
1 TACATAACTTACATAA
* * *
33593832 T-GATAACTAACATTA
1 TACATAACTTACATAA
*
33593847 TACACAACTTACATAA
1 TACATAACTTACATAA
* *
33593863 TACATTACTTACTTAACA
1 TACATAACTTACAT-A-A
* *
33593881 TACATAGCCTACATAA
1 TACATAACTTACATAA
*
33593897 CTTACATAA--TACACAA
1 --TACATAACTTACATAA
*
33593913 CTTACATAGCTTACATAA
1 --TACATAACTTACATAA
33593931 TACATAACTTAC
1 TACATAACTTAC
33593943 CCGTGCAATT
Statistics
Matches: 104, Mismatches: 18, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
9 5 0.05
10 1 0.01
12 1 0.01
13 1 0.01
15 17 0.16
16 54 0.52
17 2 0.02
18 23 0.22
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:33593844 original size:25 final size:25
Alignment explanation
Indices: 33593809--33593856 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33593799 TTACATAATA
* *
33593809 ATAACTTACATAATACATAACTTTG
1 ATAACTAACATAATACACAACTTTG
*
33593834 ATAACTAACATTATACACAACTT
1 ATAACTAACATAATACACAACTT
33593857 ACATAATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (25 bp):
ATAACTAACATAATACACAACTTTG
Found at i:33593847 original size:81 final size:80
Alignment explanation
Indices: 33593707--33593942 Score: 276
Period size: 81 Copynumber: 2.8 Consensus size: 80
33593697 ACTTACATAA
* *
33593707 TACACAACTTACATAACTTAAATAACTTACATAATACATAACTTTGATGAAGCT-GATTATACAC
1 TACATAACTTACATAA--T-AATAACTTACATAATACATAACTTTGAT-AA-CTACATTATACAC
33593771 AACTTACATAATACATTACT
61 AACTTACATAATACATTACT
33593791 TACATAACTTACATAATAATAACTTACATAATACATAACTTTGATAACTAACATTATACACAACT
1 TACATAACTTACATAATAATAACTTACATAATACATAACTTTGATAACT-ACATTATACACAACT
33593856 TACATAATACATTACT
65 TACATAATACATTACT
* * * * ** * * *
33593872 TACTTAACATACATAGCCTACATAACTTACATAATACACAACTTACATAGCTTACATAATACATA
1 TACATAACTTACATA--ATA-ATAACTTACATAATACATAACTTTGATAAC-TACATTATACACA
33593937 ACTTAC
62 ACTTAC
33593943 CCGTGCAATT
Statistics
Matches: 135, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 2 0.01
80 2 0.01
81 70 0.52
82 1 0.01
83 2 0.01
84 57 0.42
85 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (80 bp):
TACATAACTTACATAATAATAACTTACATAATACATAACTTTGATAACTACATTATACACAACTT
ACATAATACATTACT
Found at i:33593862 original size:25 final size:24
Alignment explanation
Indices: 33593809--33593869 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
33593799 TTACATAATA
* * **
33593809 ATAACTTACATAATACATAACTTTG
1 ATAAC-TACATTATACACAACTTAC
33593834 ATAACTAACATTATACACAACTTAC
1 ATAACT-ACATTATACACAACTTAC
33593859 ATAA-TACATTA
1 ATAACTACATTA
33593870 CTTACTTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 6 0.19
24 2 0.06
25 23 0.74
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAACTACATTATACACAACTTAC
Found at i:33593908 original size:25 final size:25
Alignment explanation
Indices: 33593880--33593938 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
33593870 CTTACTTAAC
*
33593880 ATACATAGCCTACATAACTTACATA
1 ATACATAACCTACATAACTTACATA
* * *
33593905 ATACACAACTTACATAGCTTACATA
1 ATACATAACCTACATAACTTACATA
33593930 ATACATAAC
1 ATACATAAC
33593939 TTACCCGTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (25 bp):
ATACATAACCTACATAACTTACATA
Found at i:33599401 original size:21 final size:21
Alignment explanation
Indices: 33599333--33599401 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
33599323 CAACAACTTA
* * *
33599333 AAGCAGATGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
* ** *
33599354 AAGCAAAGGCTACAGTGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
33599375 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
33599396 AAGCAG
1 AAGCAG
33599402 CGATAGAAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:33599952 original size:42 final size:42
Alignment explanation
Indices: 33599850--33599971 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
33599840 TCTGTGAAAT
* * *
33599850 AAGCGCTGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACA
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTGACA
* * *
33599892 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCT-TCC
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTT-TGACA
* *
33599934 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCATTTTT
1 AAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTT
33599972 TCTGTAAACG
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.03
42 66 0.96
43 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTGACA
Found at i:33608096 original size:2 final size:2
Alignment explanation
Indices: 33608089--33608114 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33608079 GATTTATCTT
33608089 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
33608115 AGACCTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33620209 original size:19 final size:20
Alignment explanation
Indices: 33620179--33620223 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
33620169 TTTCAATGTG
33620179 TAATTTTATACA-CAAATTT
1 TAATTTTATACATCAAATTT
* *
33620198 TGATTTTGTACATCAAATTT
1 TAATTTTATACATCAAATTT
33620218 TAATTT
1 TAATTT
33620224 GATTAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (20 bp):
TAATTTTATACATCAAATTT
Found at i:33620224 original size:19 final size:19
Alignment explanation
Indices: 33620187--33620224 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33620177 TGTAATTTTA
*
33620187 TACACAAATTTTGATTTTG
1 TACACAAATTTTGAATTTG
33620206 TACATCAAATTTT-AATTTG
1 TACA-CAAATTTTGAATTTG
33620225 ATTAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
TACACAAATTTTGAATTTG
Found at i:33620496 original size:8 final size:8
Alignment explanation
Indices: 33620483--33620522 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
33620473 CAAAATATAT
33620483 CAAAAAAA
1 CAAAAAAA
33620491 CAAAAAAA
1 CAAAAAAA
33620499 CAAAAAAA
1 CAAAAAAA
*
33620507 -TAAAAAA
1 CAAAAAAA
33620514 CAGAAAAAA
1 CA-AAAAAA
33620523 AACCTGAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 6 0.21
8 16 0.57
9 6 0.21
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (8 bp):
CAAAAAAA
Found at i:33620701 original size:18 final size:17
Alignment explanation
Indices: 33620678--33620829 Score: 78
Period size: 18 Copynumber: 8.4 Consensus size: 17
33620668 GAAGGAGAGG
33620678 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
33620696 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
33620713 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
33620729 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
33620747 GGAAAGAAAAGGAAATGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
33620767 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
*
33620785 GGAAAGAAAACGAAAGGAGAA
1 GG-AAG-AAA-GAAA-AAGAA
*
33620806 GAGAA-AAAAAAAAAGAA
1 G-GAAGAAAGAAAAAGAA
*
33620823 AGAAGAA
1 GGAAGAA
33620830 GAAGAGGGAA
Statistics
Matches: 106, Mismatches: 16, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
15 9 0.08
16 7 0.07
17 10 0.09
18 31 0.29
19 26 0.25
20 16 0.15
21 6 0.06
22 1 0.01
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:33620711 original size:10 final size:10
Alignment explanation
Indices: 33620680--33620751 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
33620670 AGGAGAGGGG
*
33620680 AAGAAGAAGA
1 AAGAAAAAGA
33620690 AAGAAAGGAAGA
1 AAGAAA--AAGA
33620702 AAGAAAAAGA
1 AAGAAAAAGA
* *
33620712 AGGAAAAGGA
1 AAGAAAAAGA
33620722 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
33620736 AAGAAAAAGA
1 AAGAAAAAGA
*
33620746 AGGAAA
1 AAGAAA
33620752 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:33620717 original size:14 final size:13
Alignment explanation
Indices: 33620683--33620756 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
33620673 AGAGGGGAAG
33620683 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
33620695 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
33620708 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
33620724 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
33620742 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
33620756 A
1 A
33620757 GGAAATGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:33620756 original size:38 final size:38
Alignment explanation
Indices: 33620698--33620855 Score: 156
Period size: 38 Copynumber: 4.3 Consensus size: 38
33620688 GAAAGAAAGG
33620698 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
33620732 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAATGG-GAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAA-GGAGAGGA
* *
33620770 AAGAAAGAAAAATAAGGAAAGAAAACGAAAGGAGAAGAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG-AG-GA
* * *
33620810 AA-AAA-AAAAAGAAAGAAGAAGAAGAGGGAAGGA-AGGA
1 AAGAAAGAAAAAG-AAGGA-AAGAAAAGGAAAGGAGAGGA
33620847 AA-AAA-AAAA
1 AAGAAAGAAAA
33620856 GAAAATAAGG
Statistics
Matches: 107, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
34 15 0.14
35 1 0.01
37 13 0.12
38 51 0.48
39 11 0.10
40 16 0.15
ACGTcount: A:0.68, C:0.01, G:0.30, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:33620758 original size:10 final size:10
Alignment explanation
Indices: 33620700--33620800 Score: 63
Period size: 10 Copynumber: 10.5 Consensus size: 10
33620690 AAGAAAGGAA
*
33620700 GAAAGAAAAA
1 GAAAGAAAAG
*
33620710 GAAGGAAAAG
1 GAAAGAAAAG
* *
33620720 GAAAGGAGAG
1 GAAAGAAAAG
33620730 GAAAG-AAA-
1 GAAAGAAAAG
33620738 GAAA-AAGAAG
1 GAAAGAA-AAG
33620748 GAAAGAAAAG
1 GAAAGAAAAG
**
33620758 GAAATG-GGAG
1 GAAA-GAAAAG
33620768 GAAAG-AAA-
1 GAAAGAAAAG
33620776 GAAA-AATAAG
1 GAAAGAA-AAG
*
33620786 GAAAGAAAAC
1 GAAAGAAAAG
33620796 GAAAG
1 GAAAG
33620801 GAGAAGAGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
8 10 0.14
9 8 0.11
10 48 0.68
11 5 0.07
ACGTcount: A:0.65, C:0.01, G:0.32, T:0.02
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:33621569 original size:20 final size:20
Alignment explanation
Indices: 33621535--33621587 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
33621525 ATAATATATA
** *
33621535 TAATATTTTGGTATTTTTTT
1 TAATATTTTATTATTTTTTG
33621555 TAATATTTTATTA-TTTTTG
1 TAATATTTTATTATTTTTTG
*
33621574 TAATGTTTTATTAT
1 TAATATTTTATTAT
33621588 GGGTTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
TAATATTTTATTATTTTTTG
Found at i:33621674 original size:28 final size:28
Alignment explanation
Indices: 33621622--33621690 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
33621612 AAATAAAAAA
*
33621622 TTACCAAAATAT-TATAATTTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
33621649 TTACCAAAATATATATAAATTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
33621677 TTACCAAAATATAT
1 TTACCAAAATATAT
33621691 CAAAAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 12 0.30
28 28 0.70
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAAATTTTTTTAT
Found at i:33621713 original size:17 final size:16
Alignment explanation
Indices: 33621691--33621732 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 16
33621681 CAAAATATAT
33621691 CAAAAAAATAAAAAAAA
1 CAAAAAAAT-AAAAAAA
33621708 CAAAAAAATAAAAAAA
1 CAAAAAAATAAAAAAA
33621724 CAGAAAAAA
1 CA-AAAAAA
33621733 CACACTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.86, C:0.07, G:0.02, T:0.05
Consensus pattern (16 bp):
CAAAAAAATAAAAAAA
Found at i:33621730 original size:9 final size:8
Alignment explanation
Indices: 33621691--33621734 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
33621681 CAAAATATAT
33621691 CAAAAAAA
1 CAAAAAAA
*
33621699 TAAAAAAAA
1 -CAAAAAAA
33621708 CAAAAAAA
1 CAAAAAAA
*
33621716 TAAAAAAA
1 CAAAAAAA
33621724 CAGAAAAAA
1 CA-AAAAAA
33621733 CA
1 CA
33621735 CACTAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 15 0.50
9 15 0.50
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (8 bp):
CAAAAAAA
Found at i:33627205 original size:3 final size:3
Alignment explanation
Indices: 33627197--33627234 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
33627187 AGTAACATCT
33627197 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
33627235 CTATAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33627542 original size:27 final size:27
Alignment explanation
Indices: 33627501--33627595 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
33627491 AACACGAGTA
* * *
33627501 GTGCCGCCAATCTGGTTGGCAGGACTG
1 GTGCCGCCAACCTGGTTCGCACGACTG
* *
33627528 GTGCCGCCAACCTGGTTCTCTCGACTG
1 GTGCCGCCAACCTGGTTCGCACGACTG
* * * ** **
33627555 GTGCCACCAACCTGCTTCCCTTGTTTG
1 GTGCCGCCAACCTGGTTCGCACGACTG
33627582 GTGCCGCCAACCTG
1 GTGCCGCCAACCTG
33627596 CTTCCCTCCA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.13, C:0.35, G:0.27, T:0.25
Consensus pattern (27 bp):
GTGCCGCCAACCTGGTTCGCACGACTG
Found at i:33627596 original size:27 final size:27
Alignment explanation
Indices: 33627523--33627603 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
33627513 TGGTTGGCAG
* *
33627523 GACTGGTGCCGCCAACCTGGTTCTCTC
1 GACTGGTGCCGCCAACCTGCTTCCCTC
* *
33627550 GACTGGTGCCACCAACCTGCTTCCCTT
1 GACTGGTGCCGCCAACCTGCTTCCCTC
**
33627577 GTTTGGTGCCGCCAACCTGCTTCCCTC
1 GACTGGTGCCGCCAACCTGCTTCCCTC
33627604 CACCCAGGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.11, C:0.40, G:0.22, T:0.27
Consensus pattern (27 bp):
GACTGGTGCCGCCAACCTGCTTCCCTC
Found at i:33632464 original size:7 final size:7
Alignment explanation
Indices: 33632452--33632479 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
33632442 GGAAGAGGAA
33632452 GGCATGG
1 GGCATGG
33632459 GGCATGG
1 GGCATGG
33632466 GGCATGG
1 GGCATGG
33632473 GGCATGG
1 GGCATGG
33632480 TTGTTCGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.57, T:0.14
Consensus pattern (7 bp):
GGCATGG
Found at i:33634383 original size:27 final size:27
Alignment explanation
Indices: 33634343--33634394 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
33634333 CGGCAATGTC
33634343 TGGTCGAGGCGGTGGT-GAACGTGGCAG
1 TGGTCGAGGCGGTGGTCG-ACGTGGCAG
* *
33634370 TGGTCGGGGTGGTGGTCGACGTGGC
1 TGGTCGAGGCGGTGGTCGACGTGGC
33634395 CGGCGGCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.10, C:0.15, G:0.54, T:0.21
Consensus pattern (27 bp):
TGGTCGAGGCGGTGGTCGACGTGGCAG
Found at i:33641414 original size:15 final size:15
Alignment explanation
Indices: 33641394--33641422 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33641384 TGATAATTTT
33641394 AAAAATAATTTTCAA
1 AAAAATAATTTTCAA
33641409 AAAAATAATTTTCA
1 AAAAATAATTTTCA
33641423 TTATTTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAATAATTTTCAA
Found at i:33647599 original size:18 final size:17
Alignment explanation
Indices: 33647567--33647604 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
33647557 ATTTTATTAA
33647567 ATATTTTTATAAATTTAC
1 ATATTTTTATAAATTT-C
33647585 ATATTTTTA-ATAATTTC
1 ATATTTTTATA-AATTTC
33647602 ATA
1 ATA
33647605 AAAGTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTTTTATAAATTTC
Found at i:33649999 original size:27 final size:27
Alignment explanation
Indices: 33649959--33650010 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
33649949 AGCCAATGTC
*
33649959 TGGTCGAGGCGGTGGTGGACGTGGCAG
1 TGGTCGAGGCGGTGGTCGACGTGGCAG
* *
33649986 TGGTCGGGGTGGTGGTCGACGTGGC
1 TGGTCGAGGCGGTGGTCGACGTGGC
33650011 CGGGGGCAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.15, G:0.56, T:0.21
Consensus pattern (27 bp):
TGGTCGAGGCGGTGGTCGACGTGGCAG
Found at i:33655965 original size:189 final size:189
Alignment explanation
Indices: 33655645--33656025 Score: 762
Period size: 189 Copynumber: 2.0 Consensus size: 189
33655635 TGTTGTCTGA
33655645 AGTTTAGATGATTATATTGCACACACTGTTTGCGGATTACGAAAATTTCATAAATGTCCTTTATT
1 AGTTTAGATGATTATATTGCACACACTGTTTGCGGATTACGAAAATTTCATAAATGTCCTTTATT
33655710 TTTAAGACACCTTCTTAGGATTTTTAGTATCATTCTTAATCTTCTTTTCTTTTAGGTCACCGATT
66 TTTAAGACACCTTCTTAGGATTTTTAGTATCATTCTTAATCTTCTTTTCTTTTAGGTCACCGATT
33655775 AATTCAAGTGTGATGAAATTTTAAAGAATAATATCTTTTTTTGTTACGAGTTTTTAAAT
131 AATTCAAGTGTGATGAAATTTTAAAGAATAATATCTTTTTTTGTTACGAGTTTTTAAAT
33655834 AGTTTAGATGATTATATTGCACACACTGTTTGCGGATTACGAAAATTTCATAAATGTCCTTTATT
1 AGTTTAGATGATTATATTGCACACACTGTTTGCGGATTACGAAAATTTCATAAATGTCCTTTATT
33655899 TTTAAGACACCTTCTTAGGATTTTTAGTATCATTCTTAATCTTCTTTTCTTTTAGGTCACCGATT
66 TTTAAGACACCTTCTTAGGATTTTTAGTATCATTCTTAATCTTCTTTTCTTTTAGGTCACCGATT
33655964 AATTCAAGTGTGATGAAATTTTAAAGAATAATATCTTTTTTTGTTACGAGTTTTTAAAT
131 AATTCAAGTGTGATGAAATTTTAAAGAATAATATCTTTTTTTGTTACGAGTTTTTAAAT
33656023 AGT
1 AGT
33656026 AAGGTACGTT
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
189 192 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (189 bp):
AGTTTAGATGATTATATTGCACACACTGTTTGCGGATTACGAAAATTTCATAAATGTCCTTTATT
TTTAAGACACCTTCTTAGGATTTTTAGTATCATTCTTAATCTTCTTTTCTTTTAGGTCACCGATT
AATTCAAGTGTGATGAAATTTTAAAGAATAATATCTTTTTTTGTTACGAGTTTTTAAAT
Found at i:33656200 original size:18 final size:17
Alignment explanation
Indices: 33656179--33656212 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33656169 CATTAAATAA
*
33656179 TTTTATTAATTTACATAT
1 TTTTAATAATTT-CATAT
33656197 TTTTAATAATTTCATA
1 TTTTAATAATTTCATA
33656213 AAAGTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAATAATTTCATAT
Found at i:33657945 original size:28 final size:29
Alignment explanation
Indices: 33657912--33657974 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
33657902 CATTAGATTT
*
33657912 TATAAAAATCTT-TAAAAATATTAAAAAA
1 TATAAAAATCTTATAAAAATAATAAAAAA
* * *
33657940 TGT-AAAATTTTATAAAAATAATAACAAA
1 TATAAAAATCTTATAAAAATAATAAAAAA
33657968 TATAAAA
1 TATAAAA
33657975 TGCATAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 7 0.25
28 18 0.64
29 3 0.11
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (29 bp):
TATAAAAATCTTATAAAAATAATAAAAAA
Found at i:33658167 original size:9 final size:9
Alignment explanation
Indices: 33658153--33658252 Score: 51
Period size: 10 Copynumber: 10.7 Consensus size: 9
33658143 GGTATGATAA
33658153 TTTTTATAT
1 TTTTTATAT
*
33658162 TTTTTACGA-
1 TTTTTA-TAT
* *
33658171 ATTTTATGT
1 TTTTTATAT
*
33658180 TTCTTTACAT
1 TT-TTTATAT
33658190 TTTTTATCAT
1 TTTTTAT-AT
* *
33658200 TTTCTATAAA
1 TTTTTAT-AT
*
33658210 ATTTTAT-T
1 TTTTTATAT
33658218 TTTTCTATAT
1 TTTT-TATAT
*
33658228 TTCTATATAT
1 TT-TTTATAT
*
33658238 TTTATATAT
1 TTTTTATAT
33658247 TTTTTA
1 TTTTTA
33658253 AGATTTTTAT
Statistics
Matches: 67, Mismatches: 17, Indels: 14
0.68 0.17 0.14
Matches are distributed among these distances:
8 3 0.04
9 31 0.46
10 32 0.48
11 1 0.01
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAT
Found at i:33658175 original size:19 final size:18
Alignment explanation
Indices: 33658151--33658202 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
33658141 TTGGTATGAT
33658151 AATTTTTATATTTTTTAC
1 AATTTTTATATTTTTTAC
*
33658169 GAA-TTTTATGTTTCTTTAC
1 -AATTTTTATATTT-TTTAC
*
33658188 ATTTTTTATCATTTT
1 AATTTTTAT-ATTTT
33658203 CTATAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 10 0.37
19 14 0.52
20 3 0.11
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (18 bp):
AATTTTTATATTTTTTAC
Found at i:33658193 original size:18 final size:18
Alignment explanation
Indices: 33658152--33658193 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33658142 TGGTATGATA
33658152 ATTTTTATATTTTTTACG
1 ATTTTTATATTTTTTACG
* *
33658170 AATTTTATGTTTCTTTAC-
1 ATTTTTATATTT-TTTACG
33658188 ATTTTT
1 ATTTTT
33658194 TATCATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (18 bp):
ATTTTTATATTTTTTACG
Found at i:33658215 original size:29 final size:28
Alignment explanation
Indices: 33658183--33658293 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
33658173 TTTATGTTTC
*
33658183 TTTACATTTTTTATCATTTTCTATAAAAT
1 TTTACATTTTTTATGATTTT-TATAAAAT
* * * *
33658212 TTTA-TTTTTTCTAT-ATTTCTATATATT
1 TTTACATTTTT-TATGATTTTTATAAAAT
* *
33658239 TTATATATTTTTTAAGATTTTTATAAAAT
1 TT-TACATTTTTTATGATTTTTATAAAAT
33658268 TTTACAATTTTTTATGATTTTTATAA
1 TTTAC-ATTTTTTATGATTTTTATAA
33658294 TGTTTTTCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
27 8 0.12
28 15 0.23
29 43 0.65
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTACATTTTTTATGATTTTTATAAAAT
Found at i:33658299 original size:11 final size:10
Alignment explanation
Indices: 33658237--33658309 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
33658227 TTTCTATATA
33658237 TTTTATATATT
1 TTTTATA-ATT
33658248 TTTTA-AGA-T
1 TTTTATA-ATT
**
33658257 TTTTATAAAA
1 TTTTATAATT
*
33658267 TTTTACAATT
1 TTTTATAATT
*
33658277 TTTTATGA-T
1 TTTTATAATT
33658286 TTTTATAATGT
1 TTTTATAAT-T
*
33658297 TTTTCTAATT
1 TTTTATAATT
33658307 TTT
1 TTT
33658310 AGTAAAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
9 15 0.31
10 20 0.41
11 14 0.29
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:33658299 original size:29 final size:30
Alignment explanation
Indices: 33658236--33658309 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
33658226 ATTTCTATAT
33658236 ATTTTA-TATATTTTTTAAGATTTTTATAAA
1 ATTTTACTA-ATTTTTTAAGATTTTTATAAA
* *
33658266 ATTTTAC-AATTTTTTATGATTTTTATAAT
1 ATTTTACTAATTTTTTAAGATTTTTATAAA
* *
33658295 GTTTTTCTAATTTTT
1 ATTTTACTAATTTTT
33658310 AGTAAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (30 bp):
ATTTTACTAATTTTTTAAGATTTTTATAAA
Found at i:33660385 original size:18 final size:18
Alignment explanation
Indices: 33660362--33660400 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33660352 GTAAATAGTG
*
33660362 TAAAATTTATATGAT-ATT
1 TAAAATATATAT-ATAATT
33660380 TAAAATATATATATAATT
1 TAAAATATATATATAATT
33660398 TAA
1 TAA
33660401 TAGTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAAATATATATATAATT
Found at i:33669335 original size:22 final size:22
Alignment explanation
Indices: 33669305--33669362 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
33669295 CGTGTTATAT
*
33669305 TTTAGTCATTTATTTTACTTTA
1 TTTATTCATTTATTTTACTTTA
*
33669327 TTTATTCATTTA-TTTATTTTA
1 TTTATTCATTTATTTTACTTTA
*
33669348 TATAATTCA-TTATTT
1 T-TTATTCATTTATTT
33669363 CAATTACAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTATTCATTTATTTTACTTTA
Found at i:33673992 original size:26 final size:27
Alignment explanation
Indices: 33673941--33674003 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
33673931 TGAATATTTT
33673941 ATATTAAATTTTTTTGTTTGAAT-AAA
1 ATATTAAATTTTTTTGTTTGAATAAAA
* * *
33673967 ATATT-AATTTTTTTATTTTTATTAAAA
1 ATATTAAATTTTTTT-GTTTGAATAAAA
33673994 ATATTTAAAT
1 ATA-TTAAAT
33674004 ATAAATACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 9 0.30
26 10 0.33
27 6 0.20
28 2 0.07
29 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
ATATTAAATTTTTTTGTTTGAATAAAA
Found at i:33674266 original size:14 final size:14
Alignment explanation
Indices: 33674249--33674290 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
33674239 CGGAAGAGAG
33674249 GAAGGAAAAGAAGA
1 GAAGGAAAAGAAGA
33674263 GAA-GAAGAAGAAGA
1 GAAGGAA-AAGAAGA
*
33674277 GAAGAAAAAGAAGA
1 GAAGGAAAAGAAGA
33674291 AAGAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 20 0.80
15 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAAGGAAAAGAAGA
Found at i:33674276 original size:17 final size:17
Alignment explanation
Indices: 33674241--33674291 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
33674231 TTCATGAACG
*
33674241 GAAGAGAGGAAGGAA-AA
1 GAAGAGAAGAA-GAAGAA
33674258 GAAGAGAAGAAGAAGAA
1 GAAGAGAAGAAGAAGAA
*
33674275 G-AGAAGAAAAAGAAGAA
1 GAAG-AGAAGAAGAAGAA
33674292 AGAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
GAAGAGAAGAAGAAGAA
Found at i:33674526 original size:60 final size:60
Alignment explanation
Indices: 33674461--33674579 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
33674451 TTTCTTTTTA
* * * *
33674461 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGCGTTTG
*
33674521 TAATTATTTTACAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGCGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGCGTTT
33674580 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGCGTTTG
Found at i:33674968 original size:6 final size:6
Alignment explanation
Indices: 33674957--33674985 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33674947 TTAGTGATTT
33674957 AATATA AATATA AATATA AATATA AATAT
1 AATATA AATATA AATATA AATATA AATAT
33674986 TATTTAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:33675257 original size:56 final size:56
Alignment explanation
Indices: 33675134--33675306 Score: 244
Period size: 56 Copynumber: 3.1 Consensus size: 56
33675124 ATATTTTATT
* * *
33675134 AAAAGAAAAAAAATTTAATATAAAAAATTCATTGACGCCTGTCAGATAGGCGCCATTA
1 AAAAG-AAAAAAA-TTAATATAAAAAATTCATTGGCACCTGTCAGATAGACGCCATTA
*
33675192 AAAAG-AAAAAATTAATATAAAAAATTCACTGGCACCTGTCAGATAGACGCCATTA
1 AAAAGAAAAAAATTAATATAAAAAATTCATTGGCACCTGTCAGATAGACGCCATTA
*
33675247 AAAAGAAAAAAATTAATATAAAAAATTCATTGG-AGCC-GATTAGATAGACGCCATTA
1 AAAAGAAAAAAATTAATATAAAAAATTCATTGGCA-CCTG-TCAGATAGACGCCATTA
33675303 AAAA
1 AAAA
33675307 AAACATATCA
Statistics
Matches: 106, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
55 47 0.44
56 54 0.51
58 5 0.05
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (56 bp):
AAAAGAAAAAAATTAATATAAAAAATTCATTGGCACCTGTCAGATAGACGCCATTA
Found at i:33676586 original size:34 final size:32
Alignment explanation
Indices: 33676503--33676587 Score: 100
Period size: 34 Copynumber: 2.6 Consensus size: 32
33676493 TATAACAAAT
*
33676503 ATATTTTTTATTTTTA-TTTTTTAATTTTAAA
1 ATATTTTTTTTTTTTATTTTTTTAATTTTAAA
* *
33676534 ATACTTTAATTTTTTTTATTTTTTTATTTTTAAA
1 ATA-TTT-TTTTTTTTTATTTTTTTAATTTTAAA
33676568 ATATTTTTTTTGTGTTTATT
1 ATATTTTTTTT-T-TTTATT
33676588 AAAAGCCGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
31 3 0.07
32 7 0.16
33 12 0.27
34 23 0.51
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.72
Consensus pattern (32 bp):
ATATTTTTTTTTTTTATTTTTTTAATTTTAAA
Found at i:33676818 original size:21 final size:22
Alignment explanation
Indices: 33676776--33676818 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
33676766 TGACCCGAGA
***
33676776 AAAAAATTAATGATATTTTATT
1 AAAAAATTAATGATAAAATATT
33676798 AAAAAATTAAT-ATAAAATATT
1 AAAAAATTAATGATAAAATATT
33676819 GATTAGAGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAAAATTAATGATAAAATATT
Found at i:33676856 original size:52 final size:52
Alignment explanation
Indices: 33676800--33676900 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
33676790 ATTTTATTAA
*
33676800 AAAATTAATATAAAATATTGATTAGAGCCTATCAAATAGGCGCCATTAAAAG
1 AAAATTAATATAAAATATTCATTAGAGCCTATCAAATAGGCGCCATTAAAAG
* * * * *
33676852 AAAATTAATATAAAATATTCATTAGTGTCTCTCGAATATGCGCCATTAA
1 AAAATTAATATAAAATATTCATTAGAGCCTATCAAATAGGCGCCATTAA
33676901 GAAAAACATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (52 bp):
AAAATTAATATAAAATATTCATTAGAGCCTATCAAATAGGCGCCATTAAAAG
Found at i:33677881 original size:16 final size:16
Alignment explanation
Indices: 33677860--33677911 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
33677850 TTCTAATAGT
33677860 TTTTTTATATTTGTTA
1 TTTTTTATATTTGTTA
* * *
33677876 TTTTTT-TAATCGTTT
1 TTTTTTATATTTGTTA
33677891 TTTTTTATATTTGTTA
1 TTTTTTATATTTGTTA
33677907 GTTTT
1 -TTTT
33677912 CTCTTTCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 12 0.43
16 12 0.43
17 4 0.14
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (16 bp):
TTTTTTATATTTGTTA
Found at i:33677891 original size:29 final size:30
Alignment explanation
Indices: 33677853--33677911 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
33677843 CTTGTTGTTC
*
33677853 TAATAG-TTTTTTTATATTTGTTATTTTTT
1 TAATAGTTTTTTTTATATTTGTTAGTTTTT
*
33677882 TAATCGTTTTTTTTTATATTTGTTAGTTTT
1 TAATAG-TTTTTTTTATATTTGTTAGTTTT
33677912 CTCTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
31 21 0.81
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (30 bp):
TAATAGTTTTTTTTATATTTGTTAGTTTTT
Found at i:33678315 original size:12 final size:12
Alignment explanation
Indices: 33678298--33678323 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33678288 AGTTTAACCG
33678298 TTAATGTGTATT
1 TTAATGTGTATT
33678310 TTAATGTGTATT
1 TTAATGTGTATT
33678322 TT
1 TT
33678324 CCTTTTTCTG
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:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TTAATGTGTATT
Found at i:33683383 original size:18 final size:17
Alignment explanation
Indices: 33683362--33683395 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33683352 CATTAAATAA
*
33683362 TTTTATTAATTTACATAT
1 TTTTAATAATTT-CATAT
33683380 TTTTAATAATTTCATA
1 TTTTAATAATTTCATA
33683396 AAAGTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAATAATTTCATAT
Found at i:33689299 original size:85 final size:87
Alignment explanation
Indices: 33689154--33689345 Score: 194
Period size: 85 Copynumber: 2.2 Consensus size: 87
33689144 CTCAAACTTA
* * * * * *
33689154 AAAAAAAAATTAAGCCCTTATTTTTTTTTTGCACTCAATTAGGTACTTAAATTTTTAAAATACAT
1 AAAAAAAAATTAAGCTCTTA-TTTTTTTTTCCACTCAATTAGGTAATTAAACTGTCAAAATACAT
* * *
33689219 CAAAAAG-GCCCTCAAACTTTTTT
65 CAAAAAGAGACC-CAAAATTTTTC
* * * *
33689242 TAAAAAAAATTAAGCTC-TA-TTTTTTTTCCACTCAATT-GGATAATTGAACTGTCAAAATGCGT
1 AAAAAAAAATTAAGCTCTTATTTTTTTTTCCACTCAATTAGG-TAATTAAACTGTCAAAATACAT
33689304 CAAAAAGAGACCCAAAATTTTTC
65 CAAAAAGAGACCCAAAATTTTTC
33689327 AAAAAAAGCAATTAAGCTC
1 AAAAAAA--AATTAAGCTC
33689346 CTACTTTTCT
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
84 2 0.02
85 54 0.63
86 3 0.03
87 12 0.14
88 15 0.17
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (87 bp):
AAAAAAAAATTAAGCTCTTATTTTTTTTTCCACTCAATTAGGTAATTAAACTGTCAAAATACATC
AAAAAGAGACCCAAAATTTTTC
Found at i:33689512 original size:19 final size:18
Alignment explanation
Indices: 33689487--33689630 Score: 77
Period size: 18 Copynumber: 7.8 Consensus size: 18
33689477 CACATGTGAC
33689487 AAAAAAAGTTATAAAAA-T
1 AAAAAAA-TTATAAAAATT
**
33689505 ATAAAAAA-TATTAAACTTT
1 A-AAAAAATTA-TAAAAATT
* *
33689524 AATAAAAGTATAAAAATT
1 AAAAAAATTATAAAAATT
* *
33689542 -TAAAATTTACTAAAAATT
1 AAAAAAATTA-TAAAAATT
33689560 AAAAAAAATTA-AAAAATCTT
1 -AAAAAAATTATAAAAA--TT
33689580 AAAAAAATTA-AAAAATGT
1 AAAAAAATTATAAAAAT-T
**
33689598 -AAAATTTTATAAAAATAAT
1 AAAAAAATTATAAAAAT--T
33689617 AAAAAAA-TATAAAA
1 AAAAAAATTATAAAA
33689631 TGCATAAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
17 15 0.15
18 36 0.37
19 33 0.34
20 13 0.13
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAAATTATAAAAATT
Found at i:33689545 original size:26 final size:27
Alignment explanation
Indices: 33689497--33689631 Score: 109
Period size: 26 Copynumber: 4.9 Consensus size: 27
33689487 AAAAAAAGTT
*
33689497 ATAAAAATATAAAAAATATTAAACTTTA
1 ATAAAAATAT-AAAAATATTAAAATTTA
*
33689525 ATAAAAGTATAAAAAT-TTAAAATTTA
1 ATAAAAATATAAAAATATTAAAATTTA
* *
33689551 CTAAAAAT-TAAAAAAAATTAAAAAATCTTA
1 ATAAAAATAT-AAAAATATT--AAAAT-TTA
*
33689581 A-AAAAAT-TAAAAA-ATGTAAAATTTT
1 ATAAAAATATAAAAATAT-TAAAATTTA
*
33689606 ATAAAAATAATAAAAAAATATAAAAT
1 ATAAAAAT-ATAAAAATAT-TAAAAT
33689632 GCATAAAAAG
Statistics
Matches: 89, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.04
26 31 0.35
27 10 0.11
28 21 0.24
29 20 0.22
30 3 0.03
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (27 bp):
ATAAAAATATAAAAATATTAAAATTTA
Found at i:33689926 original size:9 final size:9
Alignment explanation
Indices: 33689914--33690069 Score: 50
Period size: 9 Copynumber: 16.4 Consensus size: 9
33689904 TTTCTATATA
33689914 TTTTATAAT
1 TTTTATAAT
33689923 TTTT-TACGAT
1 TTTTATA--AT
*
33689933 TTTTATAAAA
1 TTTTAT-AAT
*
33689943 TTTTACAATT
1 TTTTATAA-T
*
33689953 TTTTATGAT
1 TTTTATAAT
33689962 TTTTATAATCT
1 TTTTATAA--T
*
33689973 TTTTCTAAT
1 TTTTATAAT
33689982 TTTTAATAA-
1 TTTT-ATAAT
** *
33689991 AATTAAATAT
1 TTTTATA-AT
*
33690001 TTCTTATATT
1 TT-TTATAAT
*
33690011 TTTTATTAAAA
1 TTTTA-T-AAT
* *
33690022 TTTAATAAC
1 TTTTATAAT
*
33690031 TTTTATAAC
1 TTTTATAAT
*
33690040 TTTTATTGAT
1 TTTTA-TAAT
33690050 TTTTAT--T
1 TTTTATAAT
*
33690057 TTTTATCAT
1 TTTTATAAT
33690066 TTTT
1 TTTT
33690070 TGCCACATGT
Statistics
Matches: 109, Mismatches: 22, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
7 7 0.06
8 4 0.04
9 46 0.42
10 33 0.30
11 18 0.17
12 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:33689936 original size:19 final size:19
Alignment explanation
Indices: 33689817--33689965 Score: 67
Period size: 19 Copynumber: 7.8 Consensus size: 19
33689807 TGGTATGATA
*
33689817 ATTTTTATATTTTTTTACG
1 ATTTTTATAATTTTTTACG
*
33689836 AATTTTAT-ATTTCTTTAC-
1 ATTTTTATAATTT-TTTACG
* *
33689854 ATTTTTTATCAGTTTCTTACG
1 A-TTTTTAT-AATTTTTTACG
* * * *
33689875 ATTTTATAAAATTATATA-T
1 ATTTT-TATAATTTTTTACG
* *
33689894 ATTTTCTAT-A-TTTCTA-T
1 ATTTT-TATAATTTTTTACG
33689911 ATATTTTATAATTTTTTACG
1 AT-TTTTATAATTTTTTACG
** *
33689931 ATTTTTATAAAATTTTACA
1 ATTTTTATAATTTTTTACG
*
33689950 ATTTTTTATGATTTTT
1 A-TTTTTATAATTTTT
33689966 ATAATCTTTT
Statistics
Matches: 96, Mismatches: 23, Indels: 21
0.69 0.16 0.15
Matches are distributed among these distances:
17 10 0.10
18 9 0.09
19 45 0.47
20 26 0.27
21 6 0.06
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATTTTTTACG
Found at i:33689946 original size:29 final size:29
Alignment explanation
Indices: 33689870--33689969 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
33689860 TATCAGTTTC
*
33689870 TTACGA-TTTTATAAAATTATATATATTTT
1 TTACGATTTTTATAAAATTTTATA-ATTTT
* * * *
33689899 CTA-TATTTCTAT-ATATTTTATAATTTT
1 TTACGATTTTTATAAAATTTTATAATTTT
*
33689926 TTACGATTTTTATAAAATTTTACAATTTT
1 TTACGATTTTTATAAAATTTTATAATTTT
*
33689955 TTATGATTTTTATAA
1 TTACGATTTTTATAA
33689970 TCTTTTTCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 7 0.12
28 16 0.28
29 34 0.60
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (29 bp):
TTACGATTTTTATAAAATTTTATAATTTT
Found at i:33689975 original size:11 final size:10
Alignment explanation
Indices: 33689914--33689990 Score: 59
Period size: 10 Copynumber: 7.8 Consensus size: 10
33689904 TTTCTATATA
33689914 TTTTATAATT
1 TTTTATAATT
**
33689924 TTTTACGA-T
1 TTTTATAATT
**
33689933 TTTTATAAAA
1 TTTTATAATT
*
33689943 TTTTACAATT
1 TTTTATAATT
*
33689953 TTTTATGA-T
1 TTTTATAATT
33689962 TTTTATAATCT
1 TTTTATAAT-T
*
33689973 TTTTCTAATT
1 TTTTATAATT
*
33689983 TTTAATAA
1 TTTTATAA
33689991 AATTAAATAT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
9 15 0.30
10 26 0.52
11 9 0.18
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:33689986 original size:29 final size:30
Alignment explanation
Indices: 33689914--33689985 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
33689904 TTTCTATATA
*
33689914 TTTTATAATTTTTTACGATTTTTATAAAAT
1 TTTTCTAATTTTTTACGATTTTTATAAAAT
* * **
33689944 TTTAC-AATTTTTTATGATTTTTATAATCT
1 TTTTCTAATTTTTTACGATTTTTATAAAAT
33689973 TTTTCTAATTTTT
1 TTTTCTAATTTTT
33689986 AATAAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 25 0.71
30 10 0.29
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (30 bp):
TTTTCTAATTTTTTACGATTTTTATAAAAT
Found at i:33690036 original size:29 final size:29
Alignment explanation
Indices: 33689978--33690046 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
33689968 AATCTTTTTC
* *
33689978 TAATTTTTAATAAAATTAAATATTTCTTA
1 TAATTTTTATTAAAATTAAATACTTCTTA
* *
33690007 TATTTTTTATTAAAATTTAATAACTT-TTA
1 TAATTTTTATTAAAATTAAAT-ACTTCTTA
*
33690036 TAACTTTTATT
1 TAATTTTTATT
33690047 GATTTTTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (29 bp):
TAATTTTTATTAAAATTAAATACTTCTTA
Found at i:33693856 original size:94 final size:96
Alignment explanation
Indices: 33693687--33693870 Score: 300
Period size: 94 Copynumber: 1.9 Consensus size: 96
33693677 GTAATCTATA
*
33693687 CCGAAAATATTAAACACGTCCATTCATTTTGAAACCTTTTTTTTTAGATAATTACGTTTATCTTT
1 CCGAAAATATTAAACACGTCCATTCATTTTGAAACC-TTTTTTTTAGATAATTACATTTATCTTT
33693752 AAATTAAGAGTTATTTTTTTAACTTATTATTG
65 AAATTAAGAGTTATTTTTTTAACTTATTATTG
* ** *
33693784 CCGAAAATATTAAACATGTGTATTCATTTTGAAA-C-TTTTTTTAGATAATTATATTTATCTTTA
1 CCGAAAATATTAAACACGTCCATTCATTTTGAAACCTTTTTTTTAGATAATTACATTTATCTTTA
33693847 AATTAAGAGTTATTTTTTTAACTT
66 AATTAAGAGTTATTTTTTTAACTT
33693871 CATGAATTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
94 50 0.61
96 1 0.01
97 31 0.38
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (96 bp):
CCGAAAATATTAAACACGTCCATTCATTTTGAAACCTTTTTTTTAGATAATTACATTTATCTTTA
AATTAAGAGTTATTTTTTTAACTTATTATTG
Found at i:33695535 original size:27 final size:27
Alignment explanation
Indices: 33695497--33695577 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
33695487 GATATCTGCT
* * * *
33695497 CCGAAGTACCCCAACAGGTTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
33695524 CCGAAATACCCCCATAGGGTAGAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
33695551 CCCAAATACCCCCATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
33695578 TTGTTATACC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.15
Consensus pattern (27 bp):
CCGAAATACCCCCATAGGGTAAAATGA
Found at i:33698638 original size:27 final size:26
Alignment explanation
Indices: 33698580--33698630 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
33698570 TTAATTTTAG
* *
33698580 AATAAATAATATATAAAATAACTTAA
1 AATAAATAATATACAAAACAACTTAA
33698606 AATAAAATAATATACAAAACAACTT
1 AAT-AAATAATATACAAAACAACTT
33698631 GATGTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (26 bp):
AATAAATAATATACAAAACAACTTAA
Found at i:33699896 original size:21 final size:22
Alignment explanation
Indices: 33699870--33699912 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
33699860 GGGCCAGGGT
33699870 ATTGGGCTTAG-GTTTAGGCTA
1 ATTGGGCTTAGTGTTTAGGCTA
* *
33699891 ATTGGGTTTAGTGTTTGGGCTA
1 ATTGGGCTTAGTGTTTAGGCTA
33699913 GGTTAATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.16, C:0.07, G:0.35, T:0.42
Consensus pattern (22 bp):
ATTGGGCTTAGTGTTTAGGCTA
Found at i:33700668 original size:60 final size:61
Alignment explanation
Indices: 33700574--33700694 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 61
33700564 TTAGTCGAAG
* * **
33700574 GTAAAAATGTAATCGTGCTTTATATCTTAAAATGTATTAATGACCATATATTTATAATTTT
1 GTAAAAATATAATCGTGCTTAATATCTTAAAATGTATTAACAACCATATATTTATAATTTT
*
33700635 GTAAAAATATAATTGT-CTTAATATCTTAAAATGTATTAACAACCATATATTTATAATTTT
1 GTAAAAATATAATCGTGCTTAATATCTTAAAATGTATTAACAACCATATATTTATAATTTT
33700695 CAATTACATT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
60 41 0.75
61 14 0.25
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (61 bp):
GTAAAAATATAATCGTGCTTAATATCTTAAAATGTATTAACAACCATATATTTATAATTTT
Found at i:33711510 original size:21 final size:21
Alignment explanation
Indices: 33711486--33711529 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33711476 TTCCCTCTCG
*
33711486 TTCCTTCTATTCTT-TTCTTCC
1 TTCCTCCTATTCTTCTT-TTCC
*
33711507 TTCCTCCTTTTCTTCTTTTCC
1 TTCCTCCTATTCTTCTTTTCC
33711528 TT
1 TT
33711530 TTCTCTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (21 bp):
TTCCTCCTATTCTTCTTTTCC
Found at i:33711518 original size:16 final size:14
Alignment explanation
Indices: 33711497--33711539 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
33711487 TCCTTCTATT
33711497 CTTTTCTTCCTTCCTC
1 CTTTTCTT-CTT-CTC
*
33711513 CTTTTCTTCTTTTC
1 CTTTTCTTCTTCTC
33711527 CTTTTC-TCTTCTC
1 CTTTTCTTCTTCTC
33711540 TTTCCCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 3 0.12
16 8 0.32
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
CTTTTCTTCTTCTC
Found at i:33712174 original size:30 final size:29
Alignment explanation
Indices: 33712137--33712251 Score: 126
Period size: 30 Copynumber: 3.9 Consensus size: 29
33712127 TAGGGCTGAG
*
33712137 ATGTAATTTTTAGAAAGTTTAGAGGTCAA
1 ATGTAATTTTTAGAAAGTTTAGGGGTCAA
* *
33712166 AGTGTAATTTTAAGAAAGTTTAGGGGTTGAA
1 A-TGTAATTTTTAGAAAGTTTAGGGG-TCAA
33712197 ATGTAA-TTTTAGAAAAGTTT-GGGGTCAAA
1 ATGTAATTTTTAG-AAAGTTTAGGGGTC-AA
* * *
33712226 ATGTAAATTTTAAAAAGTATAGGGGT
1 ATGTAATTTTTAGAAAGTTTAGGGGT
33712252 TAAAACATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.01
29 24 0.33
30 44 0.60
31 4 0.05
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (29 bp):
ATGTAATTTTTAGAAAGTTTAGGGGTCAA
Found at i:33712250 original size:59 final size:58
Alignment explanation
Indices: 33712096--33712252 Score: 176
Period size: 59 Copynumber: 2.7 Consensus size: 58
33712086 ACACAAAATA
* * * *
33712096 TTTGGGGTAAAAATGTAATTTTGGGAAAA-TATA-GGGCTGAGATGTAATTTTTAGAAAG
1 TTTGGGGTCAAAATGTAATTTT--AAAAAGTATAGGGGTTGAAATGTAATTTTTAGAAAG
* * *
33712154 TTTAGAGGTCAAAGTGTAATTTTAAGAAAGTTTAGGGGTTGAAATGTAA-TTTTAGAAAAG
1 TTT-GGGGTCAAAATGTAATTTTAA-AAAGTATAGGGGTTGAAATGTAATTTTTAG-AAAG
33712214 TTTGGGGTCAAAATGTAAATTTTAAAAAGTATAGGGGTT
1 TTTGGGGTCAAAATGT-AATTTTAAAAAGTATAGGGGTT
33712253 AAAACATAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
57 1 0.01
58 6 0.07
59 49 0.59
60 27 0.33
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (58 bp):
TTTGGGGTCAAAATGTAATTTTAAAAAGTATAGGGGTTGAAATGTAATTTTTAGAAAG
Found at i:33712793 original size:79 final size:74
Alignment explanation
Indices: 33712581--33714027 Score: 1391
Period size: 79 Copynumber: 18.7 Consensus size: 74
33712571 GATTCGAAGT
* * * *** * * * *
33712581 TCAACTCACTTCTCGGATTATGAGTTGAGCCTTGAAAAATAGAAATTGAAAAATACCTCGACGTG
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTC-A-GCG
* *
33712646 TGTCGCGAGGC
64 TGACCCGAGGC
* * *
33712657 TCAACTC-CCTCTCGCAATATGAGTTGATTTTTAACAACAAAACAGAAATGTAAAAGAAGTATCT
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTT---AA-AAAACAGAAAT-TTAAA-AA-TACCT
* *
33712721 CGGTATGTGACCCGAGGC
59 CAG--CGTGACCCGAGGC
* * * * *
33712739 TTAACTCACCTCTCGCAATATGAGTTGGTTTGTGAAAAACAGAAATTTAAAAGAAATACCTCAGC
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTT--AA-AAATACCTCAGC
33712804 ATGTGACCCGAGGC
63 --GTGACCCGAGGC
* * * * *
33712818 TCAACTCACTTCTCGCAATATGAGTTGGTTTGTGAAAAACAGAAATTTAAAAGAAATACCTCAGC
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTT--AA-AAATACCTCAGC
33712883 ATGTGACCCGAGGC
63 --GTGACCCGAGGC
* * * * *
33712897 TCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAACAAAACAAAAATGTAAAAGAAGTACCT
1 TCAACTCACCTCTCGTAATATGAGTTGATTTT---TAA-AAAACAGAAAT-TTAAA-AA-TACCT
* *
33712962 CGGTATGTGACCCGAGGC
59 CAG--CGTGACCCGAGGC
* * * * *
33712980 TCAACTCACCTCTCGCAATATGAGTTGATTTGTGAAAAATAGAAATTTAAAAGAAATACCTCAAC
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTT--AA-AAATACCTCAGC
*
33713045 ATGTGACCCGATGC
63 --GTGACCCGAGGC
* * *
33713059 TCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAACAGAAA-TTAAAAATACCTCAGCG
1 TCAACTCACCTCTCGTAATATGAGTTGATTTT--TAAAAAACAGAAATTTAAAAATACCTCAGCG
33713123 TGACCCGAGGC
64 TGACCCGAGGC
* * *
33713134 TCAACTCACCTTTCGTATTATGAGTTGATTTTTAAAAAAAAAGACAGAAA-TTAAAAACACCTCA
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTT----AAAAA-ACAGAAATTTAAAAATACCTCA
*
33713198 GCATGACCCGAGGC
61 GCGTGACCCGAGGC
*
33713212 TTCAACTCACCTCTCG-AATTATGAGTTTATTTTTAAAAAAGACAGAAA-TTAAAAATACCTCAG
1 -TCAACTCACCTCTCGTAA-TATGAGTTGATTTTT-AAAAA-ACAGAAATTTAAAAATACCTCAG
*
33713275 CGTGACTCGAGGC
62 CGTGACCCGAGGC
* * *
33713288 TCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGC
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTT--AA-AAATACCTCAGC
33713353 ATGTGACCCGAGGC
63 --GTGACCCGAGGC
* ** ** * *
33713367 TCAACTCACTTCTCACAATATGAGTTGATTTAAAAAAAATAGAAA-TTAAAAATACCTCAGCTTG
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCAGCGTG
*
33713431 ACCCAAGGC
66 ACCCGAGGC
* * * * *
33713440 TCAAATCACCTCTCGTATTATGAGTTGATTTTTTTTAAAAAAGATAAAAATTAAAAATACCTCAG
1 TCAACTCACCTCTCGTAATATGAGTTGA---TTTTTAAAAAACA-GAAATTTAAAAATACCTCAG
33713505 CGTGACCCGAGGC
62 CGTGACCCGAGGC
* * *
33713518 TTCAACTCACCTATCGTATTATGAGTTGATTTTTAAAAAAGACAGAAA-TTAAAAATACCTAAGC
1 -TCAACTCACCTCTCGTAATATGAGTTGATTTTT-AAAAA-ACAGAAATTTAAAAATACCTCAGC
33713582 GTGACCCGAGGC
63 GTGACCCGAGGC
* * *
33713594 TCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGC
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTT--AA-AAATACCTCAGC
*
33713659 ATGTGACCCGATGC
63 --GTGACCCGAGGC
* * * ** *
33713673 TGAACTCACTTCTCGCAATATGAGTTGATTTAAAAAAAACA-AAAATTAAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCAGCGTG
33713737 ACCCGAGGC
66 ACCCGAGGC
* * *
33713746 TCAACTCACATCTCGTATTATGAGTTGATTTTTAAAAAACAGACAGAAATTAAAAATACCTCAGC
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAG--A-AATTTAAAAATACCTCAGC
33713811 GTGACCCGAGGC
63 GTGACCCGAGGC
*
33713823 TTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAGACAGAAA-TTAAAAATACCTCAG
1 -TCAACTCACCTCTCGTAATATGAGTTGATTTTT--AAAAA-ACAGAAATTTAAAAATACCTCAG
33713887 CGTGACCCGAGGC
62 CGTGACCCGAGGC
* *
33713900 TCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAATTAAAAAATACCTCAGCGT
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTT-AAAAAACAGAAATTTAAAAATACCTCAGCGT
33713965 GACCCGAGGC
65 GACCCGAGGC
* * * * *
33713975 TCAACTCACCTATCGTATTATGAGTTGATTTTTGAAAAACAAAAATTAAAAAA
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAA
33714028 ATATAATTCT
Statistics
Matches: 1186, Mismatches: 117, Indels: 138
0.82 0.08 0.10
Matches are distributed among these distances:
73 93 0.08
74 37 0.03
75 205 0.17
76 131 0.11
77 109 0.09
78 108 0.09
79 352 0.30
80 22 0.02
81 19 0.02
82 27 0.02
83 82 0.07
84 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (74 bp):
TCAACTCACCTCTCGTAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAATACCTCAGCGTG
ACCCGAGGC
Found at i:33713217 original size:154 final size:151
Alignment explanation
Indices: 33712615--33714026 Score: 1538
Period size: 154 Copynumber: 9.1 Consensus size: 151
33712605 TTGAGCCTTG
* * * * * *
33712615 AAAAATAGAAATTGAAAAATACCTCGACGTGTGTCGCGAGGCTCAACTC-CCTCTCGCAATATGA
1 AAAAACAGAAATT-AAAAATACCTC-A-GCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGA
* * * *
33712679 GTTGATTTTTAACAACAAAACAGAAATGTAAAAGAAGTATCTCGGTATGTGACCCGAGGCTTAAC
63 GTTGATTTTTAA-AA-AAAACAGAAAT-TAAAA-AA-TACCTCAGCA-GTGACCCGAGGCTCAAC
* *
33712744 TCACCTCTCGCAATATGAGTTGGTTTGT--G
122 TCACCTCTCGCAATATGAGTTGATTT-TAAA
* * *
33712773 AAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATA
1 AAAAACAGAAA-TT--AA-AAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTATTA
* * *
33712838 TGAGTTGGTTTGT--GAAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGACCCGAGGCTCAA
60 TGAGTTGATTTTTAAAAAAAACAGAAA-TT-AAA-AAATACCTCAGCA-GTGACCCGAGGCTCAA
*
33712901 CTCACTTCTCGCAATATGAGTTGATTTTAAAAA
121 CTCACCTCTCGCAATATGAGTTGATTTT--AAA
* * * * *
33712934 ACAAAACAAAAATGTAAAAGAAGTACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 A-AAAACAGAAAT-T-AAA-AA-TACCTCAG--CGTGACCCGAGGCTCAACTCACCTCTCGTATT
* * * * *
33712999 ATGAGTTGATTTGT--GAAAAATAGAAATTTAAAAGAAATACCTCAACATGTGACCCGATGCTCA
59 ATGAGTTGATTTTTAAAAAAAACAGAAA-TT-AAA-AAATACCTCAGCA-GTGACCCGAGGCTCA
*
33713062 ACTCACTTCTCGCAATATGAGTTGATTTTAAAA
120 ACTCACCTCTCGCAATATGAGTTGATTTT-AAA
*
33713095 AAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTTTCGTATTATGAGTT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTT
*
33713160 GATTTTTAAAAAAAAAGACAGAAATT-AAAAACACCTCAGCA-TGACCCGAGGCTTCAACTCACC
66 GATTTTT--AAAAAAA-ACAGAAATTAAAAAATACCTCAGCAGTGACCCGAGGC-TCAACTCACC
*
33713223 TCTCG-AATTATGAGTTTATTTTTAAA
127 TCTCGCAA-TATGAGTTGA-TTTTAAA
* *
33713249 AAAGACAGAAATTAAAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTCGTATTATGAGTT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTT
** *
33713314 GA--TTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGACCCGAGGCTCAACTCACT
66 GATTTTTAAAAAAAACAGAAA-TT-AAA-AAATACCTCAGCA-GTGACCCGAGGCTCAACTCACC
*
33713377 TCTCACAATATGAGTTGA-TTTAAA
127 TCTCGCAATATGAGTTGATTTTAAA
* * * *
33713401 AAAAATAGAAATTAAAAATACCTCAGCTTGACCCAAGGCTCAAATCACCTCTCGTATTATGAGTT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTT
* * *
33713466 GATTTTTTTTAAAAAAGATAAAAATT-AAAAATACCTCAGC-GTGACCCGAGGCTTCAACTCACC
66 GA---TTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCAGTGACCCGAGGC-TCAACTCACC
* * *
33713529 TATCGTATTATGAGTTGATTTTTAAA
127 TCTCGCAATATGAGTTGA-TTTTAAA
* *
33713555 AAAGACAGAAATTAAAAATACCTAAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTT
** * * *
33713620 GA--TTTATGAAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGACCCGATGCTGAACTCACT
66 GATTTTTAAAAAAAACAGAAA-TT-AAA-AAATACCTCAGCA-GTGACCCGAGGCTCAACTCACC
33713683 TCTCGCAATATGAGTTGA-TTTAAA
127 TCTCGCAATATGAGTTGATTTTAAA
* *
33713707 AAAAACAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACATCTCGTATTATGAGTT
1 AAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTT
33713772 GATTTTTAAAAAACAGACAGAAATT-AAAAATACCTCAGC-GTGACCCGAGGCTTCAACTCACCT
66 GATTTTTAAAAAA-A-ACAGAAATTAAAAAATACCTCAGCAGTGACCCGAGGC-TCAACTCACCT
* *
33713835 CTCGTATTATGAGTTGATTTTTAAA
128 CTCGCAATATGAGTTGA-TTTTAAA
33713860 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
1 AAAA-ACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGT
* *
33713925 TGATTTTT-GAAAAAACAGAAATTAAAAAATACCTCAGC-GTGACCCGAGGCTCAACTCACCTAT
65 TGATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCT
* * **
33713988 CGTATTATGAGTTGATTTT-TG
130 CGCAATATGAGTTGATTTTAAA
*
33714009 AAAAACAAAAATTAAAAA
1 AAAAACAGAAATTAAAAA
33714027 AATATAATTC
Statistics
Matches: 1099, Mismatches: 98, Indels: 124
0.83 0.07 0.09
Matches are distributed among these distances:
148 13 0.01
149 23 0.02
150 24 0.02
151 72 0.07
152 205 0.19
153 64 0.06
154 318 0.29
155 42 0.04
156 18 0.02
157 15 0.01
158 78 0.07
159 17 0.02
160 15 0.01
161 38 0.03
162 157 0.14
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (151 bp):
AAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTT
GATTTTTAAAAAAAACAGAAATTAAAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTAAA
Found at i:33713542 original size:306 final size:306
Alignment explanation
Indices: 33712580--33714026 Score: 1808
Period size: 306 Copynumber: 4.7 Consensus size: 306
33712570 CGATTCGAAG
* * *** * *
33712580 TTCAACTCACTTCTCGGATTATGAGTTGAGCCTT-GAAAA-ATAGAAATTGAAAAATACCTCGAC
1 TTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAGACAGAAATT-AAAAATACCTC-A-
* * * * * ** *
33712643 GTGTGTCGCGAGGCTCAACTC-CCTCTCGCAATATGAGTTGATTTTTAACAACAAAACAGAAATG
63 GCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA--TTT-ATGA-AAAACAGAAATT
* * * * * * * **
33712707 TAAAAGAAGTATCTCGGTATGTGACCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGGTTTGT
124 TAAAAGAAATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTAA
* * * *
33712772 GAAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAAT
189 AAAAAACAGAAA-TT--AA-AAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGTATT
* * * *
33712837 ATGAGTTG-GTTTGTGAAAAACAGA-AATTTAAA--AGAAATACCTCAGCATGTGACCCGAGGC
248 ATGAGTTGATTTTTTAAAAAACAGACAA---AAATTAAAAATACCTCAGC--GTGACCCGAGGC
* * * * * *
33712897 -TCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAACAAAACAAAAATGTAAAAGAAGTACC
1 TTCAACTCACCTCTCGTATTATGAGTTGATTTT-TAAAA-AAGACAGAAAT-T-AAA-AA-TACC
* * * * * *
33712961 TCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGTGAAAAATAGAAAT
60 TCAG--CGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAAT
* *
33713026 TTAAAAGAAATACCTCAACATGTGACCCGATGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
123 TTAAAAGAAATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTT
*
33713091 AAAAAAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTTTCGTATTATG
187 -AAAAAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATG
* * * * *
33713156 AGTTGATTTTTAAAAAAAAAGACAGAAATTAAAAACACCTCAGCATGACCCGAGGC
251 AGTTGATTTTTTAAAAAACAGACAAAAATTAAAAATACCTCAGCGTGACCCGAGGC
* *
33713212 TTCAACTCACCTCTCGAATTATGAGTTTATTTTTAAAAAAGACAGAAATTAAAAATACCTCAGCG
1 TTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAGACAGAAATTAAAAATACCTCAGCG
*
33713277 TGACTCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGA
66 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGA
* *
33713342 AATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTAAAAAAAAT
131 AATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTAAAAAAAAC
* * *
33713407 AGAAATTAAAAATACCTCAGCTTGACCCAAGGCTCAAATCACCTCTCGTATTATGAGTTGATTTT
196 AGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTT
* *
33713472 TTTTAAAAA-AGATAAAAATTAAAAATACCTCAGCGTGACCCGAGGC
260 TTTAAAAAACAGACAAAAATTAAAAATACCTCAGCGTGACCCGAGGC
* *
33713518 TTCAACTCACCTATCGTATTATGAGTTGATTTTTAAAAAAGACAGAAATTAAAAATACCTAAGCG
1 TTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAGACAGAAATTAAAAATACCTCAGCG
33713583 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGA
66 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGA
* *
33713648 AATACCTCAGCATGTGACCCGATGCTGAACTCACTTCTCGCAATATGAGTTGATTTAAAAAAAAC
131 AATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTAAAAAAAAC
* *
33713713 AAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACATCTCGTATTATGAGTTGA-TTT
196 AGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTT
*
33713777 TTAAAAAACAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGC
261 TTAAAAAACAGACAAAAATTAAAAATACCTCAGCGTGACCCGAGGC
33713823 TTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAAGACAGAAATTAAAAATACCTCAGC
1 TTCAACTCACCTCTCGTATTATGAGTTGATTTTT-AAAAAAGACAGAAATTAAAAATACCTCAGC
*
33713888 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAACAGAAA-TT-AAA
65 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTATG-AAAAACAGAAATTTAAAA
* * * * ***
33713951 -AAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTATCGTATTATGAGTTGATTTTTGAAAA
129 GAAATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTAAAAAAA
*
33714013 ACAAAAATTAAAAA
194 ACAGAAATTAAAAA
33714027 AATATAATTC
Statistics
Matches: 1009, Mismatches: 100, Indels: 57
0.87 0.09 0.05
Matches are distributed among these distances:
302 55 0.05
304 22 0.02
305 71 0.07
306 416 0.41
307 24 0.02
308 111 0.11
310 7 0.01
311 2 0.00
312 3 0.00
313 1 0.00
314 9 0.01
315 18 0.02
316 90 0.09
317 23 0.02
318 15 0.01
319 4 0.00
320 67 0.07
321 11 0.01
322 16 0.02
323 24 0.02
324 20 0.02
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (306 bp):
TTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAGACAGAAATTAAAAATACCTCAGCG
TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTATGAAAAACAGAAATTTAAAAGA
AATACCTCAGCATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTAAAAAAAAC
AGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTT
TTAAAAAACAGACAAAAATTAAAAATACCTCAGCGTGACCCGAGGC
Found at i:33714905 original size:16 final size:15
Alignment explanation
Indices: 33714886--33714931 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
33714876 CTGGATTCTT
33714886 TTTTTCTTTTCTTTTG
1 TTTTT-TTTTCTTTTG
*
33714902 TTTTTTTTTGTTTTTG
1 TTTTTTTTT-CTTTTG
*
33714918 TTTTTTTTTGTTTT
1 TTTTTTTTTCTTTT
33714932 TAGGCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTCTTTTG
Found at i:33714932 original size:10 final size:10
Alignment explanation
Indices: 33714884--33714931 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
33714874 ATCTGGATTC
*
33714884 TTTTTTTCTT
1 TTTTTTTGTT
*
33714894 TTCTTTTGTT
1 TTTTTTTGTT
33714904 TTTTTTTGTT
1 TTTTTTTGTT
33714914 TTTGTTTT-TT
1 TTT-TTTTGTT
33714924 TTTGTTTT
1 TTT-TTTT
33714932 TAGGCATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 30 0.88
11 4 0.12
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:33714932 original size:16 final size:16
Alignment explanation
Indices: 33714897--33714932 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
33714887 TTTTCTTTTC
33714897 TTTTGTTTTTTTTTGT
1 TTTTGTTTTTTTTTGT
33714913 TTTTGTTTTTTTTTGT
1 TTTTGTTTTTTTTTGT
33714929 TTTT
1 TTTT
33714933 AGGCATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (16 bp):
TTTTGTTTTTTTTTGT
Found at i:33726057 original size:19 final size:20
Alignment explanation
Indices: 33726033--33726080 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
33726023 AACACGAAAG
**
33726033 TTTTTGAAATGCGAG-AATA
1 TTTTTGAAACACGAGAAATA
*
33726052 TTTTTGAAACACGAGAAATT
1 TTTTTGAAACACGAGAAATA
33726072 TTTTTGAAA
1 TTTTTGAAA
33726081 ACGCAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTTGAAACACGAGAAATA
Found at i:33726171 original size:17 final size:18
Alignment explanation
Indices: 33726097--33726260 Score: 114
Period size: 19 Copynumber: 9.4 Consensus size: 18
33726087 AAAAGTGAAA
*
33726097 AATTTTTG-AAATACGAG
1 AATTTTTGAAAACACGAG
33726114 AAATTTTTGAAAACAC--G
1 -AATTTTTGAAAACACGAG
* *
33726131 AATATTAG-AAACAC-AGG
1 AATTTTTGAAAACACGA-G
*
33726148 ATTTTTTGAAAACACGAG
1 AATTTTTGAAAACACGAG
* * *
33726166 AATTTTTTAAAAACATGAA
1 AA-TTTTTGAAAACACGAG
33726185 AATTTTTG-AAACAC-A-
1 AATTTTTGAAAACACGAG
* *
33726200 ATTTTTTAAAAACACGAG
1 AATTTTTGAAAACACGAG
*
33726218 AATTTTTTGAAAACATGA-
1 AA-TTTTTGAAAACACGAG
*
33726236 AGATTTGTG-AAACACGAG
1 A-ATTTTTGAAAACACGAG
33726254 AATTTTT
1 AATTTTT
33726261 TTTTGAAAAC
Statistics
Matches: 114, Mismatches: 20, Indels: 25
0.72 0.13 0.16
Matches are distributed among these distances:
15 12 0.11
16 13 0.11
17 25 0.22
18 29 0.25
19 35 0.31
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (18 bp):
AATTTTTGAAAACACGAG
Found at i:33726208 original size:33 final size:34
Alignment explanation
Indices: 33726109--33726304 Score: 109
Period size: 33 Copynumber: 5.6 Consensus size: 34
33726099 TTTTTGAAAT
* *
33726109 ACGAGAAATTTTTGAAAACACGAA--TATTAGAAAC
1 ACGAGAAATTTTTG-AAACAC-AATTTTTTAAAAAC
* *
33726143 AC-AGGATTTTTTGAAAACACGAGAATTTTTTAAAAAC
1 ACGAGAAATTTTTG-AAACAC---AATTTTTTAAAAAC
*
33726180 ATGA-AAATTTTTGAAACACAATTTTTTAAAAAC
1 ACGAGAAATTTTTGAAACACAATTTTTTAAAAAC
* * * * *
33726213 ACGAGAATTTTTTGAAAACATGAAGATTTGT-GAAAC
1 ACGAGAAATTTTTG-AAACA-CAA-TTTTTTAAAAAC
* *
33726249 ACGAGAATTTTTTTTTGAAA-ACTAATTTTTTTAAAA-
1 ACGAGAA---ATTTTTGAAACAC-AATTTTTTAAAAAC
*
33726285 ACTAGAAATTTTTGAAACAC
1 ACGAGAAATTTTTGAAACAC
33726305 GGGAATTTTT
Statistics
Matches: 128, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
33 42 0.33
34 12 0.09
35 8 0.06
36 29 0.23
37 26 0.20
38 4 0.03
39 7 0.05
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (34 bp):
ACGAGAAATTTTTGAAACACAATTTTTTAAAAAC
Found at i:33726279 original size:16 final size:16
Alignment explanation
Indices: 33726258--33726288 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33726248 CACGAGAATT
*
33726258 TTTTTTTGAAAACTAA
1 TTTTTTTAAAAACTAA
33726274 TTTTTTTAAAAACTA
1 TTTTTTTAAAAACTA
33726289 GAAATTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTTTTAAAAACTAA
Found at i:33726314 original size:18 final size:18
Alignment explanation
Indices: 33726099--33726315 Score: 109
Period size: 18 Copynumber: 12.3 Consensus size: 18
33726089 AAGTGAAAAA
* *
33726099 TTTTTGAAATACGAGAAA
1 TTTTTGAAACACGAGAAT
33726117 TTTTTGAAA-AC-ACGAA-
1 TTTTTGAAACACGA-GAAT
* * *
33726133 TATTAGAAACAC-AGGAT
1 TTTTTGAAACACGAGAAT
33726150 TTTTTGAAAACACGAGAAT
1 TTTTTG-AAACACGAGAAT
* * *
33726169 TTTTTAAAAACATGA-AAA
1 TTTTT-GAAACACGAGAAT
33726187 TTTTTGAAACAC---AAT
1 TTTTTGAAACACGAGAAT
*
33726202 TTTTTAAAAACACGAGAAT
1 TTTTT-GAAACACGAGAAT
*
33726221 TTTTTGAAA-AC-ATGAAGA
1 TTTTTGAAACACGA-GAA-T
*
33726239 TTTGTGAAACACGAGAATTTT
1 TTTTTGAAACACGAGAA---T
*
33726260 TTTTTGAAA-AC--TAAT
1 TTTTTGAAACACGAGAAT
* * * *
33726275 TTTTTTAAAAACTAGAAA
1 TTTTTGAAACACGAGAAT
*
33726293 TTTTTGAAACACGGGAAT
1 TTTTTGAAACACGAGAAT
33726311 TTTTT
1 TTTTT
33726316 CTAAAAAACA
Statistics
Matches: 152, Mismatches: 28, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.11
16 19 0.12
17 22 0.14
18 55 0.36
19 29 0.19
20 3 0.02
21 8 0.05
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (18 bp):
TTTTTGAAACACGAGAAT
Found at i:33726324 original size:54 final size:53
Alignment explanation
Indices: 33726099--33726324 Score: 187
Period size: 52 Copynumber: 4.2 Consensus size: 53
33726089 AAGTGAAAAA
* * * * * * *
33726099 TTTTTGAAATACGAGAAATTTTTGAAAACACG-AATATTAGAAACACAGG-ATT
1 TTTTTAAAAAACGAGAATTTTTTAAAAACATGAAATTTTTGAAACAC-GGAATT
* *
33726151 TTTTGAAAACACGAGAATTTTTTAAAAACATGAAAATTTTTGAAACAC--AA-T
1 TTTTTAAAAAACGAGAATTTTTTAAAAACATG-AAATTTTTGAAACACGGAATT
* *
33726202 TTTTTAAAAACACGAGAATTTTTTGAAAACATGAAGATTTGTGAAACACGAGAATTT
1 TTTTTAAAAA-ACGAGAATTTTTTAAAAACATGAA-ATTTTTGAAACACG-GAA-TT
** * *
33726259 TTTTTTGAAAACTA-ATTTTTTTAAAAAC-TAGAAATTTTTGAAACACGGGAATT
1 TTTTTAAAAAACGAGAATTTTTTAAAAACAT-GAAATTTTTGAAACAC-GGAATT
33726312 TTTTCTAAAAAAC
1 TTTT-TAAAAAAC
33726325 ATACCGTATT
Statistics
Matches: 141, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
51 11 0.08
52 60 0.43
53 6 0.04
54 34 0.24
55 18 0.13
56 3 0.02
57 9 0.06
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (53 bp):
TTTTTAAAAAACGAGAATTTTTTAAAAACATGAAATTTTTGAAACACGGAATT
Found at i:33726639 original size:17 final size:17
Alignment explanation
Indices: 33726604--33726637 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33726594 TAAAATTATT
*
33726604 TAAAATTAATAAATAAA
1 TAAAATTAAAAAATAAA
33726621 TAAAATTAAAAACATAA
1 TAAAATTAAAAA-ATAA
33726638 TACAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAATTAAAAAATAAA
Found at i:33726705 original size:19 final size:19
Alignment explanation
Indices: 33726681--33726719 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
33726671 ATTAAATACG
* * *
33726681 AGACAATATTTAAATATTA
1 AGACAAAATTAAAAGATTA
33726700 AGACAAAATTAAAAGATTA
1 AGACAAAATTAAAAGATTA
33726719 A
1 A
33726720 AAATTTACCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (19 bp):
AGACAAAATTAAAAGATTA
Found at i:33726956 original size:32 final size:32
Alignment explanation
Indices: 33726920--33726988 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
33726910 GAACCTGGGC
33726920 CTGCTGGCTGGCCTGTTAAGTGCAGGCCTGGT
1 CTGCTGGCTGGCCTGTTAAGTGCAGGCCTGGT
*
33726952 CTGCTGGCTGGCCTGTTGAGTGCAGGCCTGGT
1 CTGCTGGCTGGCCTGTTAAGTGCAGGCCTGGT
33726984 CTGCT
1 CTGCT
33726989 TGTGTTGGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.07, C:0.26, G:0.38, T:0.29
Consensus pattern (32 bp):
CTGCTGGCTGGCCTGTTAAGTGCAGGCCTGGT
Found at i:33727075 original size:10 final size:11
Alignment explanation
Indices: 33727059--33727101 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 11
33727049 AAGTGGCCTG
33727059 CTGTTTTTTTT
1 CTGTTTTTTTT
33727070 -TGTTTTTTTT
1 CTGTTTTTTTT
33727080 CT-TTTTTTTT
1 CTGTTTTTTTT
*
33727090 CTCTCTTTTTTT
1 CTGT-TTTTTTT
33727102 TTCCTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 20 0.69
11 2 0.07
12 7 0.24
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.84
Consensus pattern (11 bp):
CTGTTTTTTTT
Found at i:33727108 original size:25 final size:25
Alignment explanation
Indices: 33727072--33727122 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
33727062 TTTTTTTTTG
* *
33727072 TTTTTTTTCTTTTTTTTTC-TCTCT
1 TTTTTTTTCTTTCTTCTTCTTCTCT
33727096 TTTTTTTTCCTTTCTTCTTCTTCTCT
1 TTTTTTTT-CTTTCTTCTTCTTCTCT
33727122 T
1 T
33727123 AACTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 9 0.39
26 6 0.26
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTTTTCTTTCTTCTTCTTCTCT
Found at i:33727111 original size:15 final size:14
Alignment explanation
Indices: 33727066--33727111 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
33727056 CTGCTGTTTT
*
33727066 TTTTTGTTTTTTTTC
1 TTTTT-TTTTCTTTC
*
33727081 TTTTTTTTTCTCTC
1 TTTTTTTTTCTTTC
33727095 TTTTTTTTTCCTTTC
1 TTTTTTTTT-CTTTC
33727110 TT
1 TT
33727112 CTTCTTCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTCTTTC
Found at i:33727238 original size:21 final size:21
Alignment explanation
Indices: 33727214--33727257 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33727204 TTCCCTCTCG
*
33727214 TTCCTTCTATTCTT-TTCTTCC
1 TTCCTCCTATTCTTCTT-TTCC
*
33727235 TTCCTCCTTTTCTTCTTTTCC
1 TTCCTCCTATTCTTCTTTTCC
33727256 TT
1 TT
33727258 TTCTCTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (21 bp):
TTCCTCCTATTCTTCTTTTCC
Found at i:33727266 original size:13 final size:14
Alignment explanation
Indices: 33727225--33727267 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
33727215 TCCTTCTATT
*
33727225 CTTTTCTTCCTTCCTC
1 CTTTTCTT-CTT-TTC
33727241 CTTTTCTTCTTTTC
1 CTTTTCTTCTTTTC
33727255 CTTTTC-TCTTTTC
1 CTTTTCTTCTTTTC
33727268 TTTCCCCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 3 0.12
16 8 0.31
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
CTTTTCTTCTTTTC
Found at i:33727270 original size:18 final size:18
Alignment explanation
Indices: 33727247--33727281 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33727237 CCTCCTTTTC
* *
33727247 TTCTTTTCCTTTTCTCTT
1 TTCTTTCCCCTTTCTCTT
33727265 TTCTTTCCCCTTTCTCT
1 TTCTTTCCCCTTTCTCT
33727282 CCTTCCCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCTTTCCCCTTTCTCTT
Found at i:33727953 original size:59 final size:59
Alignment explanation
Indices: 33727869--33727997 Score: 152
Period size: 59 Copynumber: 2.2 Consensus size: 59
33727859 TAGGGCCGAT
* * * * * *
33727869 ATGTAATTTTTATAAAGTTTAGGGGTCAAAGTGT-AATTTTAAGAAAGTTTAGGGGTTGAA
1 ATGTAA-TTTTAGAAAATTTAGGGGTCAAAATGTAAATTTTAA-AAAGTATAGGAGTTAAA
* *
33727929 ATGTAATTTTAGAAAATTTTGGGGTCAAAATGTAAATTTTTAAAAGTATAGGAGTTAAA
1 ATGTAATTTTAGAAAATTTAGGGGTCAAAATGTAAATTTTAAAAAGTATAGGAGTTAAA
*
33727988 ACGTAATTTT
1 ATGTAATTTT
33727998 TATTTTTTGC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 46 0.78
60 13 0.22
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (59 bp):
ATGTAATTTTAGAAAATTTAGGGGTCAAAATGTAAATTTTAAAAAGTATAGGAGTTAAA
Found at i:33727973 original size:29 final size:30
Alignment explanation
Indices: 33727869--33727999 Score: 140
Period size: 30 Copynumber: 4.4 Consensus size: 30
33727859 TAGGGCCGAT
*
33727869 ATGTAATTTTTATAAAGTTTAGGGGTCAAA
1 ATGTAATTTTTAGAAAGTTTAGGGGTCAAA
* * **
33727899 GTGTAATTTTAAGAAAGTTTAGGGGTTGAA
1 ATGTAATTTTTAGAAAGTTTAGGGGTCAAA
* *
33727929 ATGTAA-TTTTAGAAAATTTTGGGGTCAAA
1 ATGTAATTTTTAGAAAGTTTAGGGGTCAAA
* * *
33727958 ATGTAAATTTTTA-AAAGTATAGGAGTTAAA
1 ATGT-AATTTTTAGAAAGTTTAGGGGTCAAA
*
33727988 ACGTAATTTTTA
1 ATGTAATTTTTA
33728000 TTTTTTGCAT
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
29 30 0.37
30 47 0.57
31 5 0.06
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (30 bp):
ATGTAATTTTTAGAAAGTTTAGGGGTCAAA
Found at i:33730679 original size:2 final size:2
Alignment explanation
Indices: 33730672--33730696 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33730662 TTATGTTAAA
33730672 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
33730697 ATCAAAATTA
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:33730864 original size:23 final size:24
Alignment explanation
Indices: 33730838--33730882 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
33730828 TATATCTTGT
* *
33730838 TGGTTTTAGCATTGTC-ATATTCA
1 TGGTATTAACATTGTCAATATTCA
*
33730861 TGGTATTAATATTGTCAATATT
1 TGGTATTAACATTGTCAATATT
33730883 ATTTATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.49
Consensus pattern (24 bp):
TGGTATTAACATTGTCAATATTCA
Found at i:33733284 original size:18 final size:18
Alignment explanation
Indices: 33733226--33733284 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
33733216 CAAAAAAGTT
* *
33733226 TTTAATTTTTTTAATTGAA
1 TTTAATTTTTATAA-TAAA
33733245 TTT-A-TTTTATAA-AATA
1 TTTAATTTTTATAATAA-A
*
33733261 TATAATTTTTATAATAAA
1 TTTAATTTTTATAATAAA
33733279 TTTAAT
1 TTTAAT
33733285 AACACTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
15 1 0.03
16 3 0.09
17 8 0.25
18 15 0.47
19 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTAATTTTTATAATAAA
Found at i:33738881 original size:8 final size:8
Alignment explanation
Indices: 33738870--33738901 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
33738860 ATTTTTTTCG
*
33738870 TAAATAAA
1 TAAAAAAA
33738878 TAAAAAAA
1 TAAAAAAA
33738886 TAAAAAAA
1 TAAAAAAA
33738894 TAAAAAAA
1 TAAAAAAA
33738902 CTAGATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:33739687 original size:40 final size:40
Alignment explanation
Indices: 33739628--33740450 Score: 802
Period size: 40 Copynumber: 19.9 Consensus size: 40
33739618 TTTTTTTTTG
*
33739628 TCTGCTCCACTACTGCTTAGGGA-ATTAAAACTGGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGA-TAAGACTGGATGTGA
* * *
33739668 TCTACTCCACTACTGCTTAGGG-GAATAAGATCTGTGGTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAG-ATAAGA-C--TGGATGTGA
* * *
33739710 TCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
33739750 TCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG---ATGT-GA
*
33739794 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
33739834 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGG-TGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGATGTGA
* * *
33739874 TCTGCTCAACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGG---ATGT-GA
* * * * *
33739917 TTTGCTCCACTACTGCTTAGGGAGATAAGATTGGTTTCTTTCA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGG---ATGTGA
* * *
33739960 TCTGCTCCATTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
33740000 TCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG---ATGT-GA
*
33740044 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
*
33740084 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * * *
33740124 TCTACTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG---ATGT-GA
*
33740168 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
33740208 TCTGTTCCACTACTACTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * * *
33740248 TCTGCTCTACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG---ATGT-GA
* *
33740292 TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
* * *
33740332 TCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG---ATGT-GA
* * *
33740376 TCTACTCCACTACTACTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
33740416 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG
33740451 TTTCTGTCTG
Statistics
Matches: 654, Mismatches: 84, Indels: 89
0.79 0.10 0.11
Matches are distributed among these distances:
39 13 0.02
40 349 0.53
41 20 0.03
42 26 0.04
43 88 0.13
44 153 0.23
45 5 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTGA
Found at i:33739824 original size:84 final size:84
Alignment explanation
Indices: 33739627--33740455 Score: 1040
Period size: 84 Copynumber: 10.0 Consensus size: 84
33739617 GTTTTTTTTT
* * *
33739627 GTCTGCTCCACTACTGCTTAGGGA-ATTAAAACTGGATGTGATCTACTCCACTACTGCTTAGGG-
1 GTCTGCTCCACTACTGCTTAGGGAGA-TAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGA
33739690 GAATAAGATCTGTGG-TTC--T-
65 G-ATAAGATC-G-GGTTTCTTTC
* *
33739709 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
33739774 ATAAGATCGGGTTTCTTTC
66 ATAAGATCGGGTTTCTTTC
33739793 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
* *
33739858 ATAAGATCTGG----TGT-
66 ATAAGATCGGGTTTCTTTC
* ** * *
33739872 GATCTGCTCAACTACTGCTTAGGGAGATAAGACTGGTTTCTTTCG-TTTGCTCCACTACTGCTTA
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGAC---TTGATGT-GATCTGCTCCACTACTGCTTA
*
33739936 GGGAGATAAGAT-TGGTTTCTTTC
61 GGGAGATAAGATCGGGTTTCTTTC
* * *
33739959 ATCTGCTCCATTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
33740024 ATAAGATCGGGTTTCTTTC
66 ATAAGATCGGGTTTCTTTC
33740043 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
** *
33740108 ATAAGA-C---TTGATGT-
66 ATAAGATCGGGTTTCTTTC
* * ** *
33740122 GATCTACTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTT
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGT-GATCTGCTCCACTACTGCTT
** *
33740186 AGGGAGATAAGA-C---TTGATGT-
60 AGGGAGATAAGATCGGGTTTCTTTC
* * *
33740206 GATCTGTTCCACTACTACTTAGGGAGATAAGACTTGATGTGATCTGCTCTACTACTGCTTAGGGA
1 G-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGA
33740271 GATAAGATCGGGTTTCTTTC
65 GATAAGATCGGGTTTCTTTC
*
33740291 GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
33740356 ATAAGATCGGGTTTCTTTC
66 ATAAGATCGGGTTTCTTTC
* *
33740375 GTCTACTCCACTACTACTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
*
33740440 ATAAGATCTGGTTTCT
66 ATAAGATCGGGTTTCT
33740456 GTCTGCTAGA
Statistics
Matches: 663, Mismatches: 54, Indels: 58
0.86 0.07 0.07
Matches are distributed among these distances:
79 3 0.00
80 99 0.15
81 6 0.01
82 68 0.10
83 72 0.11
84 382 0.58
85 2 0.00
86 31 0.05
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (84 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCGGGTTTCTTTC
Found at i:33739858 original size:124 final size:124
Alignment explanation
Indices: 33739672--33740445 Score: 1075
Period size: 124 Copynumber: 6.2 Consensus size: 124
33739662 ATGTGATCTA
* * *
33739672 CTCCACTACTGCTTAGGG-GAATAAGATCTGTGGTTCTG-TCTGCTCCACTATTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAG-ATAAGA-CT-T-GATGTGATCTGCTCCACTACTGCTTAGGGAGA
33739735 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
62 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
33739798 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
* * * * *
33739863 A-TCTGGTGTGATCTGCTCAACTACTGCTTAGGGAGATAAGA-CTGGTTTCTTTCGTTTG
66 ACT-TGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
* * * *
33739921 CTCCACTACTGCTTAGGGAGATAAGA-TTGGTTTCTTTCATCTGCTCCATTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGACTT-G---ATGTGATCTGCTCCACTACTGCTTAGGGAGA
33739985 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
62 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
33740048 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
* * * *
33740113 ACTTGATGTGATCTACTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCGTCTG
66 ACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
* *
33740172 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGTTCCACTACTACTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
* *
33740237 ACTTGATGTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
66 ACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
*
33740296 CTCCACTACTGCTTAGGAAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
** * * * ** *
33740361 ATCGGGTTTCTTTCG-TCTACTCCACTACTACTTAGGGAGATAAGA-C---TTGATGT-GATCTG
66 A-C----TTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCG-TCTG
33740420 CTCCACTACTGCTTAGGGAGATAAGA
1 CTCCACTACTGCTTAGGGAGATAAGA
33740446 TCTGGTTTCT
Statistics
Matches: 587, Mismatches: 45, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
122 2 0.00
123 48 0.08
124 365 0.62
125 3 0.01
126 91 0.16
127 45 0.08
128 29 0.05
129 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (124 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAG
ACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGGTTTCTTTCGTCTG
Found at i:33740582 original size:50 final size:50
Alignment explanation
Indices: 33740520--33740994 Score: 196
Period size: 50 Copynumber: 9.5 Consensus size: 50
33740510 GTCGGGGAAC
* * *
33740520 AAGATTCACCGTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGAAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGATACACTGCATCGCCAAGAAAGT
** * ** * * * ** * * *
33740570 AAGATTCGCCGTTGCGGCTTCAATATTCTAAATTGTAAT-ATCAGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGATACACTG-CATCGCCAAGAAAGT
* * * * *
33740620 AAGATTCACCGTTGTAGCTTTAATCTGCTGCACTGTA-CTGCC-AGAGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGATACACTGCATC-GCCAAGA-AAGT
* * ** * * * ** * *
33740670 CAGATTCGCCGTTGTGGCTTCAATCTCTTTA-ATTGCATTGTCGGGGAA-C
1 AAGATTCGCCGTTGTAGCTTCAATCT-GATACACTGCATCGCCAAGAAAGT
* * *
33740719 AAGATTCGCCGTTGTAGCTTCAATTTGATCCACTACATCGCCAAGAAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGATACACTGCATCGCCAAGAAAGT
* * ** ** * * ** * *
33740769 AAGATTCACCATTGCGGCTTCAATCTTTTAAATTGCAAT-ATCAAGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGATACACTGC-ATCGCCAAGAAAGT
* * * *
33740819 AAGATTCGCCGTCGTAGCTTTAATCTGCTACACTGTA-CTGCC-AGAGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGATACACTGCATC-GCCAAGA-AAGT
* * * ** * * ** *
33740869 GAGATTCGCCGTTGTGGCTTCGATCTCTTTA-ATTGCAAT-GTCGGGAAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCT-GATACACTGC-ATCGCCAAGAAAGT
* * * *
33740919 AAGATTGGCCGTTGTAGCTTTAATCTAATCCACTGCATCGCCAAGAAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGATACACTGCATCGCCAAGAAAGT
**
33740969 AAGATTCGCCGTTGCGGCTTCAATCT
1 AAGATTCGCCGTTGTAGCTTCAATCT
33740995 TTTAAATTGC
Statistics
Matches: 288, Mismatches: 118, Indels: 38
0.65 0.27 0.09
Matches are distributed among these distances:
48 1 0.00
49 41 0.14
50 235 0.82
51 11 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTCAATCTGATACACTGCATCGCCAAGAAAGT
Found at i:33740654 original size:100 final size:100
Alignment explanation
Indices: 33740467--33741043 Score: 666
Period size: 100 Copynumber: 5.8 Consensus size: 100
33740457 TCTGCTAGAG
* * * * * *
33740467 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-CAAGATTCACCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTAAATTGCAATATCAGGGAAGCAAGATTCGCCG
33740531 TTGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
66 TTGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
* * *
33740566 AAGTAAGATTCGCCGTTGCGGCTTCAATAT-TCTAAATTGTAATATCAGGGAAGCAAGATTCACC
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTCT-TAAATTGCAATATCAGGGAAGCAAGATTCGCC
* * *
33740630 GTTGTAGCTTTAATCTGCTGCACTGTA-CTGCC-AGA
65 GTTGTAGCTTTAATCTGATCCACTGCATC-GCCAAGA
* * * * * *
33740665 GAAGTCAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCATTGTCGGGGAA-CAAGATTCGCC
1 -AAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTAAATTGCAATATCAGGGAAGCAAGATTCGCC
* * *
33740729 GTTGTAGCTTCAATTTGATCCACTACATCGCCAAGA
65 GTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
* * * *
33740765 AAGTAAGATTCACCATTGCGGCTTCAATCTTTTAAATTGCAATATCAAGGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTAAATTGCAATATCAGGGAAGCAAGATTCGCCG
* * * *
33740830 TCGTAGCTTTAATCTGCTACACTGTA-CTGCC-AGA
66 TTGTAGCTTTAATCTGATCCACTGCATC-GCCAAGA
* * * * * *
33740864 GAAGTGAGATTCGCCGTTGTGGCTTCGATCTCTTTAATTGCAATGTC-GGGAAAGCAAGATTGGC
1 -AAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTAAATTGCAATATCAGGG-AAGCAAGATTCGC
*
33740928 CGTTGTAGCTTTAATCTAATCCACTGCATCGCCAAGA
64 CGTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
* * * *
33740965 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATTTAGAGAAGTAAGATTCGCC
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTAAATTGCAATA-TCAGGGAAGCAAGATTCGCC
*
33741030 GTCGTAGCTTTAAT
65 GTTGTAGCTTTAAT
33741044 TTGCTCCATT
Statistics
Matches: 395, Mismatches: 68, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
98 1 0.00
99 129 0.33
100 232 0.59
101 31 0.08
102 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (100 bp):
AAGTAAGATTCGCCGTTGCGGCTTCAATCTCTTAAATTGCAATATCAGGGAAGCAAGATTCGCCG
TTGTAGCTTTAATCTGATCCACTGCATCGCCAAGA
Found at i:33740803 original size:199 final size:199
Alignment explanation
Indices: 33740454--33741075 Score: 985
Period size: 199 Copynumber: 3.1 Consensus size: 199
33740444 GATCTGGTTT
*
33740454 CTGT-CTGCTAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
1 CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
*
33740518 ACAAGATTCACCGTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTT
66 ACAAGATTCGCCGTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTT
* * * * *
33740583 GCGGCTTCAATATTCTAAATTGTAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGC
131 GCGGCTTCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGC
*
33740648 TGCA
196 TACA
* *
33740652 CTGTACTGCCAGAGAAGTCAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCATTGTCGGGGA
1 CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
* * * * *
33740717 ACAAGATTCGCCGTTGTAGCTTCAATTTGATCCACTACATCGCCAAGAAAGTAAGATTCACCATT
66 ACAAGATTCGCCGTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTT
*
33740782 GCGGCTTCAATCTTTTAAATTGCAATATCAAGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGC
131 GCGGCTTCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGC
33740847 TACA
196 TACA
* *
33740851 CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCGATCTCTTTAATTGCAATGTCGGGAA
1 CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
* *
33740916 AGCAAGATTGGCCGTTGTAGCTTTAATCTAATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGT
66 A-CAAGATTCGCCGTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGT
* * * *
33740981 TGCGGCTTCAATCTTTTAAATTGCAATATTTAGAGAAGTAAGATTCGCCGTCGTAGCTTTAATTT
130 TGCGGCTTCAATCTTTTAAATTGCAATA-TCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCT
*
33741046 GCTCCA
194 GCTACA
*
33741052 TTGTACTGCCAGAGAAGTGAGATT
1 CTGTACTGCCAGAGAAGTGAGATT
33741076 TTCCATTGTT
Statistics
Matches: 387, Mismatches: 34, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
198 4 0.01
199 240 0.62
200 84 0.22
201 59 0.15
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (199 bp):
CTGTACTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGA
ACAAGATTCGCCGTTGTAGCTTTAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTT
GCGGCTTCAATCTTTTAAATTGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGC
TACA
Found at i:33741203 original size:44 final size:42
Alignment explanation
Indices: 33741087--33741195 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 42
33741077 TCCATTGTTT
* * * *
33741087 TCTTCGATCTACTTCA-CCAGTATGGGAAGACAAGATCTGCA
1 TCTTCGATCTACTTCATCCAATATAGGAAGACAAGACCGGCA
* *
33741128 TCTTCGATCCACTTCTTACCAATATAGGAAGACAAGACCGGCTA
1 TCTTCGATCTACTTCAT-CCAATATAGGAAGACAAGACCGGC-A
33741172 TCTTCGATCTACTTCATGCCAATA
1 TCTTCGATCTACTTCAT-CCAATA
33741196 CATGAAGATA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
41 14 0.25
43 20 0.36
44 22 0.39
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
TCTTCGATCTACTTCATCCAATATAGGAAGACAAGACCGGCA
Done.