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 60 of 133
Found at i:12368431 original size:12 final size:12
Alignment explanation
Indices: 12368394--12368434 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
12368384 TTAAATATTG
*
12368394 TGGTTTGCTGAA
1 TGGTTTGTTGAA
*
12368406 TGGTGTTTTTGAA
1 TGGT-TTGTTGAA
12368419 TGGTTTGTTGAA
1 TGGTTTGTTGAA
12368431 TGGT
1 TGGT
12368435 GTTTCTGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.15, C:0.02, G:0.34, T:0.49
Consensus pattern (12 bp):
TGGTTTGTTGAA
Found at i:12371805 original size:125 final size:126
Alignment explanation
Indices: 12371642--12371901 Score: 337
Period size: 125 Copynumber: 2.1 Consensus size: 126
12371632 TAACAAAATG
* * * **
12371642 TTATTGAAGGCAATTTTGACCAAAATCGCCTTCAATAATCCCTCATAAAAATTTATTGAATGGAT
1 TTATTGAAGACAATTTTGACCAAAATCACCTTCAATAATCCCTCATAAAAATTTATTAAATAAAT
** * *
12371707 TATTGAAGGCATTTTGGACCAAAAATGC-TTCAAAGAA-TCTGTTCC-ATATTTTTATATGGA
66 TATTGAAGGCATTTTGGACCAAAAACACTTTC-AAGAATTC-ATTCCAAAATTTTTATATGGA
* * *
12371767 TTATTGAAGACATTTTTTACCAAAATCACCTTTAATAATCCCTCATAAAAATTTATTAAATAAAT
1 TTATTGAAGACAATTTTGACCAAAATCACCTTCAATAATCCCTCATAAAAATTTATTAAATAAAT
** * *
12371832 TATTGAAGGTGTTTTTGACCAAAAACACTTTCAAGAATTCATTCCAAAATTTTTCTATGGA
66 TATTGAAGGCATTTTGGACCAAAAACACTTTCAAGAATTCATTCCAAAATTTTTATATGGA
12371893 TTATTGAAG
1 TTATTGAAG
12371902 GTATTTTTCT
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
125 89 0.77
126 27 0.23
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (126 bp):
TTATTGAAGACAATTTTGACCAAAATCACCTTCAATAATCCCTCATAAAAATTTATTAAATAAAT
TATTGAAGGCATTTTGGACCAAAAACACTTTCAAGAATTCATTCCAAAATTTTTATATGGA
Found at i:12371822 original size:61 final size:62
Alignment explanation
Indices: 12371642--12371855 Score: 168
Period size: 64 Copynumber: 3.4 Consensus size: 62
12371632 TAACAAAATG
* * *
12371642 TTATTGAAGGCAATTTTGACCAAAATCGCCTTCAATAATCCCTCATAAAAATTTATTGAATGGA
1 TTATTGAAGGCATTTTTGACCAAAATCACCTTAAATAATCCCTCATAAAAATTTA-T-AATGGA
* * * ** **
12371706 TTATTGAAGGCATTTTGGACCAAAA--ATGCTTCAAAGAATCTGTTCCAT--ATTTTTAT-ATGG
1 TTATTGAAGGCATTTTTGACCAAAATCA-CCTT-AAATAATC-CCT-CATAAAAATTTATAATGG
12371766 A
62 A
* * * **
12371767 TTATTGAAGACATTTTTTACCAAAATCACCTTTAATAATCCCTCATAAAAATTTATTAAATAAA
1 TTATTGAAGGCATTTTTGACCAAAATCACCTTAAATAATCCCTCATAAAAATTTA-T-AATGGA
**
12371831 TTATTGAAGGTGTTTTTGACCAAAA
1 TTATTGAAGGCATTTTTGACCAAAA
12371856 ACACTTTCAA
Statistics
Matches: 113, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
59 3 0.03
60 1 0.01
61 38 0.34
62 4 0.04
63 5 0.04
64 58 0.51
65 1 0.01
66 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (62 bp):
TTATTGAAGGCATTTTTGACCAAAATCACCTTAAATAATCCCTCATAAAAATTTATAATGGA
Found at i:12371985 original size:65 final size:63
Alignment explanation
Indices: 12371874--12371995 Score: 140
Period size: 65 Copynumber: 1.9 Consensus size: 63
12371864 AAGAATTCAT
* * * *
12371874 TCCAAAATTTTTCTATGGATTATTGAAGGTATTTTTCTGTCGAAAATGCCTTCAATATTCTCTC
1 TCCAAAATTTTTCTATGGATTATTAAAGGTATTTTTC-GCCAAAAATACCTTCAATATTCTCTC
*
12371938 TCCAAAATTTTT-TAAATGGATTATTAAAGGTATTTTT-GCCCAAAAAATACCTTGAATA
1 TCCAAAATTTTTCT--ATGGATTATTAAAGGTATTTTTCG-CC-AAAAATACCTTCAATA
12371996 ATCCCTTACA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
63 2 0.04
64 13 0.27
65 34 0.69
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (63 bp):
TCCAAAATTTTTCTATGGATTATTAAAGGTATTTTTCGCCAAAAATACCTTCAATATTCTCTC
Found at i:12373879 original size:3 final size:3
Alignment explanation
Indices: 12373871--12373896 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12373861 GCATAGTTAT
12373871 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
12373897 GCATGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12373926 original size:24 final size:24
Alignment explanation
Indices: 12373899--12373960 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
12373889 TTATTATTGC
12373899 ATGATTTTATATTTATTGCATGAT
1 ATGATTTTATATTTATTGCATGAT
* *
12373923 ATGATATTATATGATATTGCATGAT
1 ATGATTTTATAT-TTATTGCATGAT
*
12373948 -TAATTTTATATTT
1 ATGATTTTATATTT
12373961 GAATGATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 1 0.03
24 20 0.62
25 11 0.34
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.53
Consensus pattern (24 bp):
ATGATTTTATATTTATTGCATGAT
Found at i:12373929 original size:19 final size:19
Alignment explanation
Indices: 12373892--12373930 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12373882 ATTATTATTA
* *
12373892 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
12373911 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
12373930 T
1 T
12373931 ATATGATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:12374082 original size:20 final size:20
Alignment explanation
Indices: 12374059--12374105 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
12374049 TTTATTTCAA
12374059 GATTATTTATTTGCATGAAT
1 GATTATTTATTTGCATGAAT
12374079 GATTATTTATTTGCATGAAT
1 GATTATTTATTTGCATGAAT
*
12374099 GGTTATT
1 GATTATT
12374106 AATATATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (20 bp):
GATTATTTATTTGCATGAAT
Found at i:12374120 original size:20 final size:18
Alignment explanation
Indices: 12374097--12374150 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
12374087 ATTTGCATGA
12374097 ATGGTTATTAATATATTTGT
1 ATGG-TATT-ATATATTTGT
* *
12374117 ATGGTATTTTATATTTGC
1 ATGGTATTATATATTTGT
* *
12374135 ATGATATTGTATATTT
1 ATGGTATTATATATTT
12374151 ACATTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 22 0.73
19 4 0.13
20 4 0.13
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.56
Consensus pattern (18 bp):
ATGGTATTATATATTTGT
Found at i:12374131 original size:18 final size:18
Alignment explanation
Indices: 12374108--12374175 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
12374098 TGGTTATTAA
* * *
12374108 TATATTTGTATGGTATTT
1 TATATTTGCATGATATTG
12374126 TATATTTGCATGATATTG
1 TATATTTGCATGATATTG
*
12374144 TATATTTACAT--TATTG
1 TATATTTGCATGATATTG
12374160 T-TATTATTGCATGATA
1 TATA-T-TTGCATGATA
12374176 ATTAATTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
15 2 0.05
16 7 0.17
17 5 0.12
18 25 0.61
19 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.54
Consensus pattern (18 bp):
TATATTTGCATGATATTG
Found at i:12377127 original size:11 final size:11
Alignment explanation
Indices: 12377111--12377136 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12377101 TTTGTTTATG
12377111 TTCTTTTTTTT
1 TTCTTTTTTTT
12377122 TTCTTTTTTTT
1 TTCTTTTTTTT
12377133 TTCT
1 TTCT
12377137 AACTTGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:12377675 original size:20 final size:20
Alignment explanation
Indices: 12377652--12377691 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
12377642 CAAAGAATAT
12377652 AAAACAAAAATAATAGAAAAA
1 AAAACAAAAA-AATAGAAAAA
*
12377673 AAAACATAAAAATAGAAAA
1 AAAACAAAAAAATAGAAAA
12377692 TGAAAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAACAAAAAAATAGAAAAA
Found at i:12377698 original size:36 final size:35
Alignment explanation
Indices: 12377617--12377698 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 35
12377607 ATTTTTATTT
* *
12377617 GAAAATAAAA-AATTGAAAAAAAAAACAAAGAATA
1 GAAAATAAAATAATAGAAAAAAAAAACAAAAAATA
* *
12377651 TAAAACAAAAATAATAG-AAAAAAAAACATAAAAATA
1 GAAAA-TAAAATAATAGAAAAAAAAAACA-AAAAATA
12377687 GAAAATGAAAAT
1 GAAAAT-AAAAT
12377699 TTGATAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
34 4 0.11
35 15 0.39
36 19 0.50
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (35 bp):
GAAAATAAAATAATAGAAAAAAAAAACAAAAAATA
Found at i:12378558 original size:27 final size:26
Alignment explanation
Indices: 12378517--12378593 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
12378507 TCTTTTTAGA
12378517 AAAATA-TTTACAAATTAAAAAAATCC
1 AAAATATTTTA-AAATTAAAAAAATCC
* * *
12378543 TAAAATATTTTTAAATCT-AAGAAATTC
1 -AAAATATTTTAAAAT-TAAAAAAATCC
12378570 AAAA-ATTTTAAAAATTAAAAAAAT
1 AAAATATTTT-AAAATTAAAAAAAT
12378594 GATTTTTACG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
25 6 0.15
26 14 0.34
27 17 0.41
28 4 0.10
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.32
Consensus pattern (26 bp):
AAAATATTTTAAAATTAAAAAAATCC
Found at i:12378864 original size:30 final size:30
Alignment explanation
Indices: 12378820--12378877 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
12378810 ATGAGATTTC
12378820 ATTTCTTTAAAAATAATTTTCAAT-TTTTAGA
1 ATTTCTTTAAAAAT-ATTTT-AATATTTTAGA
*
12378851 ATTT-TTTAGAAATATTTTAATATTTTA
1 ATTTCTTTAAAAATATTTTAATATTTTA
12378878 AAATATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 10 0.40
30 8 0.32
31 4 0.16
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (30 bp):
ATTTCTTTAAAAATATTTTAATATTTTAGA
Found at i:12383235 original size:2 final size:2
Alignment explanation
Indices: 12383228--12383262 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12383218 TCTGCTACAA
12383228 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 A
12383263 GCTCAAAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12383861 original size:21 final size:21
Alignment explanation
Indices: 12383835--12383875 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12383825 AACATTTTAT
12383835 TATAATTCAAGGGTTATTCAC
1 TATAATTCAAGGGTTATTCAC
*
12383856 TATAATTCATGGGTTATTCA
1 TATAATTCAAGGGTTATTCA
12383876 TAACATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (21 bp):
TATAATTCAAGGGTTATTCAC
Found at i:12390529 original size:17 final size:17
Alignment explanation
Indices: 12390509--12390576 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 17
12390499 AATAAAATTT
12390509 TAAAATTAATAAATAAA
1 TAAAATTAATAAATAAA
*
12390526 TAAAATTTAATATA-AAA
1 TAAAA-TTAATAAATAAA
* **
12390543 TTAAA-TAATATGTAAA
1 TAAAATTAATAAATAAA
* *
12390559 AAAAATTATTAAATAAA
1 TAAAATTAATAAATAAA
12390576 T
1 T
12390577 TATTTATAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
15 6 0.15
16 6 0.15
17 20 0.51
18 7 0.18
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (17 bp):
TAAAATTAATAAATAAA
Found at i:12390737 original size:14 final size:13
Alignment explanation
Indices: 12390717--12390752 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
12390707 ATATAATAAA
12390717 AATTTTAATTTAT
1 AATTTTAATTTAT
*
12390730 ATATTTTAATTTTT
1 A-ATTTTAATTTAT
12390744 AATTTTAAT
1 AATTTTAAT
12390753 ATTTATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTTAATTTAT
Found at i:12390743 original size:21 final size:21
Alignment explanation
Indices: 12390700--12390757 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
12390690 TTTTATATAC
* *
12390700 TTAATTTATATAATAAAAATT
1 TTAATTTATATATTTAAAATT
* *
12390721 TTAATTTATATATTTTAATTT
1 TTAATTTATATATTTAAAATT
12390742 TTAATTT-TAATATTTA
1 TTAATTTAT-ATATTTA
12390758 TTTAATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTAATTTATATATTTAAAATT
Found at i:12391705 original size:24 final size:25
Alignment explanation
Indices: 12391674--12391722 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
12391664 AAGAATTCAA
12391674 AAAAAATTTT-AAAACATTA-AAAAT
1 AAAAAATTTTGAAAA-ATTATAAAAT
12391698 AAAAAATTTTGAAAAATTATAAAAT
1 AAAAAATTTTGAAAAATTATAAAAT
12391723 CTTTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAAAATTTTGAAAAATTATAAAAT
Found at i:12391731 original size:19 final size:18
Alignment explanation
Indices: 12391690--12391733 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
12391680 TTTTAAAACA
12391690 TTAAAAA-TAAAAAATTT
1 TTAAAAATTAAAAAATTT
* *
12391707 TGAAAAATTATAAAATCTT
1 TTAAAAATTAAAAAAT-TT
12391726 TTAAAAAT
1 TTAAAAAT
12391734 CTAGAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 6 0.27
18 7 0.32
19 9 0.41
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TTAAAAATTAAAAAATTT
Found at i:12391912 original size:7 final size:7
Alignment explanation
Indices: 12391886--12391934 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
12391876 AAGAAAATCC
12391886 TAAAAAT
1 TAAAAAT
* *
12391893 TTAAATT
1 TAAAAAT
*
12391900 TTAAAAT
1 TAAAAAT
12391907 TAAAAAT
1 TAAAAAT
12391914 TAAAAAT
1 TAAAAAT
*
12391921 TAAAACT
1 TAAAAAT
12391928 TAAAAAT
1 TAAAAAT
12391935 AGTAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (7 bp):
TAAAAAT
Found at i:12392363 original size:16 final size:16
Alignment explanation
Indices: 12392318--12392363 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
12392308 AATTAAAATT
12392318 AAAAAATCTGAA-AAAG
1 AAAAAATC-GAACAAAG
*
12392334 AAAGAAATTG-ACAAAG
1 AAA-AAATCGAACAAAG
12392350 AAAAAATCGAACAA
1 AAAAAATCGAACAA
12392364 GGCTAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (16 bp):
AAAAAATCGAACAAAG
Found at i:12392556 original size:18 final size:18
Alignment explanation
Indices: 12392533--12392568 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12392523 TAAAACTTTG
12392533 CATTTTTGTTA-TTTTTTT
1 CATTTTT-TTACTTTTTTT
12392551 CATTTTTTTACTTTTTTT
1 CATTTTTTTACTTTTTTT
12392569 GGAGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (18 bp):
CATTTTTTTACTTTTTTT
Found at i:12392780 original size:18 final size:17
Alignment explanation
Indices: 12392754--12392825 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 17
12392744 TTTTTTTAAA
*
12392754 AAAAATTTAGATTTTTG
1 AAAATTTTAGATTTTTG
*
12392771 AAAACTTTTAGCAATTTTTA
1 AAAA-TTTTAG--ATTTTTG
**
12392791 AAAATTTTTTATTTTTG
1 AAAATTTTAGATTTTTG
*
12392808 TAGAATTTTAAGATTTTT
1 -AAAATTTT-AGATTTTT
12392826 TTAATTTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 10 0.24
18 12 0.29
19 10 0.24
20 10 0.24
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (17 bp):
AAAATTTTAGATTTTTG
Found at i:12392834 original size:18 final size:19
Alignment explanation
Indices: 12392813--12392861 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
12392803 TTTTGTAGAA
12392813 TTTTAAGATTTTTT-T-AAT
1 TTTTAA-ATTTTTTCTGAAT
12392831 TTTT-AATTTTTTCTGAAT
1 TTTTAAATTTTTTCTGAAT
12392849 TTTTAAATTTTTT
1 TTTTAAATTTTTT
12392862 ATTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.25
17 2 0.07
18 11 0.39
19 8 0.29
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTAAATTTTTTCTGAAT
Found at i:12392842 original size:26 final size:26
Alignment explanation
Indices: 12392813--12392868 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
12392803 TTTTGTAGAA
* *
12392813 TTTTAAGATTTTTTTAATTTTTAATT
1 TTTTAAGAATTTTTAAATTTTTAATT
** *
12392839 TTTTCTGAATTTTTAAATTTTTTATT
1 TTTTAAGAATTTTTAAATTTTTAATT
12392865 TTTT
1 TTTT
12392869 TTTAATTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTAAGAATTTTTAAATTTTTAATT
Found at i:12392849 original size:35 final size:35
Alignment explanation
Indices: 12392793--12392861 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
12392783 AATTTTTAAA
*
12392793 AATTTTTTATTTTTGTAGAA-TTTTAAGATTTTTTT
1 AATTTTTAATTTTTGTAGAATTTTTAA-ATTTTTTT
*
12392828 AATTTTTAATTTTT-TCTGAATTTTTAAATTTTTT
1 AATTTTTAATTTTTGT-AGAATTTTTAAATTTTTT
12392862 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 23 0.77
36 6 0.20
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.67
Consensus pattern (35 bp):
AATTTTTAATTTTTGTAGAATTTTTAAATTTTTTT
Found at i:12392875 original size:26 final size:26
Alignment explanation
Indices: 12392822--12392877 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
12392812 ATTTTAAGAT
*
12392822 TTTTTTAATTTTTAATTTTTTCTGAA
1 TTTTTAAATTTTTAATTTTTTCTGAA
* * *
12392848 TTTTTAAATTTTTTATTTTTTTTTAA
1 TTTTTAAATTTTTAATTTTTTCTGAA
12392874 TTTT
1 TTTT
12392878 GTTCCAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTTAAATTTTTAATTTTTTCTGAA
Found at i:12394093 original size:24 final size:24
Alignment explanation
Indices: 12394062--12394113 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
12394052 ACATTTTAAT
12394062 TATA-TAAAT-ATAATATTT-TTTA
1 TATATTAAATAATAAT-TTTATTTA
12394084 TGATATTAAATAATAATTTTATTTA
1 T-ATATTAAATAATAATTTTATTTA
12394109 TATAT
1 TATAT
12394114 CACATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.04
23 3 0.12
24 12 0.46
25 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TATATTAAATAATAATTTTATTTA
Found at i:12394111 original size:22 final size:21
Alignment explanation
Indices: 12394054--12394111 Score: 55
Period size: 24 Copynumber: 2.6 Consensus size: 21
12394044 ATAAAATTAC
*
12394054 ATTTTAATTATA-TAAATATA
1 ATTTTATTTATATTAAATATA
*
12394074 ATATTTTTTATGATATTAAATAATA
1 AT-TTTATT-T-ATATTAAAT-ATA
12394099 ATTTTATTTATAT
1 ATTTTATTTATAT
12394112 ATCACATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.07
21 4 0.13
22 5 0.17
23 4 0.13
24 10 0.33
25 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTTATTTATATTAAATATA
Found at i:12394124 original size:25 final size:26
Alignment explanation
Indices: 12394069--12394124 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
12394059 AATTATATAA
*
12394069 ATATAATATTTTTTATGATATTAAAT
1 ATATAATATTTTTTATGATATCAAAT
*
12394095 A-ATAAT-TTTATTTAT-ATATCACAT
1 ATATAATATTT-TTTATGATATCAAAT
12394119 ATATAA
1 ATATAA
12394125 ATATAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 11 0.42
25 14 0.54
26 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATAATATTTTTTATGATATCAAAT
Found at i:12394894 original size:12 final size:12
Alignment explanation
Indices: 12394879--12394915 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
12394869 ATAATTTTAT
12394879 TAATAAAATATA
1 TAATAAAATATA
* *
12394891 TAATTAAATAAA
1 TAATAAAATATA
12394903 TAATAAAATATA
1 TAATAAAATATA
12394915 T
1 T
12394916 TTTTATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAATAAAATATA
Found at i:12395214 original size:17 final size:17
Alignment explanation
Indices: 12395183--12395229 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
12395173 TATTATAGTA
*
12395183 ATTTATTAA-ATAATAT
1 ATTTATTAATATAATAC
12395199 ATTTATTAATATAATAC
1 ATTTATTAATATAATAC
* *
12395216 ATATATAAATATAA
1 ATTTATTAATATAA
12395230 AATTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTATTAATATAATAC
Found at i:12396385 original size:27 final size:27
Alignment explanation
Indices: 12396363--12396424 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
12396353 AAAAAAGCAT
*
12396363 AAAAAATGAACAAAAAGGGAAAAATAGA
1 AAAAAAT-AACAAAAAGGGAAAAACAGA
* *
12396391 AAAAAATAATAAAAAGGGAAAGAA-GGA
1 AAAAAATAACAAAAAGGGAAA-AACAGA
12396418 AAAAAAT
1 AAAAAAT
12396425 GAGTTCATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.08
Consensus pattern (27 bp):
AAAAAATAACAAAAAGGGAAAAACAGA
Found at i:12396567 original size:26 final size:25
Alignment explanation
Indices: 12396531--12396580 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
12396521 ACAAAATGAA
* * *
12396531 AAACAATAAATAGGAAAAAAGAAAAT
1 AAACAAAAAAT-GCAAAAAAAAAAAT
12396557 AAACAAAAAATGCAAAAAAAAAAA
1 AAACAAAAAATGCAAAAAAAAAAA
12396581 GAACTAGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.78, C:0.06, G:0.08, T:0.08
Consensus pattern (25 bp):
AAACAAAAAATGCAAAAAAAAAAAT
Found at i:12396700 original size:17 final size:16
Alignment explanation
Indices: 12396659--12396729 Score: 56
Period size: 17 Copynumber: 4.3 Consensus size: 16
12396649 TTAAATTAAG
12396659 ATATAAA-ATAATAATT
1 ATATAAATATAATAA-T
* *
12396675 TTATTAATATAATACAT
1 ATATAAATATAATA-AT
*
12396692 ATATAAATATAAAAAAT
1 ATATAAATAT-AATAAT
*
12396709 AAATAAATAATAA-AAT
1 ATATAAAT-ATAATAAT
12396725 ATATA
1 ATATA
12396730 CTGTAATATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
16 12 0.27
17 26 0.59
18 6 0.14
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAAATATAATAAT
Found at i:12397313 original size:19 final size:19
Alignment explanation
Indices: 12397272--12397315 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12397262 AATTAAAAGC
* ** *
12397272 AAAAAATAAAAAACTTAAC
1 AAAAAAGAAAAAAAGTAAA
12397291 AAAAAAGAAAAAAAGTAAA
1 AAAAAAGAAAAAAAGTAAA
12397310 AAAAAA
1 AAAAAA
12397316 TGATATGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAAAAGAAAAAAAGTAAA
Found at i:12397825 original size:11 final size:12
Alignment explanation
Indices: 12397780--12397833 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
12397770 TACATATACA
*
12397780 TAAATATAAAATT
1 TAAATA-AAAAAT
*
12397793 TAATATAAAAAAG
1 TAA-ATAAAAAAT
12397806 TAAATAAAAAAT
1 TAAATAAAAAAT
12397818 TAAA-AAAAAAT
1 TAAATAAAAAAT
*
12397829 CAAAT
1 TAAAT
12397834 GACTTAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.29
12 12 0.34
13 10 0.29
14 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (12 bp):
TAAATAAAAAAT
Found at i:12398385 original size:24 final size:22
Alignment explanation
Indices: 12398366--12398415 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
12398356 AAATTACATA
12398366 TAAATATTTAAAATTTATTAAT
1 TAAATATTTAAAATTTATTAAT
* * *
12398388 TATATATTTAAAATAATATTTAT
1 TAAATATTTAAAAT-TTATTAAT
12398411 TAAAT
1 TAAAT
12398416 TATATAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAATATTTAAAATTTATTAAT
Found at i:12398425 original size:20 final size:20
Alignment explanation
Indices: 12398350--12398469 Score: 53
Period size: 20 Copynumber: 6.3 Consensus size: 20
12398340 AAATCTAATT
12398350 TTTATTAAATTACATATAAATA
1 TTTATTAAATT--ATATAAATA
*
12398372 TTTA--AAATT-TATTAATTA
1 TTTATTAAATTATA-TAAATA
* *
12398390 TATATTTAA--A-AT-AATA
1 TTTATTAAATTATATAAATA
12398406 TTTATTAAATTATATAAATA
1 TTTATTAAATTATATAAATA
* * *
12398426 -TAATTAAA-TAAATATATA
1 TTTATTAAATTATATAAATA
* *
12398444 TTTAAATAAATAATA-AAATA
1 TTT-ATTAAATTATATAAATA
*
12398464 TATATT
1 TTTATT
12398470 TTTATATATA
Statistics
Matches: 71, Mismatches: 16, Indels: 25
0.63 0.14 0.22
Matches are distributed among these distances:
16 10 0.14
17 3 0.04
18 18 0.25
19 12 0.17
20 22 0.31
21 2 0.03
22 4 0.06
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTATTAAATTATATAAATA
Found at i:12398443 original size:24 final size:21
Alignment explanation
Indices: 12398411--12398468 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 21
12398401 TAATATTTAT
12398411 TAAAT-TATATAAATATAATTAAA
1 TAAATATATATAAATA-AA-T-AA
12398434 TAAATATATATTTAAATAAATAA
1 TAAATATATA--TAAATAAATAA
12398457 TAAAATATATAT
1 T-AAATATATAT
12398469 TTTTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
22 1 0.03
23 8 0.26
24 14 0.45
25 2 0.06
26 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATATATAAATAAATAA
Found at i:12398448 original size:16 final size:14
Alignment explanation
Indices: 12398413--12398455 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
12398403 ATATTTATTA
*
12398413 AATTATATAAATAT
1 AATTAAATAAATAT
12398427 AATTAAATAAATAT
1 AATTAAATAAATAT
12398441 ATATTTAAATAAATA
1 A-A-TTAAATAAATA
12398456 ATAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 14 0.54
15 1 0.04
16 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTAAATAAATAT
Found at i:12404686 original size:155 final size:155
Alignment explanation
Indices: 12404397--12404708 Score: 527
Period size: 155 Copynumber: 2.0 Consensus size: 155
12404387 TGTTTTTTTC
* *
12404397 TTTTCAACTTTTTAATTACTCTTCCATTACATTTTTTTTTTCTCCTTCATTCTCGTACGGGCAGG
1 TTTTCAACTTTTTAATTACTCTCCCATTACATTTTGTTTTTCTCCTTCATTCTCGTACGGGCAGG
12404462 GCTGGAGACATTTGGATTTATTCCTGGTTGGTTTAGTCCCACTTAATTATAATTGGAGTCCTTTC
66 GCTGGAGACATTTGGATTTATTCCTGGTTGGTTTAGTCCCACTTAATTATAATTGGAGTCCTTTC
*
12404527 AGATTTATGCCGGTTTCAAGTCAGA
131 AGATTTATGCCAGTTTCAAGTCAGA
*
12404552 TTTTCAACTTTTTAATTACTCTCCCATTACATTTTGTTTTTCTGCTTCATTCTCGTACGGGCAGG
1 TTTTCAACTTTTTAATTACTCTCCCATTACATTTTGTTTTTCTCCTTCATTCTCGTACGGGCAGG
* * *
12404617 GCTGGAGATATTTGGATTTATTCCTTGTTGGTTTAGTCCCAGTTAATTATAATTGGAGTCCATTT
66 GCTGGAGACATTTGGATTTATTCCTGGTTGGTTTAGTCCCACTTAATTATAATTGGAGTCC-TTT
* *
12404682 -AGATTTATGCCATTTTCAATTCAGA
130 CAGATTTATGCCAGTTTCAAGTCAGA
12404707 TT
1 TT
12404709 GATGTTAGGT
Statistics
Matches: 147, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
155 144 0.98
156 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (155 bp):
TTTTCAACTTTTTAATTACTCTCCCATTACATTTTGTTTTTCTCCTTCATTCTCGTACGGGCAGG
GCTGGAGACATTTGGATTTATTCCTGGTTGGTTTAGTCCCACTTAATTATAATTGGAGTCCTTTC
AGATTTATGCCAGTTTCAAGTCAGA
Found at i:12406881 original size:15 final size:15
Alignment explanation
Indices: 12406861--12406896 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
12406851 ATATGATGTT
12406861 ATTTTTTAATTTTTA
1 ATTTTTTAATTTTTA
**
12406876 ATTTTTTCTTTTTTA
1 ATTTTTTAATTTTTA
12406891 ATTTTT
1 ATTTTT
12406897 ACCAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
ATTTTTTAATTTTTA
Found at i:12407016 original size:9 final size:9
Alignment explanation
Indices: 12407002--12407029 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12406992 TAACTGAAGT
12407002 ATGTATTAA
1 ATGTATTAA
12407011 ATGTATTAA
1 ATGTATTAA
12407020 ATGTATTAA
1 ATGTATTAA
12407029 A
1 A
12407030 CTTATCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (9 bp):
ATGTATTAA
Found at i:12408208 original size:69 final size:69
Alignment explanation
Indices: 12408060--12408196 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
12408050 ATGAATGAAT
*
12408060 AACAACAATAATTTGGATACAACAAATACAAAGATGTAGACTTTTAAGCTCTAATAACTCTTGAA
1 AACAACAATAATTTGGATACAACAAATACAAAGATGTAGACTTTTAAGCCCTAATAACTCTTGAA
12408125 TTTC
66 TTTC
12408129 AACAACAATAATTTGGATACAACAAATACAAAGATGTAGACTTTTAAGCCCTAATAACTCTTGAA
1 AACAACAATAATTTGGATACAACAAATACAAAGATGTAGACTTTTAAGCCCTAATAACTCTTGAA
12408194 TTT
66 TTT
12408197 TTATGAGAAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (69 bp):
AACAACAATAATTTGGATACAACAAATACAAAGATGTAGACTTTTAAGCCCTAATAACTCTTGAA
TTTC
Found at i:12410117 original size:22 final size:22
Alignment explanation
Indices: 12410081--12410123 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12410071 GTTAAAGATA
* *
12410081 TGTTATCATAAAACATATCAAT
1 TGTTATCACAAAACAAATCAAT
*
12410103 TGTTATCACACAACAAATCAA
1 TGTTATCACAAAACAAATCAA
12410124 GCAAAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (22 bp):
TGTTATCACAAAACAAATCAAT
Found at i:12411428 original size:2 final size:2
Alignment explanation
Indices: 12411421--12411453 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12411411 ATTACAAGGG
12411421 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 A
12411454 AACTTAAGCT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12424783 original size:39 final size:39
Alignment explanation
Indices: 12424714--12424792 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
12424704 CTTATACTAA
* * * *
12424714 GATTGTTCTAAGGTTCACCAAAATCTTCCAAATGCATTT
1 GATTATTCGAAGGTTCACCAAAACCCTCCAAATGCATTT
12424753 GATTATTCGAAGGTTCACCAAAACCCTCCAAATGCATTT
1 GATTATTCGAAGGTTCACCAAAACCCTCCAAATGCATTT
12424792 G
1 G
12424793 TTTTGTTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (39 bp):
GATTATTCGAAGGTTCACCAAAACCCTCCAAATGCATTT
Found at i:12428590 original size:63 final size:63
Alignment explanation
Indices: 12428416--12428592 Score: 191
Period size: 62 Copynumber: 2.8 Consensus size: 63
12428406 AACAAATATT
* * * ***
12428416 TTAATTGACTATTGTTTTATT-TATAAAACATCATCAATTAAGGCATTTGTTAATATGATTGCC
1 TTAATTGACTATT-TTATATTATTTAAAACATCATCAATTAAGGCATTTGTTAACATGAAAACC
* * * *
12428479 TTAATT-ATTAGTTTATA--ATTTATATAACATTATCAAATAAGGCATTTGTTAACATGAAAACC
1 TTAATTGACTATTTTATATTATTTA-A-AACATCATCAATTAAGGCATTTGTTAACATGAAAACC
* *
12428541 TTAATTGACAATTTTATATTATTTAAAACATCATCAATTAAGGCGTTTGTTA
1 TTAATTGACTATTTTATATTATTTAAAACATCATCAATTAAGGCATTTGTTA
12428593 CTTTGAATGC
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
60 3 0.03
61 5 0.05
62 41 0.45
63 37 0.40
64 1 0.01
65 5 0.05
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (63 bp):
TTAATTGACTATTTTATATTATTTAAAACATCATCAATTAAGGCATTTGTTAACATGAAAACC
Found at i:12428606 original size:63 final size:63
Alignment explanation
Indices: 12428416--12428611 Score: 204
Period size: 63 Copynumber: 3.1 Consensus size: 63
12428406 AACAAATATT
* * * *
12428416 TTAATTGACTATTGTTTTATT-TATAAAACATCATCAATTAAGGCATTTGTTAATATGATTGCC
1 TTAATTGACTATT-TTATATTATTTAAAACATCATCAATTAAGGCATTTGTTACTATGAATGCC
* * * * **
12428479 TTAATT-ATTAGTTTATA--ATTTATATAACATTATCAAATAAGGCATTTGTTAAC-ATGAAAAC
1 TTAATTGACTATTTTATATTATTTA-A-AACATCATCAATTAAGGCATTTGTT-ACTATGAATGC
12428540 C
63 C
* * *
12428541 TTAATTGACAATTTTATATTATTTAAAACATCATCAATTAAGGCGTTTGTTACTTTGAATGCC
1 TTAATTGACTATTTTATATTATTTAAAACATCATCAATTAAGGCATTTGTTACTATGAATGCC
12428604 TTAATTGA
1 TTAATTGA
12428612 TACATTTCAT
Statistics
Matches: 106, Mismatches: 19, Indels: 16
0.75 0.13 0.11
Matches are distributed among these distances:
60 3 0.03
61 5 0.05
62 41 0.39
63 51 0.48
64 1 0.01
65 5 0.05
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (63 bp):
TTAATTGACTATTTTATATTATTTAAAACATCATCAATTAAGGCATTTGTTACTATGAATGCC
Found at i:12432464 original size:22 final size:20
Alignment explanation
Indices: 12432428--12432470 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
12432418 AGTTTTTACT
*
12432428 TTCAGTCATTTTTTTTCATG
1 TTCAGTCATTTTTTTTAATG
12432448 TTCATGTCATTTTTTTTTAATG
1 TTCA-GTCA-TTTTTTTTAATG
12432470 T
1 T
12432471 ATTTTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 4 0.20
22 12 0.60
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.63
Consensus pattern (20 bp):
TTCAGTCATTTTTTTTAATG
Found at i:12434064 original size:68 final size:68
Alignment explanation
Indices: 12433953--12434104 Score: 209
Period size: 68 Copynumber: 2.2 Consensus size: 68
12433943 CATTTATATT
* ** * *
12433953 AATACAAATATGAAATTAGTCAATTCAAATTGTTATATTATTCACACAAGTATGATTTTT-ATTC
1 AATACAAATATGAAATGAGTCAAAACAAATTGTTATATCATTCACACAAGTACGATTTTTGA-TC
12434017 TAAA
65 TAAA
*
12434021 AATACAAATATGAAATGAGTCAAAACAAATAT-TTATATCATTCACATAAGTACGATTTTTGATC
1 AATACAAATATGAAATGAGTCAAAACAAAT-TGTTATATCATTCACACAAGTACGATTTTTGATC
*
12434085 TAAC
65 TAAA
12434089 AATACAAATATGAAAT
1 AATACAAATATGAAAT
12434105 TATTCCTATA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
68 73 0.97
69 2 0.03
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (68 bp):
AATACAAATATGAAATGAGTCAAAACAAATTGTTATATCATTCACACAAGTACGATTTTTGATCT
AAA
Found at i:12439761 original size:133 final size:132
Alignment explanation
Indices: 12439585--12439828 Score: 348
Period size: 133 Copynumber: 1.8 Consensus size: 132
12439575 CTAAACATCA
* * *
12439585 TATGTACATTATTTTATTTGTTTAGGAAAATATTTGCCTTTTCAATTTTGTACATAGTTTTGGAT
1 TATGTACATTATTTCATTTGTTTAGGAAAAAATTTGCCTTTTCAATTTTGTACATAGTTTTGAAT
* *
12439650 CTGAATTTTTGTT-TTCATCTATGTATTGTACACATATATTTGCATATGGATCCATGTAAACATC
66 ATGAATTTTTGTTGTT-A-CTATGTATTGCACACATATATTTGCATATGGATCCATGTAAACATC
12439714 TTTG
129 TTTG
* * *
12439718 TATGTACGTTATTTCATTTGTTTGGGAAAAAATTT-TCTATTTCAATTTTGTACATAGTTTTGAA
1 TATGTACATTATTTCATTTGTTTAGGAAAAAATTTGCCT-TTTCAATTTTGTACATAGTTTTGAA
* * *
12439782 TATGAATTTTTGTTGTTACTATGTATTGCATACATGTATTTGTATAT
65 TATGAATTTTTGTTGTTACTATGTATTGCACACATATATTTGCATAT
12439829 ACATTTTTAT
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
132 27 0.28
133 69 0.70
134 2 0.02
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (132 bp):
TATGTACATTATTTCATTTGTTTAGGAAAAAATTTGCCTTTTCAATTTTGTACATAGTTTTGAAT
ATGAATTTTTGTTGTTACTATGTATTGCACACATATATTTGCATATGGATCCATGTAAACATCTT
TG
Found at i:12441062 original size:9 final size:9
Alignment explanation
Indices: 12441048--12441108 Score: 79
Period size: 9 Copynumber: 6.8 Consensus size: 9
12441038 GGAAACATGA
12441048 AAAAAAAAG
1 AAAAAAAAG
12441057 AAAAAAGAA-
1 AAAAAA-AAG
*
12441066 AAGAAAAAG
1 AAAAAAAAG
*
12441075 AGAAAAAAG
1 AAAAAAAAG
12441084 AAAAAAAAG
1 AAAAAAAAG
12441093 AAAAAAAAG
1 AAAAAAAAG
*
12441102 ATAAAAA
1 AAAAAAA
12441109 TGCATATTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
8 2 0.04
9 41 0.91
10 2 0.04
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:12441108 original size:8 final size:7
Alignment explanation
Indices: 12441050--12441089 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
12441040 AAACATGAAA
12441050 AAAAAAG
1 AAAAAAG
12441057 AAAAAAG
1 AAAAAAG
12441064 --AAAAG
1 AAAAAAG
12441069 AAAAAGAG
1 AAAAA-AG
12441077 AAAAAAG
1 AAAAAAG
12441084 AAAAAA
1 AAAAAA
12441090 AAGAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
7 18 0.60
8 7 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:12442565 original size:23 final size:23
Alignment explanation
Indices: 12442539--12442591 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
12442529 TCACTGAAGT
*
12442539 TTTTTGAATAAAAATCTTTAAAA
1 TTTTTGAATAAAAATCCTTAAAA
* **
12442562 -TTTTGGATATGAATCCTTAAAA
1 TTTTTGAATAAAAATCCTTAAAA
12442584 TTTTTGAA
1 TTTTTGAA
12442592 CGAGAACCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (23 bp):
TTTTTGAATAAAAATCCTTAAAA
Found at i:12442608 original size:45 final size:45
Alignment explanation
Indices: 12442539--12442794 Score: 233
Period size: 45 Copynumber: 5.8 Consensus size: 45
12442529 TCACTGAAGT
* * * *
12442539 TTTTTGAATAAAAATCTTTAAAATTTTGGATATGAATCCTTAAAA
1 TTTTTGAATGAGAATCTTTGAAATTTTGGATGTGAATCCTTAAAA
* * *
12442584 TTTTTGAACGAGAACCTTTGAAATTTAGGATGTGAATTCC-TAAAA
1 TTTTTGAATGAGAATCTTTGAAATTTTGGATGTGAA-TCCTTAAAA
* * * * *
12442629 TTTTTTG-ATGTGAATATTTGAAATTTT-AATGTAAATCTTTAAAA
1 -TTTTTGAATGAGAATCTTTGAAATTTTGGATGTGAATCCTTAAAA
* *
12442673 TTTTTTAAAT-ATGAATCTTTGAAATTTTGGATGTGAAT-CTCTAAAT
1 -TTTTTGAATGA-GAATCTTTGAAATTTTGGATGTGAATCCT-TAAAA
* * * *
12442719 TTTTTGAATGAAAATCTTT-AACTTTTGGGTGTGAAT-CTT-TAA
1 TTTTTGAATGAGAATCTTTGAAATTTTGGATGTGAATCCTTAAAA
*
12442761 TTTTTGAATGAGAATCTTTG-AATTTTGGAGGTGA
1 TTTTTGAATGAGAATCTTTGAAATTTTGGATGTGA
12442795 GCATTGAAAA
Statistics
Matches: 170, Mismatches: 32, Indels: 21
0.76 0.14 0.09
Matches are distributed among these distances:
42 30 0.18
43 3 0.02
44 34 0.20
45 82 0.48
46 21 0.12
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (45 bp):
TTTTTGAATGAGAATCTTTGAAATTTTGGATGTGAATCCTTAAAA
Found at i:12442660 original size:21 final size:22
Alignment explanation
Indices: 12442636--12442786 Score: 78
Period size: 21 Copynumber: 6.9 Consensus size: 22
12442626 AAATTTTTTG
*
12442636 ATGTGAATATTTGAAATTTT-A
1 ATGTGAATCTTTGAAATTTTAA
* *
12442657 ATGTAAATCTTTAAAATTTTTTAA
1 ATGTGAATCTTTGAAA--TTTTAA
* **
12442681 ATATGAATCTTTGAAATTTTGG
1 ATGTGAATCTTTGAAATTTTAA
* *
12442703 ATGTGAATCTCT-AAATTTTTTGA
1 ATGTGAATCTTTGAAA--TTTTAA
** * **
12442726 ATGAAAATCTTT-AACTTTTGG
1 ATGTGAATCTTTGAAATTTTAA
* * *
12442747 GTGTGAATCTTT-AATTTTTGA
1 ATGTGAATCTTTGAAATTTTAA
*
12442768 ATGAGAATCTTTG-AATTTT
1 ATGTGAATCTTTGAAATTTT
12442787 GGAGGTGAGC
Statistics
Matches: 100, Mismatches: 24, Indels: 12
0.74 0.18 0.09
Matches are distributed among these distances:
21 52 0.52
22 14 0.14
23 20 0.20
24 14 0.14
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (22 bp):
ATGTGAATCTTTGAAATTTTAA
Found at i:12442756 original size:90 final size:90
Alignment explanation
Indices: 12442538--12442794 Score: 260
Period size: 89 Copynumber: 2.9 Consensus size: 90
12442528 ATCACTGAAG
* * * * ** *
12442538 TTTTTTGAATAAAAATCTTTAAAATTTTGGATATGAATCCTTAAAATTTTTGAACGAGAACCTTT
1 TTTTTTGAATGAAAATCTTT-AAATTTTGGATGTGAATCTTTAAAATTTTTTAAATAGAATCTTT
*
12442603 GAAATTTAGGATGTGAATTCCTAAAA
65 GAAATTTTGGATGTGAATTCCTAAAA
* * * * *
12442629 TTTTTTGATGTGAATAT-TTGAAATTTT-AATGTAAATCTTTAAAATTTTTTAAATATGAATCTT
1 TTTTTTGA-ATGAAAATCTTTAAATTTTGGATGTGAATCTTTAAAATTTTTTAAATA-GAATCTT
12442692 TGAAATTTTGGATGTGAA-TCTCT-AAA
64 TGAAATTTTGGATGTGAATTC-CTAAAA
* * *
12442718 TTTTTTGAATGAAAATCTTTAACTTTTGGGTGTGAATCTTT--AA-TTTTTGAATGAGAATCTTT
1 TTTTTTGAATGAAAATCTTTAAATTTTGGATGTGAATCTTTAAAATTTTTTAAAT-AGAATCTTT
*
12442780 G-AATTTTGGAGGTGA
65 GAAATTTTGGATGTGA
12442795 GCATTGAAAA
Statistics
Matches: 138, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
86 13 0.09
87 17 0.12
88 9 0.07
89 42 0.30
90 42 0.30
91 10 0.07
92 5 0.04
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (90 bp):
TTTTTTGAATGAAAATCTTTAAATTTTGGATGTGAATCTTTAAAATTTTTTAAATAGAATCTTTG
AAATTTTGGATGTGAATTCCTAAAA
Found at i:12442787 original size:21 final size:21
Alignment explanation
Indices: 12442685--12442786 Score: 87
Period size: 21 Copynumber: 4.7 Consensus size: 21
12442675 TTTTAAATAT
* * *
12442685 GAATCTTTGAAATTTTGGATGT
1 GAATCTTT-AATTTTTGAATGA
*
12442707 GAATCTCTAAATTTTTTGAATGA
1 GAATCT-TTAA-TTTTTGAATGA
* * ** *
12442730 AAATCTTTAACTTTTGGGTGT
1 GAATCTTTAATTTTTGAATGA
12442751 GAATCTTTAATTTTTGAATGA
1 GAATCTTTAATTTTTGAATGA
12442772 GAATCTTTGAATTTT
1 GAATCTTT-AATTTT
12442787 GGAGGTGAGC
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
21 31 0.50
22 17 0.27
23 14 0.23
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (21 bp):
GAATCTTTAATTTTTGAATGA
Found at i:12442968 original size:17 final size:17
Alignment explanation
Indices: 12442926--12443066 Score: 88
Period size: 17 Copynumber: 8.4 Consensus size: 17
12442916 TCTTTTGACG
*
12442926 AAAATTCTTGTGAAA-CT
1 AAAATTCTTG-CAAACCT
* *
12442943 AAAACTCTTACAAACCT
1 AAAATTCTTGCAAACCT
* *
12442960 TAAATTCTTGCATA-CT
1 AAAATTCTTGCAAACCT
** *
12442976 TGAATTCTTGCGAACCT
1 AAAATTCTTGCAAACCT
* **
12442993 AAAACTCTTGCAAAATT
1 AAAATTCTTGCAAACCT
* **
12443010 GAAATTCTTGTGAACCT
1 AAAATTCTTGCAAACCT
* * * *
12443027 GAAACTCTTACAAATCT
1 AAAATTCTTGCAAACCT
*
12443044 AAAATTCTTGCGAACCT
1 AAAATTCTTGCAAACCT
12443061 AAAATT
1 AAAATT
12443067 TTTACAAACT
Statistics
Matches: 90, Mismatches: 32, Indels: 4
0.71 0.25 0.03
Matches are distributed among these distances:
16 16 0.18
17 74 0.82
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (17 bp):
AAAATTCTTGCAAACCT
Found at i:12443025 original size:34 final size:34
Alignment explanation
Indices: 12442955--12443097 Score: 130
Period size: 34 Copynumber: 4.2 Consensus size: 34
12442945 AACTCTTACA
* * * *
12442955 AACCTTAAATTCTTGCATACTTG-AATTCTTGCG
1 AACCTAAAACTCTTGCAAAATTGAAATTCTTGCG
*
12442988 AACCTAAAACTCTTGCAAAATTGAAATTCTTGTG
1 AACCTAAAACTCTTGCAAAATTGAAATTCTTGCG
* * *
12443022 AACCTGAAACTCTTAC-AAATCTAAAATTCTTGCG
1 AACCTAAAACTCTTGCAAAAT-TGAAATTCTTGCG
* * * *
12443056 AACCTAAAATTTTTACAAACTTGAAACTT-TTGCG
1 AACCTAAAACTCTTGCAAAATTGAAA-TTCTTGCG
*
12443090 AATCTAAA
1 AACCTAAA
12443098 GTTTTTATGA
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
33 23 0.25
34 63 0.69
35 5 0.05
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (34 bp):
AACCTAAAACTCTTGCAAAATTGAAATTCTTGCG
Found at i:12443223 original size:51 final size:51
Alignment explanation
Indices: 12443110--12443267 Score: 140
Period size: 51 Copynumber: 3.1 Consensus size: 51
12443100 TTTTATGAAC
* * * * * * * *
12443110 CTAAAGTTCTTGCAAATATGAAGTTTTAGTTAATTTGAAACTTTTACGAAT
1 CTAAAATTCTTGCAAATCTAAAGTTTTTGTGAATATGAAAATCTTACGAAT
*
12443161 CTAAAACTCTTGCAAATCTAAAGTTTTTGTGAATATGAAAATCTTACGAAT
1 CTAAAATTCTTGCAAATCTAAAGTTTTTGTGAATATGAAAATCTTACGAAT
*** ** * * *
12443212 CTTTCATTCTTGCAAATCTGAAAG-TCATGTGAATATG-AATTCTTATGGAT
1 CTAAAATTCTTGCAAATCT-AAAGTTTTTGTGAATATGAAAATCTTACGAAT
12443262 CTAAAA
1 CTAAAA
12443268 ATTTTTCGAA
Statistics
Matches: 85, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
50 13 0.15
51 68 0.80
52 4 0.05
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (51 bp):
CTAAAATTCTTGCAAATCTAAAGTTTTTGTGAATATGAAAATCTTACGAAT
Found at i:12443408 original size:18 final size:17
Alignment explanation
Indices: 12443357--12443411 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
12443347 ATTTGGAACC
*
12443357 TCTTGGGAAACTTGGAA
1 TCTTGCGAAACTTGGAA
12443374 TCTTGC-AAA-TCTGGAA
1 TCTTGCGAAACT-TGGAA
*
12443390 TTTCTGCGAAACTTGGAA
1 TCT-TGCGAAACTTGGAA
12443408 TCTT
1 TCTT
12443412 TGTGAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 1 0.03
16 10 0.32
17 9 0.29
18 10 0.32
19 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (17 bp):
TCTTGCGAAACTTGGAA
Found at i:12443418 original size:18 final size:18
Alignment explanation
Indices: 12443339--12443420 Score: 57
Period size: 18 Copynumber: 4.7 Consensus size: 18
12443329 AATCTGAAAC
* *
12443339 CTTTGTG-AATTTGGAAC
1 CTTTGTGAAACTTGGAAT
*
12443356 CTCTTGGGAAACTTGGAAT
1 CT-TTGTGAAACTTGGAAT
*
12443375 C-TTG-CAAA-TCTGGAAT
1 CTTTGTGAAACT-TGGAAT
*
12443391 -TTCTGCGAAACTTGGAAT
1 CTT-TGTGAAACTTGGAAT
12443409 CTTTGTGAAACT
1 CTTTGTGAAACT
12443421 AGAACCCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
15 1 0.02
16 10 0.20
17 7 0.14
18 21 0.41
19 12 0.24
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (18 bp):
CTTTGTGAAACTTGGAAT
Found at i:12445935 original size:151 final size:151
Alignment explanation
Indices: 12445747--12446089 Score: 440
Period size: 151 Copynumber: 2.3 Consensus size: 151
12445737 ATGGGAAAAC
* *
12445747 CTAGTTCACGTGAAGCATGCACTACCTATAGCCTATTTTTAGCTTTCATTCTTTATGTTTTCCTA
1 CTAGTTCACGTGAAGCATGCACTACCTATAGCCTATTTTCAGCTTTCATTATTTATGTTTTCCTA
* * * ** *
12445812 CAACCAGAATTTATTGTTCATGCGTTGGTTGAGTAAGCAAAGTGATACAAAGAAAGTCAAG-AGA
66 CAACCAGAAATTATTGTTCATACATTGGTTGAACAAGCAAAGTGATACAAAGAAAGCCAAGCA-A
12445876 A-ACAAAAATAAAAAGA-AGACAA
130 AGA-AAAAATAAAAAGAGA-ACAA
* * * *
12445898 CTAGTTCACGTGAGGCATGCATTACCTATGGCTTATTTTCAGCTTTCATTATTTATGTTTTCCTA
1 CTAGTTCACGTGAAGCATGCACTACCTATAGCCTATTTTCAGCTTTCATTATTTATGTTTTCCTA
*
12445963 CAACCAGAAATTATTGTTCATACATTGGTTGAACAAGCAAAGTGATACGAAGAAAGCCAAGCAAA
66 CAACCAGAAATTATTGTTCATACATTGGTTGAACAAGCAAAGTGATACAAAGAAAGCCAAGCAAA
* *
12446028 GAAAAAATAAAGAGGGAACAA
131 GAAAAAATAAAAAGAGAACAA
* * * * ** *
12446049 CTAGTTCACATGAAACTTGCTCTATATATGGCCTATTTTCA
1 CTAGTTCACGTGAAGCATGCACTACCTATAGCCTATTTTCA
12446090 ACTTCCCATT
Statistics
Matches: 165, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
151 162 0.98
152 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (151 bp):
CTAGTTCACGTGAAGCATGCACTACCTATAGCCTATTTTCAGCTTTCATTATTTATGTTTTCCTA
CAACCAGAAATTATTGTTCATACATTGGTTGAACAAGCAAAGTGATACAAAGAAAGCCAAGCAAA
GAAAAAATAAAAAGAGAACAA
Found at i:12447971 original size:33 final size:33
Alignment explanation
Indices: 12447934--12448006 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
12447924 ATCTTAAAAC
*
12447934 CTTTGAATGCTCCTCCAATCAAATGCCATGAAA
1 CTTTGAATGCTCCTCCAATCAAAGGCCATGAAA
*
12447967 CTTTGAATGCTCCTCCAATCAGAGGCCATGAAA
1 CTTTGAATGCTCCTCCAATCAAAGGCCATGAAA
12448000 CTTTGAA
1 CTTTGAA
12448007 AATTAAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (33 bp):
CTTTGAATGCTCCTCCAATCAAAGGCCATGAAA
Found at i:12448071 original size:101 final size:105
Alignment explanation
Indices: 12447866--12448115 Score: 330
Period size: 101 Copynumber: 2.4 Consensus size: 105
12447856 CTCAAAAGCT
12447866 TTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTAAAAATTAAAAATATTTTGCAAATCTTAA
1 TTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTAAAAATTAAAAATATTTTGCAAATCTTAA
* *
12447931 AACCTTTGAATGCTCCTCCAATCAAATGCCAT-GAA-A-C
66 AACCTTTGAATGCTCCTCCAATCAAAGGCCATAAAATATC
* * * *
12447968 TTTGAATGCTCCTCCAATCAGAGGCCATGAAACTTTGAAAATT-AAAATGTTTTGTAAAT-TTCA
1 TTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTAAAAATTAAAAATATTTTGCAAATCTT-A
* * *
12448031 AAACTTTTGAATGCTCCTCCAATTAGAGGCCATAAAACTTTATC
65 AAACCTTTGAATGCTCCTCCAATCAAAGGCCATAAAA---TATC
* *
12448075 TTTGAATGCTCTTCCAATTAGAGGCCATGAAACTTTTAAAA
1 TTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTAAAAA
12448116 GTTGAATTTT
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
100 2 0.02
101 44 0.34
102 43 0.33
106 1 0.01
107 39 0.30
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (105 bp):
TTTGAATGCTCCTCCAATTAGAGGCCATGAAACTTTAAAAATTAAAAATATTTTGCAAATCTTAA
AACCTTTGAATGCTCCTCCAATCAAAGGCCATAAAATATC
Found at i:12448091 original size:39 final size:39
Alignment explanation
Indices: 12448036--12448110 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
12448026 TTTCAAAACT
12448036 TTTGAATGCTCCTCCAATTAGAGGCCATAAAACTTTATC
1 TTTGAATGCTCCTCCAATTAGAGGCCATAAAACTTTATC
* *
12448075 TTTGAATGCTCTTCCAATTAGAGGCCATGAAACTTT
1 TTTGAATGCTCCTCCAATTAGAGGCCATAAAACTTT
12448111 TAAAAGTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (39 bp):
TTTGAATGCTCCTCCAATTAGAGGCCATAAAACTTTATC
Found at i:12448590 original size:18 final size:18
Alignment explanation
Indices: 12448567--12448613 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
12448557 AAATGATGCT
12448567 AATGGAAATGTCATTGAG
1 AATGGAAATGTCATTGAG
12448585 AATGGAAATGTCATTGAG
1 AATGGAAATGTCATTGAG
*
12448603 AATGCAAATGT
1 AATGGAAATGT
12448614 GAATGCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (18 bp):
AATGGAAATGTCATTGAG
Found at i:12448822 original size:41 final size:40
Alignment explanation
Indices: 12448747--12448836 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
12448737 ATTTTTTCTT
12448747 ATGATGCAAATGCAAATGATGCAAATATGAATGTCATTTTC
1 ATGATGCAAATGCAAATGATGCAAATATGAATGTC-TTTTC
* * *
12448788 ATGATGCGAATGCAAGTGATGCAAATAT-AGATGTCTTTTT
1 ATGATGCAAATGCAAATGATGCAAATATGA-ATGTCTTTTC
12448828 ATTGATGCA
1 A-TGATGCA
12448837 GAGCTTAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 6 0.14
41 37 0.86
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (40 bp):
ATGATGCAAATGCAAATGATGCAAATATGAATGTCTTTTC
Found at i:12448882 original size:26 final size:26
Alignment explanation
Indices: 12448843--12448894 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
12448833 TGCAGAGCTT
*
12448843 AATGCAAATGTCTTTTTCA-TGATGCA
1 AATGCAAATATCTTTTT-ATTGATGCA
*
12448869 AATGCAAGTATCTTTTTATTGATGCA
1 AATGCAAATATCTTTTTATTGATGCA
12448895 GAGCTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (26 bp):
AATGCAAATATCTTTTTATTGATGCA
Found at i:12448894 original size:58 final size:58
Alignment explanation
Indices: 12448821--12448935 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
12448811 AATATAGATG
* *
12448821 TCTTTTTATTGATGCAGAGCTTAATGCAAATGTCTTTTTCATGATGCAAATGCAAGTA
1 TCTTTTTATTGATGCAGAGCTGAATACAAATGTCTTTTTCATGATGCAAATGCAAGTA
*
12448879 TCTTTTTATTGATGCAGAGCTGAATACAAATGTCTTTTTCATGATGTAAATGCAAGT
1 TCTTTTTATTGATGCAGAGCTGAATACAAATGTCTTTTTCATGATGCAAATGCAAGT
12448936 GATGCAAATG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (58 bp):
TCTTTTTATTGATGCAGAGCTGAATACAAATGTCTTTTTCATGATGCAAATGCAAGTA
Found at i:12448924 original size:32 final size:31
Alignment explanation
Indices: 12448818--12448917 Score: 104
Period size: 32 Copynumber: 3.3 Consensus size: 31
12448808 GCAAATATAG
12448818 ATGTCTTTTTATTGATGCAGAGCTTAATGCAA
1 ATGTCTTTTTATTGATGCAGAGC-TAATGCAA
12448850 ATGTCTTTTTCA-TGATGC--A---AATGCAA
1 ATGTCTTTTT-ATTGATGCAGAGCTAATGCAA
* * *
12448876 GTATCTTTTTATTGATGCAGAGCTGAATACAA
1 ATGTCTTTTTATTGATGCAGAGCT-AATGCAA
12448908 ATGTCTTTTT
1 ATGTCTTTTT
12448918 CATGATGTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
25 1 0.02
26 21 0.38
28 1 0.02
30 1 0.02
32 30 0.55
33 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (31 bp):
ATGTCTTTTTATTGATGCAGAGCTAATGCAA
Found at i:12448968 original size:42 final size:41
Alignment explanation
Indices: 12448906--12448988 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 41
12448896 AGCTGAATAC
* *
12448906 AAATGTCTTTTTCATGATGTAAATGCAAGTGATGCAAATGT
1 AAATGTCTTTTTCATGATGTAAATGCAAGTAAGGCAAATGT
** *
12448947 AAATGTCTTTTTTGGTGATGTAGATGCAAGTAAGGCAAATGT
1 AAATGTC-TTTTTCATGATGTAAATGCAAGTAAGGCAAATGT
12448989 CTTCTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 7 0.19
42 29 0.81
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (41 bp):
AAATGTCTTTTTCATGATGTAAATGCAAGTAAGGCAAATGT
Found at i:12449135 original size:67 final size:65
Alignment explanation
Indices: 12449061--12449256 Score: 205
Period size: 67 Copynumber: 3.0 Consensus size: 65
12449051 ATCTGGGTTT
* * *
12449061 AAATTTTTCTTTAAAGGCCAGCTAAACTGGGCTTATATTCATTGGAGGCCAGCTAATCTAGGCTA
1 AAATTTTTCTTTGAAGGCTAACTAAACTGGGCTTATATTCATTGGAGGCCAGCTAATCTAGGCTA
* * * * *
12449126 AAATCTTTT-TTTGAAGGCTAACTAAATTGGGCTTAATAATTCATTGGGGGCTAGCTAATTTTGG
1 AAAT-TTTTCTTTGAAGGCTAACTAAACTGGGCTT-AT-ATTCATTGGAGGCCAGCTAATCTAGG
*
12449190 CTT
63 CTA
* * * * ** * *
12449193 AAATATTTCTTTGAAGGCTACCCAAACTAGGCTTGCATTCATTGGAGGTCAGCTAATCTGGGCT
1 AAATTTTTCTTTGAAGGCTAACTAAACTGGGCTTATATTCATTGGAGGCCAGCTAATCTAGGCT
12449257 TAATATTTCA
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
65 48 0.45
66 9 0.08
67 49 0.46
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (65 bp):
AAATTTTTCTTTGAAGGCTAACTAAACTGGGCTTATATTCATTGGAGGCCAGCTAATCTAGGCTA
Found at i:12449143 original size:65 final size:64
Alignment explanation
Indices: 12449061--12449291 Score: 194
Period size: 65 Copynumber: 3.5 Consensus size: 64
12449051 ATCTGGGTTT
*
12449061 AAATTTTTCTTTAAAGGCCAGCTAAACTGGGCTTATATTCATTGGAGGCCAGCTAATCTAGGCTA
1 AAATTTTT-TTTGAAGGCCAGCTAAACTGGGCTTATATTCATTGGAGGCCAGCTAATCTAGGCTA
* * * * * * *
12449126 AAATCTTTTTTTGAAGGCTAACTAAATTGGGCTTAATAATTCATTGGGGGCTAGCTAATTTTGGC
1 AAAT-TTTTTTTGAAGGCCAGCTAAACTGGGCTT-AT-ATTCATTGGAGGCCAGCTAATCTAGGC
*
12449191 TT
63 TA
* * * * * ** * *
12449193 AAATATTTCTTTGAAGGCTACCCAAACTAGGCTTGCATTCATTGGAGGTCAGCTAATCTGGGCTT
1 AAAT-TTTTTTTGAAGGCCAGCTAAACTGGGCTTATATTCATTGGAGGCCAGCTAATCTAGGC-T
12449258 A
64 A
* ** * *
12449259 ATATTTCATTTG-GGGCCAGCTAATCTGGGCTTA
1 AAATTTTTTTTGAAGGCCAGCTAAACTGGGCTTA
12449292 AATATTTCTT
Statistics
Matches: 129, Mismatches: 33, Indels: 9
0.75 0.19 0.05
Matches are distributed among these distances:
64 14 0.11
65 53 0.41
66 10 0.08
67 52 0.40
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (64 bp):
AAATTTTTTTTGAAGGCCAGCTAAACTGGGCTTATATTCATTGGAGGCCAGCTAATCTAGGCTA
Found at i:12449314 original size:34 final size:33
Alignment explanation
Indices: 12449049--12449322 Score: 157
Period size: 34 Copynumber: 8.3 Consensus size: 33
12449039 GAGGGCTAAT
* * * *
12449049 TAATCTGGGTTTAAATTTTTCTTTAAAGGCCAGC
1 TAATCTGGGCTT-AATATTTCTTTGAAGGCTAGC
* * * *
12449083 TAAACTGGGCTT-ATA-TTCATTGGAGGCCAGC
1 TAATCTGGGCTTAATATTTCTTTGAAGGCTAGC
* * * * *
12449114 TAATCTAGGCTAAAATCTTTTTTTGAAGGCTAAC
1 TAATCTGGGCT-TAATATTTCTTTGAAGGCTAGC
* * **
12449148 TAAAT-TGGGCTTAATAATTCATTGGGGGCTAGC
1 T-AATCTGGGCTTAATATTTCTTTGAAGGCTAGC
* * *
12449181 TAATTTTGGCTTAAATATTTCTTTGAAGGCTACC
1 TAATCTGGGCTT-AATATTTCTTTGAAGGCTAGC
* * * ** * *
12449215 CAAACTAGGCTT-GCA-TTCATTGGAGG-TCAGC
1 TAATCTGGGCTTAATATTTCTTTGAAGGCT-AGC
* *
12449246 TAATCTGGGCTTAATATTTCATTTG-GGGCCAGC
1 TAATCTGGGCTTAATATTTC-TTTGAAGGCTAGC
*
12449279 TAATCTGGGCTTAAATATTTCTTTGAAGGATAGC
1 TAATCTGGGCTT-AATATTTCTTTGAAGGCTAGC
*
12449313 TAAACTGGGC
1 TAATCTGGGC
12449323 CTACATGCCC
Statistics
Matches: 176, Mismatches: 51, Indels: 26
0.70 0.20 0.10
Matches are distributed among these distances:
30 1 0.01
31 42 0.24
32 7 0.04
33 47 0.27
34 76 0.43
35 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (33 bp):
TAATCTGGGCTTAATATTTCTTTGAAGGCTAGC
Found at i:12450162 original size:6 final size:6
Alignment explanation
Indices: 12450151--12450223 Score: 58
Period size: 6 Copynumber: 11.5 Consensus size: 6
12450141 CACCCATTCA
* * *
12450151 TTTCTT TTTCTT TTTCTT TTTCTT TCTT-TT ATTCTT CCTTGTT TTTCATT
1 TTTCTT TTTCTT TTTCTT TTTCTT T-TTCTT TTTCTT -TTTCTT TTTC-TT
*
12450201 TTTTTT CTTTCCTT TTTCTT TTT
1 TTTCTT -TTT-CTT TTTCTT TTT
12450224 TGCTTTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
5 2 0.04
6 33 0.61
7 17 0.31
8 2 0.04
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:12450224 original size:19 final size:17
Alignment explanation
Indices: 12450199--12450247 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
12450189 TTGTTTTTCA
*
12450199 TTTTTTTTCTTTCCTTTT
1 TTTTTTTTCTTT-ATTTT
*
12450217 TCTTTTTTGCTTTATTTT
1 T-TTTTTTTCTTTATTTT
12450235 TTTTTTTTACTTT
1 TTTTTTTT-CTTT
12450248 TGGATCTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.23
18 10 0.38
19 10 0.38
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTTTTTCTTTATTTT
Found at i:12450248 original size:14 final size:14
Alignment explanation
Indices: 12450192--12450239 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
12450182 TTCTTCCTTG
*
12450192 TTTTTCATTTTTTT
1 TTTTTCCTTTTTTT
* *
12450206 TCTTTCCTTTTTCT
1 TTTTTCCTTTTTTT
*
12450220 TTTTTGCTTTATTTT
1 TTTTTCCTTT-TTTT
12450235 TTTTT
1 TTTTT
12450240 TTTACTTTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTCCTTTTTTT
Found at i:12453102 original size:8 final size:8
Alignment explanation
Indices: 12453089--12453140 Score: 86
Period size: 8 Copynumber: 6.5 Consensus size: 8
12453079 TAGATACATA
12453089 AATGGATG
1 AATGGATG
12453097 AATGGATG
1 AATGGATG
*
12453105 AATGAATG
1 AATGGATG
12453113 AATGGATG
1 AATGGATG
*
12453121 AATGAATG
1 AATGGATG
12453129 AATGGATG
1 AATGGATG
12453137 AATG
1 AATG
12453141 AACAGATGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (8 bp):
AATGGATG
Found at i:12453111 original size:4 final size:4
Alignment explanation
Indices: 12453089--12453142 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
12453079 TAGATACATA
* * * *
12453089 AATG GATG AATG GATG AATG AATG AATG GATG AATG AATG AATG GATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
12453137 AATG AA
1 AATG AA
12453143 CAGATGACCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:12453113 original size:16 final size:16
Alignment explanation
Indices: 12453089--12453142 Score: 99
Period size: 16 Copynumber: 3.4 Consensus size: 16
12453079 TAGATACATA
*
12453089 AATGGATGAATGGATG
1 AATGAATGAATGGATG
12453105 AATGAATGAATGGATG
1 AATGAATGAATGGATG
12453121 AATGAATGAATGGATG
1 AATGAATGAATGGATG
12453137 AATGAA
1 AATGAA
12453143 CAGATGACCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (16 bp):
AATGAATGAATGGATG
Found at i:12457857 original size:5 final size:5
Alignment explanation
Indices: 12457849--12457879 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
12457839 TTTATATGAA
12457849 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG A
12457880 GATATTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:12458395 original size:17 final size:17
Alignment explanation
Indices: 12458373--12458603 Score: 131
Period size: 17 Copynumber: 13.6 Consensus size: 17
12458363 TTGCAACTTG
*
12458373 CAAACCATGTTTTGTTA
1 CAAACCATGTTCTGTTA
* *
12458390 CAAACCATGTGCTGTTTT
1 CAAACCATGTTCTG-TTA
*
12458408 CGAAACCATGTTCTGTTG
1 C-AAACCATGTTCTGTTA
* *
12458426 CAAACCATGTGCTGTTTT
1 CAAACCATGTTCTG-TTA
12458444 CGAAACCATGTTCTGTT-
1 C-AAACCATGTTCTGTTA
* * *
12458461 ---GCCATGTGCTGTTTTT
1 CAAACCATGTTCTG--TTA
* *
12458477 GAAACCATGTTCTATT-
1 CAAACCATGTTCTGTTA
* * *
12458493 ---GCCATGTGCTGTTTT
1 CAAACCATGTTCTG-TTA
*
12458508 CGAAACCATGTTCTGTTG
1 C-AAACCATGTTCTGTTA
*
12458526 CAAACCATGTGCTGTT-
1 CAAACCATGTTCTGTTA
*
12458542 CGAAACCATGTTCTGTTG
1 C-AAACCATGTTCTGTTA
*
12458560 CAAACCATGTGCTGTT-
1 CAAACCATGTTCTGTTA
*
12458576 CGAAACCATGTTCTGTTG
1 C-AAACCATGTTCTGTTA
12458594 CAAACCATGT
1 CAAACCATGT
12458604 GCTTGCAAAC
Statistics
Matches: 171, Mismatches: 23, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
13 17 0.10
14 2 0.01
15 2 0.01
16 2 0.01
17 91 0.53
18 16 0.09
19 41 0.24
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (17 bp):
CAAACCATGTTCTGTTA
Found at i:12458523 original size:100 final size:97
Alignment explanation
Indices: 12458394--12458594 Score: 314
Period size: 100 Copynumber: 2.0 Consensus size: 97
12458384 TTGTTACAAA
12458394 CCATGTGCTGTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCTGTTTTCGAAACCATGTTCTG
1 CCATGTGCTGTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCTG--TTCGAAACCATGTTCTG
*
12458459 TTG-CCATGTGCTGTTTTTGAAACCATGTTCTATTG
64 TTGACCATGTGCTG--TTCGAAACCATGTTCTATTG
12458494 CCATGTGCTGTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCTGTTCGAAACCATGTTCTGTT
1 CCATGTGCTGTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCTGTTCGAAACCATGTTCTGTT
*
12458559 GCAAACCATGTGCTGTTCGAAACCATGTTCTGTTG
66 G---ACCATGTGCTGTTCGAAACCATGTTCTATTG
12458594 C
1 C
12458595 AAACCATGTG
Statistics
Matches: 95, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
98 20 0.21
100 65 0.68
102 10 0.11
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (97 bp):
CCATGTGCTGTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCTGTTCGAAACCATGTTCTGTT
GACCATGTGCTGTTCGAAACCATGTTCTATTG
Found at i:12458549 original size:34 final size:35
Alignment explanation
Indices: 12458374--12458606 Score: 324
Period size: 34 Copynumber: 6.8 Consensus size: 35
12458364 TGCAACTTGC
* *
12458374 AAACCATGTTTTGTTACAAACCATGTGCTGTTTTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTTCG
12458410 AAACCATGTTCTGTTGCAAACCATGTGCTGTTTTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTTCG
*
12458446 AAACCATGTTCTGTTG----CCATGTGCTGTTTTTG
1 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTTCG
*
12458478 AAACCATGTTCTATTG----CCATGTGCTGTTTTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTTCG
12458510 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTGTTTCG
12458544 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTGTTTCG
12458578 AAACCATGTTCTGTTGCAAACCATGTGCT
1 AAACCATGTTCTGTTGCAAACCATGTGCT
12458607 TGCAAACCAT
Statistics
Matches: 187, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
32 60 0.32
34 67 0.36
36 60 0.32
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (35 bp):
AAACCATGTTCTGTTGCAAACCATGTGCTGTTTCG
Found at i:12458617 original size:100 final size:100
Alignment explanation
Indices: 12458374--12458607 Score: 300
Period size: 100 Copynumber: 2.3 Consensus size: 100
12458364 TGCAACTTGC
* *
12458374 AAACCATGTTTTGTTACAAACCATGTGCTGTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCT
1 AAACCATGTTCTGTTGCAAACCATGTGC--TTTTCGAAACCATGTTCTGTTGCAAACCATGTGCT
*
12458439 GTTTTCGAAACCATGTTCTGTTGCCATGTGCTGTTTTTG
64 G-TTTCGAAACCATGTTCTGTTGCCATGTGCTG-TTTCG
*
12458478 AAACCATGTTCTATTG----CCATGTGCTGTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCT
1 AAACCATGTTCTGTTGCAAACCATGTGC--TTTTCGAAACCATGTTCTGTTGCAAACCATGTGCT
12458539 G-TTCGAAACCATGTTCTGTTGCAAACCATGTGCTG-TTCG
64 GTTTCGAAACCATGTTCTGTTG----CCATGTGCTGTTTCG
12458578 AAACCATGTTCTGTTGCAAACCATGTGCTT
1 AAACCATGTTCTGTTGCAAACCATGTGCTT
12458608 GCAAACCATG
Statistics
Matches: 117, Mismatches: 5, Indels: 18
0.84 0.04 0.13
Matches are distributed among these distances:
98 20 0.17
100 64 0.55
102 12 0.10
104 21 0.18
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (100 bp):
AAACCATGTTCTGTTGCAAACCATGTGCTTTTCGAAACCATGTTCTGTTGCAAACCATGTGCTGT
TTCGAAACCATGTTCTGTTGCCATGTGCTGTTTCG
Found at i:12462389 original size:17 final size:15
Alignment explanation
Indices: 12462369--12462415 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
12462359 TTTTAACATA
12462369 TTGTTAGTTATTATATT
1 TTGTT-GTTA-TATATT
12462386 TTGTTGTTATATATT
1 TTGTTGTTATATATT
*
12462401 AT-TTGTTA-ATATT
1 TTGTTGTTATATATT
12462414 TT
1 TT
12462416 ATTATTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 7 0.25
16 4 0.14
17 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
TTGTTGTTATATATT
Found at i:12463075 original size:21 final size:21
Alignment explanation
Indices: 12463041--12463186 Score: 202
Period size: 21 Copynumber: 7.0 Consensus size: 21
12463031 GACAACATTT
*
12463041 TTTGAGTTGAAAGCTGTTGTG
1 TTTGAATTGAAAGCTGTTGTG
* ** *
12463062 ATTGAGCTGGAAGCTGTTGTG
1 TTTGAATTGAAAGCTGTTGTG
*
12463083 TTTGAATTGGAAGCTGTTGTG
1 TTTGAATTGAAAGCTGTTGTG
*
12463104 TTTGAATTGAAAGCTGTTTTG
1 TTTGAATTGAAAGCTGTTGTG
*
12463125 TTTGAATTGAAAGCTGTTATG
1 TTTGAATTGAAAGCTGTTGTG
*
12463146 TTTGAATTGAAAGCTGTTATG
1 TTTGAATTGAAAGCTGTTGTG
*
12463167 TTTGAATTGGAAGCTGTTGT
1 TTTGAATTGAAAGCTGTTGT
12463187 TGTGTTTGAA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 114 1.00
ACGTcount: A:0.23, C:0.05, G:0.29, T:0.42
Consensus pattern (21 bp):
TTTGAATTGAAAGCTGTTGTG
Found at i:12463210 original size:32 final size:32
Alignment explanation
Indices: 12463174--12463287 Score: 133
Period size: 32 Copynumber: 3.9 Consensus size: 32
12463164 ATGTTTGAAT
12463174 TGGAAGCTGTTGTTGTGTTTGAACTGGAAAAC
1 TGGAAGCTGTTGTTGTGTTTGAACTGGAAAAC
*
12463206 TGGAAGC---TGTTATGTTTGAACT-G-----
1 TGGAAGCTGTTGTTGTGTTTGAACTGGAAAAC
12463229 --GAAGCTGTTGTTGTGTTTGAACTGGAAAAC
1 TGGAAGCTGTTGTTGTGTTTGAACTGGAAAAC
*
12463259 TAGAAGCTGTTGTTGTGTTTGAACTGGAA
1 TGGAAGCTGTTGTTGTGTTTGAACTGGAA
12463288 GCTATTGTGT
Statistics
Matches: 69, Mismatches: 2, Indels: 22
0.74 0.02 0.24
Matches are distributed among these distances:
21 5 0.07
24 14 0.20
25 1 0.01
28 1 0.01
29 14 0.20
32 34 0.49
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.36
Consensus pattern (32 bp):
TGGAAGCTGTTGTTGTGTTTGAACTGGAAAAC
Found at i:12463219 original size:53 final size:53
Alignment explanation
Indices: 12463156--12463295 Score: 217
Period size: 53 Copynumber: 2.6 Consensus size: 53
12463146 TTTGAATTGA
* *
12463156 AAGCTGTTATGTTTGAATTGGAAGCTGTTGTTGTGTTTGAACTGGAAAACTGG
1 AAGCTGTTATGTTTGAACTGGAAGCTGTTGTTGTGTTTGAACTGGAAAACTAG
12463209 AAGCTGTTATGTTTGAACTGGAAGCTGTTGTTGTGTTTGAACTGGAAAACTAG
1 AAGCTGTTATGTTTGAACTGGAAGCTGTTGTTGTGTTTGAACTGGAAAACTAG
* *
12463262 AAGCTGTTGTTGTGTTTGAACTGGAAGCTATTGT
1 AAGC---TGTTATGTTTGAACTGGAAGCTGTTGT
12463296 GTTTGAACTG
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 55 0.69
56 25 0.31
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (53 bp):
AAGCTGTTATGTTTGAACTGGAAGCTGTTGTTGTGTTTGAACTGGAAAACTAG
Found at i:12463227 original size:21 final size:22
Alignment explanation
Indices: 12463203--12463255 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 22
12463193 TGAACTGGAA
12463203 AACTGGAAGC-TGTTATGTTTG
1 AACTGGAAGCTTGTTATGTTTG
*
12463224 AACTGGAAGCTGTTGTTGTGTTTG
1 AACTGGAAGC--TTGTTATGTTTG
12463248 AACTGGAA
1 AACTGGAA
12463256 AACTAGAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.36
24 18 0.64
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (22 bp):
AACTGGAAGCTTGTTATGTTTG
Found at i:12463316 original size:21 final size:21
Alignment explanation
Indices: 12463267--12463317 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
12463257 ACTAGAAGCT
*
12463267 GTTGTTGTGTTTGAACTGGAA
1 GTTGTTGTGTTTGAACTGAAA
* *
12463288 GCTATTGTGTTTGAACTGAAA
1 GTTGTTGTGTTTGAACTGAAA
12463309 GTTGTTGTG
1 GTTGTTGTG
12463318 AGGTCTTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.06, G:0.31, T:0.43
Consensus pattern (21 bp):
GTTGTTGTGTTTGAACTGAAA
Found at i:12466691 original size:20 final size:18
Alignment explanation
Indices: 12466653--12466702 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
12466643 TTTTTTGAAT
12466653 TATATTATTATTACATGA
1 TATATTATTATTACATGA
*
12466671 TATATTATATAATTGCATGA
1 TATATTAT-T-ATTACATGA
*
12466691 TA-ATTTTTATTA
1 TATATTATTATTA
12466703 ATTTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 5 0.19
20 10 0.37
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (18 bp):
TATATTATTATTACATGA
Found at i:12469695 original size:20 final size:20
Alignment explanation
Indices: 12469672--12469709 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12469662 GTCAAACTTG
* *
12469672 ATCATAATTGGTCAAAATCA
1 ATCAAAATTAGTCAAAATCA
12469692 ATCAAAATTAGTCAAAAT
1 ATCAAAATTAGTCAAAAT
12469710 TGGTCAAACT
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:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
ATCAAAATTAGTCAAAATCA
Found at i:12472336 original size:7 final size:7
Alignment explanation
Indices: 12472326--12472420 Score: 62
Period size: 7 Copynumber: 14.7 Consensus size: 7
12472316 GCCTAAACTA
12472326 TAAACCC
1 TAAACCC
12472333 TAAA-CC
1 TAAACCC
12472339 TAAACCC
1 TAAACCC
*
12472346 T-AACCT
1 TAAACCC
12472352 TAAACCC
1 TAAACCC
12472359 TAAACCC
1 TAAACCC
* *
12472366 -ATACCT
1 TAAACCC
12472372 TAAACCC
1 TAAACCC
*
12472379 -CAACCC
1 TAAACCC
*
12472385 -AAACAC
1 TAAACCC
12472391 TAAA--C
1 TAAACCC
* *
12472396 TAAGCCT
1 TAAACCC
12472403 TAAA-CC
1 TAAACCC
12472409 TAAACCC
1 TAAACCC
*
12472416 CAAAC
1 TAAAC
12472421 TAACTTTAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
5 4 0.06
6 29 0.43
7 34 0.51
ACGTcount: A:0.44, C:0.39, G:0.01, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:12472344 original size:13 final size:13
Alignment explanation
Indices: 12472326--12472395 Score: 63
Period size: 13 Copynumber: 5.4 Consensus size: 13
12472316 GCCTAAACTA
12472326 TAAACCCTAAACC
1 TAAACCCTAAACC
12472339 TAAACCCT-AACC
1 TAAACCCTAAACC
12472351 TTAAACCCTAAACC
1 -TAAACCCTAAACC
* * *
12472365 CATACCTTAAACC
1 TAAACCCTAAACC
**
12472378 CCAACCC-AAACAC
1 TAAACCCTAAAC-C
12472391 TAAAC
1 TAAAC
12472396 TAAGCCTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
12 8 0.17
13 34 0.74
14 4 0.09
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAACCCTAAACC
Found at i:12472360 original size:20 final size:19
Alignment explanation
Indices: 12472328--12472378 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
12472318 CTAAACTATA
*
12472328 AACCCTAAA-CCTAAACCC
1 AACCTTAAACCCTAAACCC
12472346 TAACCTTAAACCCTAAACCC
1 -AACCTTAAACCCTAAACCC
12472366 ATACCTTAAACCC
1 A-ACCTTAAACCC
12472379 CAACCCAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (19 bp):
AACCTTAAACCCTAAACCC
Found at i:12472483 original size:19 final size:19
Alignment explanation
Indices: 12472447--12472499 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
12472437 TAACCCTAAA
*
12472447 CTAAACACTAAACC-AAACC
1 CTAAACCCT-AACCTAAACC
12472466 CTAAACCCTAACCTAAACC
1 CTAAACCCTAACCTAAACC
* * *
12472485 TTGAACCATAACCTA
1 CTAAACCCTAACCTA
12472500 TGCCCTAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (19 bp):
CTAAACCCTAACCTAAACC
Found at i:12472492 original size:31 final size:32
Alignment explanation
Indices: 12472438--12472497 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
12472428 AAAAAATTTT
12472438 AACCCTAAACTAAACACTAAACCA-AACCCTA
1 AACCCTAAACTAAACACTAAACCATAACCCTA
* *
12472469 AACCCTAACCTAAAC-CTTGAACCATAACC
1 AACCCTAAACTAAACAC-TAAACCATAACC
12472498 TATGCCCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.04
31 20 0.80
32 4 0.16
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.15
Consensus pattern (32 bp):
AACCCTAAACTAAACACTAAACCATAACCCTA
Found at i:12478271 original size:20 final size:20
Alignment explanation
Indices: 12478235--12478273 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12478225 TTCACCATCC
12478235 AGGGTTGTAGTTATTGCTTT
1 AGGGTTGTAGTTATTGCTTT
*
12478255 AGGGATTGTTGTT-TTGCTT
1 AGGG-TTGTAGTTATTGCTT
12478274 GGCTTGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
AGGGTTGTAGTTATTGCTTT
Found at i:12481891 original size:36 final size:37
Alignment explanation
Indices: 12481809--12481900 Score: 116
Period size: 36 Copynumber: 2.5 Consensus size: 37
12481799 TATGCATTCC
* *
12481809 ATTTCATGCACATCTTAATAGATAGTACAGGTATTCG
1 ATTTCATGCACATCTTAATAAATAGTACAGGTACTCG
* * *
12481846 ATCTGATGCACATCTTAA-AAATAGTACATGG-ACTCT
1 ATTTCATGCACATCTTAATAAATAGTACA-GGTACTCG
12481882 ATTTCATGCACATCTTAAT
1 ATTTCATGCACATCTTAAT
12481901 GGTAGTGTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
36 28 0.61
37 18 0.39
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (37 bp):
ATTTCATGCACATCTTAATAAATAGTACAGGTACTCG
Found at i:12483759 original size:9 final size:9
Alignment explanation
Indices: 12483755--12483790 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
12483745 AGAAAGTAAG
12483755 AAAAGTGAA
1 AAAAGTGAA
12483764 AAAAGTGAA
1 AAAAGTGAA
*
12483773 AAAAATGAA
1 AAAAGTGAA
*
12483782 AAAAATGAA
1 AAAAGTGAA
12483791 GGAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (9 bp):
AAAAGTGAA
Found at i:12483768 original size:18 final size:18
Alignment explanation
Indices: 12483737--12483790 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
12483727 AAGAAAAAAG
*
12483737 AAAAAATG-AGAAAGT-A
1 AAAAAATGAAAAAAGTGA
*
12483753 AGAAAAGTGAAAAAAGTGA
1 A-AAAAATGAAAAAAGTGA
*
12483772 AAAAAATGAAAAAAATGA
1 AAAAAATGAAAAAAGTGA
12483790 A
1 A
12483791 GGAAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 6 0.19
18 22 0.71
19 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (18 bp):
AAAAAATGAAAAAAGTGA
Found at i:12483808 original size:10 final size:9
Alignment explanation
Indices: 12483792--12483834 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
12483782 AAAAATGAAG
12483792 GAAAAAAAA
1 GAAAAAAAA
12483801 GAATAAAAAA
1 GAA-AAAAAA
**
12483811 G-AATTAAA
1 GAAAAAAAA
12483819 GAAAAAAAA
1 GAAAAAAAA
12483828 GAAAAAA
1 GAAAAAA
12483835 TGAATGATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.18
9 16 0.57
10 7 0.25
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:12483809 original size:13 final size:13
Alignment explanation
Indices: 12483771--12483830 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
12483761 GAAAAAAGTG
12483771 AAAAA-AATGAAA
1 AAAAAGAATGAAA
* *
12483783 AAAATGAAGGAAA
1 AAAAAGAATGAAA
12483796 AAAAAGAAT-AAA
1 AAAAAGAATGAAA
* *
12483808 AAAGAATTAAAGAAA
1 AAA-AA-GAATGAAA
12483823 AAAAAGAA
1 AAAAAGAA
12483831 AAAATGAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
12 10 0.27
13 17 0.46
14 4 0.11
15 6 0.16
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.08
Consensus pattern (13 bp):
AAAAAGAATGAAA
Found at i:12483810 original size:27 final size:26
Alignment explanation
Indices: 12483780--12483834 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
12483770 GAAAAAAATG
*
12483780 AAAAAAATGAAGGAAAAAAAAGAATAA
1 AAAAAAATGAAAGAAAAAAAAGAA-AA
* *
12483807 AAAAGAATTAAAGAAAAAAAAGAAAA
1 AAAAAAATGAAAGAAAAAAAAGAAAA
12483833 AA
1 AA
12483835 TGAATGATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (26 bp):
AAAAAAATGAAAGAAAAAAAAGAAAA
Found at i:12483832 original size:23 final size:22
Alignment explanation
Indices: 12483770--12483838 Score: 59
Period size: 27 Copynumber: 3.0 Consensus size: 22
12483760 TGAAAAAAGT
* *
12483770 GAAAAAAATGAAAAAAATGAAG
1 GAAAAAAAAGAAAAAAATGAAA
*
12483792 GAAAAAAAAGAATAAAAAAGAATTAAA
1 GAAAAAAAAG----AAAAA-AATGAAA
12483819 GAAAAAAAAG-AAAAAATGAA
1 GAAAAAAAAGAAAAAAATGAA
12483839 TGATTGAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
21 5 0.13
22 13 0.34
26 5 0.13
27 15 0.39
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (22 bp):
GAAAAAAAAGAAAAAAATGAAA
Found at i:12484976 original size:7 final size:7
Alignment explanation
Indices: 12484965--12485005 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
12484955 GTTTAAAACA
*
12484965 CATGTTA
1 CATGTTG
12484972 CATGTTG
1 CATGTTG
12484979 CATGTTG
1 CATGTTG
*
12484986 TATGTTG
1 CATGTTG
12484993 CATGTTG
1 CATGTTG
12485000 CATGTT
1 CATGTT
12485006 TCTGTGTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.24, T:0.46
Consensus pattern (7 bp):
CATGTTG
Found at i:12484996 original size:21 final size:21
Alignment explanation
Indices: 12484966--12485005 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12484956 TTTAAAACAC
12484966 ATGTTACATGTTGCATGTTGT
1 ATGTTACATGTTGCATGTTGT
*
12484987 ATGTTGCATGTTGCATGTT
1 ATGTTACATGTTGCATGTT
12485006 TCTGTGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.25, T:0.47
Consensus pattern (21 bp):
ATGTTACATGTTGCATGTTGT
Found at i:12486660 original size:35 final size:35
Alignment explanation
Indices: 12486546--12486742 Score: 137
Period size: 35 Copynumber: 5.5 Consensus size: 35
12486536 CAAGTTTGAA
* * * *
12486546 TTTCATTAAAA-TTTCTCAATGGCTAAATCCAGTTT
1 TTTCATTAAAACTTTCTCGATGGCAAAAT-CTGATT
* * * **
12486581 TTTC-TTAAAACTCTCTTCTGAGTGGCAAAGTCTAAGC
1 TTTCATTAAAACTTTC-TC-GA-TGGCAAAATCTGATT
*
12486618 TTTCATTAAAACTTTCTCGATGGCGAAATCTGATT
1 TTTCATTAAAACTTTCTCGATGGCAAAATCTGATT
* * * *
12486653 TTTCATTAAAACTTTATGGGTAGCAAAATCTGACTT
1 TTTCATTAAAACTTTCTCGATGGCAAAATCTGA-TT
** * * * * *
12486689 TTTTGTTAAAATTTTCTAGTTGGCAAAATGTGACT
1 TTTCATTAAAACTTTCTCGATGGCAAAATCTGATT
*
12486724 TTTCATTAAAACTATCTCG
1 TTTCATTAAAACTTTCTCG
12486743 GTGTTAATAT
Statistics
Matches: 122, Mismatches: 34, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
34 6 0.05
35 60 0.49
36 31 0.25
37 8 0.07
38 17 0.14
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (35 bp):
TTTCATTAAAACTTTCTCGATGGCAAAATCTGATT
Found at i:12486779 original size:48 final size:48
Alignment explanation
Indices: 12486724--12486878 Score: 127
Period size: 48 Copynumber: 3.2 Consensus size: 48
12486714 AAATGTGACT
*
12486724 TTTCATTAAAACTATCTCGGTGTTAATATCTAAGCATTCAAGTTTGAA
1 TTTCATTAAAACTATCTCGATGTTAATATCTAAGCATTCAAGTTTGAA
* * * * * * * * * * * *
12486772 TTTCATTAAAAATTTTTTGACAGTGAA-ATTTGA-C-CTCGAAATGTGATT
1 TTTCATTAAAACTATCTCGA-TGTTAATATCTAAGCATTC-AAGTTTGA-A
*
12486820 TTTCATTAAAACTATCTCAATGTTAATATCTAAGCATTCAAGTTTGAA
1 TTTCATTAAAACTATCTCGATGTTAATATCTAAGCATTCAAGTTTGAA
*
12486868 TTTTATTAAAA
1 TTTCATTAAAA
12486879 TTTTTTTGAC
Statistics
Matches: 74, Mismatches: 27, Indels: 12
0.65 0.24 0.11
Matches are distributed among these distances:
46 2 0.03
47 11 0.15
48 48 0.65
49 11 0.15
50 2 0.03
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (48 bp):
TTTCATTAAAACTATCTCGATGTTAATATCTAAGCATTCAAGTTTGAA
Found at i:12486852 original size:96 final size:96
Alignment explanation
Indices: 12486714--12486902 Score: 315
Period size: 96 Copynumber: 2.0 Consensus size: 96
12486704 CTAGTTGGCA
**
12486714 AAATGTGACTTTTCATTAAAACTATCTCGGTGTTAATATCTAAGCATTCAAGTTTGAATTTCATT
1 AAATGTGACTTTTCATTAAAACTATCTCAATGTTAATATCTAAGCATTCAAGTTTGAATTTCATT
**
12486779 AAAAATTTTTTGACAGTGAAATTTGACCTCG
66 AAAAATTTTTTGACAGCAAAATTTGACCTCG
* *
12486810 AAATGTGATTTTTCATTAAAACTATCTCAATGTTAATATCTAAGCATTCAAGTTTGAATTTTATT
1 AAATGTGACTTTTCATTAAAACTATCTCAATGTTAATATCTAAGCATTCAAGTTTGAATTTCATT
*
12486875 AAAATTTTTTTGACAGCAAAATTTGACC
66 AAAAATTTTTTGACAGCAAAATTTGACC
12486903 CTTTTTTAGA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (96 bp):
AAATGTGACTTTTCATTAAAACTATCTCAATGTTAATATCTAAGCATTCAAGTTTGAATTTCATT
AAAAATTTTTTGACAGCAAAATTTGACCTCG
Found at i:12487317 original size:34 final size:34
Alignment explanation
Indices: 12487274--12487368 Score: 97
Period size: 34 Copynumber: 2.8 Consensus size: 34
12487264 CTATTATTTA
*
12487274 GTGGTGATATCTGAAGTTATTTGCATTCT-CTTCG
1 GTGGTGATATCTGAAGTCATTTGCATTCTACTT-G
*
12487308 GTGGTGATAT-TCGAACTCATTTGCATT-TACTTG
1 GTGGTGATATCT-GAAGTCATTTGCATTCTACTTG
* * * *
12487341 GAGTTGATATCTAAAGTCATTTACATTC
1 GTGGTGATATCTGAAGTCATTTGCATTC
12487369 ACTCAATGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
33 23 0.46
34 27 0.54
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (34 bp):
GTGGTGATATCTGAAGTCATTTGCATTCTACTTG
Found at i:12494181 original size:13 final size:12
Alignment explanation
Indices: 12494158--12494191 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12494148 GCCTATACCA
12494158 TTATCTTTTTTT
1 TTATCTTTTTTT
12494170 TTATCTTTTTTT
1 TTATCTTTTTTT
12494182 TT-T-TTTTTTT
1 TTATCTTTTTTT
12494192 GTAAAAGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 1 0.05
12 14 0.64
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (12 bp):
TTATCTTTTTTT
Done.