Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_pilon, 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: 2950132
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 14
Found at i:2444303 original size:1 final size:1
Alignment explanation
Indices: 2444293--2444356 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
2444283 ATCAACCTTA
* * * * * * * *
2444293 TTTTTCTTTTTTTTTTCTTTTTTCTTTTTTGTTCTTTTTGTTCTTTTTTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2444357 CAATTTAAGG
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.02, C:0.08, G:0.03, T:0.88
Consensus pattern (1 bp):
T
Found at i:2444313 original size:9 final size:9
Alignment explanation
Indices: 2444293--2444348 Score: 71
Period size: 9 Copynumber: 6.2 Consensus size: 9
2444283 ATCAACCTTA
2444293 TTTTTCTTT
1 TTTTTCTTT
2444302 TTTTT-TTCT
1 TTTTTCTT-T
2444311 TTTTTCTTT
1 TTTTTCTTT
2444320 TTTGTTCTTT
1 TTT-TTCTTT
*
2444330 TTGTTCTTT
1 TTTTTCTTT
2444339 TTTTT-TTT
1 TTTTTCTTT
2444347 TT
1 TT
2444349 ATTTTTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 7 0.17
9 25 0.60
10 10 0.24
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:2444416 original size:17 final size:15
Alignment explanation
Indices: 2444394--2444430 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
2444384 ACCCTAAACA
*
2444394 TTTTTCTCTTTTTTT
1 TTTTTTTCTTTTTTT
*
2444409 TCTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
2444424 TTTTTTT
1 TTTTTTT
2444431 TTGACTTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTCTTTTTTT
Found at i:2444429 original size:75 final size:76
Alignment explanation
Indices: 2444325--2444466 Score: 198
Period size: 75 Copynumber: 1.9 Consensus size: 76
2444315 TCTTTTTTGT
* *
2444325 TCTTTTTGTTCTTTTTTTTTTTTTATTTTTTTCAATTTAAGGCGCCCTTTCGGG-TTTTCACCCT
1 TCTTTTTGTTCTTTTTTTTTTTTTATTTTTTTCAACTTAAGGCGCCCTCTCGGGTTTTTCACCCT
2444389 AAACATTTTTC
66 AAACATTTTTC
* ** * *
2444400 TCTTTTTTTTCTTTTTCTTTTTTTT-TTTTTTTTGACTTAGGGCGCCCTCTCGGGTTTTTCATCC
1 TCTTTTTGTTCTTTTT-TTTTTTTTATTTTTTTCAACTTAAGGCGCCCTCTCGGGTTTTTCACCC
2444464 TAA
65 TAA
2444467 GCGAAGTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
75 39 0.67
76 19 0.33
ACGTcount: A:0.11, C:0.19, G:0.11, T:0.60
Consensus pattern (76 bp):
TCTTTTTGTTCTTTTTTTTTTTTTATTTTTTTCAACTTAAGGCGCCCTCTCGGGTTTTTCACCCT
AAACATTTTTC
Found at i:2444432 original size:17 final size:17
Alignment explanation
Indices: 2444394--2444430 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
2444384 ACCCTAAACA
2444394 TTTTTCTCTTTTTTTTC
1 TTTTTCTCTTTTTTTTC
2444411 TTTTTCT-TTTTTTTT-
1 TTTTTCTCTTTTTTTTC
2444426 TTTTT
1 TTTTT
2444431 TTGACTTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 8 0.40
17 7 0.35
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTTC
Found at i:2455836 original size:27 final size:27
Alignment explanation
Indices: 2455797--2455884 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 27
2455787 TAAAAAATAT
**
2455797 AATAAAATGAAAAAAAGTAAATAAAGA
1 AATAAAAACAAAAAAAGTAAATAAAGA
2455824 AATAAAAACAAAATAGAA--AAATAAAGA
1 AATAAAAACAAAA-A-AAGTAAATAAAGA
* * * *
2455851 AA-ATAAATAAACAAAGTAAAATAAA-T
1 AATAAAAACAAAAAAAGT-AAATAAAGA
2455877 AATAAAAA
1 AATAAAAA
2455885 ATAAAAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
24 2 0.04
25 1 0.02
26 9 0.19
27 33 0.69
28 1 0.02
29 2 0.04
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (27 bp):
AATAAAAACAAAAAAAGTAAATAAAGA
Found at i:2455860 original size:40 final size:41
Alignment explanation
Indices: 2455791--2455891 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 41
2455781 TAAAGCTAAA
*
2455791 AAAT-ATAATAAAATGAAAAAAAGTAAATAAAGAAA-TAAAA-
1 AAATAATAA-AAAAT-AAAAAAAGTAAATAAACAAAGTAAAAT
2455831 ACAA-AATAGAAAAATAAAGAAAA-TAAATAAACAAAGTAAAAT
1 A-AATAATA-AAAAATAAA-AAAAGTAAATAAACAAAGTAAAAT
2455873 AAATAATAAAAAATAAAAA
1 AAATAATAAAAAATAAAAA
2455892 TAAAGACAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
40 17 0.32
41 30 0.57
42 6 0.11
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (41 bp):
AAATAATAAAAAATAAAAAAAGTAAATAAACAAAGTAAAAT
Found at i:2455873 original size:18 final size:17
Alignment explanation
Indices: 2455833--2455878 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
2455823 AAATAAAAAC
*
2455833 AAAATAGAA-AAATAAAG
1 AAAATA-AATAAACAAAG
2455850 AAAATAAATAAACAAAG
1 AAAATAAATAAACAAAG
2455867 TAAAATAAATAA
1 -AAAATAAATAA
2455879 TAAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 11 0.42
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (17 bp):
AAAATAAATAAACAAAG
Found at i:2455893 original size:13 final size:14
Alignment explanation
Indices: 2455815--2455897 Score: 62
Period size: 13 Copynumber: 5.6 Consensus size: 14
2455805 GAAAAAAAGT
2455815 AAATAAAGAAATAA
1 AAATAAAGAAATAA
* * *
2455829 AAACAAA-ATAGAA
1 AAATAAAGAAATAA
2455842 AAATAAAGAAAATAAA
1 AAATAAAG-AAAT-AA
*
2455858 TAAACAAAGTAAAATAA
1 -AAATAAAG--AAATAA
2455875 ATAATAAA-AAATAA
1 A-AATAAAGAAATAA
2455889 AAATAAAGA
1 AAATAAAGA
2455898 CAAAAGAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
13 16 0.30
14 14 0.26
15 2 0.04
16 3 0.06
17 14 0.26
18 5 0.09
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.14
Consensus pattern (14 bp):
AAATAAAGAAATAA
Found at i:2456243 original size:22 final size:22
Alignment explanation
Indices: 2456218--2456259 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2456208 ATATGTATAT
2456218 ATAAC-AAAATAAATAATATAAA
1 ATAACAAAAAT-AATAATATAAA
*
2456240 ATAATAAAAATAATAATATA
1 ATAACAAAAATAATAATATA
2456260 GGGATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAACAAAAATAATAATATAAA
Found at i:2458581 original size:18 final size:18
Alignment explanation
Indices: 2458554--2458588 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2458544 ACTGAATAAT
*
2458554 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
2458572 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
2458589 GATAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2459410 original size:19 final size:19
Alignment explanation
Indices: 2459386--2459431 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
2459376 GGACGAAAAT
2459386 CACTTCATTTCAGCTCAAA
1 CACTTCATTTCAGCTCAAA
2459405 CACTTCATTTCAGCTCAAA
1 CACTTCATTTCAGCTCAAA
2459424 CACTTCAT
1 CACTTCAT
2459432 ATTTCATCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.33, G:0.04, T:0.33
Consensus pattern (19 bp):
CACTTCATTTCAGCTCAAA
Found at i:2465479 original size:18 final size:18
Alignment explanation
Indices: 2465456--2465495 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
2465446 ACTGAATAAT
2465456 TGTCCCGAATG-ACCACTA
1 TGTCCCG-ATGTACCACTA
2465474 TGTCCCGATGTACCACTA
1 TGTCCCGATGTACCACTA
2465492 TGTC
1 TGTC
2465496 TCAAAGGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.28
Consensus pattern (18 bp):
TGTCCCGATGTACCACTA
Found at i:2465965 original size:23 final size:23
Alignment explanation
Indices: 2465935--2465986 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
2465925 GGAACAGGAT
2465935 TACATTTTATATCTACATAATCA
1 TACATTTTATATCTACATAATCA
2465958 TACATTTTATATCTACATAATCA
1 TACATTTTATATCTACATAATCA
2465981 TACATT
1 TACATT
2465987 GATACATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.44
Consensus pattern (23 bp):
TACATTTTATATCTACATAATCA
Found at i:2473914 original size:21 final size:22
Alignment explanation
Indices: 2473890--2473942 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
2473880 AACCATGAGG
2473890 TAAAAAAATAC-TAATAAT-AA
1 TAAAAAAATACATAATAATAAA
* *
2473910 TTAAAAAACACATAATAATAAA
1 TAAAAAAATACATAATAATAAA
2473932 TAAATAAAATA
1 TAAA-AAAATA
2473943 AAATAAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 9 0.35
21 7 0.27
22 5 0.19
23 5 0.19
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAAAAAATACATAATAATAAA
Found at i:2474402 original size:28 final size:30
Alignment explanation
Indices: 2474366--2474423 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
2474356 TTTTAGTTTT
2474366 GTTTGAAGGG-TAAATTAATCTTTTTAAAA
1 GTTTGAAGGGTTAAATTAATCTTTTTAAAA
* * *
2474395 GTTT-AAGGGTTTATTTAATTTTTTTAAAA
1 GTTTGAAGGGTTAAATTAATCTTTTTAAAA
2474424 TATTTTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (30 bp):
GTTTGAAGGGTTAAATTAATCTTTTTAAAA
Found at i:2474491 original size:21 final size:22
Alignment explanation
Indices: 2474461--2474508 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
2474451 CAAATATTCA
2474461 AAAAATTAAATA-TAAAAATACT
1 AAAAATTAAA-AGTAAAAATACT
* *
2474483 AAAAA-TAAAAGTTAAATTACT
1 AAAAATTAAAAGTAAAAATACT
2474504 AAAAA
1 AAAAA
2474509 GTTGAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAATTAAAAGTAAAAATACT
Found at i:2474658 original size:15 final size:16
Alignment explanation
Indices: 2474633--2474668 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2474623 AAATATGACA
*
2474633 TATATATATATTCATG
1 TATATATATATACATG
2474649 TATATA-ATATACATG
1 TATATATATATACATG
2474664 TATAT
1 TATAT
2474669 TCATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
TATATATATATACATG
Found at i:2480098 original size:84 final size:88
Alignment explanation
Indices: 2479925--2480099 Score: 295
Period size: 84 Copynumber: 2.0 Consensus size: 88
2479915 GAGATAATCT
*
2479925 TGTGTCCTGGATGTCTAAAAGCAAAAAAATGGTCTCAAGGTCCACGATGGAAGCTAAGTATCGTA
1 TGTGTCCTGGATGTCTAAAAGC-AAAAAATGGTCTCAAGGTCCACGATGAAAGCTAAGTATCGTA
2479990 GCGTGACAAATGTAGCAGCAGAGG
65 GCGTGACAAATGTAGCAGCAGAGG
*
2480014 TGTGTCCTGGATGTCTAGAAGC-AAAAAT-GTCTCAAGGTCCACGAT-AAAGCTAAGTATCG-AG
1 TGTGTCCTGGATGTCTAAAAGCAAAAAATGGTCTCAAGGTCCACGATGAAAGCTAAGTATCGTAG
2480075 CGTGACAAATGTAGCAGCAGAGG
66 CGTGACAAATGTAGCAGCAGAGG
2480098 TG
1 TG
2480100 GCATGGATTG
Statistics
Matches: 84, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
84 27 0.32
85 13 0.15
86 17 0.20
87 6 0.07
89 21 0.25
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (88 bp):
TGTGTCCTGGATGTCTAAAAGCAAAAAATGGTCTCAAGGTCCACGATGAAAGCTAAGTATCGTAG
CGTGACAAATGTAGCAGCAGAGG
Found at i:2481780 original size:20 final size:21
Alignment explanation
Indices: 2481752--2481802 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
2481742 GATAAATTTA
*
2481752 TTAAT-AATTTTATAA-TCTT
1 TTAATAAATTTTATAAGTATT
*
2481771 TTAATAAATTTAATAAGTATT
1 TTAATAAATTTTATAAGTATT
2481792 TT-ATAAATTTT
1 TTAATAAATTTT
2481803 TAAACTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 17 0.63
21 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAATAAATTTTATAAGTATT
Found at i:2481781 original size:31 final size:31
Alignment explanation
Indices: 2481738--2481805 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
2481728 TTTCATAGTA
*
2481738 TTTAGATAAATTTATTAA-TAATTTTAT-AATCT
1 TTTA-ATAAATTTAATAAGT-ATTTTATAAAT-T
2481770 TTTAATAAATTTAATAAGTATTTTATAAATT
1 TTTAATAAATTTAATAAGTATTTTATAAATT
2481801 TTTAA
1 TTTAA
2481806 ACTTTATTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 25 0.76
32 8 0.24
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTAATAAATTTAATAAGTATTTTATAAATT
Found at i:2491479 original size:55 final size:55
Alignment explanation
Indices: 2491408--2491814 Score: 449
Period size: 55 Copynumber: 7.6 Consensus size: 55
2491398 TGACGGGTCT
* * * * **
2491408 GCTCCCTATTCCTTCAGGGAGTACAAGACTCGAACAATCTTCAACAAACGTATAT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCC
* * * * * *
2491463 GCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAA--TTCAATAAATGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCC
* * * * *
2491516 GCTCCCTATTCGTTCAGGGAGTATAGAACTCGAGCAATCTTCAACAAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCC
* *
2491571 GCTCCCTATTTCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAATGTGT-C
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCC
* * * *
2491621 GCTCCTTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACATGTTC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCC
* * * * *
2491676 ACTCTCTATTCCTTTAGAGAGTATAGGACT----CTATCTTCAACAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCC
* * * *
2491727 GCTTCCTATTCCTTCAGAGAGTATGGGACTTGAACAATATTCAACAAACGTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCC
2491782 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGA
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGA
2491815 TCTTCATAAA
Statistics
Matches: 297, Mismatches: 44, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
50 30 0.10
51 57 0.19
53 43 0.14
54 15 0.05
55 152 0.51
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (55 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCC
Found at i:2491774 original size:106 final size:106
Alignment explanation
Indices: 2491404--2491820 Score: 521
Period size: 106 Copynumber: 3.9 Consensus size: 106
2491394 CAAATGACGG
* * * * **
2491404 GTCTGCTCCCTATTCCTTCAGGGAGTACAAGACTCGAACAATCTTCAACAAACGTATATGCTCCC
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
* * * * * *
2491469 TATTCATTCAGGGAGTATAAGACTCGAACAATTCAATAAATGG
66 TATTCCTTCAGAGAGTATAGGACTCGATC--TTCAACAAATGT
* * * * * *
2491512 GTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTCGAGCAATCTTCAACAAACGGGTCCGCTCCC
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
*
2491577 TATTTCTTCAGAGAGTATAGGACTCGATCTTCAACAAATGT
66 TATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAATGT
* * * * * *
2491618 GTC-GCTCCTTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACATGTTCACTCTC
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
* * *
2491682 TATTCCTTTAGAGAGTATAGGACTCTATCTTCAACAAACGT
66 TATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAATGT
* * * *
2491723 GTCTGCTTCCTATTCCTTCAGAGAGTATGGGACTTGAACAATATTCAACAAACGTGTCCGCTCCC
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
2491788 TATTCCTTCAGAGAGTATAGGACTCGATCTTCA
66 TATTCCTTCAGAGAGTATAGGACTCGATCTTCA
2491821 TAAAATGAGT
Statistics
Matches: 266, Mismatches: 42, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
105 90 0.34
106 97 0.36
108 79 0.30
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (106 bp):
GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCC
TATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAATGT
Found at i:2491799 original size:211 final size:212
Alignment explanation
Indices: 2491408--2491820 Score: 533
Period size: 211 Copynumber: 1.9 Consensus size: 212
2491398 TGACGGGTCT
* * *
2491408 GCTCCCTATTCCTTCAGGGAGTACAAGACTCGAACAATCTTCAACAAACGTATATGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTACAAGACTCGAACAATCTTCAACAAACATATATACTCCCTATT
* * * * *
2491473 CATTCAGGGAGTATAAGACTCGAACAATTCAATAAATGGGTCCGCTCCCTATTCGTTCAGGGAGT
66 CATTCAGAGAGTATAAGACTCGAAC-ATTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGT
* * *
2491538 ATAGAACTCGAGCAATCTTCAACAAACGGGTCCGCTCCCTATTTCTTCAGAGAGTATAGGACTCG
130 ATAGAACTCGAACAATATTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG
2491603 ATCTTCAACAAATGTGTC
195 ATCTTCAACAAATGTGTC
* * * * * *
2491621 GCTCCTTATTCCTTCAGAGAGTATAGGACTTGAACAATCTTCAACAAACATGT-TCACTCTCTAT
1 GCTCCCTATTCCTTCAGAGAGTACAAGACTCGAACAATCTTCAACAAACATATAT-ACTCCCTAT
* * * * * * * *
2491685 TCCTTTAGAGAGTATAGGACTCTATC-TTCAACAAACGTGTCTGCTTCCTATTCCTTCAGAGAGT
65 TCATTCAGAGAGTATAAGACTCGAACATTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGT
* * * *
2491749 ATGGGACTTGAACAATATTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG
130 ATAGAACTCGAACAATATTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG
2491814 ATCTTCA
195 ATCTTCA
2491821 TAAAATGAGT
Statistics
Matches: 170, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
211 96 0.56
212 1 0.01
213 73 0.43
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (212 bp):
GCTCCCTATTCCTTCAGAGAGTACAAGACTCGAACAATCTTCAACAAACATATATACTCCCTATT
CATTCAGAGAGTATAAGACTCGAACATTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTA
TAGAACTCGAACAATATTCAACAAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCGA
TCTTCAACAAATGTGTC
Found at i:2491936 original size:73 final size:72
Alignment explanation
Indices: 2491825--2492008 Score: 257
Period size: 73 Copynumber: 2.5 Consensus size: 72
2491815 TCTTCATAAA
*
2491825 ATGAGTTTGCTTCACTGCTCTT-TTGAAGGCTTATAGATGATTTGCTTCACTACTCTTCCGTG-A
1 ATGA-TTTGCTTCACTGCTCTTCATGAAGGCTTATAGATGATTTGCTTCACTACTCTTCCGTGAA
2491888 GGCTTATAG
65 GGCTTA-AG
* * *
2491897 ATGATTTGCTTCACTACTCTTCCGTGAAGGCTTATAGATGATTTGCTTCACTACTCTTCTGTGAA
1 ATGATTTGCTTCACTGCTCTT-CATGAAGGCTTATAGATGATTTGCTTCACTACTCTTCCGTGAA
2491962 GGCTTAAG
65 GGCTTAAG
*
2491970 ATTGAATTGCTTCACTGCTCTTTCATGAAGGCTTA-AGAT
1 A-TGATTTGCTTCACTGCTC-TTCATGAAGGCTTATAGAT
2492009 TGACTTGTTT
Statistics
Matches: 101, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
71 16 0.16
72 4 0.04
73 45 0.45
74 34 0.34
75 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (72 bp):
ATGATTTGCTTCACTGCTCTTCATGAAGGCTTATAGATGATTTGCTTCACTACTCTTCCGTGAAG
GCTTAAG
Found at i:2491937 original size:37 final size:37
Alignment explanation
Indices: 2491825--2492008 Score: 252
Period size: 37 Copynumber: 5.1 Consensus size: 37
2491815 TCTTCATAAA
* *
2491825 ATGAGTTTGCTTCACTGCTCTT--TTGAAGGCTTATAG
1 ATGA-TTTGCTTCACTACTCTTCCGTGAAGGCTTATAG
2491861 ATGATTTGCTTCACTACTCTTCCGTG-AGGCTTATAG
1 ATGATTTGCTTCACTACTCTTCCGTGAAGGCTTATAG
2491897 ATGATTTGCTTCACTACTCTTCCGTGAAGGCTTATAG
1 ATGATTTGCTTCACTACTCTTCCGTGAAGGCTTATAG
*
2491934 ATGATTTGCTTCACTACTCTTCTGTGAAGGCTTA-AG
1 ATGATTTGCTTCACTACTCTTCCGTGAAGGCTTATAG
* * * *
2491970 ATTGAATTGCTTCACTGCTCTTTCATGAAGGCTTA-AG
1 A-TGATTTGCTTCACTACTCTTCCGTGAAGGCTTATAG
2492007 AT
1 AT
2492009 TGACTTGTTT
Statistics
Matches: 136, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
35 16 0.12
36 44 0.32
37 76 0.56
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (37 bp):
ATGATTTGCTTCACTACTCTTCCGTGAAGGCTTATAG
Found at i:2493310 original size:8 final size:8
Alignment explanation
Indices: 2493285--2493571 Score: 100
Period size: 7 Copynumber: 36.1 Consensus size: 8
2493275 TGAACCCCCA
2493285 TTTT-ATT
1 TTTTCATT
*
2493292 TTTCTCTTT
1 TTT-TCATT
2493301 TTTTCA-T
1 TTTTCATT
2493308 TTTTCA-T
1 TTTTCATT
2493315 TTTTCA-T
1 TTTTCATT
2493322 TTTTCA-T
1 TTTTCATT
2493329 TTTTCA-T
1 TTTTCATT
2493336 TTTTCATTT
1 TTTTCA-TT
*
2493345 TTTTTATT
1 TTTTCATT
2493353 TTTCTC-TT
1 TTT-TCATT
* *
2493361 TCTTCTTT
1 TTTTCATT
2493369 GTTTTCATT
1 -TTTTCATT
*
2493378 TTTTTA-T
1 TTTTCATT
2493385 TTTTCATT
1 TTTTCATT
2493393 TTTTC-TT
1 TTTTCATT
2493400 CATTTTCCCATT
1 --TTTT--CATT
**
2493412 TCCT-ATT
1 TTTTCATT
*
2493419 TTCT-ATT
1 TTTTCATT
*
2493426 TTTTCCTT
1 TTTTCATT
2493434 TTTTC---
1 TTTTCATT
2493439 TTTTCAGTT
1 TTTTCA-TT
2493448 TTTCATCATT
1 TTT--TCATT
2493458 TTTTC-TCAT
1 TTTTCAT--T
2493467 TTTTC-TT
1 TTTTCATT
2493474 TTATTC-TT
1 TT-TTCATT
*
2493482 TTCATT-TTT
1 TT--TTCATT
2493491 TTTTCATTTT
1 TTTTCA--TT
2493501 TTTTCAATTT
1 TTTTC-A-TT
2493511 TTTTCA-T
1 TTTTCATT
2493518 TTTTCA-T
1 TTTTCATT
* *
2493525 TTTCCTTT
1 TTTTCATT
2493533 TCTTTCATT
1 T-TTTCATT
2493542 TTTT-ATT
1 TTTTCATT
2493549 TTTT--TCT
1 TTTTCAT-T
2493556 TTTTC-TT
1 TTTTCATT
2493563 TTTTCATT
1 TTTTCATT
2493571 T
1 T
2493572 CTTCTTCAAG
Statistics
Matches: 227, Mismatches: 19, Indels: 67
0.73 0.06 0.21
Matches are distributed among these distances:
5 5 0.02
6 1 0.00
7 96 0.42
8 50 0.22
9 46 0.20
10 22 0.10
11 5 0.02
12 2 0.01
ACGTcount: A:0.10, C:0.15, G:0.01, T:0.74
Consensus pattern (8 bp):
TTTTCATT
Found at i:2493462 original size:41 final size:41
Alignment explanation
Indices: 2493417--2493512 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 41
2493407 CCATTTCCTA
2493417 TTTTCT-ATTTTTTCCTTTT-TTCTTTTCAGTTTTTCATCATT
1 TTTTCTCA-TTTTT-CTTTTATTCTTTTCAGTTTTTCATCATT
* **
2493458 TTTTCTCATTTTTCTTTTATTCTTTTCATTTTTTTTTCATT
1 TTTTCTCATTTTTCTTTTATTCTTTTCAGTTTTTCATCATT
*
2493499 TTTTTTCAATTTTT
1 TTTTCTC-ATTTTT
2493513 TTCATTTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 5 0.10
41 36 0.75
42 7 0.15
ACGTcount: A:0.10, C:0.15, G:0.01, T:0.74
Consensus pattern (41 bp):
TTTTCTCATTTTTCTTTTATTCTTTTCAGTTTTTCATCATT
Found at i:2493466 original size:10 final size:10
Alignment explanation
Indices: 2493417--2493521 Score: 58
Period size: 11 Copynumber: 10.3 Consensus size: 10
2493407 CCATTTCCTA
2493417 TTTTCT-ATT
1 TTTTCTCATT
2493426 TTTTC-C-TT
1 TTTTCTCATT
*
2493434 TTTTCTTTTCAGT
1 TTTTC---TCATT
2493447 TTTTCATCATT
1 TTTTC-TCATT
2493458 TTTTCTCATT
1 TTTTCTCATT
* *
2493468 TTTCTTTTATT
1 TTT-TCTCATT
*
2493479 CTTT-TCATTT
1 TTTTCTCA-TT
*
2493489 TTTTTTCATT
1 TTTTCTCATT
*
2493499 TTTTTTCAATT
1 TTTTCTC-ATT
2493510 TTTT-TCATT
1 TTTTCTCATT
2493519 TTT
1 TTT
2493522 CATTTTCCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
8 7 0.09
9 13 0.17
10 25 0.32
11 26 0.33
12 1 0.01
13 6 0.08
ACGTcount: A:0.10, C:0.14, G:0.01, T:0.74
Consensus pattern (10 bp):
TTTTCTCATT
Found at i:2493503 original size:33 final size:33
Alignment explanation
Indices: 2493424--2493502 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 33
2493414 CTATTTTCTA
*
2493424 TTTTTTCCTTTTTTCTTTTCAGTTTTTCATCATT
1 TTTTTTCATTTTTTCTTTTCAGTTTTTCAT-ATT
* *
2493458 TTTTCTCA-TTTTTCTTTT-ATTCTTTTCAT-TT
1 TTTTTTCATTTTTTCTTTTCAGT-TTTTCATATT
2493489 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
2493503 TTCAATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 9 0.23
32 7 0.18
33 17 0.44
34 6 0.15
ACGTcount: A:0.09, C:0.15, G:0.01, T:0.75
Consensus pattern (33 bp):
TTTTTTCATTTTTTCTTTTCAGTTTTTCATATT
Found at i:2493522 original size:51 final size:49
Alignment explanation
Indices: 2493453--2493571 Score: 126
Period size: 51 Copynumber: 2.5 Consensus size: 49
2493443 CAGTTTTTCA
* *
2493453 TCATTTTTTCTCATTTTTCTTTTATTCTTTTCATTTTTTTTTCATTTTTTT
1 TCATTTTTTCTCATTTTTCATTT-TCCTTTTC-TTTTTTTTTCATTTTTTT
2493504 TCAATTTTTT-TCATTTTTCATTTTCCTTTTCTTTCATTTTTT-A-TTTTTT
1 TC-ATTTTTTCTCATTTTTCATTTTCCTTTTCTTT--TTTTTTCATTTTTTT
2493553 TC--TTTTTCT--TTTTTCATTT
1 TCATTTTTTCTCATTTTTCATTT
2493572 CTTCTTCAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
45 10 0.16
46 5 0.08
47 1 0.02
49 11 0.18
50 8 0.13
51 20 0.32
52 7 0.11
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (49 bp):
TCATTTTTTCTCATTTTTCATTTTCCTTTTCTTTTTTTTTCATTTTTTT
Found at i:2493538 original size:10 final size:10
Alignment explanation
Indices: 2493453--2493563 Score: 56
Period size: 10 Copynumber: 11.1 Consensus size: 10
2493443 CAGTTTTTCA
2493453 TCATTTT-TT
1 TCATTTTCTT
2493462 CTCATTTTTCTT
1 -TCA-TTTTCTT
* *
2493474 TTATTCT-TT
1 TCATTTTCTT
*
2493483 TCATTTTTTTT
1 TCA-TTTTCTT
*
2493494 TCATTTTTTT
1 TCATTTTCTT
2493504 TCAATTTT-TT
1 TC-ATTTTCTT
2493514 TCATTTTTCATTT
1 TCA-TTTTC--TT
*
2493527 TCCTTTTCTT
1 TCATTTTCTT
2493537 TCA-TTT-TT
1 TCATTTTCTT
2493545 T-ATTTT-TT
1 TCATTTTCTT
*
2493553 TCTTTTTCTT
1 TCATTTTCTT
2493563 T
1 T
2493564 TTTCATTTCT
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
7 1 0.01
8 9 0.11
9 12 0.15
10 33 0.40
11 16 0.20
12 7 0.09
13 4 0.05
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (10 bp):
TCATTTTCTT
Found at i:2493555 original size:20 final size:20
Alignment explanation
Indices: 2493466--2493557 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 20
2493456 TTTTTTCTCA
*
2493466 TTTTTCTTTTATTCTTTTCA-T
1 TTTTTCTTTCATT-TTTT-ATT
2493487 TTTTT-TTTCATTTTTT-TT
1 TTTTTCTTTCATTTTTTATT
* *
2493505 CAATTTT-TTTCATTTTTCATTT
1 --TTTTTCTTTCATTTTTTA-TT
2493527 TCCTTTTCTTTCATTTTTTATT
1 T--TTTTCTTTCATTTTTTATT
2493549 TTTTTCTTT
1 TTTTTCTTT
2493558 TTCTTTTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
18 1 0.02
19 4 0.07
20 28 0.48
21 5 0.09
22 9 0.16
23 11 0.19
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTCTTTCATTTTTTATT
Found at i:2507870 original size:19 final size:19
Alignment explanation
Indices: 2507846--2507882 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2507836 CATTTTGGAG
2507846 GTGCATCAATACATTAAGA
1 GTGCATCAATACATTAAGA
*
2507865 GTGCATCGATACATTAAG
1 GTGCATCAATACATTAAG
2507883 GTATGCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (19 bp):
GTGCATCAATACATTAAGA
Found at i:2508636 original size:23 final size:23
Alignment explanation
Indices: 2508603--2508646 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2508593 GAGTCGAGGG
*
2508603 TCTACGCGGTCCTTTGGGACAAT
1 TCTACGCGGTCCTTGGGGACAAT
*
2508626 TCTACGTGGTCCTTGGGGACA
1 TCTACGCGGTCCTTGGGGACA
2508647 TATATGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.30
Consensus pattern (23 bp):
TCTACGCGGTCCTTGGGGACAAT
Found at i:2510474 original size:23 final size:23
Alignment explanation
Indices: 2510443--2510515 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2510433 ATAGGTAAAA
*
2510443 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
2510466 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
2510489 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
2510512 ATAT
1 ATAT
2510516 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2510965 original size:23 final size:23
Alignment explanation
Indices: 2510934--2511006 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2510924 TTAGGTAAAA
*
2510934 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2510957 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
2510980 ATATAATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
2511003 ATAT
1 ATAT
2511007 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2511063 original size:491 final size:490
Alignment explanation
Indices: 2510021--2511882 Score: 3035
Period size: 491 Copynumber: 3.8 Consensus size: 490
2510011 TTTTTACCTA
* * * * *
2510021 TTATATTATAAAATATCTATCATTTTTATAAAAGCGTTCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
2510086 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
2510151 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
2510216 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATA-TATTTTAT-AAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* * *
2510279 ACAATC-AATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAA
261 ACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
2510343 CACTGTTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAAGAATCGATCCTTTTTAT
326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTT--AAAAAAAGTATCGATCCTTTTTAT
* *
2510408 AAAAAGTATGGATACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
389 AAAAAGTATGGACACTTTCAATATATTAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
* * * *
2510473 GTAATAGATATCGTTTATATAATGTAATAGGTAGTGC
454 GTAATAGGTAACGTTTATATAATGTAATAAGTAGCGC
*
2510510 TTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
2510575 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
2510640 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAAAAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
2510705 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* *
2510770 ATAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAA
261 ACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
2510835 CATTATTAAAAAAAAATTAAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATA
326 CACTATT-AAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATA
2510900 AAAAGTATGGACACTTTCAATATATTAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
390 AAAAGTATGGACACTTTCAATATATTAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
*
2510965 TAATAGGTAGCGTTTATATAATGTAATAAGTAGCGC
455 TAATAGGTAACGTTTATATAATGTAATAAGTAGCGC
* *
2511001 TTATATTGTAAAGTATATATCATTTTTATAAAAGTGTCCATACTTTTTTCGCTGTGGAAAACATT
1 TTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
2511066 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
2511131 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
2511196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
* * *
2511261 ACAATTAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGATGGAAAACATGAAA
261 ACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
2511326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
2511391 AAAGTATGGACACTTTC---A-A-TA--T---AATA-G--GTAA-A---A------ATATAATGT
391 AAAGTATGGACACTTTCAATATATTAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
* *
2511433 AATAGGTAACGCTTATATAATGTAATATGTAGCGC
456 AATAGGTAACGTTTATATAATGTAATAAGTAGCGC
* *
2511468 TTATATTGTAAAGTATTTATCCTTTTTATAGAAGTGTCCATA-TTTATTTCACTGTGGAAAACAT
1 TTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCCATACTTT-TTTCACTGTGGAAAACAT
* * **
2511532 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATCAATTTAGTAATTATATGTATCTAATGA
65 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGA
* * *
2511597 TTTATTTTTTATGTTATGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATA
130 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
*
2511662 TTTATTATTATCTTTGGTTAATATTGTTAAAATTAAATTCTAAATATTATTTTATAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAA
2511727 AACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
*
2511792 ACACTATT--AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATTGATCCTTTTTATA
325 ACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-
* *
2511855 AAAAAGTATGGACATTTTCAACATATTA
389 AAAAAGTATGGACACTTTCAATATATTA
2511883 TAATGTAATA
Statistics
Matches: 1302, Mismatches: 60, Indels: 40
0.93 0.04 0.03
Matches are distributed among these distances:
465 53 0.04
466 21 0.02
467 353 0.27
469 1 0.00
470 1 0.00
471 2 0.00
473 1 0.00
476 1 0.00
477 4 0.00
479 1 0.00
480 4 0.00
483 1 0.00
485 2 0.00
486 1 0.00
487 1 0.00
489 230 0.18
490 82 0.06
491 453 0.35
492 59 0.05
493 31 0.02
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (490 bp):
TTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
ACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
AAAGTATGGACACTTTCAATATATTAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
AATAGGTAACGTTTATATAATGTAATAAGTAGCGC
Found at i:2511454 original size:23 final size:23
Alignment explanation
Indices: 2511424--2511473 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
2511414 ATAGGTAAAA
2511424 ATATAATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAACGCTT
* *
2511447 ATATAATGTAATATGTAGCGCTT
1 ATATAATGTAATAGGTAACGCTT
2511470 ATAT
1 ATAT
2511474 TGTAAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:2511721 original size:958 final size:966
Alignment explanation
Indices: 2510021--2511882 Score: 3097
Period size: 958 Copynumber: 1.9 Consensus size: 966
2510011 TTTTTACCTA
* *
2510021 TTATATTATAAAATATCTATCATTTTTATAAAAGCGTTCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTATAAAATATATATCATTTTTATAAAAGCGTCCATACTTTTTTCACTGTGGAAAACATT
*
2510086 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
2510151 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
2510216 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATATATTTTATAAATATCAAAAC
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATATATTTTATAAATATCAAAAC
* * *
2510281 AATCAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACAC
261 AATAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTATAGATGGAAAACATGAAACAC
*
2510346 TGTTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAAGAATCGATCCTTTTTATAAA
326 TATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAAGAATCGATCCTTTTTATAAA
* * *
2510411 AAGTATGGATACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
390 AAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAACGC-T-TATAA-GTA
*
2510476 ATAGATATCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATTTATCATTTTTATAA
452 ATA-ATATCG----T-TAA-GTAATA-GTAGCGCTTATATTGTAAAGTATTTATCATTTTTATAA
2510541 AAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
509 AAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
* * * *
2510606 GATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTAT
574 AATATCAATTTAGTAATTATAGGTATCTAATGATTTATTTTTTACGTTACGGTATATATTATCAT
*
2510671 TAAATTAAAAACAAAAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAAT
639 TAAATTAAAAACAAAAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAAA
*
2510736 TTAAATTCTAAATATTATTTTATAAAATATCAAAATAATCAAATAATATTTTGTGCAAATGAAAT
704 TTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGCAAATGAAAT
*
2510801 TATTAAATTAATATTGTAGGTGAAAAACATGAAACATTATTAAAAAAAAATTAAAACATAAATTA
769 TATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATT---AAAAAATTAAAACATAAATTA
*
2510866 CATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAATATATTAGGT
831 CATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAACATATTAGGT
2510930 AAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAAG
896 AAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAAG
2510995 TAGCGC
961 TAGCGC
* * * *
2511001 TTATATTGTAAAGTATATATCATTTTTATAAAAGTGTCCATACTTTTTTCGCTGTGGAAAACATT
1 TTATATTATAAAATATATATCATTTTTATAAAAGCGTCCATACTTTTTTCACTGTGGAAAACATT
2511066 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
2511131 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
2511196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATA-TATTTTAT-AAATATCAAA
*
2511261 ACAATTAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGATGGAAAACATGAAA
259 ACAA-TAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTATAGATGGAAAACATGAAA
*
2511326 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTTTATA
323 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGAATCGATCCTTTTTATA
2511390 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAACGC-T-T-A-T-A
388 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAACGCTTATAAGTAA
* *
2511450 T-A-AT-G-TAA-T-AT-GTAGCGCTTATATTGTAAAGTATTTATCCTTTTTATAGAAGTGTCCA
453 TAATATCGTTAAGTAATAGTAGCGCTTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCCA
*
2511508 TA-TTTATTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATCAA
518 TACTTT-TTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATCAA
* * *
2511572 TTTAGTAATTATATGTATCTAATGATTTATTTTTTATGTTATGGTATATATTATCATTAAATTAA
582 TTTAGTAATTATAGGTATCTAATGATTTATTTTTTACGTTACGGTATATATTATCATTAAATTAA
*
2511637 AAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAAATTAAATTC
647 AAACAAAAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAAATTAAATTC
2511702 TAAATATTATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGCAAATGAAATTATTAAAT
712 TAAATATTATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGCAAATGAAATTATTAAAT
* *
2511767 TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAA
777 TAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAATTAAAACATAAATTACATAACTTTAA
* *
2511832 AAAAAGTATTGATCCTTTTTATAAAAAAGTATGGACATTTTCAACATATTA
842 AAAAAGTATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAACATATTA
2511883 TAATGTAATA
Statistics
Matches: 838, Mismatches: 39, Indels: 34
0.92 0.04 0.04
Matches are distributed among these distances:
955 52 0.06
956 26 0.03
957 3 0.00
958 319 0.38
960 2 0.00
961 1 0.00
963 3 0.00
969 1 0.00
970 2 0.00
971 1 0.00
973 2 0.00
974 1 0.00
976 1 0.00
977 1 0.00
978 1 0.00
980 230 0.27
981 84 0.10
982 14 0.02
983 94 0.11
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (966 bp):
TTATATTATAAAATATATATCATTTTTATAAAAGCGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATATATTTTATAAATATCAAAAC
AATAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTATAGATGGAAAACATGAAACAC
TATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGAATCGATCCTTTTTATAAAA
AGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAACGCTTATAAGTAATAA
TATCGTTAAGTAATAGTAGCGCTTATATTGTAAAGTATTTATCATTTTTATAAAAGTGTCCATAC
TTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATCAATTTA
GTAATTATAGGTATCTAATGATTTATTTTTTACGTTACGGTATATATTATCATTAAATTAAAAAC
AAAAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAAATTAAATTCTAAA
TATTATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAAT
ATTGTAGGTGAAAAACATGAAACACTATTAAAAAATTAAAACATAAATTACATAACTTTAAAAAA
AGTATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAACATATTAGGTAAAAATATGATGTAA
TAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAAGTAGCGC
Found at i:2511872 original size:22 final size:22
Alignment explanation
Indices: 2511827--2511872 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
2511817 ATTACATAAC
* *
2511827 TTTAAAAAAAGTATTGATCCTT
1 TTTAAAAAAAGTATGGATCATT
2511849 TTTATAAAAAAGTATGGA-CATT
1 TTTA-AAAAAAGTATGGATCATT
2511871 TT
1 TT
2511873 CAACATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (22 bp):
TTTAAAAAAAGTATGGATCATT
Found at i:2519151 original size:2 final size:2
Alignment explanation
Indices: 2519144--2519169 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2519134 GAAATGTTCT
2519144 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2519170 CTATTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2520172 original size:214 final size:214
Alignment explanation
Indices: 2519803--2520230 Score: 811
Period size: 214 Copynumber: 2.0 Consensus size: 214
2519793 TTGAGTCGAG
*
2519803 TTAAATTTATTTAAATTGACTAGTTAAAATTATGAATTGAACTCGAATTTGAGTCGAGTCAAACC
1 TTAAATTTATTTAAATTGACTAGTTAAAATTATAAATTGAACTCGAATTTGAGTCGAGTCAAACC
* *
2519868 AAATCGATCATTGACCGAATTTTGATAAGTCAAATTTGAACTACTAACAAAATACTCAGTTAACT
66 AAATCGATCATTGACCGAATTTTGATAAGTCAAATTTAAACTACTAACAAAATACACAGTTAACT
2519933 CGTGCACTAGCTACTCAATAATGCTTTTTGGCGAACTATTGGGTATTAAAATACTGTGAACTCAT
131 CGTGCACTAGCTACTCAATAATGCTTTTTGGCGAACTATTGGGTATTAAAATACTGTGAACTCAT
2519998 CAATATTGAGTTGAATGAC
196 CAATATTGAGTTGAATGAC
*
2520017 TTAAATTTATTTAAATTGACTAGTTAAAATTATAAATTGAACTCGAATTTGAGTCGAGTCAAATC
1 TTAAATTTATTTAAATTGACTAGTTAAAATTATAAATTGAACTCGAATTTGAGTCGAGTCAAACC
2520082 AAATCGATCATTGACCGAATTTTGATAAGTCAAATTTAAACTACTAACAAAATACACAGTTAACT
66 AAATCGATCATTGACCGAATTTTGATAAGTCAAATTTAAACTACTAACAAAATACACAGTTAACT
*
2520147 CGTGCACTAGCTACTCAATAATGCTTTTTGGCGATCTATTGGGTATTAAAATACTGTGAACTCAT
131 CGTGCACTAGCTACTCAATAATGCTTTTTGGCGAACTATTGGGTATTAAAATACTGTGAACTCAT
2520212 CAATATTGAGTTGAATGAC
196 CAATATTGAGTTGAATGAC
2520231 ATGCGGGAGT
Statistics
Matches: 209, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
214 209 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (214 bp):
TTAAATTTATTTAAATTGACTAGTTAAAATTATAAATTGAACTCGAATTTGAGTCGAGTCAAACC
AAATCGATCATTGACCGAATTTTGATAAGTCAAATTTAAACTACTAACAAAATACACAGTTAACT
CGTGCACTAGCTACTCAATAATGCTTTTTGGCGAACTATTGGGTATTAAAATACTGTGAACTCAT
CAATATTGAGTTGAATGAC
Found at i:2520334 original size:11 final size:11
Alignment explanation
Indices: 2520301--2520334 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2520291 ATAAAATTAC
2520301 TATATATTTTA
1 TATATATTTTA
* *
2520312 AATATTTTTTA
1 TATATATTTTA
2520323 TATATATTTTA
1 TATATATTTTA
2520334 T
1 T
2520335 TAAAATCTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATATTTTA
Found at i:2523733 original size:21 final size:21
Alignment explanation
Indices: 2523709--2523753 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2523699 AGTAATGAAT
* *
2523709 AGTGTATCGATGCACTGCTAC
1 AGTGTACCGATGCACTACTAC
2523730 AGTGTACCGATGCACTACTAC
1 AGTGTACCGATGCACTACTAC
2523751 AGT
1 AGT
2523754 AATTTCGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (21 bp):
AGTGTACCGATGCACTACTAC
Found at i:2524482 original size:31 final size:31
Alignment explanation
Indices: 2524434--2524589 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
2524424 CTCGAAGGAC
* * *
2524434 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
* *
2524465 CAATCCATATGTCCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2524496 CGGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2524527 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2524558 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2524589 C
1 C
2524590 CCTCGACTCT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2525374 original size:64 final size:65
Alignment explanation
Indices: 2525293--2525427 Score: 175
Period size: 64 Copynumber: 2.1 Consensus size: 65
2525283 ATACCCTATT
* * * *
2525293 TCGAATGCATTAAGTGTACCGATGCATATATCATGCATCAATGCACT-CAGGGT-TTATTGAAAC
1 TCGAATGCATTAAGTGTACCGATGCACAAACCATGCATCAATGCACTCCAGGCTCTT-TTGAAAC
2525356 A
65 A
** * *
2525357 TCGAATGCATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGGCTCTTTTGAAACA
1 TCGAATGCATTAAGTGTACCGATGCACAAACCATGCATCAATGCACTCCAGGCTCTTTTGAAACA
2525422 TCGAAT
1 TCGAAT
2525428 ATAATTAGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 41 0.67
65 18 0.30
66 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTAAGTGTACCGATGCACAAACCATGCATCAATGCACTCCAGGCTCTTTTGAAACA
Found at i:2538248 original size:21 final size:21
Alignment explanation
Indices: 2538218--2538261 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2538208 AATATAAATT
*
2538218 GTGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
2538239 GTGTACCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
2538260 GT
1 GT
2538262 AATTTCGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:2539001 original size:31 final size:31
Alignment explanation
Indices: 2538958--2539098 Score: 169
Period size: 31 Copynumber: 4.5 Consensus size: 31
2538948 CATAGACTCT
* ** *
2538958 GAAGAACCTAGGTAATA-AGTTTATATATCTC
1 GAAGAACATAGGTAA-ACAGTCCATATATCCC
* * *
2538989 TAAGAACATAGGTAATCAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATATCCC
2539020 GAAGAACATAGGTAAACAGTCCATATGA-CCC
1 GAAGAACATAGGTAAACAGTCCATAT-ATCCC
* *
2539051 GAAGAACATAAGTAAACAGTCTATATATCCC
1 GAAGAACATAGGTAAACAGTCCATATATCCC
2539082 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
2539099 CCTCGACTCT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
30 1 0.01
31 93 0.99
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATATCCC
Found at i:2540416 original size:31 final size:31
Alignment explanation
Indices: 2540378--2540471 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
2540368 TTATATAAGT
2540378 TATGTGATAAAGGTATGGAAAATGATATGTC
1 TATGTGATAAAGGTATGGAAAATGATATGTC
2540409 TATGTGATAAAGGTATGGAAAATGATATGTC
1 TATGTGATAAAGGTATGGAAAATGATATGTC
2540440 TATGTGATAAAGGTATGG-AAATGATATGTC
1 TATGTGATAAAGGTATGGAAAATGATATGTC
2540470 TA
1 TA
2540472 AGCGATATAA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 14 0.22
31 49 0.78
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (31 bp):
TATGTGATAAAGGTATGGAAAATGATATGTC
Found at i:2540747 original size:23 final size:23
Alignment explanation
Indices: 2540713--2540798 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 23
2540703 ACATATTATA
*
2540713 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
2540736 TGGCACTTCGGTGC-ATTCCTACA
1 TGGCACTTCGGTGCAATT-CTACG
* *
2540759 CGGTC-CTTCGG-GACAAATTCTATG
1 TGG-CACTTCGGTG-C-AATTCTACG
2540783 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
2540799 ATTTATACGA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
22 4 0.08
23 29 0.58
24 13 0.26
25 4 0.08
ACGTcount: A:0.20, C:0.27, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:2545394 original size:29 final size:28
Alignment explanation
Indices: 2545341--2545395 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
2545331 TGGTTGGTTG
* *
2545341 AATAATTTTTTAATAATTACAACAAATT
1 AATAATTTTTCAAAAATTACAACAAATT
*
2545369 AATAATTTTGTCAAAAATTACTACAAA
1 AATAATTTT-TCAAAAATTACAACAAA
2545396 AGTGCAAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (28 bp):
AATAATTTTTCAAAAATTACAACAAATT
Found at i:2548532 original size:30 final size:31
Alignment explanation
Indices: 2548498--2548565 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 31
2548488 AATTTTAAGG
2548498 TCCAAATGGC-TATTTATTTAATTAACGATC
1 TCCAAATGGCATATTTATTTAATTAACGATC
*
2548528 TCC-AATGGCATATTTATTTAATTAAGGATC
1 TCCAAATGGCATATTTATTTAATTAACGATC
2548558 TCCAAATG
1 TCCAAATG
2548566 TCTAGGTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 6 0.17
30 25 0.71
31 4 0.11
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (31 bp):
TCCAAATGGCATATTTATTTAATTAACGATC
Found at i:2552391 original size:178 final size:179
Alignment explanation
Indices: 2552064--2552417 Score: 685
Period size: 178 Copynumber: 2.0 Consensus size: 179
2552054 ATGATATATA
2552064 CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
1 CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
2552129 GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTCTTTGCACTTGT
66 GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTCTTTGCACTTGT
2552194 TTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTTTTT
131 TTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTTTTT
2552243 CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTA-
1 CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
2552307 GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTTCTTTGCAC-TG
66 GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAA-TTTCTTTGCACTTG
2552371 TTTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTT
130 TTTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTT
2552418 GCCCCTTGAT
Statistics
Matches: 174, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
178 99 0.57
179 75 0.43
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (179 bp):
CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTCTTTGCACTTGT
TTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTTTTT
Found at i:2553276 original size:87 final size:89
Alignment explanation
Indices: 2553174--2553343 Score: 238
Period size: 91 Copynumber: 1.9 Consensus size: 89
2553164 GATTTGAAAG
*
2553174 GAACAAGTTCTTCTCATTATGAACTT-TATC-CTT-TAGGATGAGTTCTTCTCATTATGAGCTCT
1 GAACAAGTTCTTCTCATTATGAACTTCT-TCTCTTCTAGGATGAGTTCTTCTCATTATGAACTCT
*
2553236 CCATTGAAAATGTTGATGCGAAGTT
65 CCACTGAAAATGTTGATGCGAAGTT
**
2553261 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCGTTTGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTCTTC-TCTTC-TAGGATGAGTTCTTCTCATTATGAACTC
* *
2553326 TTCACTGGAAATGTTGAT
64 TCCACTGAAAATGTTGAT
2553344 CCCTCAAGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
87 28 0.39
88 1 0.01
89 3 0.04
91 40 0.56
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (89 bp):
GAACAAGTTCTTCTCATTATGAACTTCTTCTCTTCTAGGATGAGTTCTTCTCATTATGAACTCTC
CACTGAAAATGTTGATGCGAAGTT
Found at i:2553504 original size:136 final size:136
Alignment explanation
Indices: 2553261--2553609 Score: 547
Period size: 136 Copynumber: 2.6 Consensus size: 136
2553251 ATGCGAAGTT
* * * **
2553261 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTC-GTTTGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * ** * * *
2553325 CTTCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTATGAATCGAGTGA
66 CTCCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGA
2553390 TAGGTC
131 TAGGTC
2553396 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * *
2553461 ATCCATTGGAAATACTGATCCTTCAAGCAAGGTGTCACTGATTCAAAATGTCGTGAATCTAGTGA
66 CTCCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGA
2553526 TAGGTC
131 TAGGTC
2553532 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
2553597 CTCCATTGGAAAT
66 CTCCATTGGAAAT
2553610 GTTGGTTCAC
Statistics
Matches: 196, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
135 33 0.17
136 163 0.83
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (136 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGA
TAGGTC
Found at i:2554521 original size:6 final size:7
Alignment explanation
Indices: 2554491--2554572 Score: 57
Period size: 7 Copynumber: 11.7 Consensus size: 7
2554481 CTCTTTTTAT
2554491 TTTTTCA
1 TTTTTCA
2554498 TTTCTT--
1 TTT-TTCA
2554504 TTTTTCA
1 TTTTTCA
2554511 TTTTTCA
1 TTTTTCA
*
2554518 TTTTTTTCT
1 --TTTTTCA
2554527 TTTTTCA
1 TTTTTCA
2554534 TTTTT--
1 TTTTTCA
2554539 TTTTT-A
1 TTTTTCA
2554545 TTTTTCA
1 TTTTTCA
*
2554552 TCTTTTTA
1 T-TTTTCA
*
2554560 TTTGTTCC
1 TTT-TTCA
2554568 TTTTT
1 TTTTT
2554573 TTTTTCTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
5 7 0.11
6 8 0.13
7 27 0.44
8 13 0.21
9 6 0.10
ACGTcount: A:0.09, C:0.12, G:0.01, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:2554523 original size:16 final size:16
Alignment explanation
Indices: 2554490--2554574 Score: 79
Period size: 16 Copynumber: 5.4 Consensus size: 16
2554480 TCTCTTTTTA
2554490 TTTTTTCA--TTTC-T
1 TTTTTTCATTTTTCAT
2554503 TTTTTTCATTTTTCAT
1 TTTTTTCATTTTTCAT
*
2554519 TTTTTTCTTTTTTCATTT
1 TTTTTTCATTTTTCA--T
*
2554537 TTTTTTTATTTTTCAT
1 TTTTTTCATTTTTCAT
* *
2554553 CTTTTT-ATTTGTTCCT
1 TTTTTTCATTT-TTCAT
2554569 TTTTTT
1 TTTTTT
2554575 TTTCTTCAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.13
15 8 0.13
16 30 0.50
18 14 0.23
ACGTcount: A:0.08, C:0.12, G:0.01, T:0.79
Consensus pattern (16 bp):
TTTTTTCATTTTTCAT
Found at i:2554577 original size:34 final size:35
Alignment explanation
Indices: 2554476--2554578 Score: 147
Period size: 34 Copynumber: 3.0 Consensus size: 35
2554466 CAAACCCTCC
2554476 TTTTTC-TCTTTTTATTTTTTCATTTCTTTTTTTCA
1 TTTTTCATCTTTTTATTTTTTCATTT-TTTTTTTCA
* *
2554511 TTTTTCATTTTTTTCTTTTTTCATTTTTTTTTT-A
1 TTTTTCATCTTTTTATTTTTTCATTTTTTTTTTCA
* *
2554545 TTTTTCATCTTTTTATTTGTTCCTTTTTTTTTTC
1 TTTTTCATCTTTTTATTTTTTCATTTTTTTTTTC
2554579 TTCAAGCATA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
34 30 0.50
35 13 0.22
36 17 0.28
ACGTcount: A:0.08, C:0.13, G:0.01, T:0.79
Consensus pattern (35 bp):
TTTTTCATCTTTTTATTTTTTCATTTTTTTTTTCA
Found at i:2567770 original size:179 final size:179
Alignment explanation
Indices: 2567470--2567826 Score: 714
Period size: 179 Copynumber: 2.0 Consensus size: 179
2567460 ATGATATATA
2567470 CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
1 CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
2567535 GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTTCTTTGCACTTG
66 GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTTCTTTGCACTTG
2567600 TTTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTTTT
131 TTTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTTTT
2567649 CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
1 CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
2567714 GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTTCTTTGCACTTG
66 GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTTCTTTGCACTTG
2567779 TTTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTTT
131 TTTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTTT
2567827 GCCCCCTTGA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 178 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (179 bp):
CCTTTAAAGGAAAACTTTGTTCAGTATTCTATTTTTGCATGAGATTTATCTATTACAACGATTAT
GCTTTTCTTCAATGGATGCCGAGTAAACTGTTACAAGCGATCTCTCTAAATTTTCTTTGCACTTG
TTTTTTCATCACTGAGCCCCCTCTGTGTACACTGATTTTTTTTTTTTTT
Found at i:2575808 original size:23 final size:23
Alignment explanation
Indices: 2575777--2575846 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
2575767 AGAATAATTA
*
2575777 TGTCTTTGTGATATGTTTATCTC
1 TGTCTTTGTGAAATGTTTATCTC
* *
2575800 T-TCTTTTGTAAAAAGTTTATCTC
1 TGTC-TTTGTGAAATGTTTATCTC
** *
2575823 TGTCTTTGTGGCATGTTTTTCTC
1 TGTCTTTGTGAAATGTTTATCTC
2575846 T
1 T
2575847 ACCTTTTGGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
22 2 0.05
23 33 0.89
24 2 0.05
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.56
Consensus pattern (23 bp):
TGTCTTTGTGAAATGTTTATCTC
Found at i:2576386 original size:26 final size:26
Alignment explanation
Indices: 2576357--2576414 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
2576347 CTTATACGTA
* * *
2576357 ATATTTAAAAAGCATAATATATATAT
1 ATATATAAAAAGAATAATAAATATAT
**
2576383 ATATATATGAAGAATAATAAATATAT
1 ATATATAAAAAGAATAATAAATATAT
2576409 AT-TATA
1 ATATATA
2576415 GAAGTTAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (26 bp):
ATATATAAAAAGAATAATAAATATAT
Found at i:2576455 original size:18 final size:18
Alignment explanation
Indices: 2576432--2576466 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2576422 GAAGGTACAT
*
2576432 ATACATATAAAATAAGAC
1 ATACATATAAAACAAGAC
2576450 ATACATATAAAACAAGA
1 ATACATATAAAACAAGA
2576467 AACATGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (18 bp):
ATACATATAAAACAAGAC
Found at i:2577803 original size:2 final size:2
Alignment explanation
Indices: 2577796--2577823 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2577786 GACGTTAGTT
2577796 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2577824 AAATAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2587801 original size:20 final size:20
Alignment explanation
Indices: 2587747--2587802 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2587737 CAACACGAAC
* *
2587747 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACTCAGTT
*
2587767 TCCAAATTCGCAACTTAGTT
1 TCCAAATTCGCAACTCAGTT
*
2587787 TTCAAATTCGCAACTC
1 TCCAAATTCGCAACTC
2587803 GAATTCGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (20 bp):
TCCAAATTCGCAACTCAGTT
Found at i:2588713 original size:40 final size:40
Alignment explanation
Indices: 2588668--2588810 Score: 261
Period size: 40 Copynumber: 3.6 Consensus size: 40
2588658 TGGACTCGTA
*
2588668 AAAATTTATTATATATAATAAATTTAAAAATAATTTTTAG
1 AAAATTTATTATATATAATAAATTTAAAAATAATTTTCAG
2588708 AAAATTTATTATATATAATAAATTTAAAAATAATTTTCAG
1 AAAATTTATTATATATAATAAATTTAAAAATAATTTTCAG
2588748 AAAATTTATTATATATAATAAATTTAAAAATAATTTTCAG
1 AAAATTTATTATATATAATAAATTTAAAAATAATTTTCAG
2588788 AAAATTTATTATATAATAA-AAAT
1 AAAATTTATTATAT-ATAATAAAT
2588811 GAATGGTCAA
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
40 97 0.96
41 4 0.04
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (40 bp):
AAAATTTATTATATATAATAAATTTAAAAATAATTTTCAG
Found at i:2595712 original size:23 final size:23
Alignment explanation
Indices: 2595616--2595705 Score: 108
Period size: 23 Copynumber: 3.9 Consensus size: 23
2595606 TGTTTGTTTA
* * *
2595616 TTTAACGTTCATGAACGTGTTCG
1 TTTAACGTTCGTAAACATGTTCG
* * * *
2595639 TTTATATGTTAGTGAATATGTTCG
1 TTTA-ACGTTCGTAAACATGTTCG
2595663 TTTAACGTTCGTAAACATGTTCG
1 TTTAACGTTCGTAAACATGTTCG
2595686 TTTAACGTTCGTAAACATGT
1 TTTAACGTTCGTAAACATGT
2595706 GTGTTTAGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 39 0.68
24 18 0.32
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (23 bp):
TTTAACGTTCGTAAACATGTTCG
Found at i:2595723 original size:34 final size:34
Alignment explanation
Indices: 2595680--2595778 Score: 123
Period size: 34 Copynumber: 3.0 Consensus size: 34
2595670 TTCGTAAACA
*
2595680 TGTTCGTTTAACGTTCGTAAACATGTGT-GTTTAG
1 TGTTCGTTTAACGTTCGTGAACATGT-TCGTTTAG
* * *
2595714 TGTTTGTTTAACATTCATGAACATGTTCGTTTAG
1 TGTTCGTTTAACGTTCGTGAACATGTTCGTTTAG
*
2595748 TGTTCGTATAACGTTCGTGAACA--TTCGTTTA
1 TGTTCGTTTAACGTTCGTGAACATGTTCGTTTA
2595779 TATATGTTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
32 8 0.14
33 1 0.02
34 47 0.84
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (34 bp):
TGTTCGTTTAACGTTCGTGAACATGTTCGTTTAG
Found at i:2598246 original size:99 final size:100
Alignment explanation
Indices: 2598099--2598709 Score: 365
Period size: 99 Copynumber: 6.1 Consensus size: 100
2598089 TCCACTATCA
* * * *
2598099 TTCAGGGGAGATCAGACTTAAGAAATCTTTAG-AAAACGGTCTGCTCCACTCTTTTTTTAGGAAG
1 TTCA-GGGAGATAAGACTTAAGAAATCTTT-GTAAAA-GATCTGCTCCACTCTTCTTTCAGGAAG
*
2598163 ATAAGATCCAAGGGAAGAC-AATCTGCTCCA-TGCTTCT
63 ATAAGATCCAAGGGAAAACGAATCTGCTCCACT-CTTCT
* * *
2598200 TTTAGGGAGATAAGAC-TCAGAAATCTTTGTAAAAGATCTGCTTCCACTCTTCTTTCAGGGAGAT
1 TTCAGGGAGATAAGACTTAAGAAATCTTTGTAAAAGATCTGC-TCCACTCTTCTTTCAGGAAGAT
* * *
2598264 ATGATTCAAGGGAAAACGAATCTGTTCCACTCTTCT
65 AAGATCCAAGGGAAAACGAATCTGCTCCACTCTTCT
* * *
2598300 TTCAGGGAGATAAGACTTAAGAAATCTTTGTAAAACATATGCTCCACTCTTCTTCCAGTG-AGAT
1 TTCAGGGAGATAAGACTTAAGAAATCTTTGTAAAAGATCTGCTCCACTCTTCTTTCAG-GAAGAT
* * * ** * *
2598364 AAGACTCGAGAAATCTTGTAAAACGGGTATGCTCCACTATT-T
65 AAGA-TC---CAA---GGGAAAACGAATCTGCTCCACTCTTCT
* * * ** *
2598406 TT-AGGGAGATACGA-TCCAAGGGAA-----G-ACGA-ATCTGCTCCACTCTTCTTTCAGGGAGA
1 TTCAGGGAGATAAGACT-TAA-GAAATCTTTGTAAAAGATCTGCTCCACTCTTCTTTCAGGAAGA
* * * *
2598462 TAAGACTCAAAATCTTTGTAAAACGGATCTGCTCCA-TCTTCT
64 TAAGA-TC-CAA----GGGAAAACGAATCTGCTCCACTCTTCT
* *** * * * *
2598504 TTAAGGGAGAT---AC-TATCCAA----GGGAAGATGAATCT--TCCACTCTTCTTTCAGGGAGA
1 TTCAGGGAGATAAGACTTAAGAAATCTTTGTAA-AAG-ATCTGCTCCACTCTTCTTTCAGGAAGA
* * * *
2598559 TATGATCCAAGGGAAGACGAATCTTCTCTACTCTTCT
64 TAAGATCCAAGGGAAAACGAATCTGCTCCACTCTTCT
** * *
2598596 TTCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCAGGGAGA
1 TTCAGGGAGATAAGACTTAAGAAATCTTTGTAAAA--GATCTGCTCCACTCTTCTTTCAGGAAGA
* * *
2598661 TATGATCCAAGGGAAGACGAATCTGGTCCACTCTTCT
64 TAAGATCCAAGGGAAAACGAATCTGCTCCACTCTTCT
2598698 TTCAGGGAGATA
1 TTCAGGGAGATA
2598710 TGATCCAAGG
Statistics
Matches: 406, Mismatches: 66, Indels: 75
0.74 0.12 0.14
Matches are distributed among these distances:
91 14 0.03
92 16 0.04
94 2 0.00
95 6 0.01
96 6 0.01
97 31 0.08
98 30 0.07
99 92 0.23
100 72 0.18
101 30 0.07
102 67 0.17
104 3 0.01
105 13 0.03
106 6 0.01
107 18 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (100 bp):
TTCAGGGAGATAAGACTTAAGAAATCTTTGTAAAAGATCTGCTCCACTCTTCTTTCAGGAAGATA
AGATCCAAGGGAAAACGAATCTGCTCCACTCTTCT
Found at i:2598305 original size:47 final size:47
Alignment explanation
Indices: 2598130--2598857 Score: 406
Period size: 47 Copynumber: 14.8 Consensus size: 47
2598120 GAAATCTTTA
* * * * *
2598130 GAAAACG-GTCTGCTCCACTCTTTTTTTAGGAAGATAAGATCCAAGG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
* * * * *
2598176 GAAGAC-AATCTGCTCCA-TGCTTCTTTTAGGGAGATAAGACTCAGAAATCTTTG
1 GAAAACGAATCTGCTCCACT-CTTCTTTCAGGGAGATATGA-TC--CAA----GG
* *
2598229 TAAAA-G-ATCTGCTTCCACTCTTCTTTCAGGGAGATATGATTCAAGG
1 GAAAACGAATCTGC-TCCACTCTTCTTTCAGGGAGATATGATCCAAGG
* * *
2598275 GAAAACGAATCTGTTCCACTCTTCTTTCAGGGAGATAAGA-CTTAA--
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGATC-CAAGG
* * * * * * *
2598320 GAAATCTTTGTAAAACATATGCTCCACTCTTCTTCCAGTGAGATAAGACTCGAGAAATCTTG
1 GAAAAC---G----A-ATCTGCTCCACTCTTCTTTCAGGGAGATATGA-TC---CAA---GG
* ** * * *
2598382 TAAAACGGGTATGCTCCACTATT-TTT-AGGGAGATACGATCCAAGG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
* * * *
2598427 GAAGACGAATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCTTTG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGA-TC-CAA----GG
* * *
2598480 TAAAACGGATCTGCTCCA-TCTTCTTTAAGGGAGATACT-ATCCAAGG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATA-TGATCCAAGG
* *
2598526 GAAGATGAATCT--TCCACTCTTCTTTCAGGGAGATATGATCCAAGG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
* * * * * *
2598571 GAAGACGAATCTTCTCTACTCTTCTTTCAGGGAGATAAGACTCGATAAATCTTTG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGA-TC---CAA----GG
* *
2598626 TAAAACGGATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
* *
2598673 GAAGACGAATCTGGTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
* * * * *
2598720 GAAGACGAATCTTCTCCACTCTTCTTTCAGGGAGATAAGACTCGATAAATCTTTG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGA-TC---CAA----GG
* *
2598775 TAAAACGGATCTGCTCCACTCTTCTTTCA-GGAGATATGATCCAAGG
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
* * *
2598821 GAAGACGAATCTGCTCCAATCTTCTTTTAGGGAGATA
1 GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATA
2598858 AGACTCGAGA
Statistics
Matches: 530, Mismatches: 90, Indels: 123
0.71 0.12 0.17
Matches are distributed among these distances:
44 5 0.01
45 60 0.11
46 74 0.14
47 153 0.29
48 14 0.03
49 4 0.01
50 6 0.01
51 10 0.02
52 36 0.07
53 74 0.14
54 25 0.05
55 62 0.12
57 2 0.00
59 1 0.00
62 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (47 bp):
GAAAACGAATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGG
Found at i:2598384 original size:52 final size:54
Alignment explanation
Indices: 2598289--2598515 Score: 171
Period size: 53 Copynumber: 4.4 Consensus size: 54
2598279 ACGAATCTGT
* *
2598289 TCCACTCTTCTTTCAGGGAGATAAGACTTAAGAAATCTTTGTAAAAC-ATATGC
1 TCCACTCTTCTTCCAGGGAGATAAGACTCAAGAAATCTTTGTAAAACGATATGC
* * *
2598342 TCCACTCTTCTTCCAGTGAGATAAGACTCGAGAAATC-TTGTAAAACGGGTATGC
1 TCCACTCTTCTTCCAGGGAGATAAGACTCAAGAAATCTTTGTAAAAC-GATATGC
* * * * * *
2598396 TCCACTATT-TT-TAGGGAGATACGA-TCCAAG--------GGAAGACGAATCTGC
1 TCCACTCTTCTTCCAGGGAGATAAGACT-CAAGAAATCTTTGTAAAACG-ATATGC
* *
2598441 TCCACTCTTCTTTCAGGGAGATAAGACTC-A-AAATCTTTGTAAAACGGATCTGC
1 TCCACTCTTCTTCCAGGGAGATAAGACTCAAGAAATCTTTGTAAAAC-GATATGC
**
2598494 TCCA-TCTTCTTTAAGGGAGATA
1 TCCACTCTTCTTCCAGGGAGATA
2598516 CTATCCAAGG
Statistics
Matches: 138, Mismatches: 20, Indels: 33
0.72 0.10 0.17
Matches are distributed among these distances:
44 1 0.01
45 17 0.12
46 3 0.02
47 12 0.09
48 1 0.01
51 1 0.01
52 39 0.28
53 50 0.36
54 14 0.10
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (54 bp):
TCCACTCTTCTTCCAGGGAGATAAGACTCAAGAAATCTTTGTAAAACGATATGC
Found at i:2598726 original size:149 final size:149
Alignment explanation
Indices: 2598235--2598857 Score: 847
Period size: 149 Copynumber: 4.2 Consensus size: 149
2598225 TTTGTAAAAG
* *
2598235 ATCTGCTTCCACTCTTCTTTCAGGGAGATATGATTCAAGGGAAAACGAATCTGT-TCCACTCTTC
1 ATCTGC-TCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCT-TCTCCACTCTTC
** * * * *
2598299 TTTCAGGGAGATAAGACTTAAGAAATCTTTGTAAAAC--ATATGCTCCACTCTTCTTCCAGTGAG
64 TTTCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCAGGGAG
* * * * * *
2598362 ATAAGACTCGAGAAATCTTGTAAAACGG
129 ATATGA-TC---CAA---GGGAAGACGA
* * * * *
2598390 GTATGCTCCACTATT-TTT-AGGGAGATACGATCCAAGGGAAGACGAATCTGCTCCACTCTTCTT
1 ATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTTCTCCACTCTTCTT
*
2598453 TCAGGGAGATAAGACTC-A-AAATCTTTGTAAAACGGATCTGCTCCA-TCTTCTTTAAGGGAGAT
66 TCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCAGGGAGAT
*
2598515 ACT-ATCCAAGGGAAGATGA
131 A-TGATCCAAGGGAAGACGA
*
2598534 ATCT--TCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTTCTCTACTCTTCTT
1 ATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTTCTCCACTCTTCTT
2598597 TCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCAGGGAGAT
66 TCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCAGGGAGAT
2598662 ATGATCCAAGGGAAGACGA
131 ATGATCCAAGGGAAGACGA
*
2598681 ATCTGGTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTTCTCCACTCTTCTT
1 ATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTTCTCCACTCTTCTT
2598746 TCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCA-GGAGAT
66 TCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCAGGGAGAT
2598810 ATGATCCAAGGGAAGACGA
131 ATGATCCAAGGGAAGACGA
* *
2598829 ATCTGCTCCAATCTTCTTTTAGGGAGATA
1 ATCTGCTCCACTCTTCTTTCAGGGAGATA
2598858 AGACTCGAGA
Statistics
Matches: 425, Mismatches: 31, Indels: 31
0.87 0.06 0.06
Matches are distributed among these distances:
142 8 0.02
143 3 0.01
144 66 0.16
145 1 0.00
146 28 0.07
147 38 0.09
148 51 0.12
149 116 0.27
150 17 0.04
151 17 0.04
152 65 0.15
153 3 0.01
154 8 0.02
155 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (149 bp):
ATCTGCTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTTCTCCACTCTTCTT
TCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCAGGGAGAT
ATGATCCAAGGGAAGACGA
Found at i:2598800 original size:296 final size:291
Alignment explanation
Indices: 2598240--2598857 Score: 832
Period size: 296 Copynumber: 2.1 Consensus size: 291
2598230 AAAAGATCTG
*
2598240 CTTCCACTCTTCTTTCAGGGAGATATGATTCAAGGGAAAACGAATCTGTTCCACTCTTCTTTCAG
1 CTTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAAACGAATCTGTTCCACTCTTCTTTCAG
* *
2598305 GGAGATAAGACTTAAGAAATCTTTGTAAAACATATGCTCCACTCTTCTTCCAGTGAGATAAGACT
66 GGAGATAAGACTCAAGAAATCTTTGTAAAACATATGCTCCACTCTTCTTCCAGGGAGATAAGACT
* * **
2598370 CGAGAAATCTTGTAAAACGGGTATGCTCCACTATTTTTAGGGAGATACGATCCAAGGGAAGACGA
131 C--GAAA--TGGGAAAACGAATATGCTCCACTATTTTTAGGGAGATACGATCCAAGGGAAGACGA
2598435 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCTTTGTAAAACGGATCTGCTCCATC
192 ATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCTTTGTAAAACGGATCTGCTCCATC
*
2598500 TTCTTTAAGGGAGATACT-ATCCAAGGGAAGATGAAT
257 TTCTTTAA-GGAGATA-TGATCCAAGGGAAGACGAAT
* *
2598536 CTTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCT-TCTCTACTCTTCTTTCA
1 CTTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAAACGAATCTGT-TCCACTCTTCTTTCA
* * * * *
2598600 GGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCCACTCTTCTTTCAGGGAGATATG
65 GGGAGATAAGACTCAAGAAATCTTTGTAAAAC--ATATGCTCCACTCTTCTTCCAGGGAGATAAG
* * * * * *
2598665 A-TC-CAA-GGGAAGACGAATCTGGTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACG
128 ACTCGAAATGGGAAAACGAATATGCTCCACTATT-TTT-AGGGAGATACGATCCAAGGGAAGACG
*
2598727 AATCTTCTCCACTCTTCTTTCAGGGAGATAAGACTCGATAAATCTTTGTAAAACGGATCTGCTCC
191 AATCTGCTCCACTCTTCTTTCAGGGAGATAAGACTC-A-AAATCTTTGTAAAACGGATCTGCTCC
*
2598792 ACTCTTCTTTCAGGAGATATGATCCAAGGGAAGACGAAT
254 A-TCTTCTTTAAGGAGATATGATCCAAGGGAAGACGAAT
* *
2598831 CTGCTCCAATCTTCTTTTAGGGAGATA
1 CT--TCCACTCTTCTTTCAGGGAGATA
2598858 AGACTCGAGA
Statistics
Matches: 286, Mismatches: 25, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
291 17 0.06
292 3 0.01
293 60 0.21
294 4 0.01
295 54 0.19
296 97 0.34
297 23 0.08
298 28 0.10
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (291 bp):
CTTCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAAACGAATCTGTTCCACTCTTCTTTCAG
GGAGATAAGACTCAAGAAATCTTTGTAAAACATATGCTCCACTCTTCTTCCAGGGAGATAAGACT
CGAAATGGGAAAACGAATATGCTCCACTATTTTTAGGGAGATACGATCCAAGGGAAGACGAATCT
GCTCCACTCTTCTTTCAGGGAGATAAGACTCAAAATCTTTGTAAAACGGATCTGCTCCATCTTCT
TTAAGGAGATATGATCCAAGGGAAGACGAAT
Found at i:2598909 original size:101 final size:102
Alignment explanation
Indices: 2598687--2598911 Score: 373
Period size: 101 Copynumber: 2.2 Consensus size: 102
2598677 ACGAATCTGG
* *
2598687 TCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTTCTCCACTCTTCTTTCAGGG
1 TCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTGCTCCAATCTTCTTTCAGGG
*
2598752 AGATAAGACTCGATAAATCTTTGTAAAACGGATCTGC
66 AGATAAGACTCGATAAATCTTTGTAAAACGGATATGC
*
2598789 TCCACTCTTCTTTCA-GGAGATATGATCCAAGGGAAGACGAATCTGCTCCAATCTTCTTTTAGGG
1 TCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTGCTCCAATCTTCTTTCAGGG
* *
2598853 AGATAAGACTCGA-GAATCTTTGTAAAACGGATATTC
66 AGATAAGACTCGATAAATCTTTGTAAAACGGATATGC
*
2598889 TCCACTCTTCTTTTAGGGAGATA
1 TCCACTCTTCTTTCAGGGAGATA
2598912 AGACTCGAGA
Statistics
Matches: 115, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
100 34 0.30
101 66 0.57
102 15 0.13
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (102 bp):
TCCACTCTTCTTTCAGGGAGATATGATCCAAGGGAAGACGAATCTGCTCCAATCTTCTTTCAGGG
AGATAAGACTCGATAAATCTTTGTAAAACGGATATGC
Found at i:2599140 original size:2 final size:2
Alignment explanation
Indices: 2599129--2599172 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
2599119 ATTTCACAAG
2599129 TA TA -A TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2599169 TA TA
1 TA TA
2599173 CATAAGAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2603695 original size:27 final size:27
Alignment explanation
Indices: 2603665--2603722 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
2603655 CTTTATTGAC
2603665 TTTAATCCCA-AAAACAACAAATATGAA
1 TTTAATCCCATAAAAC-ACAAATATGAA
*
2603692 TTTAATCCCATAAAACACAAATATGAT
1 TTTAATCCCATAAAACACAAATATGAA
2603719 TTTA
1 TTTA
2603723 CAATATTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.29
Consensus pattern (27 bp):
TTTAATCCCATAAAACACAAATATGAA
Found at i:2604930 original size:12 final size:12
Alignment explanation
Indices: 2604912--2604947 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2604902 TATATGTGTT
2604912 CATGTGATATGA
1 CATGTGATATGA
*
2604924 TATGTGATATGA
1 CATGTGATATGA
*
2604936 CCTGTGATATGA
1 CATGTGATATGA
2604948 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:2611674 original size:12 final size:12
Alignment explanation
Indices: 2611656--2611691 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2611646 TATATGTGTT
2611656 CATGTGATATGA
1 CATGTGATATGA
*
2611668 TATGTGATATGA
1 CATGTGATATGA
*
2611680 CCTGTGATATGA
1 CATGTGATATGA
2611692 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:2614589 original size:53 final size:53
Alignment explanation
Indices: 2614471--2614830 Score: 395
Period size: 53 Copynumber: 6.8 Consensus size: 53
2614461 ACGGGTATGT
* **** *
2614471 TCCCTCTTG-TTCAGGGATTAAGGAACTCGAACAATCTTCTAAAAAATGGGTTCGC
1 TCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCT-GCCTACGGGTTCGC
* * * *
2614526 TCCCTATTGCTTCAGGGAGTAGAACTTGAACAATCTTC-GACC-AGTGGGTTCAC
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG-CCTA-CGGGTTCGC
* * **
2614579 TCCCTCTTGCTTCAGGGAGTAGAACTTGAACGATCTTCTGTTTACGGGTTCGC
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGC
** * ** * *
2614632 TTTCACTTGCTTCAAAGATTA-AGACTCGAACAATCTTCTGCCTACGGGTTTGC
1 TCCCTCTTGCTTCAGGGAGTAGA-ACTCGAACAATCTTCTGCCTACGGGTTCGC
* * * *
2614685 TCCCTCTTACTTCAGGGAGTAGAACTCGAATAATATTTTGCCTACGGGTTCGC
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGC
* *
2614738 TCCCTCTTGCTTCAGGGAGTAGAACTTGAACAATCTTCTGCCTACGGGTTAGC
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGC
2614791 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1 TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
2614831 GTTTGATTCT
Statistics
Matches: 256, Mismatches: 42, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.01
53 217 0.85
54 19 0.07
55 9 0.04
56 9 0.04
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (53 bp):
TCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGC
Found at i:2615379 original size:42 final size:41
Alignment explanation
Indices: 2615333--2615457 Score: 189
Period size: 42 Copynumber: 3.0 Consensus size: 41
2615323 TTACAAATTA
2615333 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTT-ATCATCATGCTCGAAAGACTTACTGATGG
*
2615375 CCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGA-TTTATCATCATGCTCGAAAGACTTACTGATGG
*
2615417 CCCGAAGGACTTTATCATCATGCTCGGAAA-ACTTATTGATG
1 CCCGAAGGA-TTTATCATCATGCTC-GAAAGACTTACTGATG
2615458 AATTTGCTTC
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
42 72 0.92
43 6 0.08
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
CCCGAAGGATTTATCATCATGCTCGAAAGACTTACTGATGG
Found at i:2615385 original size:20 final size:20
Alignment explanation
Indices: 2615357--2615428 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
2615347 TCATCATGCT
2615357 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
* * *
2615377 CGAAGGACTTCATCATCAT-GCT
1 CGAAAGACTT-A-C-TGATGGCC
2615399 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
*
2615419 CGAAGGACTT
1 CGAAAGACTT
2615429 TATCATCATG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 3 0.07
20 21 0.51
21 2 0.05
22 12 0.29
23 3 0.07
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:2615481 original size:164 final size:163
Alignment explanation
Indices: 2615208--2615539 Score: 524
Period size: 164 Copynumber: 2.0 Consensus size: 163
2615198 AAGGCTTAAA
*
2615208 ATGGCCCGAAGGACTTATCAACTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTCATCATCA
1 ATGGCCCGAAGGACTTATCAACATGCTCGAAAGACTTACAAATGACCCGAAGGATTTCATCATCA
* * * * *
2615273 TTCTCAAAAGACTTATTGATGGATTTGCTTCTCTACTCTTCGGTGAAGGCTTACAAATTACCCGA
66 TGCTCAAAAGACTTATTGATGAATTTGCTTCACTACTATTCGGTGAAGGCCTACAAATTACCCGA
2615338 AGGATTTAATCATCATGCTCGAAAGACTTACTG
131 AGGATTTAATCATCATGCTCGAAAGACTTACTG
* ** *
2615371 ATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTT-ATCAT
1 ATGGCCCGAAGGACTT-ATCAACATGCTCGAAAGACTTACAAATGACCCGAAGGA-TTTCATCAT
*
2615435 CATGCTCGGAAA-ACTTATTGATGAATTTGCTTCACTACTATTCGGTGAAGGCCTACAAATTACC
64 CATGCTC-AAAAGACTTATTGATGAATTTGCTTCACTACTATTCGGTGAAGGCCTACAAATTACC
2615499 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
128 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
2615535 ATGGC
1 ATGGC
2615540 ACTTACTGAT
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
163 16 0.10
164 133 0.86
165 6 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (163 bp):
ATGGCCCGAAGGACTTATCAACATGCTCGAAAGACTTACAAATGACCCGAAGGATTTCATCATCA
TGCTCAAAAGACTTATTGATGAATTTGCTTCACTACTATTCGGTGAAGGCCTACAAATTACCCGA
AGGATTTAATCATCATGCTCGAAAGACTTACTG
Found at i:2615545 original size:13 final size:13
Alignment explanation
Indices: 2615527--2615551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2615517 TGCTCGAAAG
2615527 ACTTACTGATGGC
1 ACTTACTGATGGC
2615540 ACTTACTGATGG
1 ACTTACTGATGG
2615552 GTTTACTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:2615840 original size:42 final size:41
Alignment explanation
Indices: 2615753--2615859 Score: 142
Period size: 42 Copynumber: 2.6 Consensus size: 41
2615743 ACCCGAAGGT
* * * *
2615753 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGG
1 CTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* *
2615794 CTTACAGATGACCCGAAGGATTTCATCATCATGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
*
2615836 CTTACTGATGGCCCGAAGGACTTA
1 CTTACAGATGGCCCGAAGGACTTA
2615860 CTATTTACTG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 21 0.38
42 35 0.62
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:2629632 original size:2 final size:2
Alignment explanation
Indices: 2629621--2629650 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2629611 GTGATAAACC
2629621 AT AT -T 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 A
2629651 ACGATTAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2631303 original size:3 final size:3
Alignment explanation
Indices: 2631295--2631440 Score: 206
Period size: 3 Copynumber: 48.0 Consensus size: 3
2631285 AATATGTAAT
*
2631295 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA -ACA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TA-A TAA TAA
* * *
2631341 TAA TAA TAA TAA TTAA TAA -ACA AAA TAA TAA TAA TAA TAA TAA CAT
1 TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
2631387 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2631435 TAA TAA
1 TAA TAA
2631441 GATTAAAATT
Statistics
Matches: 131, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.02
3 121 0.92
4 8 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2631858 original size:133 final size:133
Alignment explanation
Indices: 2631639--2631974 Score: 478
Period size: 133 Copynumber: 2.5 Consensus size: 133
2631629 GTTCTAGTCG
* *
2631639 TCTAAGGGTGACACGGTTCCTACGTGATGAAGAA-ATCTGGTCGGGGGATGACACAACTCATACG
1 TCTAGGGGTGACACGGCTCCTACGTGATG-AGAAGATCTGGTCGGGGGATGACACAACTCATACG
* *
2631703 TGATGAAGAGTTATGGTTATCTTTAGGAATATGATAACTCGGTTCCTACT-CGATGAGGATGACT
65 TGATGAAGAGTTATGGTCATCTTTAGGAATATGATAACTCGGTTCCTA-TGCGATGAGGACGACT
2631767 GGTTA
129 GGTTA
* *
2631772 TCTAGGGGTGACACGGCTCCTACGCGATGAGAAGATCTGGTCGGGGGATGACACAACTCATATGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGAAGATCTGGTCGGGGGATGACACAACTCATACGT
* * *
2631837 GATGAAGAGTTCTGGTCATCTTTAGGAATGTGATAACTCGGTTCCTATGCGATGAGGACGGCTGG
66 GATGAAGAGTTATGGTCATCTTTAGGAATATGATAACTCGGTTCCTATGCGATGAGGACGACTGG
2631902 TTA
131 TTA
* * * * * * * * *
2631905 TCTAGGGGTGACGCGACTCCTACATGATGAGGAGGTCTGGTCAGGGGATGACACGATTCCTACGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGAAGATCTGGTCGGGGGATGACACAACTCATACGT
2631970 GATGA
66 GATGA
2631975 GGATGACTGG
Statistics
Matches: 181, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
132 5 0.03
133 176 0.97
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (133 bp):
TCTAGGGGTGACACGGCTCCTACGTGATGAGAAGATCTGGTCGGGGGATGACACAACTCATACGT
GATGAAGAGTTATGGTCATCTTTAGGAATATGATAACTCGGTTCCTATGCGATGAGGACGACTGG
TTA
Found at i:2631945 original size:43 final size:40
Alignment explanation
Indices: 2631887--2631977 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 40
2631877 GTTCCTATGC
*
2631887 GATGAGGACGGCTGGTTATCTAGGGG-TGACGCGACTCCTACAT
1 GATGAGGACGGCTGG---TC-AGGGGATGACACGACTCCTACAT
* *
2631930 GATGAGGA-GGTCTGGTCAGGGGATGACACGATTCCTACGT
1 GATGAGGACGG-CTGGTCAGGGGATGACACGACTCCTACAT
2631970 GATGAGGA
1 GATGAGGA
2631978 TGACTGGCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
39 5 0.12
40 24 0.56
42 2 0.05
43 12 0.28
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (40 bp):
GATGAGGACGGCTGGTCAGGGGATGACACGACTCCTACAT
Found at i:2632096 original size:31 final size:28
Alignment explanation
Indices: 2632003--2632106 Score: 102
Period size: 28 Copynumber: 3.6 Consensus size: 28
2631993 AGTGATTATG
** * *
2632003 GTTTCAAGGGAAACCAACTCAAAGATTT
1 GTTTCAAAAGAAACAAACTCAAAGATGT
* *
2632031 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAAACTCAAAGATGT
2632059 GTTTCAAGAA-AAACAAACTCAAAGGTGATGT
1 GTTTCAA-AAGAAACAAACTCAAA---GATGT
*
2632090 GTTTCAAAAGAGACAAA
1 GTTTCAAAAGAAACAAA
2632107 ATTCGTTTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
28 43 0.67
29 2 0.03
30 2 0.03
31 17 0.27
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.23
Consensus pattern (28 bp):
GTTTCAAAAGAAACAAACTCAAAGATGT
Found at i:2632272 original size:64 final size:62
Alignment explanation
Indices: 2632093--2632268 Score: 162
Period size: 64 Copynumber: 2.8 Consensus size: 62
2632083 GTGATGTGTT
* ** *
2632093 TCAAAAGAGACAAAATTCGTTTCAAGGGAAACGA-CTCAAAGATGACGTTTAAAGGAAACTGTC
1 TCAAATGAGACAAAATTTATTTCAAGGGAAACGATCTC-AAGATGATGTTTAAAGGAAAC-GTC
* * * * * **
2632156 TCAAGTGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAGAGATCGGTGTTTCATGGGAAA-GT
1 TCAAATGAGACAAAATTT-ATTTCAAGGGAAACGATCTCA-AGAT-GATGTTT-AAAGGAAACGT
2632220 C
62 C
*
2632221 TCAAATGAGATAAAATTTATTTCAAGGGAAACGATCTC-A-ATGATGTTT
1 TCAAATGAGACAAAATTTATTTCAAGGGAAACGATCTCAAGATGATGTTT
2632269 GTTTTATTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
60 6 0.07
61 2 0.02
62 1 0.01
63 15 0.16
64 31 0.34
65 26 0.28
66 5 0.05
67 6 0.07
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (62 bp):
TCAAATGAGACAAAATTTATTTCAAGGGAAACGATCTCAAGATGATGTTTAAAGGAAACGTC
Found at i:2633001 original size:15 final size:15
Alignment explanation
Indices: 2632981--2633018 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2632971 CAAAGATTTT
2632981 TCAAAAGAAACTTTC
1 TCAAAAGAAACTTTC
*
2632996 TCAAAATAAACTTTC
1 TCAAAAGAAACTTTC
2633011 TCAAAAGA
1 TCAAAAGA
2633019 GACAAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.26
Consensus pattern (15 bp):
TCAAAAGAAACTTTC
Found at i:2633612 original size:36 final size:39
Alignment explanation
Indices: 2633546--2633632 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 39
2633536 AACAAATTCG
* *
2633546 AAATTTGTATTTCAAAGGAAAAATGTCTCAAGTGAGAC-T
1 AAATTTGT-TTTCAAAGGAAAAATGTCTCAAGCGAGACAA
* *
2633585 AAATTTGTTTTGAAA-G-AAATTGTCTCAAGCGAGACAA
1 AAATTTGTTTTCAAAGGAAAAATGTCTCAAGCGAGACAA
2633622 AAATTTGTTTT
1 AAATTTGTTTT
2633633 AAAATTCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 17 0.40
37 12 0.28
38 6 0.14
39 8 0.19
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.34
Consensus pattern (39 bp):
AAATTTGTTTTCAAAGGAAAAATGTCTCAAGCGAGACAA
Found at i:2635386 original size:27 final size:28
Alignment explanation
Indices: 2635347--2635427 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 28
2635337 TCTTTGTTAT
2635347 TTTTCTTTATTTT-TGCTTT-TATTTTTTC
1 TTTTCTTTATTTTCT-CTTTGT-TTTTTTC
*
2635375 TTTT-TTTCTTTTCTCTTTGTTTTTTTC
1 TTTTCTTTATTTTCTCTTTGTTTTTTTC
* * *
2635402 TTTGCTTTTTTTTC-CTAT-TTTTTTTC
1 TTTTCTTTATTTTCTCTTTGTTTTTTTC
2635428 GCTTTGATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 8 0.17
27 24 0.52
28 14 0.30
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.79
Consensus pattern (28 bp):
TTTTCTTTATTTTCTCTTTGTTTTTTTC
Found at i:2635403 original size:12 final size:12
Alignment explanation
Indices: 2635330--2635413 Score: 64
Period size: 13 Copynumber: 6.6 Consensus size: 12
2635320 CTTTGTCATC
2635330 TTTTTGTTCTTTG
1 TTTTT-TTCTTTG
2635343 TTATTTTTCTTT-
1 TT-TTTTTCTTTG
* *
2635355 ATTTTTGCTTT-
1 TTTTTTTCTTTG
*
2635366 TATTTTTTCTTTTT
1 T-TTTTTTC-TTTG
2635380 TTCTTTTCTCTTTG
1 TT-TTTT-TCTTTG
2635394 TTTTTTTCTTTG
1 TTTTTTTCTTTG
2635406 CTTTTTTT
1 -TTTTTTT
2635414 TCCTATTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
11 8 0.14
12 13 0.22
13 23 0.39
14 13 0.22
15 2 0.03
ACGTcount: A:0.04, C:0.11, G:0.06, T:0.80
Consensus pattern (12 bp):
TTTTTTTCTTTG
Found at i:2635411 original size:14 final size:13
Alignment explanation
Indices: 2635330--2635415 Score: 63
Period size: 12 Copynumber: 6.7 Consensus size: 13
2635320 CTTTGTCATC
*
2635330 TTTTTGTTCTTTG
1 TTTTTTTTCTTTG
*
2635343 TTATTTTTC-TT-
1 TTTTTTTTCTTTG
* *
2635354 TATTTTTGCTTT-
1 TTTTTTTTCTTTG
* *
2635366 TATTTTTTCTTTT
1 TTTTTTTTCTTTG
2635379 TTTCTTTTCTCTTTG
1 TTT-TTTT-TCTTTG
2635394 -TTTTTTTCTTTG
1 TTTTTTTTCTTTG
2635406 CTTTTTTTTC
1 -TTTTTTTTC
2635416 CTATTTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
11 6 0.10
12 21 0.36
13 13 0.22
14 14 0.24
15 5 0.08
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:2639694 original size:3 final size:3
Alignment explanation
Indices: 2639686--2639755 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
2639676 AATATGTAAT
*
2639686 TAA TAA TAA TAA TAA TAA TTAA TAA -ACA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* *
2639732 TAA T-A TCAT TAA TAT TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA
2639756 GATTAAAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 3 0.05
3 49 0.86
4 5 0.09
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2639760 original size:18 final size:18
Alignment explanation
Indices: 2639723--2639767 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
2639713 AAAATAATAA
* *
2639723 TAATAATAATAATATCAT
1 TAATATTAATAATAACAT
*
2639741 TAATATTAATAATAAGAT
1 TAATATTAATAATAACAT
*
2639759 TAAAATTAA
1 TAATATTAA
2639768 ATAGAAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
TAATATTAATAATAACAT
Found at i:2644351 original size:45 final size:44
Alignment explanation
Indices: 2644301--2644479 Score: 152
Period size: 45 Copynumber: 4.0 Consensus size: 44
2644291 TCCCATTATT
*
2644301 CTTTAAT-AATTATTCATTATTTTCATTTATGGCATCCTTTCATGC
1 CTTTAATGAATTGTTCA-TA-TTTCATTTATGGCATCCTTTCATGC
* *
2644346 CTTTAATGCACAGTTGTGC--ATTTCATTTATGGCATCCTTTCATTC
1 CTTTAATG-A-A-TTGTTCATATTTCATTTATGGCATCCTTTCATGC
* * *
2644391 CTTTCATGCATCGTT-ATGCATTTCATTTATGGCATCCTTTCATGC
1 CTTTAATGAATTGTTCAT--ATTTCATTTATGGCATCCTTTCATGC
* ** *
2644436 CTTTAATGCACAGTT-ATGCATTTCATATATGGCATCCTTTCATG
1 CTTTAATGAATTGTTCAT--ATTTCATTTATGGCATCCTTTCATG
2644480 TAACACCCCC
Statistics
Matches: 114, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
42 3 0.03
43 1 0.01
45 103 0.90
46 1 0.01
47 1 0.01
48 1 0.01
49 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (44 bp):
CTTTAATGAATTGTTCATATTTCATTTATGGCATCCTTTCATGC
Found at i:2649483 original size:14 final size:14
Alignment explanation
Indices: 2649453--2649499 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
2649443 GATCCTAACT
*
2649453 TATCACTTATA-CA
1 TATCACATATACCA
*
2649466 TATCACATATCCCA
1 TATCACATATACCA
2649480 TATCACATATACCA
1 TATCACATATACCA
*
2649494 TTTCAC
1 TATCAC
2649500 GAGAAACACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.34
Consensus pattern (14 bp):
TATCACATATACCA
Found at i:2649671 original size:18 final size:18
Alignment explanation
Indices: 2649648--2649718 Score: 106
Period size: 18 Copynumber: 3.9 Consensus size: 18
2649638 GCGTAGAATT
*
2649648 TGTCCCGTAGGACCACTG
1 TGTCCCGAAGGACCACTG
2649666 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
* *
2649684 TGTCCCGAAGCACCACTA
1 TGTCCCGAAGGACCACTG
*
2649702 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
2649719 CCTTAAGAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.24, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTG
Found at i:2650053 original size:14 final size:14
Alignment explanation
Indices: 2650034--2650074 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
2650024 ATCTCATAAC
*
2650034 ACATGTTCGCATAT
1 ACATGTTCTCATAT
2650048 ACATGTTCTCATAT
1 ACATGTTCTCATAT
2650062 ACATGTTCTCATA
1 ACATGTTCTCATA
2650075 CAATCCCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (14 bp):
ACATGTTCTCATAT
Found at i:2650847 original size:21 final size:20
Alignment explanation
Indices: 2650793--2650852 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 20
2650783 GTTCATTTAT
2650793 TTGAGAGTGCATCGATACACA
1 TTGA-AGTGCATCGATACACA
2650814 TTGAAGT--ATCGATACACA
1 TTGAAGTGCATCGATACACA
*
2650832 TTGAAGATGCATCGATGCACA
1 TTGAAG-TGCATCGATACACA
2650853 CAACCCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 17 0.49
19 1 0.03
20 3 0.09
21 14 0.40
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (20 bp):
TTGAAGTGCATCGATACACA
Found at i:2651618 original size:45 final size:45
Alignment explanation
Indices: 2651568--2651737 Score: 261
Period size: 45 Copynumber: 3.8 Consensus size: 45
2651558 GTTATATTTA
* * *
2651568 ATGCCTTTAATGCACCGTTAAGCATTTCAATTATGTCATCCTTTT-
1 ATGCCTTTAATGCACCGTTATGCATTTCATTTATGGCAT-CTTTTC
* *
2651613 ATGCCTTTAATGCATCGTTATGCATTTCATTTATGGAATCTTTTC
1 ATGCCTTTAATGCACCGTTATGCATTTCATTTATGGCATCTTTTC
2651658 ATGCCTTTAATGCACCGTTATGCATTTCATTTATGGCATCTTTTC
1 ATGCCTTTAATGCACCGTTATGCATTTCATTTATGGCATCTTTTC
* *
2651703 ATGCCTTTAATGCACCATTATCCATTTCATTTATG
1 ATGCCTTTAATGCACCGTTATGCATTTCATTTATG
2651738 TAATGAAAAC
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 5 0.04
45 110 0.96
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (45 bp):
ATGCCTTTAATGCACCGTTATGCATTTCATTTATGGCATCTTTTC
Found at i:2652315 original size:21 final size:21
Alignment explanation
Indices: 2652285--2652339 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2652275 TTGATTCCCA
*
2652285 CATCAATATCGATACTAATTG
1 CATCAGTATCGATACTAATTG
*
2652306 GATCAGTATCGATACTAATTG
1 CATCAGTATCGATACTAATTG
2652327 CATCAGTATCGAT
1 CATCAGTATCGAT
2652340 GTTGTTCATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (21 bp):
CATCAGTATCGATACTAATTG
Found at i:2658409 original size:45 final size:45
Alignment explanation
Indices: 2658378--2658745 Score: 474
Period size: 45 Copynumber: 8.2 Consensus size: 45
2658368 TATTCATTAT
* * *
2658378 TTTCATTTATAGCATCCTTTCATGCCTTTAAT-ACACAATTGTGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGA-ACCATTATGCA
* *
2658423 TTTCATTTATGGCATTCTTTCATGCCTTTAATGAATCATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGAACCATTATGCA
* * * *
2658468 TTTCA-TTATGGCATCCTTTCATTCTTTTAATGCACCATTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGAACCATTATGCA
* *
2658512 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGAACCATTATGCA
* *
2658557 TTTCATTTATGGCA-CCTTTTATGCCTTTAAT-ACACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGA-ACCATTATGCA
* *
2658601 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGAACCATTATGCA
* * * ** *
2658646 TTTCATTTATGGTATTCTTTCATGCCTTTAATGCACTGTTCTGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGAACCATTATGCA
* * *
2658691 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCATCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGAACCATTATGCA
2658736 TTTCATTTAT
1 TTTCATTTAT
2658746 ATAATGAAAA
Statistics
Matches: 286, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
44 79 0.28
45 206 0.72
46 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.45
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGAACCATTATGCA
Found at i:2658497 original size:89 final size:90
Alignment explanation
Indices: 2658378--2658745 Score: 524
Period size: 89 Copynumber: 4.1 Consensus size: 90
2658368 TATTCATTAT
* * * *
2658378 TTTCATTTATAGCATCCTTTCATGCCTTTAATACACAATTGTGCATTTCATTTATGGCATTCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATACACCATTATGCATTTCATTTATGGCATCCTTT
* *
2658443 CATGCCTTTAATGAATCATTATGCA
66 CATGCCTTTAATGCACCATTATGCA
* * * *
2658468 TTTCA-TTATGGCATCCTTTCATTCTTTTAATGCACCATTATACATTTCATTTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATACACCATTATGCATTTCATTTATGGCATCCTTT
*
2658532 CATGCCTTTAATGCACCGTTATGCA
66 CATGCCTTTAATGCACCATTATGCA
* *
2658557 TTTCATTTATGGCA-CCTTTTATGCCTTTAATACACCGTTATGCATTTCATTTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATACACCATTATGCATTTCATTTATGGCATCCTTT
*
2658621 CATGCCTTTAATGCACCATTATACA
66 CATGCCTTTAATGCACCATTATGCA
* * * ** *
2658646 TTTCATTTATGGTATTCTTTCATGCCTTTAATGCACTGTTCTGCATTTCATTTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATACACCATTATGCATTTCATTTATGGCATCCTTT
* *
2658711 CATGCCTTTAATGCATCGTTATGCA
66 CATGCCTTTAATGCACCATTATGCA
2658736 TTTCATTTAT
1 TTTCATTTAT
2658746 ATAATGAAAA
Statistics
Matches: 248, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
89 158 0.64
90 90 0.36
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.45
Consensus pattern (90 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATACACCATTATGCATTTCATTTATGGCATCCTTT
CATGCCTTTAATGCACCATTATGCA
Found at i:2658611 original size:134 final size:135
Alignment explanation
Indices: 2658378--2658745 Score: 562
Period size: 134 Copynumber: 2.7 Consensus size: 135
2658368 TATTCATTAT
* * * * *
2658378 TTTCATTTATAGCATCCTTTCATGCCTTTAATACACAATTGTGCATTTCATTTATGGCATTCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGCATTTCATTTATGGCATCCTTT
* * *
2658443 CATGCCTTTAATGA-ATCATTATGCATTTCA-TTATGGCATCCTTTCATTCTTTTAATGCACCAT
66 CATGCCTTTAAT-ACATCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCAT
2658506 TATACA
130 TATACA
*
2658512 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCATTTATGGCA-CCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGCATTTCATTTATGGCATCCTTT
* *
2658576 TATGCCTTTAATACACCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATT
66 CATGCCTTTAATACATCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATT
2658641 ATACA
131 ATACA
* * * *
2658646 TTTCATTTATGGTATTCTTTCATGCCTTTAATGCACTGTTCTGCATTTCATTTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGCATTTCATTTATGGCATCCTTT
*
2658711 CATGCCTTTAATGCATCGTTATGCATTTCATTTAT
66 CATGCCTTTAATACATCGTTATGCATTTCATTTAT
2658746 ATAATGAAAA
Statistics
Matches: 213, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
132 1 0.00
133 29 0.14
134 146 0.69
135 37 0.17
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.45
Consensus pattern (135 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGCATTTCATTTATGGCATCCTTT
CATGCCTTTAATACATCGTTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATT
ATACA
Found at i:2659212 original size:22 final size:21
Alignment explanation
Indices: 2659161--2659216 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
2659151 TCTGTAATTC
* *
2659161 ATGGTATCGATACATTTCTCT
1 ATGGTATCGATACTTTTATCT
*
2659182 -TAGTATCGATACTTTTATACT
1 ATGGTATCGATACTTTTAT-CT
2659203 ATGGTATCGATACT
1 ATGGTATCGATACT
2659217 CCCTTATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 15 0.52
21 2 0.07
22 12 0.41
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (21 bp):
ATGGTATCGATACTTTTATCT
Found at i:2659321 original size:21 final size:21
Alignment explanation
Indices: 2659296--2659369 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
2659286 ATACCCAGAG
2659296 CAATATCGATACTAATTGCAT
1 CAATATCGATACTAATTGCAT
*
2659317 CAATATCGATACTAATTGAAT
1 CAATATCGATACTAATTGCAT
2659338 CAATATCGATACTAATTGCAT
1 CAATATCGATACTAATTGCAT
*
2659359 CAGTATCGATA
1 CAATATCGATA
2659370 TTGTTCATCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (21 bp):
CAATATCGATACTAATTGCAT
Found at i:2669731 original size:14 final size:14
Alignment explanation
Indices: 2669712--2669750 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
2669702 CTGATTTGAT
2669712 ATGTCGATTTTAAA
1 ATGTCGATTTTAAA
2669726 ATGTCGATTTTAAA
1 ATGTCGATTTTAAA
* *
2669740 CTGTTGATTTT
1 ATGTCGATTTT
2669751 CAGGCTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (14 bp):
ATGTCGATTTTAAA
Found at i:2670594 original size:47 final size:46
Alignment explanation
Indices: 2670486--2670594 Score: 121
Period size: 47 Copynumber: 2.3 Consensus size: 46
2670476 ATTGGACATC
*
2670486 ACCATCTTATAAGGATGGACCAATCTATAATTCAGTTATTAGACTTT
1 ACCATC-TATAAGGATGGACCAATCTATAATTCAGTTATTAGAATTT
* * * *
2670533 ACTATCTATCAAGGATGTATCAATCTGA-AATTCAGTTATTGGAATTT
1 ACCATCTAT-AAGGATGGACCAATCT-ATAATTCAGTTATTAGAATTT
*
2670580 ACCCTCCTATAAGGA
1 ACCAT-CTATAAGGA
2670595 AGAACTAGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
46 3 0.06
47 44 0.85
48 5 0.10
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (46 bp):
ACCATCTATAAGGATGGACCAATCTATAATTCAGTTATTAGAATTT
Found at i:2671329 original size:2 final size:2
Alignment explanation
Indices: 2671317--2671346 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2671307 TATTTTATTT
*
2671317 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2671347 GTTTGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2671413 original size:37 final size:37
Alignment explanation
Indices: 2671330--2671604 Score: 274
Period size: 37 Copynumber: 7.2 Consensus size: 37
2671320 ACATATATAT
* ****
2671330 ATATATATATATATATAGTTTGTAAATTGTTTTTGAAA
1 ATATATATA-ATATATAGTTTTTAAAAACATTTTGAAA
2671368 ATACGTATATAATATATAGTTTTTAAAAACATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAAACATTTTGAAA
*
2671407 ATGTATATAATATATAGTTTTT-AAAACACTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAAACA-TTTTGAAA
*
2671444 A-CTATATAATATATAGTTTTT-AAAACATTTTAGAAA
1 ATATATATAATATATAGTTTTTAAAAACATTTT-GAAA
*
2671480 ATATATATAATATATAG-TTTTGAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAAACA-TTTTGAAA
* * *
2671517 ACATTATAATATTATATAGTTTTTTTAAAAAACATTTTTAAA
1 ATA-TAT-ATAATATATAG--TTTTT-AAAAACATTTTGAAA
* *
2671559 A-ACT-TATAATAAATATTTTTTAAAAACATTTTGGAAA
1 ATA-TATATAATATATAGTTTTTAAAAACATTTT-GAAA
2671596 ATATATATA
1 ATATATATA
2671605 GTTTTAAAAT
Statistics
Matches: 204, Mismatches: 17, Indels: 32
0.81 0.07 0.13
Matches are distributed among these distances:
35 4 0.02
36 51 0.25
37 64 0.31
38 15 0.07
39 43 0.21
40 7 0.03
41 2 0.01
42 12 0.06
43 6 0.03
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAAACATTTTGAAA
Found at i:2671459 original size:73 final size:73
Alignment explanation
Indices: 2671330--2671696 Score: 281
Period size: 73 Copynumber: 4.9 Consensus size: 73
2671320 ACATATATAT
* ****
2671330 ATATATATATATATATAGTTTGTAAATTGTTTTTGAAAATACGTATATAATATATAGTTTTTAAA
1 ATATATATA-ATATATAGTTTTTAAAACACTTTTG-AAA-AC-TATATAATATATAGTTTTTAAA
2671395 AACATTTTGAAA
62 AACATTTTGAAA
*
2671407 ATGTATATAATATATAGTTTTTAAAACACTTTTGAAAACTATATAATATATAGTTTTT-AAAACA
1 ATATATATAATATATAGTTTTTAAAACACTTTTGAAAACTATATAATATATAGTTTTTAAAAACA
2671471 TTTTAGAAA
66 TTTT-GAAA
* * *
2671480 ATATATATAATATATAGTTTTGAAAACATTTTTGAAAACATTATAATATTATATAGTTTTTTTAA
1 ATATATATAATATATAGTTTTTAAAACACTTTTGAAAAC--TAT-ATAATATATAG--TTTTT-A
*
2671545 AAAACATTTTTAAA
60 AAAACATTTTGAAA
* * *
2671559 A-ACT-TATAATAAATATTTTTTAAAA-ACATTTTG-GAA--A-AT-ATATATAG-TTTTAAAAT
1 ATA-TATATAATATATAGTTTTTAAAACAC-TTTTGAAAACTATATAATATATAGTTTTTAAAA-
**
2671615 ATTTTTTGAAA
63 ACATTTTGAAA
* * * * * * *
2671626 ATATATTATATTATATGGTTTTGAAAAGAATTTTTAAAATCATATATAGA-ATATA-ATTTTAAA
1 ATATA-TATAATATATAGTTTTTAAAACACTTTTGAAAA-C-TATATA-ATATATAGTTTTTAAA
*
2671689 AATATTTT
62 AACATTTT
2671697 TATTTATTTA
Statistics
Matches: 237, Mismatches: 29, Indels: 50
0.75 0.09 0.16
Matches are distributed among these distances:
66 4 0.02
67 14 0.06
68 1 0.00
69 20 0.08
70 10 0.04
71 2 0.01
72 10 0.04
73 60 0.25
74 3 0.01
75 14 0.06
76 43 0.18
77 12 0.05
78 29 0.12
79 5 0.02
80 10 0.04
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (73 bp):
ATATATATAATATATAGTTTTTAAAACACTTTTGAAAACTATATAATATATAGTTTTTAAAAACA
TTTTGAAA
Found at i:2671514 original size:12 final size:12
Alignment explanation
Indices: 2671497--2671521 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2671487 TAATATATAG
2671497 TTTTGAAAACAT
1 TTTTGAAAACAT
2671509 TTTTGAAAACAT
1 TTTTGAAAACAT
2671521 T
1 T
2671522 ATAATATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:2679971 original size:16 final size:16
Alignment explanation
Indices: 2679944--2680015 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
2679934 TATATGCACA
*
2679944 TTTTTATGTTTTATTT
1 TTTTTATTTTTTATTT
*
2679960 TTATTATTTTTT-TTCT
1 TTTTTATTTTTTATT-T
*
2679976 TTTTTACCTTTTGTATTT
1 TTTTTA--TTTTTTATTT
*
2679994 TTTTTATTGTTTATTT
1 TTTTTATTTTTTATTT
2680010 TATTTT
1 T-TTTT
2680016 GGTTTTTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 2 0.04
16 25 0.56
17 4 0.09
18 12 0.27
19 2 0.04
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTTTATTT
Found at i:2679980 original size:25 final size:24
Alignment explanation
Indices: 2679944--2680010 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
2679934 TATATGCACA
* *
2679944 TTTTTATGTTTTATTTTTATTATTT
1 TTTTTATTTTTTATTTTT-GTATTT
* *
2679969 TTTTTCTTTTTTACCTTTTGTATTT
1 TTTTTATTTTTTA-TTTTTGTATTT
*
2679994 TTTTTATTGTTTATTTT
1 TTTTTATTTTTTATTTT
2680011 ATTTTGGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
24 3 0.09
25 27 0.79
26 4 0.12
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTATTTTTTATTTTTGTATTT
Found at i:2680097 original size:20 final size:19
Alignment explanation
Indices: 2680072--2680110 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
2680062 TATCATTCTC
2680072 TTTCTTTTATTTATTTATTT
1 TTTCTTTTATTT-TTTATTT
*
2680092 TTTCTTTTCTTTTTTATTT
1 TTTCTTTTATTTTTTATTT
2680111 CCCTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTCTTTTATTTTTTATTT
Found at i:2682971 original size:95 final size:95
Alignment explanation
Indices: 2682862--2683116 Score: 363
Period size: 94 Copynumber: 2.7 Consensus size: 95
2682852 ATAATAATAT
* *
2682862 ATATGCAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGGCTTTATGGATAA
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTATGGATAA
*
2682927 GATTTAGATAGCCTGATAAAGGTGATTATA
66 GATTCAGATAGCCTGATAAAGGTGATTATA
2682957 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCC-GGCTTTATGGATAA
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTATGGATAA
* * *
2683021 TATTCAGCTAGCCTGATTAAGGTGATTATA
66 GATTCAGATAGCCTGATAAAGGTGATTATA
* * *
2683051 ATATATAA-ACAATGATATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACG-CCTCGGCTTTATG
1 ATATACAATA-AA-G--CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCT-GGCTTTATG
2683114 GAT
61 GAT
2683117 TCAGCTAGCT
Statistics
Matches: 145, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
93 1 0.01
94 49 0.34
95 49 0.34
96 2 0.01
97 32 0.22
98 12 0.08
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (95 bp):
ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTTATGGATAA
GATTCAGATAGCCTGATAAAGGTGATTATA
Found at i:2683127 original size:97 final size:92
Alignment explanation
Indices: 2682862--2683128 Score: 313
Period size: 95 Copynumber: 2.8 Consensus size: 92
2682852 ATAATAATAT
* * * * *
2682862 ATATGCAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGGCTTTATGGATAA
1 ATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCC-GGCTTTATGGATTA
*
2682927 GATTTAGATAGCCTGATAAAGGTGATTATA
65 G--TTAGCTAGCCTGATAAAGGTGATTATA
* *
2682957 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCGGCTTTATGGATAAT
1 ATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCGGCTTTATGGAT--T
*
2683022 A-TTCAGCTAGCCTGATTAAGGTGATTATA
64 AGTT-AGCTAGCCTGATAAAGGTGATTATA
*
2683051 ATATATAA-ACAATGATATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGG
1 ATATACAATA-AA-G--ATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCC-CGGCTTTATGG
*
2683115 ATTCAGCTAGCTAG
61 ATT-AGTTAGCTAG
2683129 ACAATGGCAA
Statistics
Matches: 153, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
93 3 0.02
94 44 0.29
95 49 0.32
96 2 0.01
97 41 0.27
98 14 0.09
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (92 bp):
ATATACAATAAAGATTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCGGCTTTATGGATTAG
TTAGCTAGCCTGATAAAGGTGATTATA
Done.