Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 22 of 91
Found at i:3866116 original size:9 final size:9
Alignment explanation
Indices: 3866102--3866137 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
3866092 TGAACTAATT
3866102 TTAAAAAAA
1 TTAAAAAAA
3866111 TTAAAAAAA
1 TTAAAAAAA
3866120 TT-AAAAAA
1 TTAAAAAAA
3866128 TTAATAAAAA
1 TTAA-AAAAA
3866138 ATTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.32
9 12 0.48
10 5 0.20
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:3868683 original size:19 final size:18
Alignment explanation
Indices: 3868659--3868716 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
3868649 ATATTATTTT
*
3868659 TATATTAAAATAATTATAA
1 TATATTAAAATAA-TAAAA
*
3868678 TATATTTATAATAATAAAA
1 TATA-TTAAAATAATAAAA
*
3868697 AATATTAAACAATAATAAAA
1 TATATT-AA-AATAATAAAA
3868717 ATTTTTACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 18 0.56
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TATATTAAAATAATAAAA
Found at i:3871957 original size:33 final size:33
Alignment explanation
Indices: 3871915--3871978 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
3871905 TAATATATAT
*
3871915 ACTTTGGCAT-AATCTTGC-TGTATGCTTTATTGG
1 ACTTTGGCATGAA-CTTGCGT-TATACTTTATTGG
3871948 ACTTTGGCATGAACTTGCGTTATACTTTATT
1 ACTTTGGCATGAACTTGCGTTATACTTTATT
3871979 AACATTTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 25 0.89
34 3 0.11
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (33 bp):
ACTTTGGCATGAACTTGCGTTATACTTTATTGG
Found at i:3877381 original size:33 final size:34
Alignment explanation
Indices: 3877324--3877387 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
3877314 TTCAAGTGTC
*
3877324 CCAAGTCCAAGATCAAGTTGAAATTAATTCAAGT
1 CCAAGTCCAAGATCAAGTTCAAATTAATTCAAGT
* *
3877358 CCAAGT-CAATATCAATTTCAAATTAATTCA
1 CCAAGTCCAAGATCAAGTTCAAATTAATTCA
3877388 CCAAAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (34 bp):
CCAAGTCCAAGATCAAGTTCAAATTAATTCAAGT
Found at i:3879234 original size:2 final size:2
Alignment explanation
Indices: 3879227--3879266 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3879217 TTAAAGAATT
3879227 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3879267 AAAGCATCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3882900 original size:33 final size:34
Alignment explanation
Indices: 3882856--3882927 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 34
3882846 TATTATAAGT
3882856 AATAAAACAAAT-ACGTCTTA-TCCATTATAA-AAA
1 AATAAAACAAATGAC--CTTATTCCATTATAATAAA
*
3882889 AATAAAGCAAATGGACCTTATTCCATTATAATAAA
1 AATAAAACAAAT-GACCTTATTCCATTATAATAAA
3882924 AATA
1 AATA
3882928 TTTTTTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 15 0.44
34 10 0.29
35 9 0.26
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.28
Consensus pattern (34 bp):
AATAAAACAAATGACCTTATTCCATTATAATAAA
Found at i:3884638 original size:12 final size:11
Alignment explanation
Indices: 3884615--3884669 Score: 53
Period size: 12 Copynumber: 4.9 Consensus size: 11
3884605 TTTATATATA
3884615 TAATTATT-TT
1 TAATTATTATT
3884625 TAATTAATTATT
1 TAATT-ATTATT
3884637 TAATTATATATT
1 TAATTAT-TATT
3884649 T-ATATATTTATT
1 TAAT-TA-TTATT
3884661 TAATT-TTAT
1 TAATTATTAT
3884670 ATTTATATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
10 9 0.23
11 7 0.18
12 20 0.51
13 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TAATTATTATT
Found at i:3884659 original size:16 final size:16
Alignment explanation
Indices: 3884640--3884677 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3884630 AATTATTTAA
3884640 TTATAT-ATTTATATAT
1 TTATATAATTT-TATAT
*
3884656 TTATTTAATTTTATAT
1 TTATATAATTTTATAT
3884672 TTATAT
1 TTATAT
3884678 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATATAATTTTATAT
Found at i:3884659 original size:24 final size:24
Alignment explanation
Indices: 3884632--3884677 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
3884622 TTTTAATTAA
3884632 TTATTTAATTATATATTTATATAT
1 TTATTTAATTATATATTTATATAT
*
3884656 TTATTTAATTTTATATTTATAT
1 TTATTTAATTATATATTTATAT
3884678 TTAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATTTAATTATATATTTATATAT
Found at i:3884672 original size:12 final size:13
Alignment explanation
Indices: 3884633--3884679 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
3884623 TTTAATTAAT
*
3884633 TATTTA-ATTATA
1 TATTTATATTTTA
*
3884645 TATTTATATATT-
1 TATTTATATTTTA
3884657 TATTTA-ATTTTA
1 TATTTATATTTTA
3884669 TATTTATATTT
1 TATTTATATTT
3884680 AAAAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 4 0.14
12 18 0.62
13 7 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTATATTTTA
Found at i:3885795 original size:20 final size:20
Alignment explanation
Indices: 3885753--3885796 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3885743 GAACTTTAAA
*
3885753 AAAATATCAAATATAAATCT
1 AAAATATCAAATATAAATAT
* *
3885773 AAAATATCAAATTTTAATAT
1 AAAATATCAAATATAAATAT
3885793 AAAA
1 AAAA
3885797 ACAAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATATCAAATATAAATAT
Found at i:3887809 original size:2 final size:2
Alignment explanation
Indices: 3887773--3887797 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3887763 AATTCAAATA
3887773 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
3887798 CACACATATA
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:3888113 original size:22 final size:21
Alignment explanation
Indices: 3888085--3888199 Score: 86
Period size: 22 Copynumber: 5.3 Consensus size: 21
3888075 ATTATCCCTT
*
3888085 TAATTTAGTAGTAAATTATTGA
1 TAATTTAATAGTAAA-TATTGA
*
3888107 TAATTTAATAATCAAATATTGA
1 TAATTTAATAGT-AAATATTGA
**
3888129 TAGCTTAATAGTAAAATATTGA
1 TAATTTAATAGT-AAATATTGA
** ** * *
3888151 TAACATGGTAATAAATAATGA
1 TAATTTAATAGTAAATATTGA
* *
3888172 TAATTTAATTGTCAATCATTGA
1 TAATTTAATAGTAAAT-ATTGA
3888194 TAATTT
1 TAATTT
3888200 TTTATACTTG
Statistics
Matches: 71, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
21 17 0.24
22 51 0.72
23 3 0.04
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.41
Consensus pattern (21 bp):
TAATTTAATAGTAAATATTGA
Found at i:3888470 original size:21 final size:20
Alignment explanation
Indices: 3888444--3888683 Score: 85
Period size: 21 Copynumber: 11.7 Consensus size: 20
3888434 ATATCATAAA
3888444 TTATCAAAATTTTATGAAAAG
1 TTATCAAAATTTTAT-AAAAG
** *
3888465 TTATCAAAATTACATAAGGAG
1 TTATCAAAATTTTATAA-AAG
* *
3888486 CTTACCAAAATTTTATCAAAG
1 -TTATCAAAATTTTATAAAAG
* * * **
3888507 ATACCAAAATTGTATCAATGG
1 TTATCAAAATTTTAT-AAAAG
* ** *
3888528 TTATAAAAATTACATTATAAG
1 TTATCAAAATTTTA-TAAAAG
* ** *
3888549 TTACCAAAATAATATAAAAA
1 TTATCAAAATTTTATAAAAG
3888569 TTATCAAAATTTTATCAAAA-
1 TTATCAAAATTTTAT-AAAAG
* * *
3888589 ATATCAAAAGTTTATCAAAG
1 TTATCAAAATTTTATAAAAG
* * * *
3888609 ATTTTCAAACTTTTAGCAAATG
1 -TTATCAAAATTTTA-TAAAAG
*
3888631 TTACCAAACA---TATCAAAAG
1 TTATCAAA-ATTTTAT-AAAAG
* *
3888650 TTATTAAAATTATATCAAAAG
1 TTATCAAAATTTTAT-AAAAG
*
3888671 TTAT-TAAATTTTA
1 TTATCAAAATTTTA
3888684 CTTATATTAC
Statistics
Matches: 157, Mismatches: 49, Indels: 27
0.67 0.21 0.12
Matches are distributed among these distances:
18 1 0.01
19 15 0.10
20 51 0.32
21 73 0.46
22 17 0.11
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (20 bp):
TTATCAAAATTTTATAAAAG
Found at i:3888513 original size:20 final size:20
Alignment explanation
Indices: 3888488--3888610 Score: 68
Period size: 20 Copynumber: 6.0 Consensus size: 20
3888478 ATAAGGAGCT
3888488 TACCAAAATTTTATCAAAGA
1 TACCAAAATTTTATCAAAGA
* * *
3888508 TACCAAAATTGTATCAATGGT
1 TACCAAAATTTTATCAA-AGA
** ** * *
3888529 TATAAAAATTACATTATAAGT
1 TACCAAAATTTTATCA-AAGA
** *
3888550 TACCAAAATAATAT-AAAAA
1 TACCAAAATTTTATCAAAGA
* *
3888569 TTATCAAAATTTTATCAAAAA
1 -TACCAAAATTTTATCAAAGA
* *
3888590 TATCAAAAGTTTATCAAAGA
1 TACCAAAATTTTATCAAAGA
3888610 T
1 T
3888611 TTTCAAACTT
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
19 2 0.03
20 47 0.59
21 29 0.37
22 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.33
Consensus pattern (20 bp):
TACCAAAATTTTATCAAAGA
Found at i:3888585 original size:62 final size:64
Alignment explanation
Indices: 3888434--3888588 Score: 172
Period size: 63 Copynumber: 2.5 Consensus size: 64
3888424 TACTGAAAGT
* * * * *
3888434 ATATCATAAATTATCAAAATTTTATGAAAAGTTATCAAAATTACATAAGGAGCTTACCAAAATT
1 ATATCAAAAATTATCAAAATTTTATCAAAAGTTATAAAAATTACATAAGAAGCTTACCAAAATA
* * * * ** * *
3888498 TTATCAAAGA-TACCAAAATTGTATCAATGGTTATAAAAATTACATTATAAG-TTACCAAAATA
1 ATATCAAAAATTATCAAAATTTTATCAAAAGTTATAAAAATTACATAAGAAGCTTACCAAAATA
3888560 ATAT-AAAAATTATCAAAATTTTATCAAAA
1 ATATCAAAAATTATCAAAATTTTATCAAAA
3888589 ATATCAAAAG
Statistics
Matches: 71, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
61 4 0.06
62 28 0.39
63 32 0.45
64 7 0.10
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (64 bp):
ATATCAAAAATTATCAAAATTTTATCAAAAGTTATAAAAATTACATAAGAAGCTTACCAAAATA
Found at i:3888828 original size:2 final size:2
Alignment explanation
Indices: 3888815--3888846 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3888805 TGATAAACTA
*
3888815 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3888847 TTAAAAGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3890568 original size:2 final size:2
Alignment explanation
Indices: 3890563--3890593 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3890553 CAAACAAAAA
3890563 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3890594 AAGATTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3892748 original size:29 final size:31
Alignment explanation
Indices: 3892706--3892763 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
3892696 ATGGGCTTAA
3892706 TTGAGTGAAAATAGATGTTT-AAGGTTCAAT
1 TTGAGTGAAAATAGATGTTTAAAGGTTCAAT
*
3892736 TTGA-TGAATATAGATGTTTAAAGGTTCA
1 TTGAGTGAAAATAGATGTTTAAAGGTTCA
3892764 GCTGACTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.38
Consensus pattern (31 bp):
TTGAGTGAAAATAGATGTTTAAAGGTTCAAT
Found at i:3892779 original size:30 final size:28
Alignment explanation
Indices: 3892714--3892779 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
3892704 AATTGAGTGA
**
3892714 AAATAGATGTTTAAGGTTCAATTTGATG
1 AAATAGATGTTTAAGGTTCAAGCTGATG
3892742 AATATAGATGTTTAAAGGTTC-AGCTGACTCG
1 AA-ATAGATGTTT-AAGGTTCAAGCTGA-T-G
3892773 AAATAGA
1 AAATAGA
3892780 AGATTCAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 2 0.06
29 14 0.44
30 13 0.41
31 3 0.09
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (28 bp):
AAATAGATGTTTAAGGTTCAAGCTGATG
Found at i:3898120 original size:2 final size:2
Alignment explanation
Indices: 3898115--3898143 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3898105 CTATTTGCCG
3898115 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3898144 TTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3902115 original size:52 final size:52
Alignment explanation
Indices: 3901964--3902119 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
3901954 TATAATTATA
* * * * *
3901964 CAAACTTGCCCATTAAGAATCC-CTCTCCTCTTAGAATTCTTCTTCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCTCT-TTCTTTTAGAATTCTTCTTTTGCAAGT
* *
3902016 CAAACTTGCCTATTAAGAAT-CTTTTTCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTCTTTCTTTTAGAATTCTTCTTTTGCAAGT
* * *
3902067 TAAACTTACCTATTAAGAATCCTCTTTCTTTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTCTTTCTTTTAGAATTCTTCTTTTGCAAGT
3902119 C
1 C
3902120 TTCTTGTCCA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.46
52 48 0.54
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCTCTTTCTTTTAGAATTCTTCTTTTGCAAGT
Found at i:3909656 original size:2 final size:2
Alignment explanation
Indices: 3909649--3909674 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3909639 AACAGTATCA
3909649 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3909675 GCGTGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3910465 original size:19 final size:19
Alignment explanation
Indices: 3910418--3910465 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
3910408 AAAAGGAAAA
* *
3910418 ATTTTAAAAATTTTAAATT
1 ATTTTAAAAAGTTTAAAGT
* * *
3910437 TTTTTTAAAAGTTTGAAGT
1 ATTTTAAAAAGTTTAAAGT
3910456 ATTTTAAAAA
1 ATTTTAAAAA
3910466 TTATAAAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
ATTTTAAAAAGTTTAAAGT
Found at i:3910521 original size:28 final size:29
Alignment explanation
Indices: 3910486--3910556 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
3910476 AATTAAGAAC
*
3910486 TAAAAAAATTTTAAATAGT-AAAAAATAT
1 TAAAAAAATTTTAAAAAGTCAAAAAATAT
** * * *
3910514 TATGAAAACTTTAAAAATTCAAAAAATTT
1 TAAAAAAATTTTAAAAAGTCAAAAAATAT
3910543 TAAAAAAATTTTAA
1 TAAAAAAATTTTAA
3910557 TAAAAAATCC
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
28 14 0.42
29 19 0.58
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
TAAAAAAATTTTAAAAAGTCAAAAAATAT
Found at i:3910596 original size:17 final size:18
Alignment explanation
Indices: 3910576--3910620 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
3910566 CAAAAGATTC
3910576 TAAAATTTTCAA-AAAAA
1 TAAAATTTTCAATAAAAA
* *
3910593 TAAAATTTTTAATAAAAG
1 TAAAATTTTCAATAAAAA
*
3910611 TAAATTTTTC
1 TAAAATTTTC
3910621 TTTAAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAATTTTCAATAAAAA
Found at i:3910609 original size:18 final size:17
Alignment explanation
Indices: 3910576--3910619 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3910566 CAAAAGATTC
*
3910576 TAAAATTTTCAAAAAAA
1 TAAAATTTTTAAAAAAA
*
3910593 TAAAATTTTTAATAAAAG
1 TAAAATTTTTAA-AAAAA
3910611 T-AAATTTTT
1 TAAAATTTTT
3910620 CTTTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAATTTTTAAAAAAA
Found at i:3910709 original size:20 final size:19
Alignment explanation
Indices: 3910672--3910747 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
3910662 AATTGAATAT
* *
3910672 AAAAAATCTAAAACTTTTCA
1 AAAAAATATAAAA-TTTTAA
*
3910692 AAAAAATATAAATATTTTTA
1 AAAAAATATAAA-ATTTTAA
* * *
3910712 AGAAATTATAAAAATTTAA
1 AAAAAATATAAAATTTTAA
* *
3910731 AAAAAATCTGAAATTTT
1 AAAAAATATAAAATTTT
3910748 TTCTTTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
19 17 0.39
20 26 0.59
21 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAAAATATAAAATTTTAA
Found at i:3910789 original size:17 final size:16
Alignment explanation
Indices: 3910769--3910839 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
3910759 AATCTTACAA
3910769 TTTTAATTTTATATATT
1 TTTTAATTTT-TATATT
*
3910786 TTTTAATTTTTAGATT
1 TTTTAATTTTTATATT
* *
3910802 TTTT-GTATTTTATCAAAT
1 TTTTAAT-TTTTAT--ATT
*
3910820 TTTTAATTTTTTTATT
1 TTTTAATTTTTATATT
3910836 TTTT
1 TTTT
3910840 CAGAATATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
15 1 0.02
16 20 0.47
17 10 0.23
18 11 0.26
19 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTAATTTTTATATT
Found at i:3910796 original size:8 final size:8
Alignment explanation
Indices: 3910769--3910839 Score: 54
Period size: 8 Copynumber: 8.5 Consensus size: 8
3910759 AATCTTACAA
3910769 TTTTAATT
1 TTTTAATT
*
3910777 TTATATATT
1 TTTTA-ATT
3910786 TTTTAA-T
1 TTTTAATT
3910793 TTTTAGATT
1 TTTTA-ATT
*
3910802 TTTTGTATT
1 TTTT-AATT
* *
3910811 TTATCAAAT
1 TT-TTAATT
3910820 TTTTAATT
1 TTTTAATT
*
3910828 TTTTTATT
1 TTTTAATT
3910836 TTTT
1 TTTT
3910840 CAGAATATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
7 6 0.12
8 21 0.43
9 21 0.43
10 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (8 bp):
TTTTAATT
Found at i:3910930 original size:19 final size:18
Alignment explanation
Indices: 3910912--3910978 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 18
3910902 ATTCTATAGA
3910912 ATTTTTTAAAAATTTTAG
1 ATTTTTTAAAAATTTTAG
*
3910930 AATATTTTTTAAAATTTTTAG
1 ---ATTTTTTAAAAATTTTAG
3910951 -TTTTTTAAAAATTTATAG
1 ATTTTTTAAAAATTT-TAG
3910969 ATTCTTTTAA
1 ATT-TTTTAA
3910979 TTTTCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 13 0.32
18 3 0.07
19 2 0.05
20 6 0.15
21 17 0.41
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (18 bp):
ATTTTTTAAAAATTTTAG
Found at i:3910973 original size:67 final size:68
Alignment explanation
Indices: 3910841--3910973 Score: 146
Period size: 67 Copynumber: 2.0 Consensus size: 68
3910831 TTATTTTTTC
* * * ** * * *
3910841 AGAATATTTTTAAAACTTTTTATAATTTTTTTAGAATGTTTCTTATTTTTGAACATTTTTAATTC
1 AGAATATTTTTAAAACATTTTAGAATTTTTTTAAAATGTTTAGTATTTTTAAAAATTTATAATTC
3910906 TAT
66 TAT
*
3910909 AGAAT-TTTTTAAAA-ATTTTAGAATATTTTTTAAAATTTTTAGT-TTTTTAAAAATTTATAGAT
1 AGAATATTTTTAAAACATTTTAGAAT-TTTTTTAAAATGTTTAGTATTTTTAAAAATTTATA-AT
3910971 TCT
64 TCT
3910974 TTTAATTTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
66 21 0.39
67 28 0.52
68 5 0.09
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (68 bp):
AGAATATTTTTAAAACATTTTAGAATTTTTTTAAAATGTTTAGTATTTTTAAAAATTTATAATTC
TAT
Found at i:3911686 original size:24 final size:25
Alignment explanation
Indices: 3911650--3911696 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
3911640 AAGATAGTAA
*
3911650 TTAAAATTAT-AAAAT-TATTTTAG
1 TTAAAAATATAAAAATATATTTTAG
3911673 TTAAAAATATTAAAAATATATTTT
1 TTAAAAATA-TAAAAATATATTTT
3911697 TCAAAACTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 1 0.05
25 5 0.25
26 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TTAAAAATATAAAAATATATTTTAG
Found at i:3911843 original size:32 final size:32
Alignment explanation
Indices: 3911801--3911862 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3911791 TAAAAAGCTT
* * *
3911801 AATTAGGTAATTTTACATTTTTTTAAACCACA
1 AATTAAGTAATTTTACATTTCTCTAAACCACA
3911833 AATTAAGTAATTTTACATTTCTCTAAACCA
1 AATTAAGTAATTTTACATTTCTCTAAACCA
3911863 AACATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.42
Consensus pattern (32 bp):
AATTAAGTAATTTTACATTTCTCTAAACCACA
Found at i:3914435 original size:7 final size:7
Alignment explanation
Indices: 3914418--3914457 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
3914408 ATTTATATTT
3914418 TAATAATA
1 TAATAA-A
3914426 TAATAAA
1 TAATAAA
3914433 TAATAAA
1 TAATAAA
* *
3914440 TAATGAC
1 TAATAAA
3914447 TAATAAA
1 TAATAAA
3914454 TAAT
1 TAAT
3914458 TATAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (7 bp):
TAATAAA
Found at i:3914475 original size:6 final size:6
Alignment explanation
Indices: 3914466--3914496 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
3914456 ATTATAAATA
3914466 ATATTT ATATTT ATATTT AT-TTT ATATTT AT
1 ATATTT ATATTT ATATTT ATATTT ATATTT AT
3914497 TAAAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATATTT
Found at i:3914491 original size:11 final size:11
Alignment explanation
Indices: 3914466--3914497 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
3914456 ATTATAAATA
3914466 ATATTTATATTT
1 ATATTTAT-TTT
3914478 ATATTTATTTT
1 ATATTTATTTT
3914489 ATATTTATT
1 ATATTTATT
3914498 AAAATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTTATTTT
Found at i:3914580 original size:30 final size:33
Alignment explanation
Indices: 3914544--3914622 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 33
3914534 ATCTTTATGC
3914544 AATAAAAAAGAAA-A-ATCTATATAT-AAAATT
1 AATAAAAAAGAAATATATCTATATATGAAAATT
*
3914574 AATAAAAAAGAAATATTTATCTTTATATGAAAATT
1 AATAAAAAAGAAATA--TATCTATATATGAAAATT
*
3914609 AATAAAAAGGAAAT
1 AATAAAAAAGAAAT
3914623 TAAAATCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 13 0.31
31 1 0.02
34 9 0.21
35 19 0.45
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (33 bp):
AATAAAAAAGAAATATATCTATATATGAAAATT
Found at i:3915149 original size:17 final size:17
Alignment explanation
Indices: 3915124--3915164 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3915114 GACGATTCAC
* *
3915124 AAAAATAATTTAATTAT
1 AAAATTAATCTAATTAT
3915141 AAAATTAATCTAATTAT
1 AAAATTAATCTAATTAT
*
3915158 ATAATTA
1 AAAATTA
3915165 TGGTATTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTAATCTAATTAT
Found at i:3917758 original size:7 final size:7
Alignment explanation
Indices: 3917741--3917780 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
3917731 ATTTATATTT
3917741 TAATAATA
1 TAATAA-A
3917749 TAATAAA
1 TAATAAA
*
3917756 TAATATA
1 TAATAAA
*
3917763 TAATAAC
1 TAATAAA
3917770 TAATAAA
1 TAATAAA
3917777 TAAT
1 TAAT
3917781 TATAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (7 bp):
TAATAAA
Found at i:3917764 original size:27 final size:26
Alignment explanation
Indices: 3917706--3917761 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
3917696 AAATCATATT
*
3917706 TTATATTTTAATAGTTAGAAATAATA
1 TTATATTTTAATAATTAGAAATAATA
*
3917732 TTTATATTTTAATAATATAATAAATAATA
1 -TTATATTTTAATAAT-T-AGAAATAATA
3917761 T
1 T
3917762 ATAATAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.56
28 2 0.08
29 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
TTATATTTTAATAATTAGAAATAATA
Found at i:3918080 original size:15 final size:16
Alignment explanation
Indices: 3918047--3918082 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
3918037 ATTTCATTTT
3918047 TTATTAATTTTATATA
1 TTATTAATTTTATATA
*
3918063 TTATTATTTTTATA-A
1 TTATTAATTTTATATA
3918078 TTATT
1 TTATT
3918083 TTAATTATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTAATTTTATATA
Found at i:3920301 original size:52 final size:51
Alignment explanation
Indices: 3920241--3920397 Score: 183
Period size: 52 Copynumber: 3.0 Consensus size: 51
3920231 TGGACAAAAA
* * *
3920241 GACTTACAAAAGAAGAATTCCAAGA-GAAAGATGATTCTTAATAGGTAAATTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAG--GATTCTTAATAGGTAAGTTT
* * *
3920293 GATTTACAAGAGAAAAATTCTAAAAGGAAAGGGATTCTTAATA-GTCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAA-GGATTCTTAATAGGT-AAGTTT
* *
3920345 GACTTACAGGAGAAGAATTCTAAGAGGAGAAGGATTCTTAATGGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGA-AAGGATTCTTAATAGGTAAGTTT
3920397 G
1 G
3920398 TATGATTATA
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
51 2 0.02
52 78 0.88
53 8 0.09
54 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.27
Consensus pattern (51 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGGATTCTTAATAGGTAAGTTT
Found at i:3925188 original size:15 final size:16
Alignment explanation
Indices: 3925168--3925198 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3925158 AAAATAATTT
3925168 ATTATAA-TTTTTTTA
1 ATTATAACTTTTTTTA
3925183 ATTATAACTTTTTTTA
1 ATTATAACTTTTTTTA
3925199 TAAAATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATAACTTTTTTTA
Found at i:3928321 original size:264 final size:264
Alignment explanation
Indices: 3927851--3928378 Score: 1029
Period size: 264 Copynumber: 2.0 Consensus size: 264
3927841 ATGTGGAAAT
3927851 TTTTTATTACAGATAAAAATGATGATTGGATGGGATTAAAAGTATAATCGATCAAGTTCAAGTTC
1 TTTTTATTACAGATAAAAATGATGATTGGATGGGATTAAAAGTATAATCGATCAAGTTCAAGTTC
*
3927916 ATATAATATTAAATTTAAATTTAAATTTGATTTCAAATTTGAGATTCGAAATTTAATTCGAATTT
66 ATATAATATTAAATTTAAATTTAAATTTGACTTCAAATTTGAGATTCGAAATTTAATTCGAATTT
3927981 GATTGAATTTAATTTTTTTAGTTCGAGCTTAAATTAAAACAAAAATTAAATTATTCGAGTTCGTT
131 GATTGAATTTAATTTTTTTAGTTCGAGCTTAAATTAAAACAAAAATTAAATTATTCGAGTTCGTT
3928046 CGATTAAACTTTACTAACATGTAAACATAATTTTGACTTTTATATTTAATAAAAATTCGATTATT
196 CGATTAAACTTTACTAACATGTAAACATAATTTTGACTTTTATATTTAATAAAAATTCGATTATT
3928111 TATA
261 TATA
3928115 TTTTTATTACAGATAAAAATGATGATTGGATGGGATTAAAAGTATAATCGATCAAGTTCAAGTTC
1 TTTTTATTACAGATAAAAATGATGATTGGATGGGATTAAAAGTATAATCGATCAAGTTCAAGTTC
* *
3928180 ATATAATATTAAATTTAAATTTAAATTTGACTTCAAATTTGAGATTCGAAATTTAATTTGAGTTT
66 ATATAATATTAAATTTAAATTTAAATTTGACTTCAAATTTGAGATTCGAAATTTAATTCGAATTT
3928245 GATTGAATTTAATTTTTTTAGTTCGAGCTTAAATTAAAACAAAAATTAAATTATTCGAGTTCGTT
131 GATTGAATTTAATTTTTTTAGTTCGAGCTTAAATTAAAACAAAAATTAAATTATTCGAGTTCGTT
3928310 CGATTAAACTTTACTAACATGTAAACATAATTTTGACTTTTATATTTAATAAAAATTCGATTATT
196 CGATTAAACTTTACTAACATGTAAACATAATTTTGACTTTTATATTTAATAAAAATTCGATTATT
3928375 TATA
261 TATA
3928379 CTTTAACTTG
Statistics
Matches: 261, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
264 261 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (264 bp):
TTTTTATTACAGATAAAAATGATGATTGGATGGGATTAAAAGTATAATCGATCAAGTTCAAGTTC
ATATAATATTAAATTTAAATTTAAATTTGACTTCAAATTTGAGATTCGAAATTTAATTCGAATTT
GATTGAATTTAATTTTTTTAGTTCGAGCTTAAATTAAAACAAAAATTAAATTATTCGAGTTCGTT
CGATTAAACTTTACTAACATGTAAACATAATTTTGACTTTTATATTTAATAAAAATTCGATTATT
TATA
Found at i:3930838 original size:59 final size:59
Alignment explanation
Indices: 3930743--3930913 Score: 306
Period size: 59 Copynumber: 2.9 Consensus size: 59
3930733 TGGACACTTG
* * *
3930743 GAATAATATGTTCATCCACCGAAGAAAAAGAATGAAAGTAATCATGTTATGCAATACAT
1 GAATAATACGTTCATCCACCTAAGAAAAAGAGTGAAAGTAATCATGTTATGCAATACAT
3930802 GAATAATACGTTCATCCACCTAAGAAAAAGAGTGAAAGTAATCATGTTATGCAATACAT
1 GAATAATACGTTCATCCACCTAAGAAAAAGAGTGAAAGTAATCATGTTATGCAATACAT
*
3930861 GAATAATACGTTCATCCACCTAAGAAAAAGAGTGAAGGTAATCATGTTATGCA
1 GAATAATACGTTCATCCACCTAAGAAAAAGAGTGAAAGTAATCATGTTATGCA
3930914 TTCCTGAATT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 108 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (59 bp):
GAATAATACGTTCATCCACCTAAGAAAAAGAGTGAAAGTAATCATGTTATGCAATACAT
Found at i:3941843 original size:34 final size:33
Alignment explanation
Indices: 3941778--3941861 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 33
3941768 TCAAAATTTT
* *
3941778 ATTTTTAAAAATTATATTATATACTTGAAAATAA
1 ATTTTTGAAAATT-TATTATATACTTAAAAATAA
** *
3941812 ATTTTTGAAAATTTATTATAATTTTTAAAAATTA
1 ATTTTTGAAAATTTATTAT-ATACTTAAAAATAA
*
3941846 ATTTTTG-AGATTTATT
1 ATTTTTGAAAATTTATT
3941862 TAGAATTCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
33 14 0.33
34 29 0.67
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (33 bp):
ATTTTTGAAAATTTATTATATACTTAAAAATAA
Found at i:3942664 original size:34 final size:35
Alignment explanation
Indices: 3942622--3942693 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 35
3942612 TTAAAAATAC
* *
3942622 TTTTTAAAAATGGATATTCGA-AAAATTTTAAGGT
1 TTTTTAAAAATAGATATTCGAGAAAATTTTAAGCT
*
3942656 TTTTTAAAAATAGATATTCGAGAAACTTTTAAGCT
1 TTTTTAAAAATAGATATTCGAGAAAATTTTAAGCT
3942691 TTT
1 TTT
3942694 CGAATATCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 20 0.59
35 14 0.41
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTTAAAAATAGATATTCGAGAAAATTTTAAGCT
Found at i:3944695 original size:33 final size:33
Alignment explanation
Indices: 3944657--3944720 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
3944647 CACCGCACAT
3944657 TAATTTTTTAACGATAAGCTAAAGATGATGTAG
1 TAATTTTTTAACGATAAGCTAAAGATGATGTAG
*
3944690 TAATTTTTTAATGATAAGCTAAAGATGATGT
1 TAATTTTTTAACGATAAGCTAAAGATGATGT
3944721 GGCCTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (33 bp):
TAATTTTTTAACGATAAGCTAAAGATGATGTAG
Found at i:3945895 original size:14 final size:15
Alignment explanation
Indices: 3945872--3945903 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3945862 AATTCTAATA
*
3945872 TTTAAAAATTATTTC
1 TTTAAAATTTATTTC
3945887 TTTAAAATTTATTTC
1 TTTAAAATTTATTTC
3945902 TT
1 TT
3945904 CATAAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAAAATTTATTTC
Found at i:3946991 original size:19 final size:19
Alignment explanation
Indices: 3946967--3947012 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
3946957 TGTTTTTTGT
3946967 TCTTTTCTTTCTTTCTCTC
1 TCTTTTCTTTCTTTCTCTC
* * *
3946986 TCTTTTTTTTCTTTTTTTC
1 TCTTTTCTTTCTTTCTCTC
3947005 T-TTTTCTT
1 TCTTTTCTT
3947013 CCCTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TCTTTTCTTTCTTTCTCTC
Found at i:3947000 original size:28 final size:28
Alignment explanation
Indices: 3946959--3947025 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
3946949 CCTTACATTG
*
3946959 TTTTTTGTTCTTTTCTTTCTTTCTC-TCTC
1 TTTTTT-TTCTTTT-TTTCTTTCTCTTCCC
*
3946988 TTTTTTTTCTTTTTTTCTTTTTCTTCCC
1 TTTTTTTTCTTTTTTTCTTTCTCTTCCC
3947016 TTTTATTTTC
1 TTTT-TTTTC
3947026 CCACGTTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 9 0.26
28 14 0.41
29 11 0.32
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.76
Consensus pattern (28 bp):
TTTTTTTTCTTTTTTTCTTTCTCTTCCC
Found at i:3947010 original size:29 final size:27
Alignment explanation
Indices: 3946959--3947025 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 27
3946949 CCTTACATTG
*
3946959 TTTTTTGTTCTTTTCTTTCTTTCTCTCTC
1 TTTTTT-TTCTTTTCTTTCTTTCT-TCCC
3946988 TTTTTTTTCTTTT-TTTCTTTTTCTTCCC
1 TTTTTTTTCTTTTCTTTC--TTTCTTCCC
3947016 TTTTATTTTC
1 TTTT-TTTTC
3947026 CCACGTTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 4 0.12
28 14 0.41
29 16 0.47
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTTTTTTCTTTTCTTTCTTTCTTCCC
Found at i:3949801 original size:23 final size:22
Alignment explanation
Indices: 3949761--3949806 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
3949751 ACTTAAACAT
**
3949761 AAAAAATAAATATGTACAAGTAA
1 AAAAAATAAATAAATACAA-TAA
*
3949784 AAAAAATATATAAATACAATAA
1 AAAAAATAAATAAATACAATAA
3949806 A
1 A
3949807 TTATTTATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAAAATAAATAAATACAATAA
Found at i:3950024 original size:14 final size:14
Alignment explanation
Indices: 3949992--3950042 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
3949982 ATTGGAAATT
* *
3949992 AAAAATTTTAATTT
1 AAAAATTTTAAGTA
*
3950006 GAAAATTTTAAGTA
1 AAAAATTTTAAGTA
3950020 AAAAATTTATAAGTA
1 AAAAATTT-TAAGTA
3950035 AAAAATTT
1 AAAAATTT
3950043 ATGATAGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 18 0.56
15 14 0.44
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
AAAAATTTTAAGTA
Found at i:3950052 original size:17 final size:15
Alignment explanation
Indices: 3950007--3950044 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
3949997 TTTTAATTTG
3950007 AAAATTT-TAAGTAA
1 AAAATTTATAAGTAA
3950021 AAAATTTATAAGTAA
1 AAAATTTATAAGTAA
3950036 AAAATTTAT
1 AAAATTTAT
3950045 GATAGTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
AAAATTTATAAGTAA
Found at i:3952387 original size:20 final size:19
Alignment explanation
Indices: 3952359--3952399 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
3952349 CTTTTTTTAG
3952359 CTTTTTTTTCTTCTTCTTTTCT
1 CTTTTTTTT-TTC-TC-TTTCT
3952381 CTTTTTTTTTTCTCTTTCT
1 CTTTTTTTTTTCTCTTTCT
3952400 TTCCCTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 3 0.16
22 9 0.47
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
CTTTTTTTTTTCTCTTTCT
Found at i:3952394 original size:13 final size:13
Alignment explanation
Indices: 3952360--3952397 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
3952350 TTTTTTTAGC
*
3952360 TTTTTTT-TCTTC
1 TTTTTTTCTCTTT
*
3952372 TTCTTTTCTCTTT
1 TTTTTTTCTCTTT
3952385 TTTTTTTCTCTTT
1 TTTTTTTCTCTTT
3952398 CTTTCCCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:3952412 original size:24 final size:24
Alignment explanation
Indices: 3952360--3952412 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
3952350 TTTTTTTAGC
*
3952360 TTTTTTTTCTTCTTCTTTTCTCTT
1 TTTTTTTTCTTCTTCTTTTCCCTT
3952384 TTTTTTTTC-TCTT-TCTTTCCCTT
1 TTTTTTTTCTTCTTCT-TTTCCCTT
*
3952407 TCTTTT
1 TTTTTT
3952413 ACTTTCCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 1 0.04
23 16 0.62
24 9 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTTTTTCTTCTTCTTTTCCCTT
Found at i:3952423 original size:20 final size:20
Alignment explanation
Indices: 3952394--3952431 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3952384 TTTTTTTTCT
* *
3952394 CTTTCTTTCCCTTTCTTTTA
1 CTTTCCTTCCCTTCCTTTTA
3952414 CTTTCCTTCCCTTCCTTT
1 CTTTCCTTCCCTTCCTTT
3952432 ATTTCAGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.61
Consensus pattern (20 bp):
CTTTCCTTCCCTTCCTTTTA
Found at i:3953841 original size:15 final size:15
Alignment explanation
Indices: 3953821--3953865 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
3953811 CAGTCAGATT
3953821 AATCCAAACCCTAAA
1 AATCCAAACCCTAAA
*
3953836 AATCCAAACCCCAAA
1 AATCCAAACCCTAAA
**
3953851 CCTCCAAACCCTAAA
1 AATCCAAACCCTAAA
3953866 TTAAGTCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.11
Consensus pattern (15 bp):
AATCCAAACCCTAAA
Found at i:3953922 original size:30 final size:30
Alignment explanation
Indices: 3953883--3953939 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
3953873 TCAAATTTTC
* **
3953883 AAACTCTAAAATTGAAACCCTAAACCCCCT
1 AAACCCTAAAATCAAAACCCTAAACCCCCT
*
3953913 AAACCCTAAAATCAAAATCCTAAACCC
1 AAACCCTAAAATCAAAACCCTAAACCC
3953940 TAAAATCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (30 bp):
AAACCCTAAAATCAAAACCCTAAACCCCCT
Found at i:3953935 original size:21 final size:22
Alignment explanation
Indices: 3953910--3953951 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
3953900 CCCTAAACCC
3953910 CCTAAACCCTAAAAT-CAAAAT
1 CCTAAACCCTAAAATCCAAAAT
3953931 CCTAAACCCTAAAATCCAAAA
1 CCTAAACCCTAAAATCCAAAA
3953952 CCTTAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (22 bp):
CCTAAACCCTAAAATCCAAAAT
Found at i:3953946 original size:15 final size:15
Alignment explanation
Indices: 3953926--3953966 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
3953916 CCCTAAAATC
*
3953926 AAAATCCTAAACCCT
1 AAAATCCAAAACCCT
*
3953941 AAAATCCAAAACCTT
1 AAAATCCAAAACCCT
3953956 AAAATCCAAAA
1 AAAATCCAAAA
3953967 TTCTAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATCCAAAACCCT
Found at i:3962498 original size:41 final size:41
Alignment explanation
Indices: 3962421--3962498 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
3962411 TTAAAGTTTT
* *
3962421 AAAGCCTCTGTTTAAGAGGAACCATTTTGAATCAAGATTTA
1 AAAGCCTCTGTTTAAGAGGAACCATTTTCAAACAAGATTTA
*
3962462 AAAGCCTCTGTTTAAGAGGAA-CTTTCTTCAAACAAGA
1 AAAGCCTCTGTTTAAGAGGAACCATT-TTCAAACAAGA
3962499 CCTTTAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 3 0.09
41 30 0.91
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (41 bp):
AAAGCCTCTGTTTAAGAGGAACCATTTTCAAACAAGATTTA
Found at i:3963307 original size:22 final size:22
Alignment explanation
Indices: 3963282--3963325 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3963272 ATCGATTCTG
*
3963282 TAAGA-CTTCTAGGCATGATTTC
1 TAAGACCTT-TAGGCATAATTTC
3963304 TAAGACCTTTAGGCATAATTTC
1 TAAGACCTTTAGGCATAATTTC
3963326 AATTCGCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (22 bp):
TAAGACCTTTAGGCATAATTTC
Found at i:3963415 original size:239 final size:242
Alignment explanation
Indices: 3963077--3963631 Score: 656
Period size: 239 Copynumber: 2.3 Consensus size: 242
3963067 GACCTCTGCA
** *
3963077 CATAATTTCAATTCGCGGTGTTGTCCCAATCAATTTTTTATTTTTTGACTTACTATGTTGTCTCG
1 CATAATTTCAATTCGCGGTGCGGTCCCAATCAATTCTTTATTTTTTGACTTACTATGTTGTCTCG
* * *
3963142 ATCGATTCTGTAAGACCTCCAGACATGATTTTTAAGACCTTCGGGCATAATATTTAAGACTTCCA
66 ATCGATTCTGTAAGACCTCCAGACATGATTTTTAAGACCTCCGAGCATAATATTTAAGACATCCA
* * *
3963207 AGCATAATTTTGATTTGCAGTGTTGTCTCGATTGATTCTTTATTTTTTGAC-TACGGTGTTAT-T
131 AGCATAATTTTGATTTACAGTGTTGTCTCGATCGATTCTTTATTTTTTGACTTACGGTGTTATCC
* *
3963270 CGATCGATTCTGTAAGACTTCTAG-GCATGATTTCTAAGACCTTTAGG
196 CGATCGATTCTATAAGACCTC-AGAGCATGATTTCTAAGACCTTTAGG
** *
3963317 CATAATTTCAATTCGCGGTGCGGTCCTTATCGATTCTTTATTTTTTGAC-TA-TGATGTTGTCTC
1 CATAATTTCAATTCGCGGTGCGGTCCCAATCAATTCTTTATTTTTTGACTTACT-ATGTTGTCTC
* * * *
3963380 GGTCGATTCTGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGAGCATAATTTTTAAGACATCC
65 GATCGATTCTGTAAGACCTCCAGACATGATTTTTAAGACCTCCGAGCATAATATTTAAGACATCC
** * * * * *
3963445 GGGCATAATTTTGATTTACGGTGTTGTTTCGATCGATTTTTTATTTTTTGACTTATGGTGTTGTC
130 AAGCATAATTTTGATTTACAGTGTTGTCTCGATCGATTCTTTATTTTTTGACTTACGGTGTTATC
* * *
3963510 CCGATCGATTCTATAAGACCTCCGAGCATGATTTTTAAGACCTCT-GAG
195 CCGATCGATTCTATAAGACCTCAGAGCATGATTTCTAAGACCTTTAG-G
* ** * **** * * * * *
3963558 TATAATTTTGATTCGCAGTATTATCTCGATCGATTCTTTATTTTTTGACTTACGATATTGT-TCC
1 CATAATTTCAATTCGCGGTGCGGTCCCAATCAATTCTTTATTTTTTGACTTACTATGTTGTCT-C
3963622 GATCGATTCT
65 GATCGATTCT
3963632 TTACTTTTCG
Statistics
Matches: 265, Mismatches: 42, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
238 1 0.00
239 115 0.43
240 54 0.20
241 77 0.29
242 18 0.07
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (242 bp):
CATAATTTCAATTCGCGGTGCGGTCCCAATCAATTCTTTATTTTTTGACTTACTATGTTGTCTCG
ATCGATTCTGTAAGACCTCCAGACATGATTTTTAAGACCTCCGAGCATAATATTTAAGACATCCA
AGCATAATTTTGATTTACAGTGTTGTCTCGATCGATTCTTTATTTTTTGACTTACGGTGTTATCC
CGATCGATTCTATAAGACCTCAGAGCATGATTTCTAAGACCTTTAGG
Found at i:3963416 original size:22 final size:22
Alignment explanation
Indices: 3963391--3963456 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
3963381 GTCGATTCTG
*
3963391 TAAGACCTCCGGGCATGATTTT
1 TAAGACCTCCGGGCATAATTTT
*
3963413 TAAGACCTCCGAGCATAATTTT
1 TAAGACCTCCGGGCATAATTTT
*
3963435 TAAGACATCCGGGCATAATTTT
1 TAAGACCTCCGGGCATAATTTT
3963457 GATTTACGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAATTTT
Found at i:3963565 original size:22 final size:22
Alignment explanation
Indices: 3963523--3963566 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3963513 ATCGATTCTA
*
3963523 TAAGACCTCCGAGCATGATTTT
1 TAAGACCTCCGAGCATAATTTT
* *
3963545 TAAGACCTCTGAGTATAATTTT
1 TAAGACCTCCGAGCATAATTTT
3963567 GATTCGCAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTT
Found at i:3963606 original size:110 final size:110
Alignment explanation
Indices: 3963413--3963631 Score: 294
Period size: 110 Copynumber: 2.0 Consensus size: 110
3963403 GCATGATTTT
* * * * * *
3963413 TAAGACCTCCGAGCATAATTTTTAAGACATCCGGGCATAATTTTGATTTACGGTGTTGTTTCGAT
1 TAAGACCTCCGAGCATAATTTTTAAGACATCCGAGCATAATTTTGATTCACAGTATTATCTCGAT
* * * *
3963478 CGATTTTTTATTTTTTGACTTATGGTGTTGTCCCGATCGATTCTA
66 CGATTCTTTATTTTTTGACTTACGATATTGTCCCGATCGATTCTA
* * * * *
3963523 TAAGACCTCCGAGCATGATTTTTAAGACCTCTGAGTATAATTTTGATTCGCAGTATTATCTCGAT
1 TAAGACCTCCGAGCATAATTTTTAAGACATCCGAGCATAATTTTGATTCACAGTATTATCTCGAT
*
3963588 CGATTCTTTATTTTTTGACTTACGATATTGTTCCGATCGATTCT
66 CGATTCTTTATTTTTTGACTTACGATATTGTCCCGATCGATTCT
3963632 TTACTTTTCG
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
110 93 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (110 bp):
TAAGACCTCCGAGCATAATTTTTAAGACATCCGAGCATAATTTTGATTCACAGTATTATCTCGAT
CGATTCTTTATTTTTTGACTTACGATATTGTCCCGATCGATTCTA
Found at i:3963625 original size:37 final size:37
Alignment explanation
Indices: 3963576--3963681 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 37
3963566 TGATTCGCAG
* *
3963576 TATTATCTCGATCGATTCTTTATTTTTTGACTTACGA
1 TATTATCCCGATCGATTCTTTATTTTTTGACTTACAA
* * * * *
3963613 TATTGTTCCGATCGATTCTTTACTTTTCGACTTGCAA
1 TATTATCCCGATCGATTCTTTATTTTTTGACTTACAA
* * *
3963650 TGTTATCCCAATCAATTCTTTATTTTTTGACT
1 TATTATCCCGATCGATTCTTTATTTTTTGACT
3963682 CGTCATGTCA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (37 bp):
TATTATCCCGATCGATTCTTTATTTTTTGACTTACAA
Found at i:3965359 original size:3 final size:3
Alignment explanation
Indices: 3965353--3965393 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
3965343 AAAAAAAGCT
3965353 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3965394 GAACTTTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3965622 original size:28 final size:29
Alignment explanation
Indices: 3965583--3965651 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
3965573 ATTAAGTCCC
* *
3965583 AAACCTCT-AAATCCTAAAATTAAACC-AT
1 AAACC-CTAAAATCCGAAAACTAAACCTAT
** *
3965611 AAACCCTAAAATCCGAACCCTAAACCTCT
1 AAACCCTAAAATCCGAAAACTAAACCTAT
3965640 AAACCCTAAAAT
1 AAACCCTAAAAT
3965652 TAAACTCTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.06
28 19 0.56
29 13 0.38
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACCCTAAAATCCGAAAACTAAACCTAT
Found at i:3965646 original size:15 final size:15
Alignment explanation
Indices: 3965626--3965708 Score: 73
Period size: 15 Copynumber: 5.6 Consensus size: 15
3965616 CTAAAATCCG
3965626 AACCCTAAACCTCTA
1 AACCCTAAACCTCTA
*
3965641 AACCCTAAA-AT-TA
1 AACCCTAAACCTCTA
*
3965654 AACTCTAAATCCT-TCA
1 AACCCTAAA-CCTCT-A
** *
3965670 AACCCTAAAAATCCA
1 AACCCTAAACCTCTA
*
3965685 AACCCCAAACCTCTA
1 AACCCTAAACCTCTA
3965700 AACCCTAAA
1 AACCCTAAA
3965709 TTAAATCCCA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
13 10 0.19
14 1 0.02
15 32 0.62
16 9 0.17
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCTAAACCTCTA
Found at i:3965650 original size:29 final size:29
Alignment explanation
Indices: 3965610--3965708 Score: 121
Period size: 29 Copynumber: 3.4 Consensus size: 29
3965600 AATTAAACCA
*
3965610 TAAACCCTAAAATCCGAACCCTAAACCTC
1 TAAACCCTAAAATCCAAACCCTAAACCTC
* *
3965639 TAAACCCTAAAAT-TAAACTCTAAATCCT-
1 TAAACCCTAAAATCCAAACCCTAAA-CCTC
*
3965667 TCAAACCCTAAAAATCCAAACCCCAAACCTC
1 T-AAACCCT-AAAATCCAAACCCTAAACCTC
3965698 TAAACCCTAAA
1 TAAACCCTAAA
3965709 TTAAATCCCA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
28 9 0.15
29 26 0.44
30 15 0.25
31 9 0.15
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.19
Consensus pattern (29 bp):
TAAACCCTAAAATCCAAACCCTAAACCTC
Found at i:3965689 original size:59 final size:58
Alignment explanation
Indices: 3965611--3965767 Score: 187
Period size: 59 Copynumber: 2.7 Consensus size: 58
3965601 ATTAAACCAT
* *
3965611 AAACCCT-AAAATCCGAACCCTAAACCTCTAAACCCTAAAATTAAA-CTCTAAATCCTTC
1 AAACCCTAAAAATCCAAACCCTAAACCTCTAAACCCTAAAATTAAATC-CCAAAT-CTTC
* *
3965669 AAACCCTAAAAATCCAAACCCCAAACCTCTAAACCCT-AAATTAAATCCCAAATTTTC
1 AAACCCTAAAAATCCAAACCCTAAACCTCTAAACCCTAAAATTAAATCCCAAATCTTC
* * * *
3965726 AAACTCTAAAAAT-GAAACCGTAAACCCCCTAAACCCTAAAAT
1 AAACCCTAAAAATCCAAACCCTAAA-CCTCTAAACCCTAAAAT
3965768 CAAAATCCTA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
56 8 0.09
57 26 0.30
58 24 0.28
59 28 0.33
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (58 bp):
AAACCCTAAAAATCCAAACCCTAAACCTCTAAACCCTAAAATTAAATCCCAAATCTTC
Found at i:3965758 original size:57 final size:58
Alignment explanation
Indices: 3965611--3965765 Score: 165
Period size: 57 Copynumber: 2.7 Consensus size: 58
3965601 ATTAAACCAT
* * * *
3965611 AAACCCT-AAAATCCGAACCCTAAACCTCTAAACCCTAAAATTAAACTCTAAATCCTTC
1 AAACCCTAAAAATCCAAACCCCAAACCCCTAAACCCT-AAATTAAACTCCAAATCCTTC
* *
3965669 AAACCCTAAAAATCCAAACCCCAAACCTCTAAACCCTAAATTAAA-TCCCAAAT-TTTC
1 AAACCCTAAAAATCCAAACCCCAAACCCCTAAACCCTAAATTAAACT-CCAAATCCTTC
* * **
3965726 AAACTCTAAAAAT-GAAACCGTAAACCCCCTAAACCCTAAA
1 AAACCCTAAAAATCCAAACCCCAAA-CCCCTAAACCCTAAA
3965766 ATCAAAATCC
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
56 8 0.09
57 30 0.35
58 20 0.24
59 27 0.32
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.20
Consensus pattern (58 bp):
AAACCCTAAAAATCCAAACCCCAAACCCCTAAACCCTAAATTAAACTCCAAATCCTTC
Found at i:3965778 original size:21 final size:22
Alignment explanation
Indices: 3965753--3965794 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3965743 CCGTAAACCC
3965753 CCTAAACCCTAAAAT-CAAAAT
1 CCTAAACCCTAAAATCCAAAAT
*
3965774 CCTAAGCCCTAAAATCCAAAA
1 CCTAAACCCTAAAATCCAAAA
3965795 CTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.50, C:0.31, G:0.02, T:0.17
Consensus pattern (22 bp):
CCTAAACCCTAAAATCCAAAAT
Found at i:3970128 original size:18 final size:18
Alignment explanation
Indices: 3970105--3970140 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3970095 AATTTGGCTT
3970105 TAAATGAAGGATGGAGAA
1 TAAATGAAGGATGGAGAA
3970123 TAAATGAAGGATGGAGAA
1 TAAATGAAGGATGGAGAA
3970141 CGCTCGGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (18 bp):
TAAATGAAGGATGGAGAA
Found at i:3970476 original size:22 final size:23
Alignment explanation
Indices: 3970437--3970485 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
3970427 ATTGAGTTAT
* *
3970437 TTAAAATTATTTTTAATAATTGA
1 TTAAAATTATATTTAATAATTAA
3970460 TTAAAATTA-ATTTAATAATTAA
1 TTAAAATTATATTTAATAATTAA
3970482 TTAA
1 TTAA
3970486 TTAATCGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTAAAATTATATTTAATAATTAA
Found at i:3970485 original size:11 final size:11
Alignment explanation
Indices: 3970449--3970486 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3970439 AAAATTATTT
*
3970449 TTAATAATTGA
1 TTAATAATTAA
3970460 TTAA-AATTAA
1 TTAATAATTAA
3970470 TTTAATAATTAA
1 -TTAATAATTAA
3970482 TTAAT
1 TTAAT
3970487 TAATCGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 5 0.21
11 13 0.54
12 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TTAATAATTAA
Found at i:3983845 original size:21 final size:22
Alignment explanation
Indices: 3983821--3983865 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
3983811 CAGCCACTGC
*
3983821 CCTTCCTCAAACTCCACC-CCA
1 CCTTCCACAAACTCCACCTCCA
* *
3983842 CCTTCCACAACCTTCACCTCCA
1 CCTTCCACAAACTCCACCTCCA
3983864 CC
1 CC
3983866 AAAACAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.22, C:0.58, G:0.00, T:0.20
Consensus pattern (22 bp):
CCTTCCACAAACTCCACCTCCA
Found at i:3987001 original size:11 final size:11
Alignment explanation
Indices: 3986974--3987052 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 11
3986964 TAATGATATA
*
3986974 ATATAAAAATA
1 ATATAAAAATT
*
3986985 AAATAAAAATT
1 ATATAAAAATT
3986996 ATAT--AAATT
1 ATATAAAAATT
3987005 ATATAATTTAAAATT
1 ATAT-A---AAAATT
*
3987020 TTAATAAAAATT
1 AT-ATAAAAATT
3987032 ATATATAAAATT
1 ATATA-AAAATT
3987044 A-ATAAAAAT
1 ATATAAAAAT
3987053 AAAAAAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
9 9 0.16
10 5 0.09
11 18 0.33
12 14 0.25
15 7 0.13
16 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATAAAAATT
Found at i:3987010 original size:36 final size:36
Alignment explanation
Indices: 3986961--3987036 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
3986951 TTAAGAAACA
3986961 ATAT-AATGATATAATATAAAAATAAAATAAAAATT
1 ATATAAATGATATAATATAAAAATAAAATAAAAATT
* * * **
3986996 ATATAAATTATATAATTTAAAATTTTAATAAAAATT
1 ATATAAATGATATAATATAAAAATAAAATAAAAATT
3987032 ATATA
1 ATATA
3987037 TAAAATTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 4 0.11
36 31 0.89
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (36 bp):
ATATAAATGATATAATATAAAAATAAAATAAAAATT
Found at i:3990876 original size:22 final size:22
Alignment explanation
Indices: 3990847--3990892 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
3990837 TGTTTTTTGT
* *
3990847 TTTTTTTTTTGTATTTTATTTAA
1 TTTTTTTTAT-TATTGTATTTAA
3990870 TTTTTTTTATTATTGTATTTAA
1 TTTTTTTTATTATTGTATTTAA
3990892 T
1 T
3990893 AATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTTTATTATTGTATTTAA
Found at i:3990902 original size:21 final size:22
Alignment explanation
Indices: 3990876--3990925 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
3990866 TTAATTTTTT
3990876 TTATTATTGTAT-TTAATAATA
1 TTATTATTGTATCTTAATAATA
*
3990897 TTATTA--GTATCTTATTAATA
1 TTATTATTGTATCTTAATAATA
3990917 TATATTATT
1 T-TATTATT
3990926 TAATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 11 0.46
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TTATTATTGTATCTTAATAATA
Found at i:3991285 original size:22 final size:22
Alignment explanation
Indices: 3991258--3991300 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3991248 ACAACTTTTA
*
3991258 AAAAATTCTATCTTGAAAAAGT
1 AAAAATTCTATCTTAAAAAAGT
*
3991280 AAAAATTCTCTCTTAAAAAAG
1 AAAAATTCTATCTTAAAAAAG
3991301 CTCATCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAAATTCTATCTTAAAAAAGT
Found at i:3991288 original size:73 final size:71
Alignment explanation
Indices: 3991206--3991349 Score: 191
Period size: 73 Copynumber: 2.0 Consensus size: 71
3991196 ACAAAGGTTT
* * * ** *
3991206 TAAAAATTCTATCTTGAAAAAGTTCCTCTC-AGTGAAGGTTCAACAACTTTTAAAAAATTCTATC
1 TAAAAATTCTATCTTAAAAAAGCTCATCTCAACAG-AGGGTCAACAA-TTTT-AAAAATTCTATC
3991270 TTGAAAAAG
63 TTGAAAAAG
*
3991279 TAAAAATTCTCTCTTAAAAAAGCTCATCTCAACAGAGGGTCAACAATTTTAAAAATTCTATCTTG
1 TAAAAATTCTATCTTAAAAAAGCTCATCTCAACAGAGGGTCAACAATTTTAAAAATTCTATCTTG
3991344 AAAAAG
66 AAAAAG
3991350 GTTCCTCTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
71 21 0.33
72 4 0.06
73 36 0.57
74 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.31
Consensus pattern (71 bp):
TAAAAATTCTATCTTAAAAAAGCTCATCTCAACAGAGGGTCAACAATTTTAAAAATTCTATCTTG
AAAAAG
Found at i:3991517 original size:49 final size:49
Alignment explanation
Indices: 3991279--3991580 Score: 278
Period size: 48 Copynumber: 6.2 Consensus size: 49
3991269 CTTGAAAAAG
* * * *
3991279 TAAAAATTC-TCTCTTAAAAAAGCTCATCTCAA-CAGAGGGTCAACAATTT
1 TAAAAATTCATCT-TGAAAAAAGCTCCTCT-AAGCAGAGGCTCAACAACTT
* * *
3991328 TAAAAATTCTATCTTGAAAAAGGTTCCTCTCAGCAGAGGCTCAACAACTT
1 TAAAAATTC-ATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * * *
3991378 TAAAAAAATTTTC-TCTT-AGAAAAGCTCATCTCAGTAGAGGTTCAACAACTT
1 T--AAAAA--TTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * * *
3991429 TAAATA-TCATCTTGAAAAAAGCT-CTCTAAACAGAGGCTCAATAATTT
1 TAAAAATTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * *
3991476 TAAAAACTCATCTTGAAAAAAGCTCCTCTAAGCAGAAGCTCAATAACTT
1 TAAAAATTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
* * *
3991525 T-AAAATTCAATCTTG-AAAAAGTTCTTCTAAGCAGAGGCTTAACAACTT
1 TAAAAATTC-ATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
3991573 TAAAAATT
1 TAAAAATT
3991581 TTATCTGTTC
Statistics
Matches: 208, Mismatches: 32, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
46 2 0.01
47 26 0.12
48 60 0.29
49 48 0.23
50 28 0.13
51 32 0.15
52 9 0.04
54 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (49 bp):
TAAAAATTCATCTTGAAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTT
Found at i:3999798 original size:19 final size:18
Alignment explanation
Indices: 3999759--3999810 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
3999749 ATTTTTTTAT
3999759 TATTGTATTTAATAATAA
1 TATTGTATTTAATAATAA
*
3999777 TATTAGTATCTTATTAAT-A
1 TATT-GTAT-TTAATAATAA
3999796 TATAT-TATTTAATAA
1 TAT-TGTATTTAATAA
3999811 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 6 0.21
18 7 0.24
19 8 0.28
20 8 0.28
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTGTATTTAATAATAA
Found at i:4001175 original size:22 final size:21
Alignment explanation
Indices: 4001133--4001178 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4001123 AATCGAGTTA
** *
4001133 AATTTAAATATTTTTATATTT
1 AATTTAAATATTCATAAATTT
4001154 AATTTAAATAATTCATAAATTT
1 AATTTAAAT-ATTCATAAATTT
4001176 AAT
1 AAT
4001179 CAAATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTAAATATTCATAAATTT
Found at i:4002213 original size:13 final size:12
Alignment explanation
Indices: 4002182--4002213 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
4002172 TATTACTATT
4002182 TATATTTTAAAA
1 TATATTTTAAAA
4002194 TATATTTTAAAA
1 TATATTTTAAAA
4002206 TAATATTT
1 T-ATATTT
4002214 CTAGCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATTTTAAAA
Found at i:4002530 original size:25 final size:25
Alignment explanation
Indices: 4002500--4002553 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
4002490 AAATTTATTA
*
4002500 AATTTTTT-TAATCATAATTATAAT
1 AATTTTTTAAAATCATAATTATAAT
*
4002524 AATTTTTTAAAATTATAATTATAAT
1 AATTTTTTAAAATCATAATTATAAT
4002549 AATTT
1 AATTT
4002554 ATATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
AATTTTTTAAAATCATAATTATAAT
Found at i:4003073 original size:20 final size:21
Alignment explanation
Indices: 4003041--4003079 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4003031 ATGATATTTA
*
4003041 AATTTTAAAAATTTTTAATGT
1 AATTTTAAAAATTATTAATGT
4003062 AATTTT-AAAATTATTAAT
1 AATTTTAAAAATTATTAAT
4003080 TCATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AATTTTAAAAATTATTAATGT
Found at i:4003352 original size:27 final size:28
Alignment explanation
Indices: 4003313--4003368 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
4003303 TAAAAATTAA
* * *
4003313 TTTACAATATTTAATGTGATATTTAAAT
1 TTTACAATATTTAATATAATACTTAAAT
*
4003341 TTTA-AATTTTTAATATAATACTTAAAT
1 TTTACAATATTTAATATAATACTTAAAT
4003368 T
1 T
4003369 ATGAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (28 bp):
TTTACAATATTTAATATAATACTTAAAT
Found at i:4003492 original size:29 final size:29
Alignment explanation
Indices: 4003460--4003523 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
4003450 AAATATTTTA
* *
4003460 ATTAACAAA-ATTTATAGTTTAAATATCAC
1 ATTAA-AAATATTTAAAATTTAAATATCAC
* *
4003489 ATTAAAAATTTTTAAAATTTAAATATCAT
1 ATTAAAAATATTTAAAATTTAAATATCAC
4003518 ATTAAA
1 ATTAAA
4003524 TATTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (29 bp):
ATTAAAAATATTTAAAATTTAAATATCAC
Found at i:4010169 original size:16 final size:16
Alignment explanation
Indices: 4010136--4010176 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
4010126 TTCAGTTTTT
*
4010136 AATTGAAATATAATAA
1 AATTGAAATATAAAAA
*
4010152 AATTTAAATATAAAAA
1 AATTGAAATATAAAAA
*
4010168 AAATGAAAT
1 AATTGAAAT
4010177 GGATCATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
AATTGAAATATAAAAA
Found at i:4010257 original size:16 final size:16
Alignment explanation
Indices: 4010236--4010266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4010226 AGCTAAATTT
4010236 ATTTAAAATATAAAAA
1 ATTTAAAATATAAAAA
*
4010252 ATTTAAAATTTAAAA
1 ATTTAAAATATAAAA
4010267 TATAATATAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTTAAAATATAAAAA
Found at i:4010266 original size:23 final size:24
Alignment explanation
Indices: 4010236--4010282 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
4010226 AGCTAAATTT
4010236 ATTTAAAATATAA-AAAATTTAAA
1 ATTTAAAATATAATAAAATTTAAA
*
4010259 ATTTAAAATATAATATAATTTAAA
1 ATTTAAAATATAATAAAATTTAAA
4010283 TATATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTTAAAATATAATAAAATTTAAA
Found at i:4016879 original size:18 final size:16
Alignment explanation
Indices: 4016846--4016886 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4016836 CTATCTTATT
4016846 TTTA-TATTTTTAATA
1 TTTATTATTTTTAATA
4016861 TTTATTATTTTATACATA
1 TTTATTATTTT-TA-ATA
4016879 TTT-TTATT
1 TTTATTATT
4016887 CATTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 6 0.26
17 7 0.30
18 6 0.26
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTTAATA
Found at i:4017610 original size:36 final size:39
Alignment explanation
Indices: 4017570--4017649 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 39
4017560 TATTAATATA
*
4017570 ATTTTATATTAATATGTTAAA-CATA-AAATATA-TTTT
1 ATTTTATATTAAAATGTTAAATCATATAAATATATTTTT
* * * *
4017606 ATTTTTTATTAAAATTTTAAATCATATAATTTTATTTTT
1 ATTTTATATTAAAATGTTAAATCATATAAATATATTTTT
4017645 ATTTT
1 ATTTT
4017650 TTTATATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 18 0.50
37 4 0.11
38 5 0.14
39 9 0.25
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (39 bp):
ATTTTATATTAAAATGTTAAATCATATAAATATATTTTT
Found at i:4019954 original size:1 final size:1
Alignment explanation
Indices: 4019948--4019972 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4019938 TACATTTAAG
4019948 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4019973 ACGTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4020326 original size:23 final size:23
Alignment explanation
Indices: 4020300--4020350 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4020290 AGATCGTAAT
*
4020300 TTAAAATTAAAAAATTATATATA
1 TTAAAATTAAAAAATTAAATATA
* * * *
4020323 TTAAATTTTAAAATTTAAATTTA
1 TTAAAATTAAAAAATTAAATATA
4020346 TTAAA
1 TTAAA
4020351 TATCATCTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAAAATTAAAAAATTAAATATA
Found at i:4021233 original size:2 final size:2
Alignment explanation
Indices: 4021226--4021250 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4021216 TATTAGAAAC
4021226 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4021251 CTATTTCCAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4021538 original size:22 final size:22
Alignment explanation
Indices: 4021513--4021557 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4021503 TGTATAATTA
4021513 TTATTATT-ACTACCGTATTTTT
1 TTATTATTAACTACCGT-TTTTT
* *
4021535 TTATTTTTAACTACTGTTTTTT
1 TTATTATTAACTACCGTTTTTT
4021557 T
1 T
4021558 AACTTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.20, C:0.11, G:0.04, T:0.64
Consensus pattern (22 bp):
TTATTATTAACTACCGTTTTTT
Found at i:4022016 original size:2 final size:2
Alignment explanation
Indices: 4022009--4022033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4021999 GATGTGTATG
4022009 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
4022034 ATTTTAAAGA
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:4022185 original size:19 final size:19
Alignment explanation
Indices: 4022153--4022191 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
4022143 TATTTATTTA
4022153 ATTTTTTTAAAATTTATAAAT
1 ATTTTTTT-AAATTT-TAAAT
4022174 ATTTTTTT-AATTTTAAAT
1 ATTTTTTTAAATTTTAAAT
4022192 CATATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTTTAAATTTTAAAT
Found at i:4023921 original size:15 final size:15
Alignment explanation
Indices: 4023901--4023932 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4023891 AGAACTAACA
4023901 TTTTTTTAAAAAAAT
1 TTTTTTTAAAAAAAT
*
4023916 TTTTTTTAGAAAAAT
1 TTTTTTTAAAAAAAT
4023931 TT
1 TT
4023933 ACCTTCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TTTTTTTAAAAAAAT
Found at i:4024696 original size:15 final size:17
Alignment explanation
Indices: 4024676--4024707 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4024666 TTTAAATTTA
4024676 TTTAAAT-TTAT-TAAT
1 TTTAAATATTATATAAT
4024691 TTTAAATATTATATAAT
1 TTTAAATATTATATAAT
4024708 AATATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATATTATATAAT
Found at i:4025663 original size:19 final size:18
Alignment explanation
Indices: 4025636--4025672 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4025626 AATAGTATCA
*
4025636 AAATTAAATTTGATGAATT
1 AAATCAAATTTGAT-AATT
4025655 AAATCAAATTTGATAATT
1 AAATCAAATTTGATAATT
4025673 TGAAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (18 bp):
AAATCAAATTTGATAATT
Found at i:4028100 original size:32 final size:33
Alignment explanation
Indices: 4028025--4028086 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
4028015 AGAATTAATT
* *
4028025 TATAATATGTTCAAGGGATTAAGGTTCAAAATC
1 TATAATGTATTCAAGGGATTAAGGTTCAAAATC
4028058 TATAATGTATTCAAGGGATTAAGG-TCAAA
1 TATAATGTATTCAAGGGATTAAGGTTCAAA
4028087 TTTGGTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.32
Consensus pattern (33 bp):
TATAATGTATTCAAGGGATTAAGGTTCAAAATC
Found at i:4028618 original size:16 final size:15
Alignment explanation
Indices: 4028597--4028631 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4028587 GATACTTACA
4028597 AATAAAAAATTCCATT
1 AATAAAAAATT-CATT
4028613 AAT-AAAAATTCATT
1 AATAAAAAATTCATT
4028627 AATAA
1 AATAA
4028632 TAACTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.39
15 8 0.44
16 3 0.17
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAAAAAATTCATT
Found at i:4028626 original size:14 final size:15
Alignment explanation
Indices: 4028601--4028631 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4028591 CTTACAAATA
4028601 AAAAATTCCATTAAT
1 AAAAATTCCATTAAT
4028616 AAAAATT-CATTAAT
1 AAAAATTCCATTAAT
4028630 AA
1 AA
4028632 TAACTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAATTCCATTAAT
Found at i:4029613 original size:16 final size:16
Alignment explanation
Indices: 4029579--4029635 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
4029569 AAATTACTCG
*
4029579 AATTTAAAAT-ATATCA
1 AATTTAAAATAAT-TAA
* *
4029595 AATTTAAATTAATTTA
1 AATTTAAAATAATTAA
*
4029611 AATCTAAAATAATTAA
1 AATTTAAAATAATTAA
4029627 AATTTAAAA
1 AATTTAAAA
4029636 ATGACTTGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 32 0.94
17 2 0.06
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTTAAAATAATTAA
Found at i:4031401 original size:19 final size:18
Alignment explanation
Indices: 4031373--4031408 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
4031363 ACTCTTAATT
4031373 ATAATAAAAAAATAAAAA
1 ATAATAAAAAAATAAAAA
4031391 ATAATTAAAAAAATAAAA
1 ATAA-TAAAAAAATAAAA
4031409 TATGTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAATAAAAAAATAAAAA
Found at i:4032729 original size:20 final size:20
Alignment explanation
Indices: 4032694--4032734 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4032684 TAGATCTAAT
*
4032694 TTTATTGAATTGTTTGTTTG
1 TTTATTGAATTGTTTGATTG
4032714 TTTATT-AATTGTTTTGATTG
1 TTTATTGAATTG-TTTGATTG
4032734 T
1 T
4032735 AATTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (20 bp):
TTTATTGAATTGTTTGATTG
Found at i:4035725 original size:24 final size:23
Alignment explanation
Indices: 4035664--4035725 Score: 54
Period size: 24 Copynumber: 2.6 Consensus size: 23
4035654 AAATATATGT
*
4035664 AAATAAATAAATAATTAATCAAA
1 AAATATATAAATAATTAATCAAA
** *
4035687 TTAT-TATTACTATAATTAATCAAA
1 AAATATA-TA-AATAATTAATCAAA
4035711 AAATATATAAGATAA
1 AAATATATAA-ATAA
4035726 AAATTAATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 7
0.67 0.17 0.17
Matches are distributed among these distances:
22 1 0.04
23 4 0.14
24 21 0.75
25 2 0.07
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATATATAAATAATTAATCAAA
Found at i:4035742 original size:13 final size:14
Alignment explanation
Indices: 4035724--4035756 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4035714 TATATAAGAT
4035724 AAAAATT-AATTAC
1 AAAAATTAAATTAC
4035737 AAAAATTAAATTAC
1 AAAAATTAAATTAC
4035751 ATAAAA
1 A-AAAA
4035757 AAGGGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 7 0.39
15 4 0.22
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATTAAATTAC
Found at i:4035778 original size:20 final size:21
Alignment explanation
Indices: 4035741--4035780 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4035731 AATTACAAAA
4035741 ATTAAATTACATAAAAAAGGG
1 ATTAAATTACATAAAAAAGGG
4035762 ATTAAATTACA-AAAAAAGG
1 ATTAAATTACATAAAAAAGG
4035781 AAAGCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (21 bp):
ATTAAATTACATAAAAAAGGG
Found at i:4037422 original size:6 final size:7
Alignment explanation
Indices: 4037406--4037456 Score: 52
Period size: 8 Copynumber: 7.1 Consensus size: 7
4037396 CGTTTTGTTA
4037406 AAATAAT
1 AAATAAT
4037413 AAAT-AT
1 AAATAAT
4037419 AAATAAT
1 AAATAAT
*
4037426 AAAACAAT
1 -AAATAAT
4037434 ACAATAAT
1 A-AATAAT
4037442 AAA-AAT
1 AAATAAT
4037448 ATAATAAT
1 A-AATAAT
4037456 A
1 A
4037457 GGACGAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 10 0.27
7 11 0.30
8 16 0.43
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (7 bp):
AAATAAT
Done.