Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 43 of 133
Found at i:9372669 original size:26 final size:25
Alignment explanation
Indices: 9372616--9372683 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 25
9372606 TATTAATATA
9372616 ATTATTAAAATATTAAAAATTATCT
1 ATTATTAAAATATTAAAAATTATCT
* *
9372641 ATTATTAAAGTATATT-GAAATTATTT
1 ATTATTAAA--ATATTAAAAATTATCT
9372667 ATTATTAAAATTATTAA
1 ATTATTAAAA-TATTAA
9372684 TATTTAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
24 1 0.03
25 13 0.36
26 17 0.47
27 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTATCT
Found at i:9372700 original size:20 final size:19
Alignment explanation
Indices: 9372673--9372727 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 19
9372663 ATTTATTATT
9372673 AAAATTATTAATATTTAAA
1 AAAATTATTAATATTTAAA
9372692 AATAATTA-T-AT-TTTAATA
1 AA-AATTATTAATATTTAA-A
9372710 AAAATT-TTAATA-TTAAA
1 AAAATTATTAATATTTAAA
9372727 A
1 A
9372728 TAAAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
17 12 0.39
18 11 0.35
19 3 0.10
20 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATTATTAATATTTAAA
Found at i:9372702 original size:16 final size:17
Alignment explanation
Indices: 9372673--9372742 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
9372663 ATTTATTATT
*
9372673 AAAATTATTAATATTTA
1 AAAATAATTAATATTTA
9372690 AAAATAATT-ATATTTTA
1 AAAATAATTAATA-TTTA
9372707 ATAAA-AATTTTAATA-TT-
1 A-AAATAA--TTAATATTTA
*
9372724 AAAATAA-AAATATTTA
1 AAAATAATTAATATTTA
9372740 AAA
1 AAA
9372743 TAAAACAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 17
0.69 0.03 0.27
Matches are distributed among these distances:
14 4 0.09
15 2 0.05
16 9 0.21
17 18 0.42
18 5 0.12
19 2 0.05
20 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATAATTAATATTTA
Found at i:9372712 original size:36 final size:35
Alignment explanation
Indices: 9372659--9372727 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 35
9372649 AGTATATTGA
*
9372659 AATTATTTATT-ATTAAAATTATTAATATTTAAAAAT
1 AATTATTTATTAATAAAAATT-TTAATA-TTAAAAAT
9372695 AATTATATT-TTAATAAAAATTTTAATATTAAAA
1 AATTAT-TTATTAATAAAAATTTTAATATTAAAA
9372728 TAAAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 6 0.20
36 14 0.47
37 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (35 bp):
AATTATTTATTAATAAAAATTTTAATATTAAAAAT
Found at i:9372737 original size:34 final size:38
Alignment explanation
Indices: 9372673--9372747 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 38
9372663 ATTTATTATT
** *
9372673 AAAATTATTAATATTTAAAAATAATTATATTT-TAATA
1 AAAATTATTAATATTTAAAAATAAAAATATTTAAAATA
9372710 AAAATT-TTAATA-TT-AAAATAAAAATATTTAAAATA
1 AAAATTATTAATATTTAAAAATAAAAATATTTAAAATA
9372745 AAA
1 AAA
9372748 CAATTTACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 13 0.38
35 9 0.26
36 6 0.18
37 6 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (38 bp):
AAAATTATTAATATTTAAAAATAAAAATATTTAAAATA
Found at i:9372746 original size:20 final size:20
Alignment explanation
Indices: 9372706--9372747 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9372696 ATTATATTTT
*
9372706 AATAAAAATTTTAATATTAA
1 AATAAAAATTTTAATAATAA
9372726 AATAAAAATATTTAA-AATAA
1 AATAAAAAT-TTTAATAATAA
9372746 AA
1 AA
9372748 CAATTTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAAAATTTTAATAATAA
Found at i:9372754 original size:15 final size:15
Alignment explanation
Indices: 9372718--9372747 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9372708 TAAAAATTTT
9372718 AATA-TTAAAATAAA
1 AATATTTAAAATAAA
9372732 AATATTTAAAATAAA
1 AATATTTAAAATAAA
9372747 A
1 A
9372748 CAATTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATTTAAAATAAA
Found at i:9372783 original size:15 final size:15
Alignment explanation
Indices: 9372763--9372885 Score: 77
Period size: 15 Copynumber: 8.6 Consensus size: 15
9372753 TACTATTCTT
9372763 TATATTATTTATT-A
1 TATATTATTTATTAA
9372777 -ATA-TA-TTA-TAA
1 TATATTATTTATTAA
* *
9372788 --TATTAATTGTTAA
1 TATATTATTTATTAA
*
9372801 TATATTATATTAATAA
1 TATATTAT-TTATTAA
*
9372817 TATATTATTTAATAA
1 TATATTATTTATTAA
9372832 TATATTA-TTA-TAA
1 TATATTATTTATTAA
*
9372845 TAT-TTATTAATTAA
1 TATATTATTTATTAA
*
9372859 TTTATTAATATTTATTAA
1 --TA-TATTATTTATTAA
*
9372877 TATAATATT
1 TATATTATT
9372886 ATTTATAAGT
Statistics
Matches: 89, Mismatches: 7, Indels: 25
0.74 0.06 0.21
Matches are distributed among these distances:
10 3 0.03
11 6 0.07
12 7 0.08
13 14 0.16
14 6 0.07
15 26 0.29
16 17 0.19
17 1 0.01
18 9 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:9372800 original size:23 final size:23
Alignment explanation
Indices: 9372764--9372888 Score: 84
Period size: 23 Copynumber: 5.5 Consensus size: 23
9372754 ACTATTCTTT
*
9372764 ATATTATTTATTAATATATTATA
1 ATATTAATTATTAATATATTATA
*
9372787 ATATTAATTGTTAATATATTATA
1 ATATTAATTATTAATATATTATA
* * *
9372810 TTAATAATATATT-AT-T-TAATA
1 ATATTAAT-TATTAATATATTATA
* *
9372831 ATATATTATTA-TAATAT-TTATT
1 ATAT-TAATTATTAATATATTATA
9372853 A-ATTAATTTATTAATAT-TTATTA
1 ATATTAA-TTATTAATATATTA-TA
*
9372876 ATATAATATTATT
1 ATATTA-ATTATT
9372889 TATAAGTAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
20 3 0.04
21 15 0.19
22 18 0.23
23 31 0.39
24 11 0.14
25 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
ATATTAATTATTAATATATTATA
Found at i:9372822 original size:31 final size:30
Alignment explanation
Indices: 9372772--9372859 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 30
9372762 TTATATTATT
* * **
9372772 TATTAATATATTATAATATTAATTGTTAATA
1 TATTATTATAATAT-ATATTAATTAATAATA
*
9372803 TATTA-TATTAATAATATATTATTTAATAATA
1 TATTATTA-TAAT-ATATATTAATTAATAATA
*
9372834 TATTATTATAATATTTATTAATTAAT
1 TATTATTATAATATATATTAATTAAT
9372860 TTATTAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
30 14 0.29
31 30 0.62
32 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (30 bp):
TATTATTATAATATATATTAATTAATAATA
Found at i:9372855 original size:54 final size:53
Alignment explanation
Indices: 9372763--9372903 Score: 146
Period size: 54 Copynumber: 2.7 Consensus size: 53
9372753 TACTATTCTT
* * *
9372763 TATATTATTTATTAATATATTATAATATTAATTGTTAA-TATATTATATTAATAA
1 TATATTATTTAATAATATATTATAATAATAATTATTAATTA-ATT-TATTAATAA
* *
9372817 TATATTATTTAATAATATATTATTATAATATTTATTAATTAATTTATTAAT-A
1 TATATTATTTAATAATATATTATAATAATAATTATTAATTAATTTATTAATAA
* * *
9372869 TTTATTAATATAATATTAT-TTATAAGTAA-AATTAT
1 TATATT-ATTTAATAATATATTATAA-TAATAATTAT
9372904 GTTCAATAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
52 16 0.22
53 20 0.27
54 36 0.49
55 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (53 bp):
TATATTATTTAATAATATATTATAATAATAATTATTAATTAATTTATTAATAA
Found at i:9372871 original size:10 final size:10
Alignment explanation
Indices: 9372822--9372879 Score: 62
Period size: 10 Copynumber: 5.3 Consensus size: 10
9372812 AATAATATAT
*
9372822 TATTTAATAA
1 TATTTATTAA
9372832 TATATTATTATAA
1 TAT-TTA-T-TAA
9372845 TATTTATTAA
1 TATTTATTAA
9372855 TTAATTTATTAA
1 -T-ATTTATTAA
9372867 TATTTATTAA
1 TATTTATTAA
9372877 TAT
1 TAT
9372880 AATATTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
10 18 0.43
11 6 0.14
12 12 0.29
13 6 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTTATTAA
Found at i:9387609 original size:9 final size:9
Alignment explanation
Indices: 9387595--9387634 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
9387585 AAAACTGATG
9387595 AAAAAATGA
1 AAAAAATGA
9387604 AAAAAAT-A
1 AAAAAATGA
*
9387612 AAAAAAAGA
1 AAAAAATGA
9387621 AAGAAAATGA
1 AA-AAAATGA
9387631 AAAA
1 AAAA
9387635 GAAATCGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.26
9 12 0.44
10 8 0.30
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (9 bp):
AAAAAATGA
Found at i:9387949 original size:9 final size:9
Alignment explanation
Indices: 9387922--9387962 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
9387912 GCAAAAAAAT
*
9387922 GAAAAAATA
1 GAAAAAAGA
9387931 -AAAAAA-A
1 GAAAAAAGA
9387938 GAAAAAAGA
1 GAAAAAAGA
*
9387947 GAAACAAGA
1 GAAAAAAGA
9387956 GAAAAAA
1 GAAAAAA
9387963 AAGACTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 1 0.04
8 12 0.43
9 15 0.54
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (9 bp):
GAAAAAAGA
Found at i:9387955 original size:16 final size:16
Alignment explanation
Indices: 9387914--9387962 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
9387904 AAGGTCGTGC
* *
9387914 AAAAAAATGAAAAAAT
1 AAAAAAAAGAAAAAAG
9387930 AAAAAAAAGAAAAAAG
1 AAAAAAAAGAAAAAAG
*
9387946 AGAAACAAGAGAAAAAA
1 A-AAA-AAAAGAAAAAA
9387963 AAGACTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 15 0.54
17 3 0.11
18 10 0.36
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:9389116 original size:45 final size:43
Alignment explanation
Indices: 9388972--9389126 Score: 132
Period size: 45 Copynumber: 3.5 Consensus size: 43
9388962 TTTCAAATGT
* *
9388972 GAATCTTTAAAATTTTGGATGTGAAACCCATAAATTTTTGGGATGA
1 GAATCTTTGAAATTTTGG-T-TGAAACCCA-AAATTTTTCGGATGA
* ** ** *
9389018 GAATCTTTG-AACTTTGGTTAGAAATATCAAAATTTTTCAAATGT
1 GAATCTTTGAAATTTTGGTT-GAAA-CCCAAAATTTTTCGGATGA
* *
9389062 GAATATTTGAAATTTTGGTATGAAACCCAAAATCTTTTTGGATGA
1 GAATCTTTGAAATTTTGGT-TGAAACCCAAAAT-TTTTCGGATGA
* *
9389107 AAATCTTTGAAGTTTTGGTT
1 GAATCTTTGAAATTTTGGTT
9389127 CTAAAATATT
Statistics
Matches: 85, Mismatches: 19, Indels: 12
0.73 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 31 0.36
45 44 0.52
46 9 0.11
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (43 bp):
GAATCTTTGAAATTTTGGTTGAAACCCAAAATTTTTCGGATGA
Found at i:9389124 original size:90 final size:91
Alignment explanation
Indices: 9388961--9389143 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 91
9388951 TTAAAAGAGC
* * *
9388961 TTTTCAAATGTGAATCTTTAAAATTTTGGATGTGAAACCCATAAATTTTTGGGATGAGAATCTTT
1 TTTTCAAATGTGAATATTTAAAATTTTGGATATGAAACCCATAAATTTTTGGGATGAAAATCTTT
9389026 GAACTTTGG-T-TAGAAATATCAAAAT
66 GAACTTTGGTTCTA-AAATATCAAAAT
* *
9389051 TTTTCAAATGTGAATATTTGAAATTTTGG-TATGAAACCCA-AAATCTTTTTGGATGAAAATCTT
1 TTTTCAAATGTGAATATTTAAAATTTTGGATATGAAACCCATAAAT-TTTTGGGATGAAAATCTT
* *
9389114 TGAAGTTTTGGTTCTAAAATATTAAAAT
65 TGAA-CTTTGGTTCTAAAATATCAAAAT
9389142 TT
1 TT
9389144 CATGAATATA
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
88 4 0.05
89 30 0.37
90 32 0.39
91 14 0.17
92 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (91 bp):
TTTTCAAATGTGAATATTTAAAATTTTGGATATGAAACCCATAAATTTTTGGGATGAAAATCTTT
GAACTTTGGTTCTAAAATATCAAAAT
Found at i:9389589 original size:32 final size:32
Alignment explanation
Indices: 9389549--9389622 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
9389539 TTGTGAACCT
*
9389549 AAAATTCTTACGAATATAAATTCTTGCGAATC
1 AAAATTCTTACGAATATAAATTCTTGCAAATC
* *
9389581 TAAATTCTTACGAATCTAAATTCTTGCAAATC
1 AAAATTCTTACGAATATAAATTCTTGCAAATC
9389613 AAACATTCTT
1 AAA-ATTCTT
9389623 GTGAATTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 31 0.84
33 6 0.16
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (32 bp):
AAAATTCTTACGAATATAAATTCTTGCAAATC
Found at i:9389612 original size:16 final size:16
Alignment explanation
Indices: 9389550--9389628 Score: 95
Period size: 16 Copynumber: 4.9 Consensus size: 16
9389540 TGTGAACCTA
* *
9389550 AAATTCTTACGAATAT
1 AAATTCTTGCGAATCT
9389566 AAATTCTTGCGAATCT
1 AAATTCTTGCGAATCT
*
9389582 AAATTCTTACGAATCT
1 AAATTCTTGCGAATCT
* *
9389598 AAATTCTTGCAAATCA
1 AAATTCTTGCGAATCT
*
9389614 AACATTCTTGTGAAT
1 AA-ATTCTTGCGAAT
9389629 TTGAAAGTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
16 44 0.81
17 10 0.19
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (16 bp):
AAATTCTTGCGAATCT
Found at i:9389683 original size:17 final size:17
Alignment explanation
Indices: 9389661--9389696 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
9389651 AATTTTGTGA
9389661 AATTTAGAACCTTTGCG
1 AATTTAGAACCTTTGCG
9389678 AATTTAGAACCTTTGCG
1 AATTTAGAACCTTTGCG
9389695 AA
1 AA
9389697 ACTTGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (17 bp):
AATTTAGAACCTTTGCG
Found at i:9389828 original size:17 final size:17
Alignment explanation
Indices: 9389801--9389844 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
9389791 AAATTCTTGT
* *
9389801 AAATCTTGAATCTTTGCA
1 AAAT-TTGAATATTTACA
9389819 AAATTTGAATATTTACA
1 AAATTTGAATATTTACA
9389836 AAATTTGAA
1 AAATTTGAA
9389845 ATCATTACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (17 bp):
AAATTTGAATATTTACA
Found at i:9390327 original size:17 final size:16
Alignment explanation
Indices: 9390280--9390327 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
9390270 ATAGAAAATT
*
9390280 TTTAATTTTAATTTGG
1 TTTAATTTTATTTTGG
* *
9390296 TTTAGTTTAATTTTTGG
1 TTTAATTTTA-TTTTGG
9390313 TTTAATTTTACTTTT
1 TTTAATTTTA-TTTT
9390328 TTCTTAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (16 bp):
TTTAATTTTATTTTGG
Found at i:9391257 original size:19 final size:19
Alignment explanation
Indices: 9391221--9391267 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9391211 TTAGATTTTT
*
9391221 TATTTTTACTTATTATTAA
1 TATTTTTACTTATAATTAA
9391240 TATTTTTATCTT-TAATT-A
1 TATTTTTA-CTTATAATTAA
*
9391258 TAATTTTACT
1 TATTTTTACT
9391268 CAATACTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 8 0.32
19 12 0.48
20 3 0.12
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTACTTATAATTAA
Found at i:9394058 original size:44 final size:43
Alignment explanation
Indices: 9393925--9394063 Score: 111
Period size: 44 Copynumber: 3.1 Consensus size: 43
9393915 TTAAAAGAGC
*
9393925 TTTTCAAATGTGAATCTTT-AAAATTTTGGATGTGAAACCCATAAAT
1 TTTTCAAATGTGAATCTTTGAAAA-TTTGG-T-TGAAACCCA-AAAA
*** * * **
9393971 TTTTGGGATGAGAATCTTTG-AACTTTGGTTAGAAATATCAAAAA
1 TTTTCAAATGTGAATCTTTGAAAATTTGGTT-GAAA-CCCAAAAA
*
9394015 TTTTCAAATGTGAATATTTGAAAATTTGGTATGAAACCCAAAAA
1 TTTTCAAATGTGAATCTTTGAAAATTTGGT-TGAAACCCAAAAA
9394059 CTTTT
1 -TTTT
9394064 TGGATGAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
43 1 0.01
44 29 0.41
45 23 0.32
46 18 0.25
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (43 bp):
TTTTCAAATGTGAATCTTTGAAAATTTGGTTGAAACCCAAAAA
Found at i:9394080 original size:45 final size:43
Alignment explanation
Indices: 9393936--9394090 Score: 116
Period size: 45 Copynumber: 3.5 Consensus size: 43
9393926 TTTCAAATGT
*
9393936 GAATCTTT-AAAATTTTGGATGTGAAACCCATAAATTTTTGGGATGA
1 GAATCTTTGAAAA-TTTGG-T-TGAAACCCAAAAATTTTT-GGATGA
* ** *** *
9393982 GAATCTTTG-AACTTTGGTTAGAAATATCAAAAATTTTCAAATGT
1 GAATCTTTGAAAATTTGGTT-GAAA-CCCAAAAATTTTTGGATGA
*
9394026 GAATATTTGAAAATTTGGTATGAAACCCAAAAACTTTTTGGATGA
1 GAATCTTTGAAAATTTGGT-TGAAACCCAAAAA-TTTTTGGATGA
* **
9394071 AAATCTTTGAAGTTTTGGTT
1 GAATCTTTGAAAATTTGGTT
9394091 CTAAAATATT
Statistics
Matches: 83, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 23 0.28
45 48 0.58
46 11 0.13
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (43 bp):
GAATCTTTGAAAATTTGGTTGAAACCCAAAAATTTTTGGATGA
Found at i:9394107 original size:90 final size:90
Alignment explanation
Indices: 9393925--9394090 Score: 239
Period size: 90 Copynumber: 1.8 Consensus size: 90
9393915 TTAAAAGAGC
* * * *
9393925 TTTTCAAATGTGAATCTTTAAAATTTTGGATGTGAAACCCATAAATTTTTGGGATGAGAATCTTT
1 TTTTCAAATGTGAATATTTAAAATTTTGGATATGAAACCCAAAAATTTTTGGGATGAAAATCTTT
9393990 GAACTTTGGTTAGAAATATCAAAAA
66 GAACTTTGGTTAGAAATATCAAAAA
9394015 TTTTCAAATGTGAATATTTGAAAA-TTTGG-TATGAAACCCAAAAACTTTTT-GGATGAAAATCT
1 TTTTCAAATGTGAATATTT-AAAATTTTGGATATGAAACCCAAAAA-TTTTTGGGATGAAAATCT
*
9394077 TTGAAGTTTTGGTT
64 TTGAA-CTTTGGTT
9394091 CTAAAATATT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
89 29 0.43
90 35 0.51
91 4 0.06
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (90 bp):
TTTTCAAATGTGAATATTTAAAATTTTGGATATGAAACCCAAAAATTTTTGGGATGAAAATCTTT
GAACTTTGGTTAGAAATATCAAAAA
Found at i:9394154 original size:90 final size:86
Alignment explanation
Indices: 9393925--9394177 Score: 217
Period size: 91 Copynumber: 2.8 Consensus size: 86
9393915 TTAAAAGAGC
* *
9393925 TTTTCAAATGTGAATCTTTAAAATTTTGGATGTGAAACCCATAAA-TTTTTGGGATGAGAATCTT
1 TTTTCAAATATAAATCTTTAAAA-TTTGGA--TGAAACCCA-AAACTTTTT-GGATGAGAATCTT
*
9393989 TGAACTTTGGTTAGAAATATCAAAAA
61 TGAATTTTGGTTAGAAATATCAAAAA
* * * *
9394015 TTTTCAAATGTGAATATTTGAAAATTTGGTATGAAACCCAAAAACTTTTTGGATGAAAATCTTTG
1 TTTTCAAATATAAATCTTT-AAAATTTGG-ATGAAACCC-AAAACTTTTTGGATGAGAATCTTTG
*
9394080 AAGTTTTGGTTCTA-AAATAT-TAAAA
63 AA-TTTTGG-T-TAGAAATATCAAAAA
* * * *
9394105 -TTTCACGAATATAAATCTTTAAAACTTTGGATGAAAATACCAAAATTTTTTGAATGAGAATTTT
1 TTTTCA--AATATAAATCTTTAAAA-TTTGGATG-AAA-CCCAAAACTTTTTGGATGAGAATCTT
9394169 TGAAATTTT
61 TG-AATTTT
9394178 AGATGTAAAA
Statistics
Matches: 138, Mismatches: 12, Indels: 25
0.79 0.07 0.14
Matches are distributed among these distances:
89 32 0.23
90 45 0.33
91 55 0.40
92 6 0.04
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (86 bp):
TTTTCAAATATAAATCTTTAAAATTTGGATGAAACCCAAAACTTTTTGGATGAGAATCTTTGAAT
TTTGGTTAGAAATATCAAAAA
Found at i:9394553 original size:17 final size:16
Alignment explanation
Indices: 9394513--9394544 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9394503 TGTGAACCTA
9394513 AAATTCTTACGAATCT
1 AAATTCTTACGAATCT
9394529 AAATTCTTACGAATCT
1 AAATTCTTACGAATCT
9394545 TCAATTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
AAATTCTTACGAATCT
Found at i:9394785 original size:18 final size:17
Alignment explanation
Indices: 9394732--9394775 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
9394722 AAATTCTTGT
* *
9394732 AAATCTTGAATCTTTGCA
1 AAAT-TTGAATATTTACA
9394750 AAATTTGAATATTTACA
1 AAATTTGAATATTTACA
9394767 AAATTTGAA
1 AAATTTGAA
9394776 ATCATTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (17 bp):
AAATTTGAATATTTACA
Found at i:9395260 original size:18 final size:18
Alignment explanation
Indices: 9395223--9395261 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9395213 TTAATTTTAA
* *
9395223 TTTGGTTTAGTTTAATTT
1 TTTGGTTTAATTTAACTT
*
9395241 TTTGGTTTAATTTTACTT
1 TTTGGTTTAATTTAACTT
9395259 TTT
1 TTT
9395262 TCTTAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.13, T:0.69
Consensus pattern (18 bp):
TTTGGTTTAATTTAACTT
Found at i:9402701 original size:13 final size:13
Alignment explanation
Indices: 9402680--9402717 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
9402670 TTTTCTCTTT
*
9402680 ACTTGTTTCCTTA
1 ACTTATTTCCTTA
9402693 ACTTATTTCCTTA
1 ACTTATTTCCTTA
9402706 ACTTATTTCCTT
1 ACTTATTTCCTT
9402718 TTTCTTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.03, T:0.55
Consensus pattern (13 bp):
ACTTATTTCCTTA
Found at i:9405722 original size:23 final size:23
Alignment explanation
Indices: 9405691--9405752 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
9405681 CAAGGCAATT
* *
9405691 GCAAGCTAACCCATACTCACTGTG
1 GCAA-CTAACACACACTCACTGTG
9405715 GCAACTAACACACACTCACTGTG
1 GCAACTAACACACACTCACTGTG
*
9405738 GCAACTAGCACACAC
1 GCAACTAACACACAC
9405753 ATTTAGGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 31 0.89
24 4 0.11
ACGTcount: A:0.34, C:0.35, G:0.15, T:0.16
Consensus pattern (23 bp):
GCAACTAACACACACTCACTGTG
Found at i:9408610 original size:41 final size:41
Alignment explanation
Indices: 9408552--9408636 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
9408542 GACCAAAAAA
*
9408552 GATTAAACAAAAAGCTAAAAAG-TGAAGATACTTCTCATGGT
1 GATTAAACAAAAAGCT-AAAAGTTGAAGATACGTCTCATGGT
*
9408593 GATTAAACAAAATGCTAAAAGTTGAAGATACGTCTCATGGT
1 GATTAAACAAAAAGCTAAAAGTTGAAGATACGTCTCATGGT
9408634 GAT
1 GAT
9408637 CATTTCTAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 5 0.12
41 36 0.88
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (41 bp):
GATTAAACAAAAAGCTAAAAGTTGAAGATACGTCTCATGGT
Found at i:9421169 original size:38 final size:39
Alignment explanation
Indices: 9421115--9421191 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 39
9421105 ACTAAGAGCT
* *
9421115 CGTTTAGATACACTTTCCATTT-TGGTTGTTTTGTAATC
1 CGTTTAGATACACTTTCCATTTCTGATTATTTTGTAATC
*
9421153 CGTTTAGATACGCTTTCCATTTCTGATTATTTTGTAATC
1 CGTTTAGATACACTTTCCATTTCTGATTATTTTGTAATC
9421192 AATATATCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 21 0.60
39 14 0.40
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (39 bp):
CGTTTAGATACACTTTCCATTTCTGATTATTTTGTAATC
Found at i:9433449 original size:17 final size:18
Alignment explanation
Indices: 9433423--9433461 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9433413 AGATGATAAT
*
9433423 ATTTTGTT-AATAAATTA
1 ATTTTGTTAAAAAAATTA
*
9433440 ATTTTTTTAAAAAAATTA
1 ATTTTGTTAAAAAAATTA
9433458 ATTT
1 ATTT
9433462 ATATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTGTTAAAAAAATTA
Found at i:9439884 original size:22 final size:22
Alignment explanation
Indices: 9439849--9439891 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9439839 AAATTTGAAG
9439849 GAAAATATTTCCTTGGACACCT
1 GAAAATATTTCCTTGGACACCT
*
9439871 GAAAAT-TTTCCCTTTGACACC
1 GAAAATATTT-CCTTGGACACC
9439892 CTTTTCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (22 bp):
GAAAATATTTCCTTGGACACCT
Found at i:9441375 original size:2 final size:2
Alignment explanation
Indices: 9441368--9441400 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9441358 GCAAGAGTAC
9441368 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9441401 ATATGTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9451602 original size:6 final size:6
Alignment explanation
Indices: 9451591--9451632 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
9451581 ATCTCCTCCG
9451591 TCACCT TCACCT TCACCT TCACCT TCACCT TCAACC- TCACCT
1 TCACCT TCACCT TCACCT TCACCT TCACCT TC-ACCT TCACCT
9451633 CCTACTTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 3 0.09
6 28 0.82
7 3 0.09
ACGTcount: A:0.19, C:0.50, G:0.00, T:0.31
Consensus pattern (6 bp):
TCACCT
Found at i:9454837 original size:25 final size:25
Alignment explanation
Indices: 9454808--9454857 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9454798 TTTGTATTAG
9454808 GTAGCAAGTAATATTTGACTAGTAC
1 GTAGCAAGTAATATTTGACTAGTAC
9454833 GTAGCAAGTAATATTTGACTAGTAC
1 GTAGCAAGTAATATTTGACTAGTAC
9454858 AAGAATCACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (25 bp):
GTAGCAAGTAATATTTGACTAGTAC
Found at i:9457591 original size:2 final size:2
Alignment explanation
Indices: 9457584--9457620 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9457574 GAATAACTAA
9457584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9457621 ACTTACTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9459828 original size:49 final size:49
Alignment explanation
Indices: 9459733--9459859 Score: 182
Period size: 49 Copynumber: 2.6 Consensus size: 49
9459723 TTTTTATAAT
* *
9459733 TTATTCTTGAATTGAAGAAATTTTGGACTTTATTTAAAGGTATTTGAAAC
1 TTATTCTTGAATTGAAG-AAGTTTGGACTTTATTCAAAGGTATTTGAAAC
* * * *
9459783 TTGTTCTTGAATCGAAGAAGTTTGGACTTTATTCAAGGGTTTTTGAAAC
1 TTATTCTTGAATTGAAGAAGTTTGGACTTTATTCAAAGGTATTTGAAAC
*
9459832 TTATTCTTGAATTGAAGAAGTATGGACT
1 TTATTCTTGAATTGAAGAAGTTTGGACT
9459860 CAAGTTTTAC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 53 0.78
50 15 0.22
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (49 bp):
TTATTCTTGAATTGAAGAAGTTTGGACTTTATTCAAAGGTATTTGAAAC
Found at i:9459959 original size:28 final size:28
Alignment explanation
Indices: 9459928--9459990 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
9459918 TCCGTTGAGT
* *
9459928 GATTCTTGAATCTTGGTTCTCATCTAGG
1 GATTCTTGAATCTTGGTTCCCATCTAGA
* *
9459956 GATTCTTGGATTTTGGTTCCCATCTAGA
1 GATTCTTGAATCTTGGTTCCCATCTAGA
9459984 GATTCTT
1 GATTCTT
9459991 TCATTTTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.44
Consensus pattern (28 bp):
GATTCTTGAATCTTGGTTCCCATCTAGA
Found at i:9460082 original size:47 final size:47
Alignment explanation
Indices: 9460012--9460133 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 47
9460002 TCTTATCGAG
* * * * *
9460012 AGACTTGGTTCTTATTTAGAGATTCTTTGATCTTGGTTCCCGT-TGAA
1 AGACTTGGTTCCTATCTAAAGATTCTTTGATCTTGGCTCCCATCT-AA
* * *
9460059 AGACTTGGTTCCCATCTAAAGATTCTTGGATCTTGGCTCCCATCTAG
1 AGACTTGGTTCCTATCTAAAGATTCTTTGATCTTGGCTCCCATCTAA
* *
9460106 GGACTTGGTTCCTATCTAAGGATT-TTTG
1 AGACTTGGTTCCTATCTAAAGATTCTTTG
9460134 GATATTGAGG
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
46 3 0.05
47 58 0.94
48 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (47 bp):
AGACTTGGTTCCTATCTAAAGATTCTTTGATCTTGGCTCCCATCTAA
Found at i:9460299 original size:47 final size:46
Alignment explanation
Indices: 9460203--9460300 Score: 108
Period size: 47 Copynumber: 2.1 Consensus size: 46
9460193 GACTTTGTTC
* * * *
9460203 TTCTTTAATCTTAGTCCTTGTCAAGGATTTAATACCCATTTAGAGA
1 TTCTTTAATCTTAGTCCTTGTCAAGGACTTAATACCCATCTAAAAA
* * *
9460249 TTCTTTGATCTTAGTTCC-TGTCGAAGGACTTCATTCCCATCTAAAAA
1 TTCTTTAATCTTAG-TCCTTGTC-AAGGACTTAATACCCATCTAAAAA
9460296 TTCTT
1 TTCTT
9460301 AGATTTGGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
46 17 0.40
47 26 0.60
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (46 bp):
TTCTTTAATCTTAGTCCTTGTCAAGGACTTAATACCCATCTAAAAA
Found at i:9460409 original size:214 final size:215
Alignment explanation
Indices: 9460025--9460418 Score: 558
Period size: 214 Copynumber: 1.8 Consensus size: 215
9460015 CTTGGTTCTT
* * ** * *
9460025 ATTTAGAGATTCTTTGATCTTGGTTCCCGTTGAAAGACTTGGTTCCCATCTAAAGATTCTTGGAT
1 ATTTAGAGATTCTTTGATCTTAGTTCCCGTCGAAAGACTTCATTCCCATCTAAAAATTCTTAGAT
* ** *
9460090 CTTGGCTCCCATCTAGGGACTTGGTTCCTATCTAAGGATTTTTGGATATTGAGGCTTTGAGCTTC
66 CTTGGCTCCCATCTAAGGACTCCGTTCCCATCTAAGGATTTTTGGATATTGAGGCTTTGAGCTTC
*
9460155 AAATCTTCCTTCTTGAATTTGTTCGTCAAAATTCTAGAGACTTTGTTCTTCTTTAATCTTAGTCC
131 AAATCTTCCTTCTTGAATTTGTTCATCAAAATTCTAGAGACTTTGTTCTTCTTTAATCTTAGTCC
9460220 TTGTCAAGGATTTAATACCC
196 TTGTCAAGGATTTAATACCC
* *
9460240 ATTTAGAGATTCTTTGATCTTAGTTCCTGTCGAAGGACTTCATTCCCATCTAAAAATTCTTAGAT
1 ATTTAGAGATTCTTTGATCTTAGTTCCCGTCGAAAGACTTCATTCCCATCTAAAAATTCTTAGAT
* * * *
9460305 -TTGGCTCCCTTCTAAGGACTCCGTTCCCATCTAA-GAGTTTTTGGATATTGGGGTTTTGATCTT
66 CTTGGCTCCCATCTAAGGACTCCGTTCCCATCTAAGGA-TTTTTGGATATTGAGGCTTTGAGCTT
* * * ** *
9460368 CAAATCTTTCTTCTTGGATTTGTTTATTGAAATTTTAGAGACTTTGTTCTT
130 CAAATCTTCCTTCTTGAATTTGTTCATCAAAATTCTAGAGACTTTGTTCTT
9460419 TAAATCTTCC
Statistics
Matches: 155, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
213 2 0.01
214 96 0.62
215 57 0.37
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (215 bp):
ATTTAGAGATTCTTTGATCTTAGTTCCCGTCGAAAGACTTCATTCCCATCTAAAAATTCTTAGAT
CTTGGCTCCCATCTAAGGACTCCGTTCCCATCTAAGGATTTTTGGATATTGAGGCTTTGAGCTTC
AAATCTTCCTTCTTGAATTTGTTCATCAAAATTCTAGAGACTTTGTTCTTCTTTAATCTTAGTCC
TTGTCAAGGATTTAATACCC
Found at i:9460506 original size:37 final size:37
Alignment explanation
Indices: 9460465--9460555 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
9460455 ACTTTGATTT
* *
9460465 TTTAGATCTTCATTCTTCAAGAATTATCTTTTTTATC
1 TTTAGATCTTCATTCTTCAACAATTATCTTTTTAATC
* *
9460502 TTTAGATGTTCATTCTCCAACAATTATCTTTTTAATC
1 TTTAGATCTTCATTCTTCAACAATTATCTTTTTAATC
*
9460539 TTCAGATCTTCATTCTT
1 TTTAGATCTTCATTCTT
9460556 AGAGCTATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.52
Consensus pattern (37 bp):
TTTAGATCTTCATTCTTCAACAATTATCTTTTTAATC
Found at i:9461143 original size:3 final size:3
Alignment explanation
Indices: 9461135--9461171 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9461125 TTATAGTAGC
9461135 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9461172 GTAGTAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9461176 original size:3 final size:3
Alignment explanation
Indices: 9461170--9461197 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9461160 ATAATAATAA
9461170 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG T
9461198 TTGATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:9461838 original size:240 final size:240
Alignment explanation
Indices: 9461415--9461896 Score: 910
Period size: 240 Copynumber: 2.0 Consensus size: 240
9461405 ATAAACATGG
* *
9461415 TCTATTATCAGAAATATCTTTCAATATATTAGTAAGATTTTTTGTCGAAAATTATCCTCTAATAT
1 TCTATTATCAGAAATATCTTTCAATATATTAGTAAGATTTTCTGTCGAAAATTATCCTCCAATAT
9461480 GTTGGTAGGATTGAAATTTTATTTGTTTATGAAAATAATTTATTTTTAAAAGTATCTTCTAATAT
66 GTTGGTAGGATTGAAATTTTATTTGTTTATGAAAATAATTTATTTTTAAAAGTATCTTCTAATAT
9461545 GTTGATAAGATTTTTTGTCAAAAATTATTCTCTAATATGTTTGTAGGATTTTAAAAAATATTTTT
131 GTTGATAAGATTTTTTGTCAAAAATTATTCTCTAATATGTTTGTAGGATTTTAAAAAATATTTTT
*
9461610 TTAAGAAAATTCATTAAGTCCTCTAATAGTTTGGTAAGACTTAAT
196 TCAAGAAAATTCATTAAGTCCTCTAATAGTTTGGTAAGACTTAAT
*
9461655 TCTATTATTAGAAATATCTTTCAATATATTAGTAAGATTTTCTGTCGAAAATTATCCTCCAATAT
1 TCTATTATCAGAAATATCTTTCAATATATTAGTAAGATTTTCTGTCGAAAATTATCCTCCAATAT
*
9461720 GTTGGTAGGATTGAAATTTTATTTTTTTATGAAAATAATTTATTTTTAAAAGTATCTTCTAATAT
66 GTTGGTAGGATTGAAATTTTATTTGTTTATGAAAATAATTTATTTTTAAAAGTATCTTCTAATAT
9461785 GTTGATAAGATTTTTTGTCAAAAATTATTCTCTAATATGTTTGTAGGATTTTAAAAAATATTTTT
131 GTTGATAAGATTTTTTGTCAAAAATTATTCTCTAATATGTTTGTAGGATTTTAAAAAATATTTTT
*
9461850 TCAAGAAAATTCATTAAGTCCTCTAATAGTTTGGTAAGACTTGAT
196 TCAAGAAAATTCATTAAGTCCTCTAATAGTTTGGTAAGACTTAAT
9461895 TC
1 TC
9461897 AATATTTAAA
Statistics
Matches: 236, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
240 236 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (240 bp):
TCTATTATCAGAAATATCTTTCAATATATTAGTAAGATTTTCTGTCGAAAATTATCCTCCAATAT
GTTGGTAGGATTGAAATTTTATTTGTTTATGAAAATAATTTATTTTTAAAAGTATCTTCTAATAT
GTTGATAAGATTTTTTGTCAAAAATTATTCTCTAATATGTTTGTAGGATTTTAAAAAATATTTTT
TCAAGAAAATTCATTAAGTCCTCTAATAGTTTGGTAAGACTTAAT
Found at i:9462041 original size:21 final size:21
Alignment explanation
Indices: 9462011--9462069 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
9462001 ATAATGTAAT
9462011 AATAAT-ATAATATATCATGC
1 AATAATAATAATATATCATGC
* *
9462031 ACTAATAATAA-ACTATTATGC
1 AATAATAATAATA-TATCATGC
*
9462052 AATAATATTAAT-TATCAT
1 AATAATAATAATATATCAT
9462070 AAATTAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.37
Consensus pattern (21 bp):
AATAATAATAATATATCATGC
Found at i:9463853 original size:35 final size:36
Alignment explanation
Indices: 9463805--9463881 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
9463795 AAATTCAAAA
*
9463805 AAAT-TCAATATTCAC-AAAGGTTCTAAATTTTG-CT
1 AAATCTCAAGATTCACTAAAGGTTC-AAATTTTGCCT
* *
9463839 AAATCTCAAGATTCACTAAAGTTTCAAGTTTTGCCT
1 AAATCTCAAGATTCACTAAAGGTTCAAATTTTGCCT
9463875 AGAATCT
1 A-AATCT
9463882 AAAAGTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 4 0.11
35 17 0.47
36 10 0.28
37 5 0.14
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (36 bp):
AAATCTCAAGATTCACTAAAGGTTCAAATTTTGCCT
Found at i:9463928 original size:36 final size:36
Alignment explanation
Indices: 9463887--9463957 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
9463877 AATCTAAAAG
*
9463887 TTTGTAAATGATTCAAGATTCT-CAAAGATTCCAAGA
1 TTTGTAAAGGATTCAAGATT-TGCAAAGATTCCAAGA
* *
9463923 TTTGTAAAGGTTTCAAGATTTGTAAAGATTCCAAG
1 TTTGTAAAGGATTCAAGATTTGCAAAGATTCCAAG
9463958 TTTCATGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.03
36 30 0.97
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (36 bp):
TTTGTAAAGGATTCAAGATTTGCAAAGATTCCAAGA
Found at i:9463931 original size:18 final size:18
Alignment explanation
Indices: 9463887--9463987 Score: 84
Period size: 18 Copynumber: 5.7 Consensus size: 18
9463877 AATCTAAAAG
9463887 TTTGTAAATGATT-CAAGA
1 TTTGTAAA-GATTCCAAGA
*
9463905 TTCT-CAAAGATTCCAAGA
1 TT-TGTAAAGATTCCAAGA
* *
9463923 TTTGTAAAGGTTTCAAGA
1 TTTGTAAAGATTCCAAGA
9463941 TTTGTAAAGATTCCAAG-
1 TTTGTAAAGATTCCAAGA
* * *
9463958 TTTCATGAAGGTTCC-AGA
1 TTT-GTAAAGATTCCAAGA
*
9463976 TTCGTAAAGATT
1 TTTGTAAAGATT
9463988 TTAAGTTTCA
Statistics
Matches: 65, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
17 16 0.25
18 48 0.74
19 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (18 bp):
TTTGTAAAGATTCCAAGA
Found at i:9463984 original size:35 final size:35
Alignment explanation
Indices: 9463898--9464006 Score: 114
Period size: 35 Copynumber: 3.1 Consensus size: 35
9463888 TTGTAAATGA
*
9463898 TTCAAGATTC-TCAAAGATTCCAAGATTT-GTAAAGG
1 TTCAAGATTCGT-AAAGATTCCAAG-TTTCATAAAGG
* *
9463933 TTTCAAGATTTGTAAAGATTCCAAGTTTCATGAAGG
1 -TTCAAGATTCGTAAAGATTCCAAGTTTCATAAAGG
* ** *
9463969 TTCCAGATTCGTAAAGATTTTAAGTTTCACAAAGG
1 TTCAAGATTCGTAAAGATTCCAAGTTTCATAAAGG
9464004 TTC
1 TTC
9464007 TATATCATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
35 35 0.56
36 26 0.42
37 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (35 bp):
TTCAAGATTCGTAAAGATTCCAAGTTTCATAAAGG
Found at i:9465537 original size:3 final size:3
Alignment explanation
Indices: 9465529--9465569 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9465519 CTTTTTTCAA
9465529 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9465570 CTCTAAAATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9466019 original size:17 final size:17
Alignment explanation
Indices: 9465960--9466069 Score: 96
Period size: 17 Copynumber: 6.2 Consensus size: 17
9465950 AAATAAATTG
9465960 AATTCAAATATTCACAAA
1 AATTCAAA-ATTCACAAA
* ***
9465978 AGTTCATGGTT-AGCAAA
1 AATTCAAAATTCA-CAAA
**
9465995 AGATTCAAAATTCTTAAA
1 A-ATTCAAAATTCACAAA
*
9466013 AATTCAAGATTCACAAA
1 AATTCAAAATTCACAAA
*
9466030 AGATTTAAAGATTCACAAA
1 A-ATTCAAA-ATTCACAAA
9466049 AATTCAAAATTCACAAA
1 AATTCAAAATTCACAAA
9466066 AATT
1 AATT
9466070 TAAAGATTCG
Statistics
Matches: 71, Mismatches: 16, Indels: 11
0.72 0.16 0.11
Matches are distributed among these distances:
16 1 0.01
17 34 0.48
18 26 0.37
19 10 0.14
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (17 bp):
AATTCAAAATTCACAAA
Found at i:9466032 original size:35 final size:36
Alignment explanation
Indices: 9465991--9466093 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
9465981 TCATGGTTAG
* * *
9465991 CAAAAGATTCAAA-ATTCTTAAAAATTCAAGATTCA
1 CAAAAGATTTAAAGATTCATAAAAATTCAAAATTCA
*
9466026 CAAAAGATTTAAAGATTCACAAAAATTCAAAATTCA
1 CAAAAGATTTAAAGATTCATAAAAATTCAAAATTCA
* *
9466062 CAAAA-ATTTAAAGATTCGTAAAGATTTCAAAA
1 CAAAAGATTTAAAGATTCATAAA-AATTCAAAA
9466094 ATTCGTAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
35 27 0.46
36 32 0.54
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (36 bp):
CAAAAGATTTAAAGATTCATAAAAATTCAAAATTCA
Found at i:9466054 original size:36 final size:36
Alignment explanation
Indices: 9465969--9466078 Score: 127
Period size: 35 Copynumber: 3.1 Consensus size: 36
9465959 GAATTCAAAT
* * * *
9465969 ATTCACAAAAGTTCATGGTT-AGCAAAAGATTCAAA-
1 ATTCACAAAAATTCAAGATTCA-CAAAAGATTTAAAG
**
9466004 ATTCTTAAAAATTCAAGATTCACAAAAGATTTAAAG
1 ATTCACAAAAATTCAAGATTCACAAAAGATTTAAAG
*
9466040 ATTCACAAAAATTCAAAATTCACAAAA-ATTTAAAG
1 ATTCACAAAAATTCAAGATTCACAAAAGATTTAAAG
9466075 ATTC
1 ATTC
9466079 GTAAAGATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
35 39 0.61
36 25 0.39
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (36 bp):
ATTCACAAAAATTCAAGATTCACAAAAGATTTAAAG
Found at i:9466088 original size:18 final size:18
Alignment explanation
Indices: 9466018--9466078 Score: 97
Period size: 17 Copynumber: 3.4 Consensus size: 18
9466008 TTAAAAATTC
9466018 AAGATTCACAAAAGATTTA
1 AAGATTCACAAAA-ATTTA
*
9466037 AAGATTCACAAAAATTCA
1 AAGATTCACAAAAATTTA
9466055 AA-ATTCACAAAAATTTA
1 AAGATTCACAAAAATTTA
9466072 AAGATTC
1 AAGATTC
9466079 GTAAAGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
17 16 0.41
18 10 0.26
19 13 0.33
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (18 bp):
AAGATTCACAAAAATTTA
Found at i:9466099 original size:19 final size:20
Alignment explanation
Indices: 9466075--9466192 Score: 68
Period size: 20 Copynumber: 6.2 Consensus size: 20
9466065 AAATTTAAAG
9466075 ATTCGTAA-AGATTTCAAAA
1 ATTCGTAAGAGATTTCAAAA
* *
9466094 ATTCGTAAGTGATTTCAAAT
1 ATTCGTAAGAGATTTCAAAA
* * *
9466114 ATTCGCAAGTGA-TTC-AAG
1 ATTCGTAAGAGATTTCAAAA
* * *
9466132 ATTCATTA-AGATTTCAAAG
1 ATTCGTAAGAGATTTCAAAA
* * *
9466151 ATTTGTAAGTGA-TTC-AAG
1 ATTCGTAAGAGATTTCAAAA
* * *
9466169 ATTCGCAAGTGATTTCAAAG
1 ATTCGTAAGAGATTTCAAAA
9466189 ATTC
1 ATTC
9466193 AAAGATTCAT
Statistics
Matches: 79, Mismatches: 14, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
17 2 0.03
18 23 0.29
19 25 0.32
20 29 0.37
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (20 bp):
ATTCGTAAGAGATTTCAAAA
Found at i:9466109 original size:20 final size:20
Alignment explanation
Indices: 9466067--9466192 Score: 124
Period size: 18 Copynumber: 6.7 Consensus size: 20
9466057 ATTCACAAAA
*
9466067 ATTT-AAAGATTCGTAA-AG
1 ATTTCAAAGATTCGTAAGTG
*
9466085 ATTTCAAAAATTCGTAAGTG
1 ATTTCAAAGATTCGTAAGTG
* *
9466105 ATTTCAAATATTCGCAAGTG
1 ATTTCAAAGATTCGTAAGTG
*
9466125 A-TTC-AAGATTCATTAA--G
1 ATTTCAAAGATTC-GTAAGTG
*
9466142 ATTTCAAAGATTTGTAAGTG
1 ATTTCAAAGATTCGTAAGTG
*
9466162 A-TTC-AAGATTCGCAAGTG
1 ATTTCAAAGATTCGTAAGTG
9466180 ATTTCAAAGATTC
1 ATTTCAAAGATTC
9466193 AAAGATTCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 16
0.77 0.10 0.14
Matches are distributed among these distances:
17 2 0.02
18 29 0.33
19 28 0.32
20 29 0.33
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (20 bp):
ATTTCAAAGATTCGTAAGTG
Found at i:9466136 original size:75 final size:75
Alignment explanation
Indices: 9466050--9466192 Score: 173
Period size: 75 Copynumber: 1.9 Consensus size: 75
9466040 ATTCACAAAA
*
9466050 ATTCAAAATTCACAAAAATTT-AAAGATTCGTAA-AGATTTCAAAAATTCGTAAGTGATTTCAAA
1 ATTCAAAATTCACAAAAATTTCAAAGATTCGTAAGAGA-TTC-AAAATTCGCAAGTGATTTCAAA
*
9466113 TATTCGCAAGTG
64 GATTCGCAAGTG
* ** * * * *
9466125 ATTCAAGATTCATTAAGATTTCAAAGATTTGTAAGTGATTCAAGATTCGCAAGTGATTTCAAAGA
1 ATTCAAAATTCACAAAAATTTCAAAGATTCGTAAGAGATTCAAAATTCGCAAGTGATTTCAAAGA
9466190 TTC
66 TTC
9466193 AAAGATTCAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
75 41 0.72
76 14 0.25
77 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (75 bp):
ATTCAAAATTCACAAAAATTTCAAAGATTCGTAAGAGATTCAAAATTCGCAAGTGATTTCAAAGA
TTCGCAAGTG
Found at i:9466143 original size:57 final size:57
Alignment explanation
Indices: 9466067--9466193 Score: 170
Period size: 57 Copynumber: 2.2 Consensus size: 57
9466057 ATTCACAAAA
* *
9466067 ATTT-AAAGATTCGTAAAGATTTCAAAAATTCGTAAGTGATTTCAAATATTCGCAAGTG
1 ATTTCAAAGATTCATAAAGATTTCAAAAATTCGTAAGTGA-TTC-AAGATTCGCAAGTG
* * *
9466125 A-TTC-AAGATTCATTAAGATTTCAAAGATTTGTAAGTGATTCAAGATTCGCAAGTG
1 ATTTCAAAGATTCATAAAGATTTCAAAAATTCGTAAGTGATTCAAGATTCGCAAGTG
9466180 ATTTCAAAGATTCA
1 ATTTCAAAGATTCA
9466194 AAGATTCATA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
55 14 0.23
56 6 0.10
57 40 0.66
58 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (57 bp):
ATTTCAAAGATTCATAAAGATTTCAAAAATTCGTAAGTGATTCAAGATTCGCAAGTG
Found at i:9466254 original size:42 final size:43
Alignment explanation
Indices: 9466186--9466297 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 43
9466176 AGTGATTTCA
* *
9466186 AAGATTCAAAGATTCATATTTGAAAATCTTAGAGATTCACATCC
1 AAGATT-AAAGGTTCATATTCGAAAATCTTAGAGATTCACATCC
* *
9466230 AAGATT-AAGGTTCTTATTCGAAAATCTTAGAGATTCACATCT
1 AAGATTAAAGGTTCATATTCGAAAATCTTAGAGATTCACATCC
*
9466272 AAGATTCAAAGGTTCAGATTCGAAAA
1 AAGATT-AAAGGTTCATATTCGAAAA
9466298 GCTTTTGTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
42 38 0.63
44 22 0.37
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (43 bp):
AAGATTAAAGGTTCATATTCGAAAATCTTAGAGATTCACATCC
Found at i:9466514 original size:45 final size:44
Alignment explanation
Indices: 9466448--9466677 Score: 238
Period size: 43 Copynumber: 5.3 Consensus size: 44
9466438 ACTTTGAAAA
* *
9466448 AAAAATATAAAAAGCTCATCTCAACAAAGGCTCAACAACTTTTG
1 AAAAATATAAAAAGCTCATCTCAATAGAGGCTCAACAACTTTTG
*
9466492 AAAATATATAAAAAGCTCATCTCAATAGAGGTTCAACAACTTTT-
1 AAAA-ATATAAAAAGCTCATCTCAATAGAGGCTCAACAACTTTTG
** * * *
9466536 AAAAAT-TAAAATA-CTTTTTTAAATAGAGGCTTAACAACTTTT-
1 AAAAATATAAAA-AGCTCATCTCAATAGAGGCTCAACAACTTTTG
* * * * *
9466578 ATAAATATAAAAAACTCATCTCAATAGAGGCTTAATAACTCTTG
1 AAAAATATAAAAAGCTCATCTCAATAGAGGCTCAACAACTTTTG
* * * *
9466622 AAAAATAT-AAATGACTCATCTCAACATAGACTCAACAAC-TTTG
1 AAAAATATAAAAAG-CTCATCTCAATAGAGGCTCAACAACTTTTG
9466665 AAAAATATAAAAA
1 AAAAATATAAAAA
9466678 AGGATTCTTG
Statistics
Matches: 153, Mismatches: 26, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
42 34 0.22
43 45 0.29
44 38 0.25
45 36 0.24
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (44 bp):
AAAAATATAAAAAGCTCATCTCAATAGAGGCTCAACAACTTTTG
Found at i:9466662 original size:87 final size:85
Alignment explanation
Indices: 9466448--9466679 Score: 240
Period size: 87 Copynumber: 2.7 Consensus size: 85
9466438 ACTTTGAAAA
* * *
9466448 AAAAATATAAAAAGCTCATCTCAACAAAGGCTCAACAACTTTTGAAAATATATAAAAAGCTCATC
1 AAAAATATAAATA-CTCATCTCAACATAGACTCAACAACTTTT-AAAATATA-AAAAAGCTCATC
*
9466513 TCAATAGAGGTTCAACAACTTTT
63 TCAATAGAGGTTCAACAACTTTG
* * * *
9466536 AAAAAT-TAAAATACT-TTTTTAA-ATAGAGGCTTAACAACTTTTATAAATATAAAAAA-CTCAT
1 AAAAATAT-AAATACTCATCTCAACATAGA--CTCAACAACTTTTA-AAATATAAAAAAGCTCAT
*
9466597 CTCAATAGAGGCTT-AATAACTCTTG
62 CTCAATAGAGG-TTCAACAACT-TTG
*
9466622 AAAAATATAAATGACTCATCTCAACATAGACTCAACAACTTTGAAAAATATAAAAAAG
1 AAAAATATAAAT-ACTCATCTCAACATAGACTCAACAACTTT-TAAAATATAAAAAAG
9466680 GATTCTTGTT
Statistics
Matches: 118, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
85 25 0.21
86 24 0.20
87 49 0.42
88 15 0.13
89 5 0.04
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (85 bp):
AAAAATATAAATACTCATCTCAACATAGACTCAACAACTTTTAAAATATAAAAAAGCTCATCTCA
ATAGAGGTTCAACAACTTTG
Found at i:9467984 original size:12 final size:12
Alignment explanation
Indices: 9467959--9468000 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
9467949 AGCCCAAAAT
*
9467959 TTTTAATC-TAA
1 TTTTAATCTTGA
9467970 TTTTAATCTTGA
1 TTTTAATCTTGA
* *
9467982 TTTTGATTTTGA
1 TTTTAATCTTGA
9467994 TTTTAAT
1 TTTTAAT
9468001 TTTAATCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (12 bp):
TTTTAATCTTGA
Found at i:9468013 original size:7 final size:6
Alignment explanation
Indices: 9467967--9468048 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
9467957 ATTTTTAATC
* * * * *
9467967 TAATTT TAATCT TGATTT TGATTT TGATTT TAATTT TAATCTT TAATTA
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT TAAT-TT TAATTT
** ** *
9468016 TGGTTT TTGTTCT TAATTT TAATTC TAATTT TA
1 TAATTT TAATT-T TAATTT TAATTT TAATTT TA
9468049 GTAAAAAAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
6 51 0.84
7 10 0.16
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (6 bp):
TAATTT
Found at i:9468138 original size:19 final size:20
Alignment explanation
Indices: 9468108--9468164 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
9468098 TAAAATTGGT
*
9468108 TTTGATTTTTGATTTTTTA-
1 TTTGAGTTTTGATTTTTTAC
*
9468127 TTTTAGTTTTGATTTTTTAC
1 TTTGAGTTTTGATTTTTTAC
*
9468147 TTTGAGTTTTAATTTTTT
1 TTTGAGTTTTGATTTTTT
9468165 GGAAAGGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.72
Consensus pattern (20 bp):
TTTGAGTTTTGATTTTTTAC
Found at i:9469143 original size:23 final size:22
Alignment explanation
Indices: 9469116--9469190 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
9469106 TTTGGTTTTT
9469116 ATTTGACTTTTATTTTCTATTTG
1 ATTTGA-TTTTATTTTCTATTTG
* *
9469139 GTTTGA-TTTA--TTCTCTTTG
1 ATTTGATTTTATTTTCTATTTG
*
9469158 TTTTGATTTTATTTTTCTATTTG
1 ATTTGATTTTA-TTTTCTATTTG
9469181 ATTTGATTTT
1 ATTTGATTTT
9469191 TTGTTGGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 13 0.30
20 4 0.09
21 4 0.09
23 22 0.51
ACGTcount: A:0.15, C:0.07, G:0.11, T:0.68
Consensus pattern (22 bp):
ATTTGATTTTATTTTCTATTTG
Found at i:9469157 original size:19 final size:19
Alignment explanation
Indices: 9469130--9469189 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
9469120 GACTTTTATT
9469130 TTCTATTTGGTTTGATTTA
1 TTCTATTTGGTTTGATTTA
* *
9469149 TTCTCTTTGTTTTGATTTTA
1 TTCTATTTGGTTTGA-TTTA
*
9469169 TTTTTCTATTTGATTTGATTT
1 ---TTCTATTTGGTTTGATTT
9469190 TTTGTTGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 13 0.39
20 4 0.12
22 3 0.09
23 13 0.39
ACGTcount: A:0.13, C:0.07, G:0.12, T:0.68
Consensus pattern (19 bp):
TTCTATTTGGTTTGATTTA
Found at i:9469182 original size:18 final size:18
Alignment explanation
Indices: 9469159--9469213 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
9469149 TTCTCTTTGT
9469159 TTTGATTTTATTTTTCTA
1 TTTGATTTTATTTTTCTA
* *
9469177 TTTGATTTGATTTTT-TG
1 TTTGATTTTATTTTTCTA
*
9469194 TTGGATTTTATTTTTCTA
1 TTTGATTTTATTTTTCTA
9469212 TT
1 TT
9469214 AATTTTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.71
Consensus pattern (18 bp):
TTTGATTTTATTTTTCTA
Found at i:9469204 original size:35 final size:37
Alignment explanation
Indices: 9469140--9469213 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 37
9469130 TTCTATTTGG
*
9469140 TTTGATTTATTCTCTTTGTTTTGATTTTATTTTTCTA
1 TTTGATTTATTCTCTTTGTTTGGATTTTATTTTTCTA
9469177 TTTGATTTGATT-T-TTTG-TTGGATTTTATTTTTCTA
1 TTTGATTT-ATTCTCTTTGTTTGGATTTTATTTTTCTA
9469212 TT
1 TT
9469214 AATTTTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
35 19 0.54
36 4 0.11
37 9 0.26
38 3 0.09
ACGTcount: A:0.14, C:0.05, G:0.11, T:0.70
Consensus pattern (37 bp):
TTTGATTTATTCTCTTTGTTTGGATTTTATTTTTCTA
Found at i:9469218 original size:17 final size:17
Alignment explanation
Indices: 9469160--9469220 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
9469150 TCTCTTTGTT
9469160 TTGATTTTATTTTTCTA
1 TTGATTTTATTTTTCTA
* *
9469177 TTTGATTTGATTTTT-TG
1 -TTGATTTTATTTTTCTA
9469194 TTGGATTTTATTTTTCTA
1 TT-GATTTTATTTTTCTA
*
9469212 TTAATTTTA
1 TTGATTTTA
9469221 ATATTAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.06
17 18 0.50
18 16 0.44
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (17 bp):
TTGATTTTATTTTTCTA
Found at i:9469276 original size:16 final size:17
Alignment explanation
Indices: 9469244--9469280 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
9469234 TAATTCATAT
*
9469244 TTAT-TTTGTATGTCTA
1 TTATATTTGCATGTCTA
9469260 TTATATTTGCATG-CTA
1 TTATATTTGCATGTCTA
9469276 TTATA
1 TTATA
9469281 ATTAGTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.57
Consensus pattern (17 bp):
TTATATTTGCATGTCTA
Found at i:9469366 original size:55 final size:55
Alignment explanation
Indices: 9469300--9469470 Score: 229
Period size: 55 Copynumber: 3.1 Consensus size: 55
9469290 ATATATTATT
* * * *
9469300 TGTTTGATTGCATGGCTTATAAATTTTTATTTGCGTGATTATATATTTAATTGTA
1 TGTTTGATTGCATGGTTTATATATTTTTATTTGCATGATTATATATTTAATTGCA
* *
9469355 TGTTTGATTGCATGGTTTATATATTATTATTTGCATGGTTATATATTTAATTGCA
1 TGTTTGATTGCATGGTTTATATATTTTTATTTGCATGATTATATATTTAATTGCA
* *
9469410 TATTT-ATTTGCATGGTTTATATATTTTTATTTGCATGATT-TACATTGTTAATTGCA
1 TGTTTGA-TTGCATGGTTTATATATTTTTATTTGCATGATTATATA-T-TTAATTGCA
9469466 TGTTT
1 TGTTT
9469471 ATGTATTTAA
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
54 4 0.04
55 85 0.83
56 13 0.13
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (55 bp):
TGTTTGATTGCATGGTTTATATATTTTTATTTGCATGATTATATATTTAATTGCA
Found at i:9469376 original size:31 final size:29
Alignment explanation
Indices: 9469341--9469431 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 29
9469331 TGCGTGATTA
9469341 TATATTTAATTGTATGTTTGATTGCATGGTT
1 TATATTTAATTGTAT-TTT-ATTGCATGGTT
*
9469372 TATA--T-A-T-TATTAT-TTGCATGGTT
1 TATATTTAATTGTATTTTATTGCATGGTT
*
9469395 ATATATTTAATTGCATATTTATTTGCATGGTT
1 -TATATTTAATTGTAT-TTTA-TTGCATGGTT
9469427 TATAT
1 TATAT
9469432 ATTTTTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
23 10 0.21
24 4 0.08
25 2 0.04
26 4 0.08
27 2 0.04
28 2 0.04
29 3 0.06
30 2 0.04
31 9 0.19
32 10 0.21
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.55
Consensus pattern (29 bp):
TATATTTAATTGTATTTTATTGCATGGTT
Found at i:9469408 original size:20 final size:23
Alignment explanation
Indices: 9469361--9469410 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
9469351 TGTATGTTTG
9469361 ATTGCATGGTTTATATATTATTA
1 ATTGCATGGTTTATATATTATTA
*
9469384 TTTGCATGG-TTATATA-T-TTA
1 ATTGCATGGTTTATATATTATTA
9469404 ATTGCAT
1 ATTGCAT
9469411 ATTTATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.36
21 1 0.04
22 7 0.28
23 8 0.32
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (23 bp):
ATTGCATGGTTTATATATTATTA
Found at i:9469416 original size:20 final size:22
Alignment explanation
Indices: 9469361--9469416 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 22
9469351 TGTATGTTTG
*
9469361 ATTGCATGGTTTATATATTATTA
1 ATTGCAT-ATTTATATATTATTA
* **
9469384 TTTGCATGGTTATATA-T-TTA
1 ATTGCATATTTATATATTATTA
9469404 ATTGCATATTTAT
1 ATTGCATATTTAT
9469417 TTGCATGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 13 0.46
21 1 0.04
22 8 0.29
23 6 0.21
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (22 bp):
ATTGCATATTTATATATTATTA
Found at i:9469433 original size:21 final size:21
Alignment explanation
Indices: 9469409--9469479 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 21
9469399 ATTTAATTGC
9469409 ATATTTATTTGCATGGTTTAT
1 ATATTTATTTGCATGGTTTAT
* *
9469430 ATATTTTTATTTGCATGATTTAC
1 ATA--TTTATTTGCATGGTTTAT
*
9469453 AT-TGTTAATTGCAT-GTTTAT
1 ATAT-TTATTTGCATGGTTTAT
*
9469473 GTATTTA
1 ATATTTA
9469480 ATTGTATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.22
21 13 0.32
23 18 0.45
ACGTcount: A:0.25, C:0.06, G:0.13, T:0.56
Consensus pattern (21 bp):
ATATTTATTTGCATGGTTTAT
Found at i:9469580 original size:25 final size:24
Alignment explanation
Indices: 9469552--9469599 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
9469542 TAGTTATTTA
* *
9469552 TTATTGCATGATATGATATTATATG
1 TTATTGCATAAT-TAATATTATATG
9469577 TTATTGCATAATTAATATTATAT
1 TTATTGCATAATTAATATTATAT
9469600 TTGACTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
TTATTGCATAATTAATATTATATG
Found at i:9469717 original size:20 final size:18
Alignment explanation
Indices: 9469693--9469828 Score: 94
Period size: 20 Copynumber: 6.9 Consensus size: 18
9469683 TGATTTTATG
9469693 ATTATATATTTGCATGAAT
1 ATTATATATTTGCATG-AT
*
9469712 GGTTATTAATATTTGCATGAT
1 -ATTA-T-ATATTTGCATGAT
* *
9469733 GTTTTATATTATTGCATGAT
1 ATTATATA-T-TTGCATGAT
*
9469753 AATTAATATATTTGCATAAT
1 -ATT-ATATATTTGCATGAT
**
9469773 ATTATATATTTATATGATT
1 ATTATATATTTGCATGA-T
9469792 ATTAT-TATTATTGCATGAT
1 ATTATATA-T-TTGCATGAT
9469811 GATTAATATATTTGCATG
1 -ATT-ATATATTTGCATG
9469829 GCATTCTTGC
Statistics
Matches: 94, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
18 16 0.17
19 13 0.14
20 39 0.41
21 9 0.10
22 17 0.18
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (18 bp):
ATTATATATTTGCATGAT
Found at i:9469790 original size:38 final size:40
Alignment explanation
Indices: 9469748--9469823 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 40
9469738 ATATTATTGC
9469748 ATGATAATTAATA-TATTTGCATAAT-ATT-ATATATTTAT
1 ATGATAATTAATATTA-TTGCATAATGATTAATATATTTAT
* * *
9469786 ATGATTATTATTATTATTGCATGATGATTAATATATTT
1 ATGATAATTAATATTATTGCATAATGATTAATATATTT
9469824 GCATGGCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 19 0.59
39 5 0.16
40 8 0.25
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (40 bp):
ATGATAATTAATATTATTGCATAATGATTAATATATTTAT
Found at i:9469790 original size:58 final size:62
Alignment explanation
Indices: 9469696--9469828 Score: 177
Period size: 58 Copynumber: 2.2 Consensus size: 62
9469686 TTTTATGATT
* * *
9469696 ATATATTTGCATGAATGGTTATTAATATTTGCATGATGTTTTA-TATTATTGCATGATAATTA
1 ATATATTTGCATGAATGATTATTAATATTTACATGAT-TATTATTATTATTGCATGATAATTA
* *
9469758 ATATATTTGCAT-AAT-ATTA-T-ATATTTATATGATTATTATTATTATTGCATGATGATTA
1 ATATATTTGCATGAATGATTATTAATATTTACATGATTATTATTATTATTGCATGATAATTA
9469816 ATATATTTGCATG
1 ATATATTTGCATG
9469829 GCATTCTTGC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
57 4 0.06
58 41 0.64
59 1 0.02
60 3 0.05
61 3 0.05
62 12 0.19
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.50
Consensus pattern (62 bp):
ATATATTTGCATGAATGATTATTAATATTTACATGATTATTATTATTATTGCATGATAATTA
Found at i:9480428 original size:43 final size:43
Alignment explanation
Indices: 9480357--9480538 Score: 221
Period size: 43 Copynumber: 4.3 Consensus size: 43
9480347 TCCAAAGCAA
* * *
9480357 GGAGTATTTTA-TTTTCAAAAGTTCCAAAGCCTCAGTTGTGGG
1 GGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATGGG
*
9480399 GGAGCATTTTATTTTTTC-AAAGTTTCAAAGCCTCAGTTATGGT
1 GGAGCATTTTA-TTTTTCAAAAGTTTCAAAGCCTCAGTTATGGG
* * * * *
9480442 GAAACATTTTATTTTTCAAAAGCTTCAAAGCCTTAGTTGT-GG
1 GGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATGGG
* *
9480484 GG-GCATTTTA-TGTTCAAAAGTTTCAAAGCCTCAGTTATAGG
1 GGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATGGG
9480525 GGAGCATTTTATTT
1 GGAGCATTTTATTT
9480539 AAAAAAAAAG
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
40 24 0.21
41 11 0.09
42 26 0.22
43 51 0.44
44 5 0.04
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.38
Consensus pattern (43 bp):
GGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTATGGG
Found at i:9480846 original size:18 final size:18
Alignment explanation
Indices: 9480802--9480865 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
9480792 TTTTAATCTG
*
9480802 ATTTTAATCTTG-A-TTTG
1 ATTTTAAT-TTGAATTTTA
* **
9480819 ATTTTGATTTGGCTTTTA
1 ATTTTAATTTGAATTTTA
*
9480837 ATTTTAATTTTAATTTTA
1 ATTTTAATTTGAATTTTA
9480855 ATCTTTAATTT
1 AT-TTTAATTT
9480866 TGGTTTTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
16 3 0.08
17 7 0.19
18 19 0.51
19 8 0.22
ACGTcount: A:0.25, C:0.05, G:0.08, T:0.62
Consensus pattern (18 bp):
ATTTTAATTTGAATTTTA
Found at i:9480863 original size:7 final size:6
Alignment explanation
Indices: 9480832--9480889 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
9480822 TTGATTTGGC
** **
9480832 TTTTAA TTTTAA TTTTAA TTTTAA TCTTTAA TTTTGG TTTTTG TTCTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA T-TTTAA TTTTAA TTTTAA TT-TTAA
9480882 TTTTAA TT
1 TTTTAA TT
9480890 CCAATTTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
6 35 0.78
7 10 0.22
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:9480872 original size:19 final size:18
Alignment explanation
Indices: 9480826--9480872 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
9480816 TTGATTTTGA
9480826 TTTGGCTTTTAATTTTAAT
1 TTTGG-TTTTAATTTTAAT
**
9480845 TTTAATTTTAATCTTTAAT
1 TTTGGTTTTAAT-TTTAAT
9480864 TTTGGTTTT
1 TTTGGTTTT
9480873 TGTTCTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (18 bp):
TTTGGTTTTAATTTTAAT
Found at i:9480872 original size:25 final size:25
Alignment explanation
Indices: 9480833--9480898 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
9480823 TGATTTGGCT
9480833 TTTAATTTTAATTTTAATT-TTAAT
1 TTTAATTTTAATTTTAATTCTTAAT
** **
9480857 CTTTAATTTTGGTTTTTGTTCTTAAT
1 -TTTAATTTTAATTTTAATTCTTAAT
**
9480883 TTTAATTCCAATTTTA
1 TTTAATTTTAATTTTA
9480899 GTAAAAAAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.64
Consensus pattern (25 bp):
TTTAATTTTAATTTTAATTCTTAAT
Found at i:9480951 original size:19 final size:20
Alignment explanation
Indices: 9480901--9480951 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
9480891 CAATTTTAGT
*
9480901 AAAAAAAA-AAGTCAAAACA
1 AAAAAAAAGAAATCAAAACA
* *
9480920 AAAAAAAGGGAAAT-AAAATA
1 AAAAAAA-AGAAATCAAAACA
9480940 AAAAAAAAGAAA
1 AAAAAAAAGAAA
9480952 AAATTTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 11 0.42
20 12 0.46
21 3 0.12
ACGTcount: A:0.80, C:0.04, G:0.10, T:0.06
Consensus pattern (20 bp):
AAAAAAAAGAAATCAAAACA
Found at i:9481009 original size:26 final size:25
Alignment explanation
Indices: 9480961--9481014 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
9480951 AAAATTTGGT
* *
9480961 TTTGATTTTTAATTTTTAATTTTAGA
1 TTTGATTTTTAACTTTGAATTTTA-A
* *
9480987 TTTGATTTTTGACTTTGAGTTTTAA
1 TTTGATTTTTAACTTTGAATTTTAA
9481012 TTT
1 TTT
9481015 CTGGAAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.65
Consensus pattern (25 bp):
TTTGATTTTTAACTTTGAATTTTAA
Found at i:9481999 original size:20 final size:20
Alignment explanation
Indices: 9481969--9482035 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
9481959 TTATTTGAAT
9481969 TTTATTTTCTATTTGGTTTGA
1 TTTA-TTTCTATTTGGTTTGA
*
9481990 TTTATTTCTATTTGGTTAGA
1 TTTATTTCTATTTGGTTTGA
9482010 TTTTATTT-T-TTT-GTTTGA
1 -TTTATTTCTATTTGGTTTGA
9482028 TTTGATTT
1 TTT-ATTT
9482036 TTTGTTTGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.07
18 9 0.21
19 3 0.07
20 16 0.38
21 11 0.26
ACGTcount: A:0.15, C:0.03, G:0.13, T:0.69
Consensus pattern (20 bp):
TTTATTTCTATTTGGTTTGA
Found at i:9482035 original size:18 final size:18
Alignment explanation
Indices: 9481984--9482054 Score: 83
Period size: 17 Copynumber: 3.9 Consensus size: 18
9481974 TTTCTATTTG
9481984 GTTTGATTT-ATTTCTATTT
1 GTTTGATTTGATTT-T-TTT
* *
9482003 GGTTAGATTTTATTTTTTT
1 -GTTTGATTTGATTTTTTT
9482022 GTTTGATTTGA-TTTTTT
1 GTTTGATTTGATTTTTTT
9482039 GTTTGATTTGATTTTT
1 GTTTGATTTGATTTTT
9482055 CTATTAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 17 0.37
18 13 0.28
19 3 0.07
20 9 0.20
21 4 0.09
ACGTcount: A:0.14, C:0.01, G:0.15, T:0.69
Consensus pattern (18 bp):
GTTTGATTTGATTTTTTT
Found at i:9482194 original size:20 final size:20
Alignment explanation
Indices: 9482165--9482202 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9482155 ACGTAGTTCA
* *
9482165 TATATTTTTATTTGCATGAT
1 TATATATTTAATTGCATGAT
9482185 TATATATTTAATTGCATG
1 TATATATTTAATTGCATG
9482203 TTTGATTGCA
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:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
TATATATTTAATTGCATGAT
Found at i:9482217 original size:55 final size:55
Alignment explanation
Indices: 9482146--9482304 Score: 196
Period size: 55 Copynumber: 2.9 Consensus size: 55
9482136 ATATATTATT
* * *
9482146 TGTTTGATTACGTAGTTCATATATTTTTATTTGCATGATTATATATTTAATTGCA-
1 TGTTTGATTGCGTAGTTTATATATTTTTATTTGCATGATTATATATTTAATT-AAG
* *
9482201 TGTTTGATTGCATAGTTTATATATTTTTATTTGCTTGATTATATATTTAATTAAG
1 TGTTTGATTGCGTAGTTTATATATTTTTATTTGCATGATTATATATTTAATTAAG
* * * *
9482256 TGTTT-ATTTGTGTGGTTTATATATTATTATTTGCATGGTTTATATATTT
1 TGTTTGA-TTGCGTAGTTTATATATTTTTATTTGCAT-GATTATATATTT
9482305 TTATTTACAT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
54 2 0.02
55 77 0.86
56 11 0.12
ACGTcount: A:0.25, C:0.04, G:0.14, T:0.57
Consensus pattern (55 bp):
TGTTTGATTGCGTAGTTTATATATTTTTATTTGCATGATTATATATTTAATTAAG
Found at i:9482286 original size:23 final size:23
Alignment explanation
Indices: 9482259--9482310 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
9482249 AATTAAGTGT
**
9482259 TTATTTGTGTGGTTTATATATTA
1 TTATTTGCATGGTTTATATATTA
*
9482282 TTATTTGCATGGTTTATATATTT
1 TTATTTGCATGGTTTATATATTA
9482305 TTATTT
1 TTATTT
9482311 ACATAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.02, G:0.13, T:0.63
Consensus pattern (23 bp):
TTATTTGCATGGTTTATATATTA
Found at i:9482323 original size:22 final size:23
Alignment explanation
Indices: 9482272--9482326 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
9482262 TTTGTGTGGT
* * **
9482272 TTATATATTATTATTTGCATGGT
1 TTATATATTTTTATTTACATGAA
9482295 TTATATATTTTTATTTACAT-AA
1 TTATATATTTTTATTTACATGAA
9482317 TTATATATTT
1 TTATATATTT
9482327 AATTGTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (23 bp):
TTATATATTTTTATTTACATGAA
Found at i:9482353 original size:78 final size:78
Alignment explanation
Indices: 9482208--9482355 Score: 199
Period size: 78 Copynumber: 1.9 Consensus size: 78
9482198 GCATGTTTGA
* * * * ** *
9482208 TTGCATAGTTTATATATTTTTATTTGCTTGATTATATATTTAATTAAGTGTTTATTTGTGTGGTT
1 TTGCATAGTTTATATATTTTTATTTACATAATTATATATTTAATTAAGTGTGTATTTGCATGATT
9482273 TATATATTATTAT
66 TATATATTATTAT
* *
9482286 TTGCATGGTTTATATATTTTTATTTACATAATTATATATTTAATTGTA-TGTGTATTTGCATGAT
1 TTGCATAGTTTATATATTTTTATTTACATAATTATATATTTAATT-AAGTGTGTATTTGCATGAT
9482350 TTATAT
65 TTATAT
9482356 TGTTAATTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
78 59 0.98
79 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.57
Consensus pattern (78 bp):
TTGCATAGTTTATATATTTTTATTTACATAATTATATATTTAATTAAGTGTGTATTTGCATGATT
TATATATTATTAT
Found at i:9482484 original size:24 final size:24
Alignment explanation
Indices: 9482451--9482512 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
9482441 TTATTAGTGC
*
9482451 ATGATTTTATATTTATTGAATGAT
1 ATGATATTATATTTATTGAATGAT
*
9482475 ATGATATTATATGTTATTGCATGAT
1 ATGATATTATAT-TTATTGAATGAT
*
9482500 -TAATATTATATTT
1 ATGATATTATATTT
9482513 GAATGATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.62
25 11 0.32
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (24 bp):
ATGATATTATATTTATTGAATGAT
Found at i:9482746 original size:20 final size:20
Alignment explanation
Indices: 9482635--9482747 Score: 94
Period size: 20 Copynumber: 5.9 Consensus size: 20
9482625 ATGAAAGGTT
* *
9482635 ATTAATATATTTACATGGTA
1 ATTAATATATTTGCATGATA
* * *
9482655 TTTTATAT-TATTGCATAATA
1 ATTAATATAT-TTGCATGATA
*
9482675 ATTAATATATTTGCATAAT-
1 ATTAATATATTTGCATGATA
** *
9482694 ATT-ATATATTTATATGATT
1 ATTAATATATTTGCATGATA
9482713 ATT-AT-TA-TTGCATGATA
1 ATTAATATATTTGCATGATA
9482730 ATTAATATATTTGCATGA
1 ATTAATATATTTGCATGA
9482748 CATTCTTGCA
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
17 10 0.14
18 16 0.22
19 11 0.15
20 36 0.49
21 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (20 bp):
ATTAATATATTTGCATGATA
Found at i:9484348 original size:24 final size:23
Alignment explanation
Indices: 9484291--9484350 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
9484281 ATGAATTGTC
9484291 AAATAATCTTCACAACTTGCTTTT
1 AAATAATCTTCACAACTTGC-TTT
*
9484315 AAACT-CTCTTAACACAACTTGC-TT
1 AAA-TAATCTT--CACAACTTGCTTT
9484339 AAATAATCTTCA
1 AAATAATCTTCA
9484351 TAGATCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
22 2 0.07
23 1 0.03
24 16 0.53
25 1 0.03
26 10 0.33
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (23 bp):
AAATAATCTTCACAACTTGCTTT
Found at i:9485451 original size:29 final size:28
Alignment explanation
Indices: 9485399--9485456 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
9485389 GGACGTATAT
* *
9485399 ATATGTTAGTGATGCATGATTAAAATACA
1 ATATGTTAATGATGCATGAAT-AAATACA
9485428 ATATGTTAATGATGC-TAGAATAAATACA
1 ATATGTTAATGATGCAT-GAATAAATACA
9485456 A
1 A
9485457 AACACAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (28 bp):
ATATGTTAATGATGCATGAATAAATACA
Found at i:9485869 original size:22 final size:22
Alignment explanation
Indices: 9485844--9485891 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
9485834 TGGATGATAG
*
9485844 AATATTAAAAGTTTGAAAAATA
1 AATATTAAAAGCTTGAAAAATA
9485866 AATATTAAAAGCTTGAAAAATA
1 AATATTAAAAGCTTGAAAAATA
9485888 AATA
1 AATA
9485892 AAAAAATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (22 bp):
AATATTAAAAGCTTGAAAAATA
Found at i:9485897 original size:22 final size:22
Alignment explanation
Indices: 9485850--9485897 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
9485840 ATAGAATATT
* **
9485850 AAAAGTTTGAAAAATAAATATT
1 AAAAGCTTGAAAAATAAATAAA
9485872 AAAAGCTTGAAAAATAAATAAA
1 AAAAGCTTGAAAAATAAATAAA
9485894 AAAA
1 AAAA
9485898 TTAGGGAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (22 bp):
AAAAGCTTGAAAAATAAATAAA
Found at i:9487653 original size:9 final size:9
Alignment explanation
Indices: 9487624--9487664 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
9487614 TAAAGAATTC
9487624 AGATTCACA
1 AGATTCACA
9487633 AGAATTCA-A
1 AG-ATTCACA
9487642 AGATTCACA
1 AGATTCACA
*
9487651 AGATTCGCA
1 AGATTCACA
9487660 AGATT
1 AGATT
9487665 TTTAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 5 0.17
9 19 0.66
10 5 0.17
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (9 bp):
AGATTCACA
Found at i:9487664 original size:18 final size:18
Alignment explanation
Indices: 9487616--9487653 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9487606 TTAGATCGTA
9487616 AAGAATTC--AGATTCAC
1 AAGAATTCAAAGATTCAC
9487632 AAGAATTCAAAGATTCAC
1 AAGAATTCAAAGATTCAC
9487650 AAGA
1 AAGA
9487654 TTCGCAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (18 bp):
AAGAATTCAAAGATTCAC
Found at i:9489340 original size:14 final size:14
Alignment explanation
Indices: 9489321--9489348 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9489311 TCAATTTAAG
9489321 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
9489335 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
9489349 CTTATCGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:9494874 original size:14 final size:14
Alignment explanation
Indices: 9494855--9494904 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
9494845 AACAACCATA
9494855 ATAAATATAAAAAT
1 ATAAATATAAAAAT
9494869 ATAAATATAAAAAT
1 ATAAATATAAAAAT
* *
9494883 AT-TATATAAAAAA
1 ATAAATATAAAAAT
9494896 ATAAA-ATAA
1 ATAAATATAA
9494905 GATAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 15 0.47
14 17 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAATATAAAAAT
Found at i:9494904 original size:13 final size:13
Alignment explanation
Indices: 9494854--9494914 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
9494844 AAACAACCAT
9494854 AATAAATATAAAAA
1 AATAAA-ATAAAAA
*
9494868 TATAAATATAAAAA
1 AATAAA-ATAAAAA
* * *
9494882 TATTATATAAAAA
1 AATAAAATAAAAA
* *
9494895 AATAAAATAAGAT
1 AATAAAATAAAAA
9494908 AATAAAA
1 AATAAAA
9494915 ATCAAACAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
13 22 0.56
14 17 0.44
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:9496081 original size:3 final size:3
Alignment explanation
Indices: 9496073--9496107 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9496063 ATGTCTATAG
9496073 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9496108 TTATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9496112 original size:3 final size:3
Alignment explanation
Indices: 9496106--9496143 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9496096 ATAATAATAA
9496106 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9496144 AGACTACATT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9497686 original size:14 final size:15
Alignment explanation
Indices: 9497633--9497687 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
9497623 TCAATTTTTT
9497633 TATTT-TTTATTATA
1 TATTTATTTATTATA
*
9497647 TATATTATTTGA-AATA
1 TAT-TTATTT-ATTATA
9497663 TATTTA-TTATTATA
1 TATTTATTTATTATA
9497677 T-TTTATTTATT
1 TATTTATTTATT
9497688 TTTAAATGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 5 0.15
14 14 0.41
15 5 0.15
16 9 0.26
17 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTATTTATTATA
Found at i:9497691 original size:23 final size:22
Alignment explanation
Indices: 9497626--9497691 Score: 53
Period size: 28 Copynumber: 2.7 Consensus size: 22
9497616 CTTTTTTTCA
9497626 ATTTT-TTTATTTTTTATTATAT
1 ATTTTATTTA-TTTTTATTATAT
*
9497648 ATATTATTTGAAATATATTTATTATTAT
1 ATTTTATTT---AT-T-TTTATTA-TAT
9497676 ATTTTATTTATTTTTA
1 ATTTTATTTATTTTTA
9497692 AATGCATATC
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
22 4 0.11
23 7 0.20
24 1 0.03
25 3 0.09
26 2 0.06
27 7 0.20
28 11 0.31
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
ATTTTATTTATTTTTATTATAT
Found at i:9498137 original size:29 final size:29
Alignment explanation
Indices: 9498069--9498148 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
9498059 AAATAAAATT
**
9498069 GGAAGAAATAAAAAATGTTAAAAGCAATG
1 GGAAGAAATAAAAAATAATAAAAGCAATG
* *
9498098 TGAATG-GATAAAAAATAATAAAAG-AAGTG
1 GGAA-GAAATAAAAAATAATAAAAGCAA-TG
*
9498127 GGAAGAAAT-AAAAATTATAAAA
1 GGAAGAAATAAAAAATAATAAAA
9498149 TGATTTTACA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
28 15 0.37
29 25 0.61
30 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.19, T:0.19
Consensus pattern (29 bp):
GGAAGAAATAAAAAATAATAAAAGCAATG
Found at i:9498665 original size:23 final size:21
Alignment explanation
Indices: 9498639--9498690 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
9498629 AATTATTCAC
9498639 ATTTTTTTAGATTATAATAA-AA
1 ATTTTTTTAG-TT-TAATAACAA
9498661 TATTTATATTTAGTTTAATAACAA
1 -ATTT-T-TTTAGTTTAATAACAA
9498685 ATTTTT
1 ATTTTT
9498691 AGTTAAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.04
22 1 0.04
23 14 0.54
24 5 0.19
25 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
ATTTTTTTAGTTTAATAACAA
Found at i:9500231 original size:21 final size:22
Alignment explanation
Indices: 9500182--9500236 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
9500172 AAATTACTGA
* * *
9500182 TTGTGTTGGATTGAGGCTGGAT
1 TTGTGTTTGATTGAAGCTGAAT
*
9500204 TTATGTTTGATTGAAGC-GAAT
1 TTGTGTTTGATTGAAGCTGAAT
9500225 TTGTGTTTGATT
1 TTGTGTTTGATT
9500237 AAAAATTAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.18, C:0.04, G:0.31, T:0.47
Consensus pattern (22 bp):
TTGTGTTTGATTGAAGCTGAAT
Found at i:9504915 original size:274 final size:281
Alignment explanation
Indices: 9504396--9504938 Score: 669
Period size: 274 Copynumber: 2.0 Consensus size: 281
9504386 AAAATTAAAT
* * * *
9504396 TTTAAAATTTTTTATAAAATTAAAATTTTATGATTTTTAATGTCAAAAAGTAAAAAAAAATCATG
1 TTTAAAATTTTTTATAAAATTAAAATTTCATGATTTTTAATGTCAAAAAATAAAAAAAAATAATA
* *
9504461 AAAATAATTTTAAAATATAAAACAATAGTTTTAAAATGTTCTAAGAAAAAAGGAAAGAAAACATA
66 AAAATAATTTTAAAATATAAAACAAGAGTTTTAAAATCTTCT-A-AAAAAAGGAAAGAAAACATA
* * * * * *
9504526 TTTTGAGACATAAAAAAAAAGTGGAAAAAGAAAATATGATAGAGGGAGTACTTGTATAACTGAGG
129 TTTGGAGACATAAAAAAAAAGTGGAAAAAGAAAATAGGACAGAGGGAGTACTTGGATAACTAAAG
*
9504591 ATTTTTTATGTTTAACATTATTTCATTTTTAACAAATACTAATAATAATCTAATTTCCTATTCAA
194 ATTTTTTATATTTAACATTATTTCATTTTTAACAAATACTAATAATAATCTAATTTCCTATTCAA
*
9504656 ATTTTAAAAAGAACATATTCATC
259 AATTTAAAAAGAACATATTCATC
* * * * *
9504679 TTTAAATTTTTTTATAAAATTAAAGTTTCATTATTTTTAATGT-AAAAAAT-AATAACAATAATA
1 TTTAAAATTTTTTATAAAATTAAAATTTCATGATTTTTAATGTCAAAAAATAAAAAAAAATAATA
* * * **
9504742 AAAATAATTTTAACATATAAAAGTAAGAGTTTT-AAATCTT-T-AAAAAA-TAAAGAGGACATAA
66 AAAATAATTTTAAAATATAAAA-CAAGAGTTTTAAAATCTTCTAAAAAAAGGAAAGAAAACAT-A
*** *
9504803 TTTGGA-ACATTCGAAAAAAGATGG-AAAA-AAAAT-GGAACATAGGGAGTACTTGGATAACTAA
129 TTTGGAGACATAAAAAAAAAG-TGGAAAAAGAAAATAGG-ACAGAGGGAGTACTTGGATAACTAA
*
9504864 AGA-TTTTTATATTTAATATT-TTTCTATTTTTAACAAATACTAATAATAATCTAATTTCCTATT
192 AGATTTTTTATATTTAACATTATTTC-ATTTTTAACAAATACTAATAATAATCTAATTTCCTATT
*
9504927 TAAAATTTAAAA
256 CAAAATTTAAAA
9504939 GTAGCATACT
Statistics
Matches: 225, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
273 4 0.02
274 64 0.28
275 28 0.12
276 24 0.11
277 15 0.07
280 1 0.00
281 36 0.16
282 14 0.06
283 39 0.17
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (281 bp):
TTTAAAATTTTTTATAAAATTAAAATTTCATGATTTTTAATGTCAAAAAATAAAAAAAAATAATA
AAAATAATTTTAAAATATAAAACAAGAGTTTTAAAATCTTCTAAAAAAAGGAAAGAAAACATATT
TGGAGACATAAAAAAAAAGTGGAAAAAGAAAATAGGACAGAGGGAGTACTTGGATAACTAAAGAT
TTTTTATATTTAACATTATTTCATTTTTAACAAATACTAATAATAATCTAATTTCCTATTCAAAA
TTTAAAAAGAACATATTCATC
Found at i:9505276 original size:9 final size:8
Alignment explanation
Indices: 9505260--9505303 Score: 52
Period size: 9 Copynumber: 5.0 Consensus size: 8
9505250 TTTAAAATTT
9505260 TTTAAAAA
1 TTTAAAAA
9505268 TTATAAAAA
1 TT-TAAAAA
9505277 TTTAATAAA
1 TTTAA-AAA
9505286 TTTAAAAAAA
1 TTT--AAAAA
9505296 TTTAAAAA
1 TTTAAAAA
9505304 AATACTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 10 0.31
9 14 0.44
10 6 0.19
11 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TTTAAAAA
Found at i:9505294 original size:19 final size:17
Alignment explanation
Indices: 9505260--9505303 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
9505250 TTTAAAATTT
*
9505260 TTTAAAAATTATAAAAA
1 TTTAAAAATTAAAAAAA
9505277 TTTAATAAATTTAAAAAAA
1 TTTAA-AAA-TTAAAAAAA
9505296 TTTAAAAA
1 TTTAAAAA
9505304 AATACTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 6 0.25
19 13 0.54
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTAAAAATTAAAAAAA
Found at i:9505304 original size:9 final size:9
Alignment explanation
Indices: 9505249--9505304 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
9505239 TTGGTACCTT
*
9505249 ATTTAAAAT
1 ATTTAAAAA
* *
9505258 TTTTTAAAA
1 ATTTAAAAA
9505267 A-TTATAAAA
1 ATTTA-AAAA
*
9505276 ATTTAATAA
1 ATTTAAAAA
9505285 ATTTAAAAAA
1 ATTT-AAAAA
9505295 ATTTAAAAA
1 ATTTAAAAA
9505304 A
1 A
9505305 ATACTAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
8 2 0.05
9 24 0.65
10 11 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
ATTTAAAAA
Done.