Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 109 of 135
Found at i:37268666 original size:24 final size:24
Alignment explanation
Indices: 37268634--37268693 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
37268624 ATTTAGCCAA
*
37268634 TACGAGCCCAGAACGATTTGCTCT
1 TACGAGCCCAGAACGATTAGCTCT
*
37268658 TACGAGCCCAGAATGATTAGCTCT
1 TACGAGCCCAGAACGATTAGCTCT
* *
37268682 TATGAGACCAGA
1 TACGAGCCCAGA
37268694 CAGAGTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (24 bp):
TACGAGCCCAGAACGATTAGCTCT
Found at i:37272609 original size:23 final size:23
Alignment explanation
Indices: 37272568--37272626 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
37272558 AGCACGTTTC
*
37272568 GTGCCCTCTG-TTCAGCACTGTGT
1 GTGCCCTCTGATT-AACACTGTGT
*
37272591 GTGCCCTCTGATTAACACTTTGT
1 GTGCCCTCTGATTAACACTGTGT
37272614 GTGCCCTCT-ATTA
1 GTGCCCTCTGATTA
37272627 CCCAGCACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 4 0.12
23 27 0.82
24 2 0.06
ACGTcount: A:0.14, C:0.29, G:0.20, T:0.37
Consensus pattern (23 bp):
GTGCCCTCTGATTAACACTGTGT
Found at i:37273728 original size:12 final size:12
Alignment explanation
Indices: 37273711--37273735 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37273701 TGGCCTTCTC
37273711 CTCAATTACTAG
1 CTCAATTACTAG
37273723 CTCAATTACTAG
1 CTCAATTACTAG
37273735 C
1 C
37273736 ATTCTGAATT
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:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CTCAATTACTAG
Found at i:37279567 original size:30 final size:30
Alignment explanation
Indices: 37279519--37279611 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
37279509 TATTAAAACC
*
37279519 GGGTTAAATTTTGAATTTTTGGAAAGTTTGA
1 GGGTTAAA-TTGGAATTTTTGGAAAGTTTGA
* * *
37279550 GGGTTAAATTGGAATTTTTAGAAAGTCTAA
1 GGGTTAAATTGGAATTTTTGGAAAGTTTGA
* *
37279580 GGGTCAAATTGAAATTTTTGGAAA-TTTGA
1 GGGTTAAATTGGAATTTTTGGAAAGTTTGA
37279609 GGG
1 GGG
37279612 CTTCGTGGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.11
30 39 0.74
31 8 0.15
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (30 bp):
GGGTTAAATTGGAATTTTTGGAAAGTTTGA
Found at i:37280850 original size:7 final size:7
Alignment explanation
Indices: 37280840--37280870 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
37280830 AATAATAAAT
37280840 AAATGAA
1 AAATGAA
37280847 AAATGAA
1 AAATGAA
*
37280854 AAATAAA
1 AAATGAA
37280861 AAATGAA
1 AAATGAA
37280868 AAA
1 AAA
37280871 AATAAGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (7 bp):
AAATGAA
Found at i:37285610 original size:21 final size:22
Alignment explanation
Indices: 37285572--37285616 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
37285562 TTTTTATTTG
37285572 TATTTGTTTAAATATA-TTATT
1 TATTTGTTTAAATATATTTATT
** *
37285593 TATTTGTTTATTTGTATTTATT
1 TATTTGTTTAAATATATTTATT
37285615 TA
1 TA
37285617 AATAATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
TATTTGTTTAAATATATTTATT
Found at i:37285627 original size:4 final size:4
Alignment explanation
Indices: 37285615--37285668 Score: 60
Period size: 4 Copynumber: 14.0 Consensus size: 4
37285605 TGTATTTATT
* *
37285615 TAAA T-AA TAAA TAGA TAAA TAAA TAAA T-AA -AAA TAAAA GAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA
37285661 TAAA TAAA
1 TAAA TAAA
37285669 GTCAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
3 7 0.17
4 32 0.76
5 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:37286425 original size:79 final size:78
Alignment explanation
Indices: 37286219--37286514 Score: 262
Period size: 79 Copynumber: 3.8 Consensus size: 78
37286209 CTCTATAGCT
* * * * *
37286219 TTAGAGGTAAAAGATTGGAT-TTCTTCAATCTGCCCTATGGTCGGGGTAAGAGATCGGATGGTCT
1 TTAG-GGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTCAGGGTAAAAAATAGGATGGTCT
37286283 TCAATCTGCCTTCTGG
65 TCAATCTGCC-TCT-G
* * * *
37286299 TTAGGGTAAAAAATTGGATTG-CTTTAATTTGCCCTATGGTC-GAGGTAAAAAATAGGATGGTCT
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTCAG-GGTAAAAAATAGGATGGTCT
* *
37286362 TTAATCTACCTCTG
65 TCAATCTGCCTCTG
* * *
37286376 ATTAGGGTAAAAGATTGGATGGTCTTCAATCTG-CCTCATGGTTAGGGTAAAATATTA-GATTG-
1 -TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCT-ATGGTCAGGGTAAAA-AATAGGATGGT
*
37286438 CTTCAATCTGCCCCATG
63 CTTCAATCTGCCTC-TG
* * * * * * * * *
37286455 GTCGAGTAAAAGATTTGATGGTTTTCAATTTGCCCCATGGTCAGGGTAAAAGATTGGATG
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTCAGGGTAAAAAATAGGATG
37286515 TGGTAACTTC
Statistics
Matches: 175, Mismatches: 31, Indels: 22
0.77 0.14 0.10
Matches are distributed among these distances:
77 2 0.01
78 80 0.46
79 85 0.49
80 8 0.05
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (78 bp):
TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTCAGGGTAAAAAATAGGATGGTCTT
CAATCTGCCTCTG
Found at i:37286437 original size:118 final size:118
Alignment explanation
Indices: 37286242--37286514 Score: 327
Period size: 118 Copynumber: 2.3 Consensus size: 118
37286232 ATTGGATTTC
* * * * * *
37286242 TTCAATCTGCCCTATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCTTCTGGTTAGGGTA
1 TTCAATCTACCCCATGATCAGGGTAAAAGATTGGATGGTCTTCAATCTGCCTTCTGGTTAGGGTA
* * * *
37286307 AAAAATTGGATTGCTTTAATTTGCCCTATGGTCGAGGTAAAAAATAGGATGGTCT
66 AAAAATTAGATTGCTTCAATCTGCCCCATGGTCGA-GTAAAAAATAGGATGGT-T
* *
37286362 TT-AATCTACCTC-TGATTAGGGTAAAAGATTGGATGGTCTTCAATCTGCC-TCATGGTTAGGGT
1 TTCAATCTACCCCATGATCAGGGTAAAAGATTGGATGGTCTTCAATCTGCCTTC-TGGTTAGGGT
* * **
37286424 AAAATATTAGATTGCTTCAATCTGCCCCATGGTCGAGTAAAAGATTTGATGGTT
65 AAAAAATTAGATTGCTTCAATCTGCCCCATGGTCGAGTAAAAAATAGGATGGTT
* * *
37286478 TTCAATTTGCCCCATGGTCAGGGTAAAAGATTGGATG
1 TTCAATCTACCCCATGATCAGGGTAAAAGATTGGATG
37286515 TGGTAACTTC
Statistics
Matches: 129, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
116 3 0.02
117 23 0.18
118 94 0.73
119 7 0.05
120 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (118 bp):
TTCAATCTACCCCATGATCAGGGTAAAAGATTGGATGGTCTTCAATCTGCCTTCTGGTTAGGGTA
AAAAATTAGATTGCTTCAATCTGCCCCATGGTCGAGTAAAAAATAGGATGGTT
Found at i:37286455 original size:39 final size:40
Alignment explanation
Indices: 37286219--37286514 Score: 255
Period size: 39 Copynumber: 7.5 Consensus size: 40
37286209 CTCTATAGCT
* *
37286219 TTAGAGGTAAAAGATTGGAT-TTCTTCAATCTGCCCTATGG
1 TTAG-GGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGG
** * * *
37286259 TCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCTTC-TGG
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCC-CCATGG
* * * * *
37286299 TTAGGGTAAAAAATTGGATTG-CTTTAATTTGCCCTATGG
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGG
* * * * * * *
37286338 -TCGAGGTAAAAAATAGGATGGTCTTTAATCTACCTC-TGA
1 TTAG-GGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGG
*
37286377 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCTCATGG
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGG
* * *
37286417 TTAGGGTAAAATATTAGATTG-CTTCAATCTGCCCCATGG
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGG
* * * * *
37286456 -TCGAGTAAAAGATTTGATGGTTTTCAATTTGCCCCATGG
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGG
*
37286495 TCAGGGTAAAAGATTGGATG
1 TTAGGGTAAAAGATTGGATG
37286515 TGGTAACTTC
Statistics
Matches: 201, Mismatches: 46, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
38 17 0.08
39 104 0.52
40 80 0.40
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (40 bp):
TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGG
Found at i:37298101 original size:15 final size:16
Alignment explanation
Indices: 37298081--37298110 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37298071 ATAAATATGA
37298081 ACAATAA-ATAAACAC
1 ACAATAATATAAACAC
37298096 ACAATAATATAAACA
1 ACAATAATATAAACA
37298111 GTAATTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (16 bp):
ACAATAATATAAACAC
Found at i:37300378 original size:25 final size:23
Alignment explanation
Indices: 37300307--37300406 Score: 80
Period size: 23 Copynumber: 4.3 Consensus size: 23
37300297 CACTAGCGCA
* *
37300307 CCCTCTGT-TTAGCAGGTTTCGTG
1 CCCTCTGTATTAGCA-CTTGCGTG
* *
37300330 CCCTCTGT-TCAGCACTGTGTGTG
1 CCCTCTGTATTAGCACT-TGCGTG
37300353 CCCTCTGTTATTAGCACTTCGCGTG
1 CCCTCTG-TATTAGCACTT-GCGTG
* *
37300378 CCCTCTG-ATTAGCATTTTGTGTG
1 CCCTCTGTATTAGCA-CTTGCGTG
37300401 CCCTCT
1 CCCTCT
37300407 ATTACCCAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
22 1 0.02
23 41 0.64
24 4 0.06
25 18 0.28
ACGTcount: A:0.10, C:0.30, G:0.22, T:0.38
Consensus pattern (23 bp):
CCCTCTGTATTAGCACTTGCGTG
Found at i:37300401 original size:23 final size:23
Alignment explanation
Indices: 37300327--37300410 Score: 91
Period size: 23 Copynumber: 3.6 Consensus size: 23
37300317 AGCAGGTTTC
*
37300327 GTGCCCTCTG-TTCAGCACTGTGT
1 GTGCCCTCTGATT-AGCACTTTGT
* *
37300350 GTGCCCTCTGTTATTAGCACTTCGC
1 GTGCCCTCTG--ATTAGCACTTTGT
*
37300375 GTGCCCTCTGATTAGCATTTTGT
1 GTGCCCTCTGATTAGCACTTTGT
37300398 GTGCCCTCT-ATTA
1 GTGCCCTCTGATTA
37300411 CCCAGCACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
22 4 0.08
23 29 0.56
25 17 0.33
26 2 0.04
ACGTcount: A:0.12, C:0.29, G:0.21, T:0.38
Consensus pattern (23 bp):
GTGCCCTCTGATTAGCACTTTGT
Found at i:37300427 original size:48 final size:48
Alignment explanation
Indices: 37300326--37300434 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 48
37300316 TAGCAGGTTT
* ** *
37300326 CGTGCCCTCTGTTCAGCACTGTGTGTGCCCTCTGTTATTAGCACTTCG
1 CGTGCCCTCTGTTCAGCACTGTGTGTGCCCTCTATTACCAGCACTTCA
* *
37300374 CGTGCCCTCTGATT-AGCATTTTGTGTGCCCTCTATTACCCAGCACTT-A
1 CGTGCCCTCTG-TTCAGCACTGTGTGTGCCCTCTATTA-CCAGCACTTCA
*
37300422 TGTGCCCTCTGTT
1 CGTGCCCTCTGTT
37300435 AAGTACTTCG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
47 2 0.04
48 41 0.79
49 9 0.17
ACGTcount: A:0.12, C:0.31, G:0.20, T:0.37
Consensus pattern (48 bp):
CGTGCCCTCTGTTCAGCACTGTGTGTGCCCTCTATTACCAGCACTTCA
Found at i:37301474 original size:4 final size:4
Alignment explanation
Indices: 37301453--37301502 Score: 52
Period size: 4 Copynumber: 13.0 Consensus size: 4
37301443 TGTATATATT
* *
37301453 TAAA T-AA TAAA TAGA TAAA TAAA T-AA -AAA TAAAA GAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA TAAA
37301499 TAAA
1 TAAA
37301503 GTTAAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 7 0.18
4 28 0.74
5 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:37301479 original size:23 final size:20
Alignment explanation
Indices: 37301453--37301501 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
37301443 TGTATATATT
37301453 TAAATAATAAATAGATAAATAAA
1 TAAATAATAAA-AG--AAATAAA
37301476 TAAA-AATAAAAGAAATAAA
1 TAAATAATAAAAGAAATAAA
37301495 TAAATAA
1 TAAATAA
37301502 AGTTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 11 0.44
20 2 0.08
21 2 0.08
22 6 0.24
23 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (20 bp):
TAAATAATAAAAGAAATAAA
Found at i:37302531 original size:18 final size:17
Alignment explanation
Indices: 37302510--37302572 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
37302500 ATTAATGATA
37302510 TAAAATATATTAAAACTT
1 TAAAATATATTAAAA-TT
* * *
37302528 T-AAATATAATGATATT
1 TAAAATATATTAAAATT
37302544 TAAAATAT-TTAAGTAATT
1 TAAAATATATTAA--AATT
37302562 TAAAATA-ATTA
1 TAAAATATATTA
37302573 TTATAAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.14
17 16 0.46
18 14 0.40
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAAATATATTAAAATT
Found at i:37302538 original size:32 final size:32
Alignment explanation
Indices: 37302497--37302584 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 32
37302487 AATAATTTGT
37302497 AATATTAATGATATAAAATATATTAA-AACTTTA
1 AATA-TAATGATATAAAATATATTAAGAA-TTTA
37302530 AATATAATGATATTTAAAATAT-TTAAGTAATTTA
1 AATATAATGATA--TAAAATATATTAAG-AATTTA
*
37302564 AA-ATAATTATTATAAAATATA
1 AATATAATGA-TATAAAATATA
37302585 AATTGAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
32 16 0.33
33 14 0.29
34 16 0.33
35 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (32 bp):
AATATAATGATATAAAATATATTAAGAATTTA
Found at i:37303038 original size:10 final size:10
Alignment explanation
Indices: 37303023--37303123 Score: 58
Period size: 10 Copynumber: 10.5 Consensus size: 10
37303013 ACGTGACATG
37303023 TAAAAAATTA
1 TAAAAAATTA
37303033 TAAAAAA-TA
1 TAAAAAATTA
*
37303042 -AAAATAAATA
1 TAAAA-AATTA
*
37303052 AATAAAAATTA
1 TA-AAAAATTA
37303063 T-AAAAATTA
1 TAAAAAATTA
*
37303072 T--TAAATT-
1 TAAAAAATTA
37303079 TGAATAAAA-TA
1 T-AA-AAAATTA
37303090 TAAAAATATT-
1 TAAAAA-ATTA
37303100 T-AAAAATTA
1 TAAAAAATTA
*
37303109 TTAAAAATTA
1 TAAAAAATTA
37303119 TAAAA
1 TAAAA
37303124 TGCATAAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
7 1 0.01
8 12 0.16
9 21 0.29
10 26 0.36
11 10 0.14
12 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:37303067 original size:9 final size:9
Alignment explanation
Indices: 37303025--37303123 Score: 70
Period size: 9 Copynumber: 11.4 Consensus size: 9
37303015 GTGACATGTA
37303025 AAAAATTAT
1 AAAAATTAT
37303034 AAAAA--AT
1 AAAAATTAT
37303041 AAAAA-TA-
1 AAAAATTAT
*
37303048 AATAA--AT
1 AAAAATTAT
37303055 AAAAATTAT
1 AAAAATTAT
37303064 AAAAATTAT
1 AAAAATTAT
*
37303073 -TAAATT-T
1 AAAAATTAT
*
37303080 GAATAAAATAT
1 -AA-AAATTAT
*
37303091 AAAAATATTT
1 AAAAAT-TAT
37303101 AAAAATTATT
1 AAAAATTA-T
37303111 AAAAATTAT
1 AAAAATTAT
37303120 AAAA
1 AAAA
37303124 TGCATAAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
6 1 0.01
7 16 0.22
8 6 0.08
9 25 0.35
10 23 0.32
11 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:37303084 original size:29 final size:29
Alignment explanation
Indices: 37303025--37303123 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 29
37303015 GTGACATGTA
** *
37303025 AAAAATTATAAAAA-ATAAAAATAAATAAAT
1 AAAAATTATAAAAATAT-TTAA-AAATTAAT
*
37303055 AAAAATTATAAAAAT-TATT-AAATTTGAAT
1 AAAAATTATAAAAATAT-TTAAAAATT-AAT
*
37303084 -AAAA-TATAAAAATATTTAAAAATTATT
1 AAAAATTATAAAAATATTTAAAAATTAAT
37303111 AAAAATTATAAAA
1 AAAAATTATAAAA
37303124 TGCATAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
27 13 0.23
28 17 0.30
29 11 0.19
30 16 0.28
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (29 bp):
AAAAATTATAAAAATATTTAAAAATTAAT
Found at i:37303344 original size:19 final size:19
Alignment explanation
Indices: 37303307--37303343 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37303297 AATTTTTATA
*
37303307 ATATTTTTTTACGAATTTT
1 ATATTTCTTTACGAATTTT
37303326 ATATTTCTTTAC-AATTTT
1 ATATTTCTTTACGAATTTT
37303344 TTATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (19 bp):
ATATTTCTTTACGAATTTT
Found at i:37303421 original size:19 final size:19
Alignment explanation
Indices: 37303311--37303467 Score: 67
Period size: 19 Copynumber: 8.3 Consensus size: 19
37303301 TTTATAATAT
* *
37303311 TTTTTTACGAATTTTAT-A
1 TTTTTTACTATTTTTATAA
*
37303329 TTTCTTTACAATTTTTTATAA
1 TTT-TTTACTA-TTTTTATAA
* *
37303350 TTTTCTTATTACTTTTATAA
1 TTTT-TTACTATTTTTATAA
**
37303370 AATTTTA-TATATTTTATAA
1 TTTTTTACTAT-TTTTATAA
**** *
37303389 -AAAATACAATTTTTATAA
1 TTTTTTACTATTTTTATAA
37303407 TTTTTTACTATTTTTAT-A
1 TTTTTTACTATTTTTATAA
*
37303425 TTTTTCTAACT-TTTATTAAAA
1 TTTTT-T-ACTATTT-TTATAA
**
37303446 TTTAATA--ATTTTTATAA
1 TTTTTTACTATTTTTATAA
37303463 TTTTT
1 TTTTT
37303468 ATTAATTTTT
Statistics
Matches: 104, Mismatches: 23, Indels: 25
0.68 0.15 0.16
Matches are distributed among these distances:
17 8 0.08
18 25 0.24
19 35 0.34
20 24 0.23
21 12 0.12
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTTTTACTATTTTTATAA
Found at i:37303468 original size:19 final size:19
Alignment explanation
Indices: 37303396--37303479 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
37303386 TAAAAAATAC
37303396 AATTTTTATAATTTTTTACT
1 AATTTTTATAA-TTTTTACT
37303416 -ATTTTTAT-ATTTTT-CT
1 AATTTTTATAATTTTTACT
* ** *
37303432 AACTTTTATTAAAATTTAAT
1 AATTTTTA-TAATTTTTACT
*
37303452 AATTTTTATAATTTTTATT
1 AATTTTTATAATTTTTACT
37303471 AATTTTTAT
1 AATTTTTAT
37303480 TTTATTATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
16 2 0.04
17 11 0.21
18 2 0.04
19 29 0.56
20 8 0.15
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTTTTATAATTTTTACT
Found at i:37303480 original size:10 final size:9
Alignment explanation
Indices: 37303396--37303479 Score: 73
Period size: 9 Copynumber: 9.0 Consensus size: 9
37303386 TAAAAAATAC
37303396 AATTTTTAT
1 AATTTTTAT
37303405 AATTTTT-T
1 AATTTTTAT
37303413 ACTATTTTTAT
1 A--ATTTTTAT
*
37303424 -ATTTTTCT
1 AATTTTTAT
*
37303432 AACTTTTATT
1 AATTTTTA-T
* *
37303442 AAAATTTAAT
1 -AATTTTTAT
37303452 AATTTTTAT
1 AATTTTTAT
37303461 AATTTTTATT
1 AATTTTTA-T
37303471 AATTTTTAT
1 AATTTTTAT
37303480 TTTATTATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
8 9 0.15
9 28 0.46
10 17 0.28
11 7 0.11
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:37303484 original size:15 final size:15
Alignment explanation
Indices: 37303464--37303494 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37303454 TTTTTATAAT
37303464 TTTTATTAATTTTTA
1 TTTTATTAATTTTTA
*
37303479 TTTTATTATTTTTTA
1 TTTTATTAATTTTTA
37303494 T
1 T
37303495 CAAATATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTAATTTTTA
Found at i:37307779 original size:59 final size:59
Alignment explanation
Indices: 37307696--37307852 Score: 170
Period size: 59 Copynumber: 2.7 Consensus size: 59
37307686 CTTTGGTCCC
* * * *
37307696 TGAACTTGACATTTTTTTCTAATTTCGTGCTTAAACTTTTTTGGACCCAATTTGGCACT
1 TGAACTTGACACTTTTTCCTAATTTCGTACCTAAACTTTTTTGGACCCAATTTGGCACT
* * ** ** *
37307755 TGAATTTGACACTTTTTCCTAATTTGGTACCTAATTTTTTTTGGACCCAATTTGATACC
1 TGAACTTGACACTTTTTCCTAATTTCGTACCTAAACTTTTTTGGACCCAATTTGGCACT
* * * * *
37307814 TGAACTTGGCATTTTTTCTTAATTTGGTACCTAAGCTTT
1 TGAACTTGACACTTTTTCCTAATTTCGTACCTAAACTTT
37307853 GTTTTTAGAT
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 81 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.46
Consensus pattern (59 bp):
TGAACTTGACACTTTTTCCTAATTTCGTACCTAAACTTTTTTGGACCCAATTTGGCACT
Found at i:37308064 original size:31 final size:30
Alignment explanation
Indices: 37308029--37308217 Score: 113
Period size: 31 Copynumber: 6.3 Consensus size: 30
37308019 AAAAGATTAG
*
37308029 GTACCAAATTAAGAAAAAGAGTCAAGTTCAA
1 GTACCAAATT-AGAAAAAGAGTCAAGTTTAA
* **
37308060 GTACCAAATTGGACCCCAA-A---AAGTTTAA
1 GTACCAAATTAGA--AAAAGAGTCAAGTTTAA
* * * *
37308088 GTACCAACTTAAAAAAAGTGTCAAGTTTAG
1 GTACCAAATTAGAAAAAGAGTCAAGTTTAA
* *
37308118 GTACCAAATTAGAAAAAAGTGTCAAGTTTGA
1 GTACCAAATTAG-AAAAAGAGTCAAGTTTAA
* ** *
37308149 GTACCAAATTGGACAAAA-A-AAAAGTTTAG
1 GTACCAAATTAGA-AAAAGAGTCAAGTTTAA
* * *
37308178 GTACAAAATTAAGAAAAA-ATATCAAGTTTAT
1 GTACCAAATT-AGAAAAAGA-GTCAAGTTTAA
37308209 GTACCAAAT
1 GTACCAAAT
37308218 ATTATATTAA
Statistics
Matches: 120, Mismatches: 27, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
26 2 0.02
28 17 0.14
29 20 0.17
30 22 0.18
31 57 0.47
32 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (30 bp):
GTACCAAATTAGAAAAAGAGTCAAGTTTAA
Found at i:37308116 original size:30 final size:31
Alignment explanation
Indices: 37308080--37308217 Score: 133
Period size: 31 Copynumber: 4.5 Consensus size: 31
37308070 GGACCCCAAA
*
37308080 AAGTTTAAGTACCAACTTA-AAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAGTGTC
*
37308110 AAGTTTAGGTACCAAATTAGAAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAGTGTC
* * **
37308141 AAGTTTGAGTACCAAATTGGACAAAAA---AA
1 AAGTTTAAGTACCAAATTAGA-AAAAAGTGTC
* * *
37308170 AAGTTTAGGTACAAAATTAAGAAAAAA-TATC
1 AAGTTTAAGTACCAAATT-AGAAAAAAGTGTC
*
37308201 AAGTTTATGTACCAAAT
1 AAGTTTAAGTACCAAAT
37308218 ATTATATTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
29 20 0.23
30 19 0.22
31 44 0.50
32 5 0.06
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGAAAAAAGTGTC
Found at i:37308161 original size:89 final size:91
Alignment explanation
Indices: 37308025--37308217 Score: 248
Period size: 89 Copynumber: 2.1 Consensus size: 91
37308015 TAAAAAAAGA
***
37308025 TTAGGTACCAAATTAAGAAAAAGAGTCAAGTTCAAGTACCAAATTGGAC-CCCAAAAAGTTTAAG
1 TTAGGTACCAAATTAAGAAAAAGAGTCAAGTTCAAGTACCAAATTGGACAAAAAAAAAGTTTAAG
* * * *
37308089 TACCAACTTAA-AAAAAGTGTCAAGT
66 TACAAAATTAAGAAAAAATATCAAGT
* ** *
37308114 TTAGGTACCAAATT-AGAAAAAAGTGTCAAGTTTGAGTACCAAATTGGACAAAAAAAAAGTTTAG
1 TTAGGTACCAAATTAAG-AAAAAGAGTCAAGTTCAAGTACCAAATTGGACAAAAAAAAAGTTTAA
37308178 GTACAAAATTAAGAAAAAATATCAAGT
65 GTACAAAATTAAGAAAAAATATCAAGT
*
37308205 TTATGTACCAAAT
1 TTAGGTACCAAAT
37308218 ATTATATTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
88 2 0.02
89 43 0.48
90 20 0.22
91 24 0.27
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (91 bp):
TTAGGTACCAAATTAAGAAAAAGAGTCAAGTTCAAGTACCAAATTGGACAAAAAAAAAGTTTAAG
TACAAAATTAAGAAAAAATATCAAGT
Found at i:37312658 original size:37 final size:37
Alignment explanation
Indices: 37312608--37312687 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
37312598 TTAAGGTGTA
* ** *
37312608 AGGATTCAAATTTCAAGTCCGTTAGGTACTATATTTT
1 AGGATTCAAATTTCAAGTCCATTAGGTAAAATATCTT
*
37312645 AGGATTCAAATTTCAATTCCATTAGGTAAAATATCTT
1 AGGATTCAAATTTCAAGTCCATTAGGTAAAATATCTT
37312682 AGGATT
1 AGGATT
37312688 ATGGGTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (37 bp):
AGGATTCAAATTTCAAGTCCATTAGGTAAAATATCTT
Found at i:37313100 original size:3 final size:3
Alignment explanation
Indices: 37313092--37313121 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37313082 TTTTATCACA
37313092 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
37313122 TTGTATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:37315913 original size:155 final size:155
Alignment explanation
Indices: 37315631--37315974 Score: 688
Period size: 155 Copynumber: 2.2 Consensus size: 155
37315621 TAAGCATTCG
37315631 GTGTATTGACCATCGACAGTTGAATAAAGTCACCGTAAAGAAAAATTTTCTAAGGTTTTATGTAA
1 GTGTATTGACCATCGACAGTTGAATAAAGTCACCGTAAAGAAAAATTTTCTAAGGTTTTATGTAA
37315696 CAATTTGGTTAGTGCAATAAGGTTTTATATTTTTGAGATCATGGAAGATCTAATATTGTTTGTGA
66 CAATTTGGTTAGTGCAATAAGGTTTTATATTTTTGAGATCATGGAAGATCTAATATTGTTTGTGA
37315761 AAAAGAAAGACGAAACTTTAAGATT
131 AAAAGAAAGACGAAACTTTAAGATT
37315786 GTGTATTGACCATCGACAGTTGAATAAAGTCACCGTAAAGAAAAATTTTCTAAGGTTTTATGTAA
1 GTGTATTGACCATCGACAGTTGAATAAAGTCACCGTAAAGAAAAATTTTCTAAGGTTTTATGTAA
37315851 CAATTTGGTTAGTGCAATAAGGTTTTATATTTTTGAGATCATGGAAGATCTAATATTGTTTGTGA
66 CAATTTGGTTAGTGCAATAAGGTTTTATATTTTTGAGATCATGGAAGATCTAATATTGTTTGTGA
37315916 AAAAGAAAGACGAAACTTTAAGATT
131 AAAAGAAAGACGAAACTTTAAGATT
37315941 GTGTATTGACCATCGACAGTTGAATAAAGTCACC
1 GTGTATTGACCATCGACAGTTGAATAAAGTCACC
37315975 ATTAAAAACA
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 189 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (155 bp):
GTGTATTGACCATCGACAGTTGAATAAAGTCACCGTAAAGAAAAATTTTCTAAGGTTTTATGTAA
CAATTTGGTTAGTGCAATAAGGTTTTATATTTTTGAGATCATGGAAGATCTAATATTGTTTGTGA
AAAAGAAAGACGAAACTTTAAGATT
Found at i:37319443 original size:45 final size:45
Alignment explanation
Indices: 37319392--37319707 Score: 289
Period size: 45 Copynumber: 7.0 Consensus size: 45
37319382 AGCGGAATGT
* * *
37319392 ATATCATGCAAATCATATAGCATAATCAAATAAATAATATTTATC
1 ATATCATGCATATCATATAGCATAATCAAATAAATAATAATTACC
* * ** * *
37319437 ATATCATACATATCATATAGCATAAACAACCAAATAGTAATCACC
1 ATATCATGCATATCATATAGCATAATCAAATAAATAATAATTACC
* * * *
37319482 ATCTTATGCATATCATAT-GTCTTAATC-AATCAAATAATATTTACC
1 ATATCATGCATATCATATAG-CATAATCAAAT-AAATAATAATTACC
* * ** ** **
37319527 ATGTCATGCATATTAGGTAGCATAATCAACCAAATAATAATTATA
1 ATATCATGCATATCATATAGCATAATCAAATAAATAATAATTACC
* * *
37319572 ATATCATGCATATCATATAGCATAAT-TAATCAAATAGT-ATATATC
1 ATATCATGCATATCATATAGCATAATCAAAT-AAATAATAAT-TACC
*
37319617 ATATAATGCATATCATATAGCATAATCAAATAAATAATAATTACC
1 ATATCATGCATATCATATAGCATAATCAAATAAATAATAATTACC
* * * ** *
37319662 ATATCATGCATATTATATAGAACAATCAACCACATAATAATTACC
1 ATATCATGCATATCATATAGCATAATCAAATAAATAATAATTACC
37319707 A
1 A
37319708 CTCCTTGGTT
Statistics
Matches: 213, Mismatches: 50, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
44 5 0.02
45 201 0.94
46 7 0.03
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (45 bp):
ATATCATGCATATCATATAGCATAATCAAATAAATAATAATTACC
Found at i:37319550 original size:90 final size:90
Alignment explanation
Indices: 37319392--37319700 Score: 352
Period size: 90 Copynumber: 3.4 Consensus size: 90
37319382 AGCGGAATGT
* *
37319392 ATATCATGCAAATCATATAGCATAATCAAAT-AAATAATATTTATCATATCATACATATCATATA
1 ATATCATGCATATCATATAGCATAATC-AATCAAATAATATTTATCATATCATGCATATCATATA
* * *
37319456 GCATAAACAACCAAATAGTAATCACC
65 GCATAATCAACCAAATAATAATTACC
* * * * * * **
37319482 ATCTTATGCATATCATAT-GTCTTAATCAATCAAATAATATTTACCATGTCATGCATATTAGGTA
1 ATATCATGCATATCATATAG-CATAATCAATCAAATAATATTTATCATATCATGCATATCATATA
**
37319546 GCATAATCAACCAAATAATAATTATA
65 GCATAATCAACCAAATAATAATTACC
* * * *
37319572 ATATCATGCATATCATATAGCATAATTAATCAAATAGTATATATCATATAATGCATATCATATAG
1 ATATCATGCATATCATATAGCATAATCAATCAAATAATATTTATCATATCATGCATATCATATAG
**
37319637 CATAATCAAATAAATAATAATTACC
66 CATAATCAACCAAATAATAATTACC
* * * * *
37319662 ATATCATGCATATTATATAGAACAATCAACCACATAATA
1 ATATCATGCATATCATATAGCATAATCAATCAAATAATA
37319701 ATTACCACTC
Statistics
Matches: 178, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
89 4 0.02
90 173 0.97
91 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (90 bp):
ATATCATGCATATCATATAGCATAATCAATCAAATAATATTTATCATATCATGCATATCATATAG
CATAATCAACCAAATAATAATTACC
Found at i:37319643 original size:135 final size:135
Alignment explanation
Indices: 37319392--37319704 Score: 380
Period size: 135 Copynumber: 2.3 Consensus size: 135
37319382 AGCGGAATGT
* * * ** * *
37319392 ATATCATGCAAATCATATAGCATAATCAAATAAATAATATTTATCATATCATACATATCATATAG
1 ATATCATGCATATTAGATAGCATAATCAACCAAATAATAATTATAATATCATACATATCATATAG
* * *
37319457 CATAAACAACCAAATAGTAATCACCATCTTATGCATATCATATGTCTTAATC-AATCAAATAATA
66 CATAAACAACCAAATAGTAATCACCATATAATGCATATCATATGTCATAATCAAAT-AAATAATA
*
37319521 TTTACC
130 ATTACC
* * *
37319527 ATGTCATGCATATTAGGTAGCATAATCAACCAAATAATAATTATAATATCATGCATATCATATAG
1 ATATCATGCATATTAGATAGCATAATCAACCAAATAATAATTATAATATCATACATATCATATAG
** * *
37319592 CATAATTAATCAAATAGTATAT-ATCATATAATGCATATCATATAG-CATAATCAAATAAATAAT
66 CATAAACAACCAAATAGTA-ATCACCATATAATGCATATCATAT-GTCATAATCAAATAAATAAT
37319655 AATTACC
129 AATTACC
* * * *
37319662 ATATCATGCATATTATATAGAACAATCAACCACATAATAATTA
1 ATATCATGCATATTAGATAGCATAATCAACCAAATAATAATTA
37319705 CCACTCCTTG
Statistics
Matches: 151, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
135 145 0.96
136 6 0.04
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (135 bp):
ATATCATGCATATTAGATAGCATAATCAACCAAATAATAATTATAATATCATACATATCATATAG
CATAAACAACCAAATAGTAATCACCATATAATGCATATCATATGTCATAATCAAATAAATAATAA
TTACC
Found at i:37321727 original size:21 final size:21
Alignment explanation
Indices: 37321703--37321755 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 21
37321693 ATATATTTGA
37321703 GGAGGATGATACATTGGTGGT
1 GGAGGATGATACATTGGTGGT
*
37321724 GGAGGTGGGTGATACATTGGTGGT
1 GGA---GGATGATACATTGGTGGT
*
37321748 GAAGGATG
1 GGAGGATG
37321756 CATTTGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 7 0.27
24 19 0.73
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (21 bp):
GGAGGATGATACATTGGTGGT
Found at i:37331121 original size:26 final size:26
Alignment explanation
Indices: 37331085--37331193 Score: 121
Period size: 26 Copynumber: 4.2 Consensus size: 26
37331075 TTAGAAAAGA
*
37331085 GGTGATTAAATAGCAGGCCTTGAGCC
1 GGTGATTAAATAGCAGACCTTGAGCC
* * *
37331111 GGTGATCAAATAGCAG-GCTTCGAGCT
1 GGTGATTAAATAGCAGACCTT-GAGCC
* *
37331137 GGTGATTACATAGCAGACTTTGAGCC
1 GGTGATTAAATAGCAGACCTTGAGCC
* * *
37331163 GGTGATTAAATAGTAGACTTTGAACC
1 GGTGATTAAATAGCAGACCTTGAGCC
37331189 GGTGA
1 GGTGA
37331194 ATAACTAGTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
25 3 0.04
26 65 0.93
27 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (26 bp):
GGTGATTAAATAGCAGACCTTGAGCC
Found at i:37331193 original size:52 final size:52
Alignment explanation
Indices: 37331085--37331193 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
37331075 TTAGAAAAGA
* * * *
37331085 GGTGATTAAATAGCAGGCCTTGAGCCGGTGATCAAATAGCAGGCTTCGAGCT
1 GGTGATTAAATAGCAGACCTTGAGCCGGTGATCAAATAGCAGACTTCGAACC
* * * * *
37331137 GGTGATTACATAGCAGACTTTGAGCCGGTGATTAAATAGTAGACTTTGAACC
1 GGTGATTAAATAGCAGACCTTGAGCCGGTGATCAAATAGCAGACTTCGAACC
37331189 GGTGA
1 GGTGA
37331194 ATAACTAGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (52 bp):
GGTGATTAAATAGCAGACCTTGAGCCGGTGATCAAATAGCAGACTTCGAACC
Found at i:37331202 original size:26 final size:26
Alignment explanation
Indices: 37331137--37331202 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
37331127 GCTTCGAGCT
* * * *
37331137 GGTGATTACATAGCAGACTTTGAGCC
1 GGTGAATAAATAGTAGACTTTGAACC
*
37331163 GGTGATTAAATAGTAGACTTTGAACC
1 GGTGAATAAATAGTAGACTTTGAACC
*
37331189 GGTGAATAACTAGT
1 GGTGAATAAATAGT
37331203 GAAATTGGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (26 bp):
GGTGAATAAATAGTAGACTTTGAACC
Found at i:37334155 original size:33 final size:33
Alignment explanation
Indices: 37334118--37334188 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
37334108 ATATCATATA
*
37334118 GCATAAACAACCAAATAGTAATCACCATCTTAT
1 GCATAAACAACCAAATAGTAATCACCATCTCAT
* * * * *
37334151 GCATAATCAATCAAATAGTATTTACCATGTCAT
1 GCATAAACAACCAAATAGTAATCACCATCTCAT
37334184 GCATA
1 GCATA
37334189 TCATATAGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (33 bp):
GCATAAACAACCAAATAGTAATCACCATCTCAT
Found at i:37334210 original size:78 final size:85
Alignment explanation
Indices: 37334064--37334308 Score: 263
Period size: 90 Copynumber: 2.9 Consensus size: 85
37334054 ATATCATGCG
* * * *
37334064 AATCATACAGCATAATCAAAT-AAATAATATTTACCATTTCATGCATATCATATAGCATAAACAA
1 AATCATATAGCATAATC-AATCAAATAGTATTTACCATATCATGCATATCATATAGCATAATCAA
*
37334128 CCAAATAGT-A-ATC-A-C-C
65 CCAAATAATAATATCAATCAC
* * * *
37334144 -ATCTTAT-GCATAATCAATCAAATAGTATTTACCATGTCATGCATATCATATAGCATAATGATC
1 AATCATATAGCATAATCAATCAAATAGTATTTACCATATCATGCATATCATATAGCATAATCAAC
37334207 CAAATAATAATTATCATATCATGC
66 CAAATAATAA-TATCA-ATCA--C
* *
37334231 ATATCATATAGCATAATTAATCAAATAGTATATACCATATCATGCATATCATATAGCATAATCAA
1 A-ATCATATAGCATAATCAATCAAATAGTATTTACCATATCATGCATATCATATAGCATAATCAA
**
37334296 ATAAATAATAATA
65 CCAAATAATAATA
37334309 ACAACCATAT
Statistics
Matches: 136, Mismatches: 16, Indels: 17
0.80 0.09 0.10
Matches are distributed among these distances:
77 3 0.02
78 54 0.40
79 6 0.04
81 3 0.02
83 1 0.01
84 1 0.01
87 1 0.01
89 8 0.06
90 59 0.43
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (85 bp):
AATCATATAGCATAATCAATCAAATAGTATTTACCATATCATGCATATCATATAGCATAATCAAC
CAAATAATAATATCAATCAC
Found at i:37334229 original size:45 final size:44
Alignment explanation
Indices: 37334151--37334360 Score: 217
Period size: 45 Copynumber: 4.6 Consensus size: 44
37334141 ACCATCTTAT
* * *
37334151 GCATAATCAATCAAATAGTATTTACCATGTCATGCATATCATATA
1 GCATAAT-AATCAAATAATAATTACCATATCATGCATATCATATA
* *
37334196 GCATAATGATCCAAATAATAATTATCATATCATGCATATCATATA
1 GCATAATAAT-CAAATAATAATTACCATATCATGCATATCATATA
*
37334241 GCATAATTAATCAAATAGT-ATATACCATATCATGCATATCATATA
1 GCATAA-TAATCAAATAATAAT-TACCATATCATGCATATCATATA
* *
37334286 GCATAATCAAAT-AAATAATAATAACAACCATATCATGCATATTATATA
1 GCATAAT--AATCAAATAATAAT---TACCATATCATGCATATCATATA
* **
37334334 GCATAATCAACCACGTAATAATTACCA
1 GCATAAT-AATCAAATAATAATTACCA
37334361 CTCCTCGGTT
Statistics
Matches: 139, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
44 5 0.04
45 88 0.63
46 8 0.06
47 2 0.01
48 36 0.26
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (44 bp):
GCATAATAATCAAATAATAATTACCATATCATGCATATCATATA
Found at i:37334267 original size:90 final size:92
Alignment explanation
Indices: 37334151--37334343 Score: 273
Period size: 90 Copynumber: 2.1 Consensus size: 92
37334141 ACCATCTTAT
* * * **
37334151 GCATAATCAATCAAATAGTATTTACCATGTCATGCATATCATATAGCATAAT-GATCCA-AATAA
1 GCATAATCAATCAAATAGTATATACCATATCATGCATATCATATAGCATAATAAATAAATAATAA
** *
37334214 TAATTATCATATCATGCATATCATATA
66 TAACAACCATATCATGCATATCATATA
*
37334241 GCATAATTAATCAAATAGTATATACCATATCATGCATATCATATAGCATAATCAAATAAATAATA
1 GCATAATCAATCAAATAGTATATACCATATCATGCATATCATATAGCATAAT-AAATAAATAATA
*
37334306 ATAACAACCATATCATGCATATTATATA
65 ATAACAACCATATCATGCATATCATATA
37334334 GCATAATCAA
1 GCATAATCAA
37334344 CCACGTAATA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
90 49 0.55
92 3 0.03
93 37 0.42
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.32
Consensus pattern (92 bp):
GCATAATCAATCAAATAGTATATACCATATCATGCATATCATATAGCATAATAAATAAATAATAA
TAACAACCATATCATGCATATCATATA
Found at i:37336957 original size:31 final size:32
Alignment explanation
Indices: 37336922--37336992 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 32
37336912 ATTTAATAAT
*
37336922 ATAAAAATAATTAATA-T-AATTTATTATTTTA
1 ATAAAAATAATTAATATTAAAATT-TTATTTTA
* *
37336953 AT-AAATTATTTAATATTAAAATTTTATTTTA
1 ATAAAAATAATTAATATTAAAATTTTATTTTA
37336984 ATAATAAAT
1 ATAA-AAAT
37336993 TTCAAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
30 11 0.34
31 13 0.41
32 5 0.16
33 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAAAAATAATTAATATTAAAATTTTATTTTA
Found at i:37337741 original size:13 final size:14
Alignment explanation
Indices: 37337712--37337744 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37337702 TCAATTTATT
*
37337712 TTTTCAAAAATTAA
1 TTTTCAAAAACTAA
37337726 TTTTCAAAAACT-A
1 TTTTCAAAAACTAA
37337739 TTTTCA
1 TTTTCA
37337745 GTAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTTCAAAAACTAA
Found at i:37338141 original size:19 final size:20
Alignment explanation
Indices: 37338117--37338161 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
37338107 CAAAATAATA
*
37338117 CAAAATAATTT-TTAAAA-TT
1 CAAAAT-ATTTATAAAAATTT
37338136 CAAAATATTTATAAAAATTT
1 CAAAATATTTATAAAAATTT
37338156 CAAAAT
1 CAAAAT
37338162 TTATATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 11 0.48
20 8 0.35
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
CAAAATATTTATAAAAATTT
Found at i:37338209 original size:9 final size:10
Alignment explanation
Indices: 37338172--37338208 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
37338162 TTATATTTTT
*
37338172 TAAAAAATATA
1 TAAAAAAT-TC
37338183 TAAAAAATTC
1 TAAAAAATTC
37338193 TAAAAAATTC
1 TAAAAAATTC
37338203 TAAAAA
1 TAAAAA
37338209 TATATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:37338216 original size:10 final size:10
Alignment explanation
Indices: 37338172--37338219 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
37338162 TTATATTTTT
37338172 TAAAAAATATA
1 TAAAAAAT-TA
*
37338183 TAAAAAATTC
1 TAAAAAATTA
*
37338193 TAAAAAATTC
1 TAAAAAATTA
37338203 T-AAAAATATA
1 TAAAAAAT-TA
37338213 TAAAAAA
1 TAAAAAA
37338220 AGTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 6 0.18
10 14 0.42
11 13 0.39
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:37339875 original size:3 final size:3
Alignment explanation
Indices: 37339869--37339897 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
37339859 TTTTAAAGAA
37339869 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37339898 GATTGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37340019 original size:17 final size:17
Alignment explanation
Indices: 37339997--37340039 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
37339987 TTTTTTAAAA
37339997 TATAAATTT-TGAAGTTT
1 TATAAATTTGTGAA-TTT
37340014 TATAAATATTGTGAATTT
1 TATAAAT-TTGTGAATTT
*
37340032 TAAAAATT
1 TATAAATT
37340040 ATTTTGAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (17 bp):
TATAAATTTGTGAATTT
Found at i:37340042 original size:19 final size:20
Alignment explanation
Indices: 37340006--37340062 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
37339996 ATATAAATTT
*
37340006 TGAAGTTTTATAAA-TATTG
1 TGAAGTTTTAAAAATTATTG
*
37340025 TGAA-TTTTAAAAATTATTT
1 TGAAGTTTTAAAAATTATTG
*
37340044 TGAAGTTTTGAAAATTATT
1 TGAAGTTTTAAAAATTATT
37340063 TTAAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.24
19 12 0.36
20 13 0.39
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (20 bp):
TGAAGTTTTAAAAATTATTG
Found at i:37340073 original size:21 final size:20
Alignment explanation
Indices: 37340002--37340071 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 20
37339992 TAAAATATAA
* *
37340002 ATTTTGAAGTTTTATAAA-T
1 ATTTTAAAGTTTTAAAAATT
* *
37340021 ATTGTGAA-TTTTAAAAATT
1 ATTTTAAAGTTTTAAAAATT
* *
37340040 ATTTTGAAGTTTTGAAAATT
1 ATTTTAAAGTTTTAAAAATT
37340060 ATTTTAAA-TTTT
1 ATTTTAAAGTTTT
37340072 TTTGTAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
18 8 0.18
19 19 0.43
20 17 0.39
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
ATTTTAAAGTTTTAAAAATT
Found at i:37341444 original size:22 final size:21
Alignment explanation
Indices: 37341414--37341461 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
37341404 ATTTTTATGG
*
37341414 TTTTCAATTCTTATAACATATT-
1 TTTTAAATT-TTATAA-ATATTA
*
37341436 TTTTAAATTTTTTAAATATTA
1 TTTTAAATTTTATAAATATTA
37341457 TTTTA
1 TTTTA
37341462 TATATTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAATTTTATAAATATTA
Found at i:37342892 original size:19 final size:18
Alignment explanation
Indices: 37342851--37342894 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
37342841 CATTCTATTA
**
37342851 AAAATTTTAAAAAATCTT
1 AAAATTTTAAAAAAAATT
*
37342869 TAAATTTTGAAAAAAAATT
1 AAAATTTT-AAAAAAAATT
37342888 AAAATTT
1 AAAATTT
37342895 ATTAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATTTTAAAAAAAATT
Found at i:37342908 original size:8 final size:8
Alignment explanation
Indices: 37342897--37342960 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
37342887 TAAAATTTAT
37342897 TAAAAATA
1 TAAAAATA
37342905 TAAAAATA
1 TAAAAATA
*
37342913 TATAAATTA
1 TA-AAAATA
37342922 TAAAAAT-
1 TAAAAATA
37342929 TCAAAAAATA
1 T--AAAAATA
*
37342939 TATAAAT-
1 TAAAAATA
*
37342946 TGAAAATA
1 TAAAAATA
37342954 -AAAAATA
1 TAAAAATA
37342961 ACTTTGTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
7 12 0.27
8 19 0.42
9 13 0.29
10 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (8 bp):
TAAAAATA
Found at i:37342922 original size:26 final size:25
Alignment explanation
Indices: 37342897--37342946 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
37342887 TAAAATTTAT
37342897 TAAAAA-TATAAAAATATATAAATTA
1 TAAAAATTA-AAAAATATATAAATTA
37342922 TAAAAATTCAAAAAATATATAAATT
1 TAAAAATT-AAAAAATATATAAATT
37342947 GAAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 16 0.70
27 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAAAATTAAAAAATATATAAATTA
Found at i:37342940 original size:17 final size:16
Alignment explanation
Indices: 37342880--37342959 Score: 58
Period size: 17 Copynumber: 4.9 Consensus size: 16
37342870 AAATTTTGAA
*
37342880 AAAAAAT-TAAAATTT
1 AAAAAATATAAAAATT
37342895 ATTAAAAATATAAAAATAT
1 A--AAAAATATAAAAAT-T
* *
37342914 ATAAATTATAAAAATT
1 AAAAAATATAAAAATT
*
37342930 CAAAAAATATATAAATT
1 -AAAAAATATAAAAATT
*
37342947 -GAAAATA-AAAAAT
1 AAAAAATATAAAAAT
37342960 AACTTTGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
14 5 0.10
15 7 0.13
16 1 0.02
17 31 0.60
18 6 0.12
19 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (16 bp):
AAAAAATATAAAAATT
Found at i:37359064 original size:5 final size:5
Alignment explanation
Indices: 37359054--37359078 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37359044 TTGGCCCGTA
37359054 TGCAG TGCAG TGCAG TGCAG TGCAG
1 TGCAG TGCAG TGCAG TGCAG TGCAG
37359079 GAAGAGCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
TGCAG
Found at i:37361883 original size:25 final size:25
Alignment explanation
Indices: 37361853--37361902 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
37361843 ATTTTTAAAA
**
37361853 TTAAATCGGATCGAATAAAAAAATT
1 TTAAATCAAATCGAATAAAAAAATT
* *
37361878 TTAAATCAAATCGAATTAACAAATT
1 TTAAATCAAATCGAATAAAAAAATT
37361903 ATATTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (25 bp):
TTAAATCAAATCGAATAAAAAAATT
Found at i:37364568 original size:7 final size:8
Alignment explanation
Indices: 37364541--37364565 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37364531 TGCTATGTTA
37364541 GGTTTTAG
1 GGTTTTAG
37364549 GGTTTTAG
1 GGTTTTAG
37364557 GGTTTTAG
1 GGTTTTAG
37364565 G
1 G
37364566 TTTATACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.48
Consensus pattern (8 bp):
GGTTTTAG
Found at i:37365092 original size:20 final size:20
Alignment explanation
Indices: 37365067--37365107 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
37365057 GTAAGCTTTT
*
37365067 AATGTATATATGGCATTTAA
1 AATGTATATATGACATTTAA
37365087 AATGTATATATGACATTTAA
1 AATGTATATATGACATTTAA
37365107 A
1 A
37365108 CCTCCTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATATATGACATTTAA
Found at i:37368322 original size:79 final size:79
Alignment explanation
Indices: 37368226--37368425 Score: 301
Period size: 79 Copynumber: 2.5 Consensus size: 79
37368216 TGACTAGTGT
* * * *
37368226 TGGGCTCACATTTGCGGTTTATCTACTAGGCACTGGGTGTCAGGATTTGACGGATATTGTTGGTT
1 TGGGCTCACATTTGCGGTTTATCCACTAGGCACTAGGTGCCAGGATTTGACGGATATCGTTGGTT
37368291 AATCCAACTAGAGC
66 AATCCAACTAGAGC
* * *
37368305 TGGGCTCACAATCGCGGTTTATCCGCTAGGCACTAGGTGCCAGGATTTGACGGATATCGTTGGTT
1 TGGGCTCACATTTGCGGTTTATCCACTAGGCACTAGGTGCCAGGATTTGACGGATATCGTTGGTT
37368370 AATCCAACTAGAGC
66 AATCCAACTAGAGC
* ** *
37368384 TGGGCTCACATTTGCGGTTTATCCGCTAAACACTGGGTGCCA
1 TGGGCTCACATTTGCGGTTTATCCACTAGGCACTAGGTGCCA
37368426 TAGTCGTCGG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 109 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (79 bp):
TGGGCTCACATTTGCGGTTTATCCACTAGGCACTAGGTGCCAGGATTTGACGGATATCGTTGGTT
AATCCAACTAGAGC
Found at i:37369251 original size:58 final size:58
Alignment explanation
Indices: 37369161--37369277 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
37369151 TTAATGATCT
37369161 TATATCATCCTGTAATACTCTAAGATCTTAAACCGACGACGGTTACGAGTTACGGGTG
1 TATATCATCCTGTAATACTCTAAGATCTTAAACCGACGACGGTTACGAGTTACGGGTG
** * *
37369219 TATATCATCCTGTAATACTCTGTGATCTTAAACCGATGGCGGTTACGAGTTACGGGTG
1 TATATCATCCTGTAATACTCTAAGATCTTAAACCGACGACGGTTACGAGTTACGGGTG
37369277 T
1 T
37369278 TACATACCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (58 bp):
TATATCATCCTGTAATACTCTAAGATCTTAAACCGACGACGGTTACGAGTTACGGGTG
Found at i:37371871 original size:17 final size:18
Alignment explanation
Indices: 37371841--37371874 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37371831 AATTAAGAAG
*
37371841 ATATCCGTTTAATTTTTA
1 ATATCCGTTAAATTTTTA
37371859 ATAT-CGTTAAATTTTT
1 ATATCCGTTAAATTTTT
37371875 TATTAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (18 bp):
ATATCCGTTAAATTTTTA
Found at i:37372089 original size:20 final size:20
Alignment explanation
Indices: 37372039--37372095 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
37372029 AAAAATTCTT
* *
37372039 AATGAACAT-AAACTGAATA
1 AATGAACATAAAAATAAATA
** *
37372058 AAAAAACTTAAAAATAAATA
1 AATGAACATAAAAATAAATA
*
37372078 AATGAACATAAATATAAA
1 AATGAACATAAAAATAAA
37372096 CTTATTTATT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (20 bp):
AATGAACATAAAAATAAATA
Found at i:37373325 original size:18 final size:16
Alignment explanation
Indices: 37373293--37373328 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
37373283 ATGGAATGAG
37373293 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
37373309 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATTA
37373327 AA
1 AA
37373329 AATTTTAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:37373395 original size:6 final size:6
Alignment explanation
Indices: 37373384--37373412 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
37373374 CACACACCTC
37373384 TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
37373413 TTCTCTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.34, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCA
Found at i:37373524 original size:13 final size:13
Alignment explanation
Indices: 37373502--37373547 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
37373492 AATATTTTTA
37373502 ATTCCAATATCTT
1 ATTCCAATATCTT
*
37373515 ATTCCCATATCTTT
1 ATTCCAATATC-TT
37373529 GATTCCAATATCTT
1 -ATTCCAATATCTT
*
37373543 CTTCC
1 ATTCC
37373548 CATTAAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 14 0.50
14 4 0.14
15 10 0.36
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTCCAATATCTT
Found at i:37373533 original size:28 final size:28
Alignment explanation
Indices: 37373493--37373550 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
37373483 CAAAGATTCA
*
37373493 ATATTTTTAATTCCAATATCTTATTCCC
1 ATATCTTTAATTCCAATATCTTATTCCC
* *
37373521 ATATCTTTGATTCCAATATCTTCTTCCC
1 ATATCTTTAATTCCAATATCTTATTCCC
37373549 AT
1 AT
37373551 TAAGTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (28 bp):
ATATCTTTAATTCCAATATCTTATTCCC
Found at i:37373540 original size:15 final size:15
Alignment explanation
Indices: 37373487--37373542 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
37373477 TTAATCCAAA
*
37373487 GATT-CAATATTTTT
1 GATTCCAATATCTTT
*
37373501 AATTCCAATATC-TT
1 GATTCCAATATCTTT
*
37373515 -ATTCCCATATCTTT
1 GATTCCAATATCTTT
37373529 GATTCCAATATCTT
1 GATTCCAATATCTT
37373543 CTTCCCATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 10 0.29
14 7 0.20
15 18 0.51
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.48
Consensus pattern (15 bp):
GATTCCAATATCTTT
Found at i:37375330 original size:28 final size:29
Alignment explanation
Indices: 37375261--37375331 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
37375251 ATCGATTAAT
**
37375261 TATTTATAATGATAATAATTGAAAAATAA
1 TATTTATAATTTTAATAATTGAAAAATAA
* * * *
37375290 TTTTTTTAA-TTTAATAATTTAAAACT-A
1 TATTTATAATTTTAATAATTGAAAAATAA
37375317 TATTTATAATTTTAA
1 TATTTATAATTTTAA
37375332 AAGATAATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
27 8 0.24
28 18 0.55
29 7 0.21
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (29 bp):
TATTTATAATTTTAATAATTGAAAAATAA
Found at i:37376503 original size:18 final size:18
Alignment explanation
Indices: 37376480--37376514 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37376470 TTGAACATGA
37376480 TGAACCCATCAAGATTGG
1 TGAACCCATCAAGATTGG
* *
37376498 TGAACCCTTTAAGATTG
1 TGAACCCATCAAGATTG
37376515 ACAAGCTACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (18 bp):
TGAACCCATCAAGATTGG
Found at i:37376765 original size:24 final size:24
Alignment explanation
Indices: 37376738--37376788 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
37376728 AAGATTTAGA
* *
37376738 ATTTATTAGCCTAATATATTTT-TT
1 ATTTATTAGCATAAAAT-TTTTGTT
37376762 ATTTATTAGCATAAAATTTTTGTT
1 ATTTATTAGCATAAAATTTTTGTT
37376786 ATT
1 ATT
37376789 AATTTTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
ATTTATTAGCATAAAATTTTTGTT
Found at i:37386509 original size:23 final size:23
Alignment explanation
Indices: 37386483--37386612 Score: 87
Period size: 23 Copynumber: 5.9 Consensus size: 23
37386473 AGTGCTGGGT
37386483 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
37386506 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
* *
37386525 -AC--TGAGCACACAAACTGCTA
1 AACAGAGAGCACACAAAGTGCTA
** *
37386545 ATTAGAGAGCACACGAAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
* * *
37386569 TAACAAAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
*
37386593 AACAGAGAGCACACACAGTG
1 AACAGAGAGCACACAAAGTG
37386613 TTGAACAGTA
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
16 10 0.12
18 3 0.04
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 44 0.55
24 2 0.03
25 16 0.20
26 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:37386544 original size:39 final size:39
Alignment explanation
Indices: 37386489--37386563 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
37386479 GGGTAACAGA
* *
37386489 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAACTGCTAAACAGAGAGCACACAAAGTACT
** *
37386528 GAGCACACAAACTGCTAATTAGAGAGCACACGAAGT
1 GAGCACACAAACTGCTAAACAGAGAGCACACAAAGT
37386564 GCTAATAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.13
Consensus pattern (39 bp):
GAGCACACAAACTGCTAAACAGAGAGCACACAAAGTACT
Found at i:37386581 original size:25 final size:23
Alignment explanation
Indices: 37386550--37386606 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
37386540 TGCTAATTAG
37386550 AGAGCACACGAAGTGCTAATAACAA
1 AGAGCACACGAAGTGCT-A-AACAA
* *
37386575 AGAGCACGA-GACGTGCTAAACAG
1 AGAGCAC-ACGAAGTGCTAAACAA
37386598 AGAGCACAC
1 AGAGCACAC
37386607 ACAGTGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 11 0.39
24 1 0.04
25 14 0.50
26 1 0.04
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (23 bp):
AGAGCACACGAAGTGCTAAACAA
Found at i:37388804 original size:15 final size:16
Alignment explanation
Indices: 37388784--37388818 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
37388774 ACATTTATTC
*
37388784 AAAATATTAAA-AATT
1 AAAATAATAAACAATT
37388799 AAAATAATAAACAATT
1 AAAATAATAAACAATT
37388815 AAAA
1 AAAA
37388819 AAATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAATAAACAATT
Found at i:37392735 original size:18 final size:18
Alignment explanation
Indices: 37392696--37392735 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37392686 AAAGTTTTAT
*
37392696 TTTAATATTTTTATACAT
1 TTTAATATTTTTATACAC
* *
37392714 TTTAATTTTTTTATTCAC
1 TTTAATATTTTTATACAC
37392732 TTTA
1 TTTA
37392736 TTACATTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTAATATTTTTATACAC
Found at i:37397570 original size:19 final size:20
Alignment explanation
Indices: 37397546--37397583 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37397536 GTTTAATCAT
*
37397546 ATTGAA-TATTTATGATAAA
1 ATTGAATTATTAATGATAAA
37397565 ATTGAATTATTAATGATAA
1 ATTGAATTATTAATGATAA
37397584 CATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
ATTGAATTATTAATGATAAA
Found at i:37401424 original size:24 final size:24
Alignment explanation
Indices: 37401367--37401431 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
37401357 CCAGCTATCT
*
37401367 AAGGTACTAAAAGGATCTAAAGAA
1 AAGGTACTAGAAGGATCTAAAGAA
37401391 AAGGTACTAGAAGGATCTAAAGAA
1 AAGGTACTAGAAGGATCTAAAGAA
* *
37401415 AAGGCACTAGAACGATC
1 AAGGTACTAGAAGGATC
37401432 CCTCAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.49, C:0.12, G:0.23, T:0.15
Consensus pattern (24 bp):
AAGGTACTAGAAGGATCTAAAGAA
Found at i:37415323 original size:18 final size:18
Alignment explanation
Indices: 37415300--37415348 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 18
37415290 TATGATGATA
37415300 TATATGTGATGAACAATG
1 TATATGTGATGAACAATG
37415318 TATATGTGAAATATGAACAATG
1 TATATGTG----ATGAACAATG
37415340 TATATGTGA
1 TATATGTGA
37415349 AATATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 9 0.33
22 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
TATATGTGATGAACAATG
Found at i:37415333 original size:22 final size:22
Alignment explanation
Indices: 37415308--37415353 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
37415298 TATATATGTG
37415308 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
37415330 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
37415352 AT
1 AT
37415354 TATATGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
ATGAACAATGTATATGTGAAAT
Found at i:37415515 original size:6 final size:6
Alignment explanation
Indices: 37415504--37415536 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
37415494 TGATCAAAAT
*
37415504 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
37415537 TATGAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:37420805 original size:18 final size:18
Alignment explanation
Indices: 37420782--37420830 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 18
37420772 TATGATGATA
37420782 TATATGTGATGAACAATG
1 TATATGTGATGAACAATG
37420800 TATATGTGAAATATGAACAATG
1 TATATGTG----ATGAACAATG
37420822 TATATGTGA
1 TATATGTGA
37420831 AATATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 9 0.33
22 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
TATATGTGATGAACAATG
Found at i:37420815 original size:22 final size:22
Alignment explanation
Indices: 37420790--37420835 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
37420780 TATATATGTG
37420790 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
37420812 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
37420834 AT
1 AT
37420836 TATATGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
ATGAACAATGTATATGTGAAAT
Found at i:37420997 original size:6 final size:6
Alignment explanation
Indices: 37420986--37421018 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
37420976 TGATCAAAAT
*
37420986 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
37421019 TATGAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:37421168 original size:41 final size:40
Alignment explanation
Indices: 37421120--37421220 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
37421110 TCGACCTCGA
** *
37421120 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
37421160 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
37421198 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
37421221 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:37424790 original size:40 final size:40
Alignment explanation
Indices: 37424746--37424911 Score: 208
Period size: 40 Copynumber: 4.2 Consensus size: 40
37424736 CCATAGCTTG
*
37424746 GCTTGAATTTTAACACC-GTCTCATAGCCTGTTAAGCCATA
1 GCTTGAATTTTAACACCAG-CTCATAGCCTGCTAAGCCATA
* * *
37424786 GCTTGAATTTTAACACCAGCTCACAGCTTGCTAAGCCGTA
1 GCTTGAATTTTAACACCAGCTCATAGCCTGCTAAGCCATA
* ** * * *
37424826 GCATGAATTTTAACGTCGGCTCATAGCCTGCTAAGTCGTA
1 GCTTGAATTTTAACACCAGCTCATAGCCTGCTAAGCCATA
* *
37424866 GCTTGAATTATAACACCAGCTCATAGCTTGCTAAGCCATA
1 GCTTGAATTTTAACACCAGCTCATAGCCTGCTAAGCCATA
37424906 GCTTGA
1 GCTTGA
37424912 TTCTTTCTCC
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 105 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (40 bp):
GCTTGAATTTTAACACCAGCTCATAGCCTGCTAAGCCATA
Found at i:37424849 original size:80 final size:80
Alignment explanation
Indices: 37424749--37424907 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 80
37424739 TAGCTTGGCT
* * *
37424749 TGAATTTTAACACCGTCTCATAGCCTGTTAAGCCATAGCTTGAATTTTAACACCAGCTCACAGCT
1 TGAATTTTAACACCGGCTCATAGCCTGCTAAGCCATAGCTTGAATTATAACACCAGCTCACAGCT
*
37424814 TGCTAAGCCGTAGCA
66 TGCTAAGCCATAGCA
** * * *
37424829 TGAATTTTAACGTCGGCTCATAGCCTGCTAAGTCGTAGCTTGAATTATAACACCAGCTCATAGCT
1 TGAATTTTAACACCGGCTCATAGCCTGCTAAGCCATAGCTTGAATTATAACACCAGCTCACAGCT
37424894 TGCTAAGCCATAGC
66 TGCTAAGCCATAGC
37424908 TTGATTCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (80 bp):
TGAATTTTAACACCGGCTCATAGCCTGCTAAGCCATAGCTTGAATTATAACACCAGCTCACAGCT
TGCTAAGCCATAGCA
Found at i:37427387 original size:18 final size:18
Alignment explanation
Indices: 37427345--37427393 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
37427335 TTATCAAAAG
*
37427345 ATATTTTA-ATTATTAATA
1 ATATTTTATAATA-TAATA
37427363 ATA--TTATAATATAATA
1 ATATTTTATAATATAATA
37427379 ATATTTTATAA-ATAA
1 ATATTTTATAATATAA
37427394 ATAAAAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 11 0.41
17 7 0.26
18 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTTATAATATAATA
Found at i:37428436 original size:16 final size:18
Alignment explanation
Indices: 37428411--37428447 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
37428401 ATATGGGACA
*
37428411 AAAATGAGAA-TGATGTG
1 AAAATGAGAATTGAAGTG
37428428 AAAAT-AGAATTGAAGTG
1 AAAATGAGAATTGAAGTG
37428445 AAA
1 AAA
37428448 TTTGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (18 bp):
AAAATGAGAATTGAAGTG
Found at i:37429790 original size:3 final size:3
Alignment explanation
Indices: 37429782--37429833 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
37429772 ATACGGTATG
37429782 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
37429830 TAA T
1 TAA T
37429834 GTACAGTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:37431411 original size:20 final size:20
Alignment explanation
Indices: 37431386--37431423 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37431376 TTAAAATTTT
37431386 GAACCTCAAACCTCAAATTC
1 GAACCTCAAACCTCAAATTC
* *
37431406 GAACCTTAAATCTCAAAT
1 GAACCTCAAACCTCAAAT
37431424 CTTAATCTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.24
Consensus pattern (20 bp):
GAACCTCAAACCTCAAATTC
Found at i:37434984 original size:5 final size:5
Alignment explanation
Indices: 37434969--37434998 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
37434959 AGTTTTCAGG
*
37434969 GTTTT GATTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
37434999 TAATCCTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.77
Consensus pattern (5 bp):
GTTTT
Found at i:37438809 original size:42 final size:42
Alignment explanation
Indices: 37438700--37439062 Score: 451
Period size: 41 Copynumber: 8.9 Consensus size: 42
37438690 AGACTGGATA
*
37438700 CTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT-A-GT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * * *
37438740 CCTCAATCTACCCCATGATTGGAGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
*
37438782 CTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATG--GT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
** * *
37438822 CCACAATCTGCCTCATGATCGAGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
*
37438864 CTTCAATCTG-CCCATGAT-TGGG--AGAGATTGG-TGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
37438901 CTTCAATCTGTCCCATGATCGGGATAAGAGATTGGATGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* *
37438943 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-CGATAT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * * *
37438984 CTTCAATCTACCCCATGATCAGGGTAAGAGATTTG-CGATGT
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
* * *
37439025 CTTCAATTTGCCCCATGATCGAGGTAGGAGATTGGATG
1 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATG
37439063 GCTTCGCTTT
Statistics
Matches: 278, Mismatches: 35, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
37 16 0.06
38 17 0.06
39 2 0.01
40 71 0.26
41 87 0.31
42 85 0.31
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGT
Found at i:37438948 original size:161 final size:163
Alignment explanation
Indices: 37438700--37439061 Score: 452
Period size: 161 Copynumber: 2.2 Consensus size: 163
37438690 AGACTGGATA
*
37438700 CTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGATAGTCCTCAATCTACCCCATGATTGGAGT
1 CTTCAATCTGCCCCATGATCAGGG-AAGAGATTGGATAGTCCTCAATCTACCCCATGATGGGAGT
* *
37438765 AAGAGATTGGATGATGTCTTCAATCTGCCTCATGATCGGGGTAAGAGATT-G-GATGGTCCACAA
65 AAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGAT-ATCCACAA
* * *
37438828 TCTGCCTCATGATC-GAGGTAAGAGATTGGATGATGT
129 TCTACCCCATGATCAG-GGTAAGAGATTGG-CGATGT
* * **
37438864 CTTCAATCTG-CCCATGAT-TGGG-AGAGATTGG-TGATGTCTTCAATCTGTCCCATGATCGGGA
1 CTTCAATCTGCCCCATGATCAGGGAAGAGATTGGAT-A-GTCCTCAATCTACCCCATGAT-GGGA
**
37438925 -TAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGATATCTTCA
63 GTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGATATCCACA
*
37438989 ATCTACCCCATGATCAGGGTAAGAGATTTGCGATGT
128 ATCTACCCCATGATCAGGGTAAGAGATTGGCGATGT
* * *
37439025 CTTCAATTTGCCCCATGATCGAGGTAGGAGATTGGAT
1 CTTCAATCTGCCCCATGATC-AGGGAAGAGATTGGAT
37439062 GGCTTCGCTT
Statistics
Matches: 170, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
159 1 0.01
160 10 0.06
161 82 0.48
162 44 0.26
163 12 0.07
164 12 0.07
165 8 0.05
166 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (163 bp):
CTTCAATCTGCCCCATGATCAGGGAAGAGATTGGATAGTCCTCAATCTACCCCATGATGGGAGTA
AGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGCGATATCCACAATC
TACCCCATGATCAGGGTAAGAGATTGGCGATGT
Found at i:37439258 original size:49 final size:49
Alignment explanation
Indices: 37439205--37439331 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
37439195 GAGATTCATT
* * *
37439205 GTTACGACCTCAATCTTTCCCTTCATATCTCTAAGGTATAAGGTTCACC
1 GTTACGACTTCAACCTTTCCCTTCATATCTCTAAGGTAAAAGGTTCACC
* ** * *
37439254 GTTACGACTTCAACCTTTCCCATCACGTATCTAAGGTAAAAGGTTTACC
1 GTTACGACTTCAACCTTTCCCTTCATATCTCTAAGGTAAAAGGTTCACC
* * *
37439303 GTTACGGCTTCAACCTTTTCCTCCATATC
1 GTTACGACTTCAACCTTTCCCTTCATATC
37439332 CACAGTACCG
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (49 bp):
GTTACGACTTCAACCTTTCCCTTCATATCTCTAAGGTAAAAGGTTCACC
Found at i:37439411 original size:49 final size:49
Alignment explanation
Indices: 37439336--37439730 Score: 273
Period size: 49 Copynumber: 8.0 Consensus size: 49
37439326 CATATCCACA
* * * * * *
37439336 GTACCGGATTCGCCGTTGTGGCCTTAA-CTTTTCACTTCATCTCTTCATG
1 GTACCGGATTCACCGTTGCGACCTCAATC-TTTCCCTTCATATCTTCATG
* * * * * * * *
37439385 GTATCGGATTTACCGTTGCGATCTTAATCCTTCCCATCACATCTTCTAAG
1 GTACCGGATTCACCGTTGCGACCTCAATCTTTCCCTTCATATCTTC-ATG
* ** *
37439435 GTACCGGGTTCATTGTTGCGACCTCAATCTTTCCCTTCATATCTTCACG
1 GTACCGGATTCACCGTTGCGACCTCAATCTTTCCCTTCATATCTTCATG
* * * *
37439484 GTACCGGATTTACCGTTGCGGCCTCAACCTTCCCCTTCATATCTTCATG
1 GTACCGGATTCACCGTTGCGACCTCAATCTTTCCCTTCATATCTTCATG
* * *
37439533 GTACCGGATTCACCGTTGC-AGTCTCAAT-TCTTCCCATCACATCTTC-TGAG
1 GTACCGGATTCACCGTTGCGA-CCTCAATCT-TTCCCTTCATATCTTCAT--G
* * * ** *
37439583 GTACCAGG-TTCGCCATTACTTCCTTAA-CTTTTCCCTTCATATCTTCATG
1 GTACC-GGATTCACCGTTGCGACCTCAATC-TTTCCCTTCATATCTTCATG
* * * * * * *
37439632 GTACCGGATTCGCCATTGCGGCCTCAATCCTTCCCATCACATCTTCTAAG
1 GTACCGGATTCACCGTTGCGACCTCAATCTTTCCCTTCATATCTTC-ATG
* * * *
37439682 GTACTAGG-TTCACCGTTGCGGCCTCAACCTTCCCCTTCATATCTTCATG
1 GTAC-CGGATTCACCGTTGCGACCTCAATCTTTCCCTTCATATCTTCATG
37439731 TTTCTTCAGT
Statistics
Matches: 268, Mismatches: 63, Indels: 30
0.74 0.17 0.08
Matches are distributed among these distances:
48 4 0.01
49 149 0.56
50 109 0.41
51 6 0.02
ACGTcount: A:0.18, C:0.32, G:0.15, T:0.35
Consensus pattern (49 bp):
GTACCGGATTCACCGTTGCGACCTCAATCTTTCCCTTCATATCTTCATG
Found at i:37439522 original size:148 final size:148
Alignment explanation
Indices: 37439270--37439715 Score: 415
Period size: 148 Copynumber: 3.0 Consensus size: 148
37439260 ACTTCAACCT
* * ** * * * * *
37439270 TTCCCATCACGT-ATCTAAGGTAAAAGGTTTACCGTTACGGCTTCAACCTTTT-CCTCCATATC-
1 TTCCCATCACATCTTCTAAGGTACCAGGTTCACCATTACGACCTCAA-CTTTTCCCTTCATATCT
* * * * * * * * *
37439332 -CACAGTACCGGATTCGCCGTTGTGGCCTTAACTTTTCACTTCATCTCTTCATGGTATCGGATTT
65 TCACGGTACCGGATTCGCCGTTGCGGCCTCAACCTTCCCCTTCATATCTTCATGGTACCGGATTC
*
37439396 ACCGTTGC-GATCTTAATCC
130 ACCGTTGCAG-TCTCAATCC
* *** *
37439415 TTCCCATCACATCTTCTAAGGTACCGGGTTCATTGTTGCGACCTCAA-TCTTTCCCTTCATATCT
1 TTCCCATCACATCTTCTAAGGTACCAGGTTCACCATTACGACCTCAACT-TTTCCCTTCATATCT
**
37439479 TCACGGTACCGGATTTACCGTTGCGGCCTCAACCTTCCCCTTCATATCTTCATGGTACCGGATTC
65 TCACGGTACCGGATTCGCCGTTGCGGCCTCAACCTTCCCCTTCATATCTTCATGGTACCGGATTC
*
37439544 ACCGTTGCAGTCTCAATTC
130 ACCGTTGCAGTCTCAATCC
* * ** *
37439563 TTCCCATCACATCTTCTGAGGTACCAGGTTCGCCATTACTTCCTTAACTTTTCCCTTCATATCTT
1 TTCCCATCACATCTTCTAAGGTACCAGGTTCACCATTACGACCTCAACTTTTCCCTTCATATCTT
* * * * * *
37439628 CATGGTACCGGATTCGCCATTGCGGCCTCAATCCTT-CCCATCACATCTTCTAAGGTACTAGG-T
66 CACGGTACCGGATTCGCCGTTGCGGCCTCAA-CCTTCCCCTTCATATCTTC-ATGGTAC-CGGAT
* *
37439691 TCACCGTTGCGGCCTCAA-CC
128 TCACCGTTGCAGTCTCAATCC
37439711 TTCCC
1 TTCCC
37439716 CTTCATATCT
Statistics
Matches: 245, Mismatches: 46, Indels: 17
0.80 0.15 0.06
Matches are distributed among these distances:
144 1 0.00
145 14 0.06
146 33 0.13
148 166 0.68
149 29 0.12
150 2 0.01
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (148 bp):
TTCCCATCACATCTTCTAAGGTACCAGGTTCACCATTACGACCTCAACTTTTCCCTTCATATCTT
CACGGTACCGGATTCGCCGTTGCGGCCTCAACCTTCCCCTTCATATCTTCATGGTACCGGATTCA
CCGTTGCAGTCTCAATCC
Found at i:37439528 original size:99 final size:97
Alignment explanation
Indices: 37439425--37439730 Score: 321
Period size: 99 Copynumber: 3.1 Consensus size: 97
37439415 TTCCCATCAC
* * ** * *
37439425 ATCTTCTAAGGTACCGGGTTCATTGTTGCGACCTCAATCTTTCCCTTCATATCTTC-ACGGTACC
1 ATCTTC-ATGGTACCGGATTCACCGTTGCGACCTCAATCTTTCCCATCACATCTTCTA-GGTACC
*
37439489 GGATTTACCGTTGCGGCCTCAACCTTCCCCTTCAT
64 GG-TTCACCGTTGCGGCCTCAACCTTCCCCTTCAT
*
37439524 ATCTTCATGGTACCGGATTCACCGTTGC-AGTCTCAAT-TCTTCCCATCACATCTTCTGAGGTAC
1 ATCTTCATGGTACCGGATTCACCGTTGCGA-CCTCAATCT-TTCCCATCACATCTTCT-AGGTAC
* * * ** * * *
37439587 CAGGTTCGCCATTACTTCCTTAACTTTTCCCTTCAT
63 C-GGTTCACCGTTGCGGCCTCAACCTTCCCCTTCAT
* * * * *
37439623 ATCTTCATGGTACCGGATTCGCCATTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACTA
1 ATCTTCATGGTACCGGATTCACCGTTGCGACCTCAATCTTTCCCATCACATCTTCT-AGGTAC-C
37439688 GGTTCACCGTTGCGGCCTCAACCTTCCCCTTCAT
64 GGTTCACCGTTGCGGCCTCAACCTTCCCCTTCAT
37439722 ATCTTCATG
1 ATCTTCATG
37439731 TTTCTTCAGT
Statistics
Matches: 168, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
97 2 0.01
98 38 0.23
99 125 0.74
100 3 0.02
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.34
Consensus pattern (97 bp):
ATCTTCATGGTACCGGATTCACCGTTGCGACCTCAATCTTTCCCATCACATCTTCTAGGTACCGG
TTCACCGTTGCGGCCTCAACCTTCCCCTTCAT
Found at i:37440351 original size:113 final size:113
Alignment explanation
Indices: 37440153--37440483 Score: 450
Period size: 113 Copynumber: 2.9 Consensus size: 113
37440143 TATCGTTAGA
*
37440153 CCACTAACCGTTATTTCAATGC-AAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTGAATT
1 CCACTAACCGTTATTTCAATGCAAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATT
* * * *
37440217 TCATTGGAGGCAAAGGTCGTATGGATGAAATGAA-TAAAAATCATTGGT
66 TTATTGGAGGCAAAGCTCGTATGAATGAAA-AAATTAAAAATCATTGGT
* * * *
37440265 TCACTAGCCGTTATTTCGATGCAAAAAATGCTTGAACAAGGTTTTAAGGTGGATAAAATTGAATT
1 CCACTAACCGTTATTTCAATGCAAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATT
* * **
37440330 TTATTAGAGACAAAGCTCGTATGAATGAAAAAATTACGAATCATTGGT
66 TTATTGGAGGCAAAGCTCGTATGAATGAAAAAATTAAAAATCATTGGT
* * *
37440378 CCACTAACCGTTATTTCAATGCAAAAAATACTTGGACAAGGTTGTAAGGTGGATAAAATTAAATT
1 CCACTAACCGTTATTTCAATGCAAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATT
* * * * *
37440443 TTATTGGAGGCAAATCTCATATAAATGAAAAGATTGAAAAT
66 TTATTGGAGGCAAAGCTCGTATGAATGAAAAAATTAAAAAT
37440484 GACAAACATT
Statistics
Matches: 188, Mismatches: 29, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
112 21 0.11
113 167 0.89
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (113 bp):
CCACTAACCGTTATTTCAATGCAAAAAATGCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATT
TTATTGGAGGCAAAGCTCGTATGAATGAAAAAATTAAAAATCATTGGT
Found at i:37443912 original size:24 final size:24
Alignment explanation
Indices: 37443878--37443931 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
37443868 TTATTTTTCT
37443878 TTGAC-TACATACGCATGGCCAGG
1 TTGACTTACATACGCATGGCCAGG
37443901 TTGACTTACATACGCATGGCCAGG
1 TTGACTTACATACGCATGGCCAGG
37443925 TTGACTT
1 TTGACTT
37443932 CTACCTTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (24 bp):
TTGACTTACATACGCATGGCCAGG
Found at i:37445114 original size:51 final size:51
Alignment explanation
Indices: 37445032--37445268 Score: 334
Period size: 51 Copynumber: 4.6 Consensus size: 51
37445022 GCTATAAACG
37445032 AAAGAGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
1 AAAG-GTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
37445084 AAAGGTCCGGTGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* *
37445135 AAAGGTCCGATGACTAAATGACATCGTGAGTAAATGAAT-CTTTAACGGATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTT-ACGGATT
* * * * * *
37445186 AAAGGTCCGGTGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGAATT
1 AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*
37445237 AAAGGTCCGATGAC-AATATGTCATCGTGAGTA
1 AAAGGTCCGATGACTAA-GTGTCATCGTGAGTA
37445269 TTAAATGAAA
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
50 6 0.04
51 153 0.93
52 6 0.04
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:37451921 original size:51 final size:50
Alignment explanation
Indices: 37451840--37451996 Score: 219
Period size: 51 Copynumber: 3.1 Consensus size: 50
37451830 AAGAGTCTGA
*
37451840 TGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCGG
1 TGACTAAGTGTCATCGTGAGTAAAT-AATCCTTTACGGATTAAAGGTCCGG
* *
37451891 TGACTAAGTGTCATCGTGAGTAAATAAATCCTTTTCGGATTAAAGGTCCTG
1 TGACTAAGTGTCATCGTGAGTAAAT-AATCCTTTACGGATTAAAGGTCCGG
* * * *
37451942 TAACTAAGTGTCATCGTGAGTAAAT--GCCTTTACGGATTAAAGGCCCGA
1 TGACTAAGTGTCATCGTGAGTAAATAATCCTTTACGGATTAAAGGTCCGG
37451990 TGACTAA
1 TGACTAA
37451997 ATGTTGAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
48 24 0.25
51 71 0.75
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (50 bp):
TGACTAAGTGTCATCGTGAGTAAATAATCCTTTACGGATTAAAGGTCCGG
Found at i:37453975 original size:62 final size:59
Alignment explanation
Indices: 37453877--37453993 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
37453867 ATCACTTTAA
* *
37453877 TATTAAATTAATATAATACTTATTAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
* *
37453936 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTAT-T--AAGATAAATATTAAATTAAATTTAATATTAA
37453994 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 21 0.41
60 1 0.02
62 29 0.57
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:37462227 original size:2 final size:2
Alignment explanation
Indices: 37462220--37462253 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
37462210 CTAACACTTT
37462220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37462254 AATTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37462535 original size:22 final size:22
Alignment explanation
Indices: 37462510--37462561 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
37462500 TAAGGATAAT
* * *
37462510 AATAAAATATTTAATCCTCCAA
1 AATAAAATATTAAAACCCCCAA
37462532 AAT-AAATATTAAAACCCCCAA
1 AATAAAATATTAAAACCCCCAA
37462553 AATTAAAAT
1 AA-TAAAAT
37462562 CTGTCTTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 17 0.68
22 4 0.16
23 4 0.16
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (22 bp):
AATAAAATATTAAAACCCCCAA
Found at i:37466377 original size:14 final size:14
Alignment explanation
Indices: 37466355--37466391 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
37466345 CCCATCACCC
37466355 AAACACAAAAAATA
1 AAACACAAAAAATA
*
37466369 AAACTCAAAAAATA
1 AAACACAAAAAATA
37466383 AAACA-AAAA
1 AAACACAAAA
37466392 CCTAACCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.78, C:0.14, G:0.00, T:0.08
Consensus pattern (14 bp):
AAACACAAAAAATA
Found at i:37472240 original size:21 final size:21
Alignment explanation
Indices: 37472185--37472240 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
37472175 AGGGTTTTTA
* *
37472185 GTATCGGTAGAAGCATGACTT
1 GTATCGGTAGAAGTATCACTT
* *
37472206 GTTTCGGTAGAAGTTTCACTT
1 GTATCGGTAGAAGTATCACTT
37472227 GTATCGGTAGAAGT
1 GTATCGGTAGAAGT
37472241 CTGCATTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (21 bp):
GTATCGGTAGAAGTATCACTT
Found at i:37472249 original size:21 final size:22
Alignment explanation
Indices: 37472185--37472249 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
37472175 AGGGTTTTTA
37472185 GTATCGGTAGAAG-CATG-ACTT
1 GTATCGGTAGAAGTC-TGCACTT
* *
37472206 GTTTCGGTAGAAGT-TTCACTT
1 GTATCGGTAGAAGTCTGCACTT
37472227 GTATCGGTAGAAGTCTGCA-TT
1 GTATCGGTAGAAGTCTGCACTT
37472248 GT
1 GT
37472250 TTTTAAATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 1 0.03
21 33 0.89
22 3 0.08
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
GTATCGGTAGAAGTCTGCACTT
Found at i:37480293 original size:24 final size:24
Alignment explanation
Indices: 37480265--37480311 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
37480255 TAGGCGAAGT
*
37480265 AGGAATAGCAGGAA-AAGCAGTAGA
1 AGGAAAAGCAGGAAGAAG-AGTAGA
37480289 AGGAAAAGCAGGAAGAAGAGTAG
1 AGGAAAAGCAGGAAGAAGAGTAG
37480312 GTATAGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.51, C:0.06, G:0.36, T:0.06
Consensus pattern (24 bp):
AGGAAAAGCAGGAAGAAGAGTAGA
Found at i:37484571 original size:21 final size:21
Alignment explanation
Indices: 37484522--37484569 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
37484512 AACTGAAAAC
37484522 CCAAAACCTCGAATCTCAAAT
1 CCAAAACCTCGAATCTCAAAT
*
37484543 CCAAAACCTCGAATCTTAAAT
1 CCAAAACCTCGAATCTCAAAT
37484564 CACAAA
1 C-CAAA
37484570 CCCTAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (21 bp):
CCAAAACCTCGAATCTCAAAT
Found at i:37484751 original size:20 final size:20
Alignment explanation
Indices: 37484657--37484752 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
37484647 AGTCGGGCTC
*
37484657 AAGGTTTGGGTTTGGGGTTT
1 AAGGTTTGGATTTGGGGTTT
* *
37484677 TAGGTTCGGATTTGGGGTTT
1 AAGGTTTGGATTTGGGGTTT
* * *
37484697 GAGATTTGAGATTTGGGATTT
1 AAGGTTTG-GATTTGGGGTTT
** *
37484718 GAATTTTTATGATTT-GGGTTT
1 -AAGGTTT-GGATTTGGGGTTT
37484739 AAGGTTTAGGATTT
1 AAGGTTT-GGATTT
37484753 TATGTTAGGG
Statistics
Matches: 58, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
20 33 0.57
21 16 0.28
22 9 0.16
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (20 bp):
AAGGTTTGGATTTGGGGTTT
Found at i:37499310 original size:62 final size:62
Alignment explanation
Indices: 37499234--37499357 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
37499224 TTGTGTTGGA
* *
37499234 CGGAATTGGTGAGGATTTAATTAATTAATTAATAATAATTATT-TTTTGTTCCATAATGAAGT
1 CGGAATTGGTGAGGATTTAATTAATTAAGTAATAATAATAATTATTTT-TTCCATAATGAAGT
37499296 CGGAATTGGTGAGGATTTAATTAATTAAGTAATAATAATAATTATTTTTTCCATAATGAAGT
1 CGGAATTGGTGAGGATTTAATTAATTAAGTAATAATAATAATTATTTTTTCCATAATGAAGT
37499358 TGCCTCAAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 55 0.93
63 4 0.07
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (62 bp):
CGGAATTGGTGAGGATTTAATTAATTAAGTAATAATAATAATTATTTTTTCCATAATGAAGT
Found at i:37500585 original size:5 final size:6
Alignment explanation
Indices: 37500549--37500584 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
37500539 CCAATTTAAT
37500549 AAATCA AAATCA AAATCA AAATC- AAATC- AAATCA AA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AA
37500585 TATTAGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:37501629 original size:18 final size:19
Alignment explanation
Indices: 37501606--37501643 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37501596 ATTTTAAAAA
37501606 TATAAAT-TT-TAGAATTTT
1 TATAAATATTCTA-AATTTT
37501624 TATAAATATTCTAAATTTT
1 TATAAATATTCTAAATTTT
37501643 T
1 T
37501644 TGTAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 9 0.50
20 2 0.11
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
TATAAATATTCTAAATTTT
Found at i:37505861 original size:62 final size:59
Alignment explanation
Indices: 37505751--37505901 Score: 141
Period size: 63 Copynumber: 2.5 Consensus size: 59
37505741 AACATGACAC
* ** ** * *
37505751 TTTTTTCTAATTTGGTATATAAACTTTTTTTTGATTCAATTTGGTACTTG-ATCTT-GTCA
1 TTTTTTCTAATTTGATACCTAAACTTTTTTTTGACCCAATCTGATACTTGAAT-TTGGT-A
37505810 TTTTTTTTTCTTAATTTGATACCTAAACTTTTTTTT-ACCCAATCTGATACTTGAATTTGGTA
1 ---TTTTTTC-TAATTTGATACCTAAACTTTTTTTTGACCCAATCTGATACTTGAATTTGGTA
37505872 TTTTTTCCTAATTTGATACCT-AA-TTTTTTT
1 TTTTTT-CTAATTTGATACCTAAACTTTTTTT
37505902 AGATTTAATT
Statistics
Matches: 78, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
57 7 0.09
58 2 0.03
59 19 0.24
60 1 0.01
62 23 0.29
63 26 0.33
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.56
Consensus pattern (59 bp):
TTTTTTCTAATTTGATACCTAAACTTTTTTTTGACCCAATCTGATACTTGAATTTGGTA
Found at i:37505925 original size:58 final size:59
Alignment explanation
Indices: 37505813--37505925 Score: 131
Period size: 59 Copynumber: 1.9 Consensus size: 59
37505803 CTTGTCATTT
* * * *
37505813 TTTTTTCTTAATTTGATACCTAAACTTTTTTTTACCCAATCTGATACTTGAATTTGGTA
1 TTTTTTCCTAATTTGATACCTAAACTTTTTTTGACCCAATCTGATACCTAAATTTGGTA
*** *
37505872 TTTTTTCCTAATTTGATACCT-AA-TTTTTTTAGATTTAATTTGATACCTAAATTT
1 TTTTTTCCTAATTTGATACCTAAACTTTTTTT-GACCCAATCTGATACCTAAATTT
37505926 ATTAAATATT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
57 7 0.16
58 18 0.40
59 20 0.44
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (59 bp):
TTTTTTCCTAATTTGATACCTAAACTTTTTTTGACCCAATCTGATACCTAAATTTGGTA
Found at i:37509563 original size:20 final size:20
Alignment explanation
Indices: 37509526--37509563 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37509516 TTAATATTAA
*
37509526 ATTTTTATATTTATATTTAT
1 ATTTTTATATTGATATTTAT
37509546 ATTTTTAATATTGA-ATTT
1 ATTTTT-ATATTGATATTT
37509564 TCCTTTCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
ATTTTTATATTGATATTTAT
Done.