Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 108 of 199
Found at i:36036586 original size:17 final size:16
Alignment explanation
Indices: 36036527--36036583 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
36036517 ATAATTCACA
36036527 TAATAACTTACATAACT
1 TAATAACTT-CATAACT
* *
36036544 TAATAACTTAACAACT
1 TAATAACTTCATAACT
* *
36036560 CACATAATTTCCATAACT
1 TA-ATAACTT-CATAACT
36036578 TAATAA
1 TAATAA
36036584 TTTTATAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 6 0.19
17 19 0.61
18 6 0.19
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATAACTTCATAACT
Found at i:36036701 original size:17 final size:17
Alignment explanation
Indices: 36036679--36036750 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
36036669 ATAACTCACA
36036679 TAATAACTTACATAACT
1 TAATAACTTACATAACT
*
36036696 TAATAACTTATATATA-T
1 TAATAACTTACATA-ACT
**
36036713 GCATAACTTA-ATAACT
1 TAATAACTTACATAACT
* * *
36036729 CATATTATTTACATAACT
1 TA-ATAACTTACATAACT
36036747 TAAT
1 TAAT
36036751 CATTGTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.40
Consensus pattern (17 bp):
TAATAACTTACATAACT
Found at i:36036723 original size:25 final size:26
Alignment explanation
Indices: 36036687--36036750 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
36036677 CATAATAACT
*
36036687 TACATAACTTAATAACTTATA-TATA
1 TACATAACTTAATAACTCATATTATA
* *
36036712 TGCATAACTTAATAACTCATATTATT
1 TACATAACTTAATAACTCATATTATA
36036738 TACATAACTTAAT
1 TACATAACTTAAT
36036751 CATTGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (26 bp):
TACATAACTTAATAACTCATATTATA
Found at i:36037316 original size:43 final size:43
Alignment explanation
Indices: 36037253--36037431 Score: 270
Period size: 43 Copynumber: 4.2 Consensus size: 43
36037243 CACCAAACAA
36037253 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* ** * *
36037296 TAACGGCGTTAATGGGAAAAGTGCCGCT-AAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* *
36037338 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* *
36037381 TAGCGGCGGTTGCGGGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
36037424 TAGCGGCG
1 TAGCGGCG
36037432 CTTATTTTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
42 36 0.30
43 85 0.70
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:36037360 original size:85 final size:86
Alignment explanation
Indices: 36037253--36037431 Score: 272
Period size: 85 Copynumber: 2.1 Consensus size: 86
36037243 CACCAAACAA
*
36037253 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAACGGC-GTTAATGGGAAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAACGGCGGTT-ACGGGAAAAG
* *
36037317 TGCCGCT-AAGAACATGGCCTT
65 CGCCGCTAAAGAACATGACCTT
* * * *
36037338 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGGTTGCGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAACGGCGGTTACGGGAAAAGC
36037403 GCCGCTAAAGAACATGACCTT
66 GCCGCTAAAGAACATGACCTT
36037424 TAGCGGCG
1 TAGCGGCG
36037432 CTTATTTTTA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
85 61 0.72
86 24 0.28
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.20
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTTTAACGGCGGTTACGGGAAAAGC
GCCGCTAAAGAACATGACCTT
Found at i:36038341 original size:42 final size:42
Alignment explanation
Indices: 36038284--36038402 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
36038274 GTTTACAAAC
* *
36038284 AAAAACACCGCTAAAGACCATGTTCTTTAGTGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGAA
* *
36038326 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGGGGCTTAGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGAA
* *
36038368 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGAGGCG
36038403 TTTTTTCCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGAA
Found at i:36038455 original size:38 final size:39
Alignment explanation
Indices: 36038390--36038484 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 39
36038380 AAAGATCATG
*
36038390 TTCTTTAGCGGCGTTTTTTCCTTAAGCGTCGCTAAAGAA
1 TTCTTTAGCGGCGTTTTTTCCTTAAGCGCCGCTAAAGAA
*
36038429 TTCTTTAGCGGCGTTTTTTTC-TAAGCGCCGCTAAAGAA
1 TTCTTTAGCGGCGTTTTTTCCTTAAGCGCCGCTAAAGAA
*
36038467 TTCTTTAGCGGCGCTTTT
1 TTCTTTAGCGGCGTTTTT
36038485 ATACAAAAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 33 0.62
39 20 0.38
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (39 bp):
TTCTTTAGCGGCGTTTTTTCCTTAAGCGCCGCTAAAGAA
Found at i:36038830 original size:21 final size:21
Alignment explanation
Indices: 36038801--36038846 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
36038791 TTTTGGTCTG
* * *
36038801 CTCTGCTTCTCTCGTTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
*
36038822 CTCTACTTCCCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
36038843 CTCT
1 CTCT
36038847 GCTTTAAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.46, G:0.15, T:0.35
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:36044324 original size:9 final size:9
Alignment explanation
Indices: 36044310--36044852 Score: 406
Period size: 9 Copynumber: 65.2 Consensus size: 9
36044300 AAGTTATACA
36044310 TTATGTAAG
1 TTATGTAAG
36044319 TTATGTAAG
1 TTATGTAAG
*
36044328 TTGTGTAAG
1 TTATGTAAG
*
36044337 TTGTGTAAG
1 TTATGTAAG
*
36044346 TTGTGT-A-
1 TTATGTAAG
* *
36044353 TTATGAAAC
1 TTATGTAAG
36044362 TTATGTAAG
1 TTATGTAAG
*
36044371 TTGTGTAAG
1 TTATGTAAG
*
36044380 TTGTGT-A-
1 TTATGTAAG
* *
36044387 TTATGAAAC
1 TTATGTAAG
36044396 TTATGTAAG
1 TTATGTAAG
*
36044405 TTATGT--C
1 TTATGTAAG
36044412 TTATGTAAG
1 TTATGTAAG
*
36044421 TTATGTAAA
1 TTATGTAAG
36044430 TTATGT-A-
1 TTATGTAAG
36044437 TTATGTAAG
1 TTATGTAAG
36044446 TTATGTAAG
1 TTATGTAAG
*
36044455 TTGTGT-A-
1 TTATGTAAG
36044462 TTATGTAAG
1 TTATGTAAG
36044471 TTATGTTAA-
1 TTATG-TAAG
36044480 TTATGT-A-
1 TTATGTAAG
36044487 TTATGTAAG
1 TTATGTAAG
36044496 TTATGTAAG
1 TTATGTAAG
36044505 -T-TGT--G
1 TTATGTAAG
36044510 TTATGTAAG
1 TTATGTAAG
*
36044519 TTATGTTAG
1 TTATGTAAG
*
36044528 TTGTGT-A-
1 TTATGTAAG
36044535 TTATGTAAG
1 TTATGTAAG
*
36044544 TTATGCAAG
1 TTATGTAAG
36044553 TTATGT-A-
1 TTATGTAAG
* *
36044560 TTAAGTAGG
1 TTATGTAAG
36044569 TTATGTAAG
1 TTATGTAAG
36044578 TTATGT-A-
1 TTATGTAAG
36044585 TTATGTAAG
1 TTATGTAAG
36044594 TTATGTAAG
1 TTATGTAAG
*
36044603 TTGTGT-A-
1 TTATGTAAG
36044610 TTATGTAAG
1 TTATGTAAG
*
36044619 TTATGTAAA
1 TTATGTAAG
*
36044628 TTGTGT-A-
1 TTATGTAAG
*
36044635 TTATTTACA-
1 TTATGTA-AG
*
36044644 -CATGTAAG
1 TTATGTAAG
*
36044652 TTGTGT-A-
1 TTATGTAAG
36044659 TTATGTAAG
1 TTATGTAAG
*
36044668 TTATGCAAG
1 TTATGTAAG
36044677 TTATGT-A-
1 TTATGTAAG
* *
36044684 TTAAGTAGG
1 TTATGTAAG
36044693 TTATGTAAG
1 TTATGTAAG
36044702 TTATGT-A-
1 TTATGTAAG
36044709 TTATGTAAG
1 TTATGTAAG
36044718 TTATGTAAG
1 TTATGTAAG
*
36044727 TTGTGT-A-
1 TTATGTAAG
36044734 TTATGTAAG
1 TTATGTAAG
*
36044743 TTATGTAAA
1 TTATGTAAG
*
36044752 TTGTGT-A-
1 TTATGTAAG
*
36044759 TTATTTACA-
1 TTATGTA-AG
* *
36044768 -CATATAAG
1 TTATGTAAG
*
36044776 TTGTGT-A-
1 TTATGTAAG
36044783 TTATGTAAG
1 TTATGTAAG
*
36044792 TTATGCAAG
1 TTATGTAAG
36044801 TTATGT-A-
1 TTATGTAAG
* *
36044808 TTAAGTAGG
1 TTATGTAAG
36044817 TTATGTAAG
1 TTATGTAAG
36044826 TTATGT-A-
1 TTATGTAAG
36044833 TTATGTAAG
1 TTATGTAAG
36044842 TTATGTAAG
1 TTATGTAAG
36044851 TT
1 TT
36044853 TTTGTTTTTG
Statistics
Matches: 428, Mismatches: 59, Indels: 94
0.74 0.10 0.16
Matches are distributed among these distances:
5 1 0.00
6 1 0.00
7 106 0.25
8 40 0.09
9 277 0.65
10 3 0.01
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36044328 original size:25 final size:25
Alignment explanation
Indices: 36044299--36044852 Score: 640
Period size: 25 Copynumber: 22.2 Consensus size: 25
36044289 GATTTAGGAA
**
36044299 TAAGTTATACATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
36044324 TAAGTTGTGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* *
36044351 T-A-TTATGAAACTTATGTAAGTTGTG
1 TAAGTTATG-TA-TTATGTAAGTTATG
* * *
36044376 TAAGTTGTGTATTATGAAACTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
36044401 TAAGTTATGTCTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
36044426 TAAATTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
36044451 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
36044476 TTAA-TTATGTATTATGTAAGTTATG
1 -TAAGTTATGTATTATGTAAGTTATG
*
36044501 TAAG-T-TGTGTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
36044524 TTAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
36044549 CAAGTTATGTATTAAGTAGGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
36044574 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
36044599 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * * *
36044624 TAAATTGTGTATTATTTACA--CATG
1 TAAGTTATGTATTATGTA-AGTTATG
*
36044648 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
36044673 CAAGTTATGTATTAAGTAGGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
36044698 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
36044723 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * * * *
36044748 TAAATTGTGTATTATTTACA--CATA
1 TAAGTTATGTATTATGTA-AGTTATG
*
36044772 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * *
36044797 CAAGTTATGTATTAAGTAGGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
36044822 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
36044847 TAAGTT
1 TAAGTT
36044853 TTTGTTTTTG
Statistics
Matches: 450, Mismatches: 64, Indels: 30
0.83 0.12 0.06
Matches are distributed among these distances:
23 22 0.05
24 42 0.09
25 360 0.80
26 9 0.02
27 17 0.04
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:36044514 original size:14 final size:14
Alignment explanation
Indices: 36044396--36044624 Score: 72
Period size: 16 Copynumber: 17.1 Consensus size: 14
36044386 ATTATGAAAC
36044396 TTATGTAAGTTATG
1 TTATGTAAGTTATG
36044410 TCTTATGTAAGTTATG
1 --TTATGTAAGTTATG
36044426 -TA---AA-TTATG
1 TTATGTAAGTTATG
* *
36044435 -TAT-TATG-TAAG
1 TTATGTAAGTTATG
*
36044446 TTATGTAAGTTGTG
1 TTATGTAAGTTATG
36044460 TATTATGTAAGTTATG
1 --TTATGTAAGTTATG
36044476 ---T-TAA-TTATG
1 TTATGTAAGTTATG
* *
36044485 -TAT-TATG-TAAG
1 TTATGTAAGTTATG
*
36044496 TTATGTAAGTTGTG
1 TTATGTAAGTTATG
36044510 TTATGTAAGTTATG
1 TTATGTAAGTTATG
*
36044524 TTAGTTGTGTATTA-TGTAAG
1 TTA----TGTA--AGT-TATG
*
36044544 TTATGCAAGTTATG
1 TTATGTAAGTTATG
*
36044558 -TAT-TAAG-TAGG
1 TTATGTAAGTTATG
36044569 TTATGTAAGTTATG
1 TTATGTAAGTTATG
* *
36044583 -TAT-TATG-TAAG
1 TTATGTAAGTTATG
*
36044594 TTATGTAAGTTGTG
1 TTATGTAAGTTATG
36044608 TATTATGTAAGTTATG
1 --TTATGTAAGTTATG
36044624 T
1 T
36044625 AAATTGTGTA
Statistics
Matches: 159, Mismatches: 24, Indels: 62
0.65 0.10 0.25
Matches are distributed among these distances:
9 12 0.08
10 5 0.03
11 17 0.11
12 18 0.11
13 21 0.13
14 30 0.19
15 1 0.01
16 43 0.27
18 4 0.03
19 1 0.01
20 7 0.04
ACGTcount: A:0.29, C:0.01, G:0.21, T:0.48
Consensus pattern (14 bp):
TTATGTAAGTTATG
Found at i:36044874 original size:124 final size:124
Alignment explanation
Indices: 36044362--36044852 Score: 749
Period size: 124 Copynumber: 4.0 Consensus size: 124
36044352 ATTATGAAAC
* * * * * *
36044362 TTATGTAAGTTGTGTAAGTTGTGTATTA-TGAAACTTATGTAAGTTATGTCTTATGTAAGTTATG
1 TTATGTAAGTTATGTAAATTGTGTATTATTTACAC--ATGTAAGTTGTGTATTATGTAAGTTATG
* * * * * *
36044426 TAAATTATGTATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTTAA-TTATGTA
64 CAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATG-TAAGTTGTGTA
* * * *
36044487 TTATGTAAGTTATGTAAGTTGTG--TTATGTA-AGTTATGTTAGTTGTGTATTATGTAAGTTATG
1 TTATGTAAGTTATGTAAATTGTGTATTATTTACA--CATGTAAGTTGTGTATTATGTAAGTTATG
36044549 CAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTA
64 CAAGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTA
36044610 TTATGTAAGTTATGTAAATTGTGTATTATTTACACATGTAAGTTGTGTATTATGTAAGTTATGCA
1 TTATGTAAGTTATGTAAATTGTGTATTATTTACACATGTAAGTTGTGTATTATGTAAGTTATGCA
36044675 AGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTA
66 AGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTA
*
36044734 TTATGTAAGTTATGTAAATTGTGTATTATTTACACATATAAGTTGTGTATTATGTAAGTTATGCA
1 TTATGTAAGTTATGTAAATTGTGTATTATTTACACATGTAAGTTGTGTATTATGTAAGTTATGCA
36044799 AGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTT
66 AGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTT
36044853 TTTGTTTTTG
Statistics
Matches: 341, Mismatches: 18, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
122 3 0.01
123 102 0.30
124 207 0.61
125 28 0.08
126 1 0.00
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (124 bp):
TTATGTAAGTTATGTAAATTGTGTATTATTTACACATGTAAGTTGTGTATTATGTAAGTTATGCA
AGTTATGTATTAAGTAGGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGTA
Found at i:36044909 original size:37 final size:37
Alignment explanation
Indices: 36044865--36045005 Score: 111
Period size: 37 Copynumber: 3.4 Consensus size: 37
36044855 TGTTTTTGTG
36044865 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
* * * *
36044902 TATTATGTAAGTTATTATGTAAGATATTATAAGTTATGTAGGGTTTTTGT
1 TATTATGTAACTTA-T-T-T-A-AT-TTAT--G-TA-G---GGTATGTAT
36044952 GTATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 -TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
*
36044990 TATTATGTAAGTTATT
1 TATTATGTAACTTATT
36045006 ATGTAAGATA
Statistics
Matches: 81, Mismatches: 9, Indels: 28
0.69 0.08 0.24
Matches are distributed among these distances:
37 28 0.35
38 7 0.09
39 1 0.01
40 1 0.01
41 2 0.02
42 4 0.05
43 5 0.06
45 5 0.06
46 4 0.05
47 2 0.02
48 1 0.01
49 1 0.01
50 7 0.09
51 13 0.16
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (37 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
Found at i:36044918 original size:12 final size:12
Alignment explanation
Indices: 36044901--36044931 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36044891 AGGGTATGTA
36044901 TTATTATGTAAG
1 TTATTATGTAAG
36044913 TTATTATGTAAG
1 TTATTATGTAAG
*
36044925 ATATTAT
1 TTATTAT
36044932 AAGTTATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:36045006 original size:12 final size:12
Alignment explanation
Indices: 36044989--36045119 Score: 95
Period size: 12 Copynumber: 10.8 Consensus size: 12
36044979 AGGGTATGTA
36044989 TTATTATGTAAG
1 TTATTATGTAAG
36045001 TTATTATGTAAG
1 TTATTATGTAAG
*
36045013 ATATTATGTAAG
1 TTATTATGTAAG
* * * **
36045025 TTTTTGTTTTTG
1 TTATTATGTAAG
*
36045037 TGTATTATGTAAC
1 T-TATTATGTAAG
* *
36045050 TTATTTAATTTATG
1 TTA-TT-ATGTAAG
*
36045064 TATGTTATGT-A-
1 T-TATTATGTAAG
*
36045075 TTATTATGTCAG
1 TTATTATGTAAG
*
36045087 TTATTATGTATG
1 TTATTATGTAAG
36045099 TTATTATGTAAG
1 TTATTATGTAAG
*
36045111 TCATTATGT
1 TTATTATGT
36045120 TGGTTATGTA
Statistics
Matches: 89, Mismatches: 24, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
10 7 0.08
11 2 0.02
12 61 0.69
13 11 0.12
14 7 0.08
15 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.55
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:36045089 original size:86 final size:86
Alignment explanation
Indices: 36044863--36045111 Score: 394
Period size: 86 Copynumber: 2.9 Consensus size: 86
36044853 TTTGTTTTTG
36044863 TGTATTATGTAACTTATTTAATTTATGTAGGGTATGTATTATTATGTAAGTTATTATGTAAGATA
1 TGTATTATGTAACTTATTTAATTTATGTAGGGTATGTATTATTATGTAAGTTATTATGTAAGATA
*
36044928 TTA--TAAGTTATGTAGGGTTTTTG
66 TTATGTAAGTT-T-T--TGTTTTTG
36044951 TGTATTATGTAACTTATTTAATTTATGTAGGGTATGTATTATTATGTAAGTTATTATGTAAGATA
1 TGTATTATGTAACTTATTTAATTTATGTAGGGTATGTATTATTATGTAAGTTATTATGTAAGATA
36045016 TTATGTAAGTTTTTGTTTTTG
66 TTATGTAAGTTTTTGTTTTTG
* * * * *
36045037 TGTATTATGTAACTTATTTAATTTATGTATGTTATGTATTATTATGTCAGTTATTATGTATGTTA
1 TGTATTATGTAACTTATTTAATTTATGTAGGGTATGTATTATTATGTAAGTTATTATGTAAGATA
36045102 TTATGTAAGT
66 TTATGTAAGT
36045112 CATTATGTTG
Statistics
Matches: 153, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
86 77 0.50
88 69 0.45
89 1 0.01
90 6 0.04
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.53
Consensus pattern (86 bp):
TGTATTATGTAACTTATTTAATTTATGTAGGGTATGTATTATTATGTAAGTTATTATGTAAGATA
TTATGTAAGTTTTTGTTTTTG
Found at i:36045280 original size:20 final size:21
Alignment explanation
Indices: 36045255--36045295 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
36045245 ATGTATCAAT
36045255 TTTTAAATATATATA-TAAAA
1 TTTTAAATATATATATTAAAA
36045275 TTTTAAATATATATATTAAAA
1 TTTTAAATATATATATTAAAA
36045296 CTATATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTAAATATATATATTAAAA
Found at i:36045289 original size:22 final size:20
Alignment explanation
Indices: 36045252--36045295 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
36045242 GTAATGTATC
*
36045252 AATTTTTAAATATATATATAA
1 AATTTTAAAATATATAT-TAA
36045273 AATTTTAAATATATATATTAA
1 AATTTTAAA-ATATATATTAA
36045294 AA
1 AA
36045296 CTATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTAAAATATATATTAA
Found at i:36045356 original size:16 final size:16
Alignment explanation
Indices: 36045335--36045386 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
36045325 TATAAATTTA
36045335 AATTATGTAAGTTATG
1 AATTATGTAAGTTATG
36045351 AATTATGTAAGTTATG
1 AATTATGTAAGTTATG
* *
36045367 TAAATTACGTAAATTATG
1 --AATTATGTAAGTTATG
36045385 AA
1 AA
36045387 ATTTGAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 18 0.56
18 14 0.44
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (16 bp):
AATTATGTAAGTTATG
Found at i:36045365 original size:9 final size:9
Alignment explanation
Indices: 36045333--36045389 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
36045323 ATTATAAATT
36045333 TAAATTATG
1 TAAATTATG
*
36045342 TAAGTTATG
1 TAAATTATG
36045351 --AATTATG
1 TAAATTATG
*
36045358 TAAGTTATG
1 TAAATTATG
*
36045367 TAAATTACG
1 TAAATTATG
36045376 TAAATTATG
1 TAAATTATG
36045385 -AAATT
1 TAAATT
36045390 TGAACTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.15
8 5 0.12
9 29 0.73
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (9 bp):
TAAATTATG
Found at i:36047125 original size:44 final size:44
Alignment explanation
Indices: 36047062--36047152 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
36047052 TGGAAGGAGA
36047062 AAGGAGGCGATTTAGGGATTTGAG-ATTTCAAGAAATTCGACAAG
1 AAGGAGGCGATTTAGGGATTTG-GTATTTCAAGAAATTCGACAAG
* *
36047106 AAGGAGGCGATTTAGGGATTTGGTATTTCAAGAAATTGGGCAAG
1 AAGGAGGCGATTTAGGGATTTGGTATTTCAAGAAATTCGACAAG
36047150 AAG
1 AAG
36047153 ATTATTCAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 43 0.98
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.25
Consensus pattern (44 bp):
AAGGAGGCGATTTAGGGATTTGGTATTTCAAGAAATTCGACAAG
Found at i:36048422 original size:7 final size:7
Alignment explanation
Indices: 36048410--36048436 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36048400 AATTAACCCT
36048410 AAACTCA
1 AAACTCA
36048417 AAACTCA
1 AAACTCA
36048424 AAACTCA
1 AAACTCA
36048431 AAACTC
1 AAACTC
36048437 TAATATTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACTCA
Found at i:36048907 original size:115 final size:114
Alignment explanation
Indices: 36048688--36049068 Score: 299
Period size: 115 Copynumber: 3.3 Consensus size: 114
36048678 CCAAAACTGT
36048688 GCGTTTTGGTTAAGATATTTTGCGGCGCTTCCCAAAAAGCGCCGCTAATAATATGCTTTAGCGGC
1 GCGTTTTGGTTAAGATATTTTGCGGCGCTTCCCAAAAAGCGCCGCTAATAATATGCTTTAGCGGC
* * * * *
36048753 GATTTCTCGTGAACGCCACTAATTCCAGTATATATCAAGACTTAAACACA
66 GATTTCTCATGAACGCCACTAATTCCAATATACACCAAGAC-CAAACACA
* * * *
36048803 GCGTTTTGGTTAATATATTTTGCGGCGCTT-CTAAAAACGCGCCGCTAATAGTATGCTTTTGCGG
1 GCGTTTTGGTTAAGATATTTTGCGGCGCTTCCCAAAAA-GCGCCGCTAATAATATGCTTTAGCGG
* * * * *
36048867 CG-TTTATCCAT-AAGCGCCACTAATTCTAATATACCCCAAGACCAAACTCT
65 CGATTTCT-CATGAA-CGCCACTAATTCCAATATACACCAAGACCAAACACA
* * * ** ** * * **
36048917 GCGTTTTGGTGT--GCATATCTTACAGCGCTTATCTCAAAGCGCCACTAATATTATTATTTAGCG
1 GCGTTTTGGT-TAAG-ATATTTTGCGGCGCTTCCCAAAAAGCGCCGCTAATAATATGCTTTAGCG
* * ** * * * *
36048980 GCGTTTTCT-A-GTAAGCGCCACTAACTATAGTATACATCAAGACCAAAACGCT
64 GCGATTTCTCATG-AA-CGCCACTAATTCCAATATACACCAAGACC-AAACACA
* * *
36049032 GAGTTTTGGTTAAGAAATTTAGCGGCGCTTCTCCAAA
1 GCGTTTTGGTTAAGATATTTTGCGGCGCTTC-CCAAA
36049069 CGCCACTAAT
Statistics
Matches: 209, Mismatches: 44, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
113 1 0.00
114 91 0.44
115 114 0.55
116 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (114 bp):
GCGTTTTGGTTAAGATATTTTGCGGCGCTTCCCAAAAAGCGCCGCTAATAATATGCTTTAGCGGC
GATTTCTCATGAACGCCACTAATTCCAATATACACCAAGACCAAACACA
Found at i:36049095 original size:74 final size:73
Alignment explanation
Indices: 36048995--36049136 Score: 196
Period size: 73 Copynumber: 1.9 Consensus size: 73
36048985 TTCTAGTAAG
*
36048995 CGCCACTAACTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGTTAAGAAATTTAGCGGCGC
1 CGCCACTAACTATAGTATACATCAAGACC-AAACGCTGAGTTTTGGTTAAGAAATTTAGCAGCGC
36049060 TTCTCCAAA
65 TTCTCCAAA
* * * * * *
36049069 CGCCACTAATTCTAGTATAC-TACAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCAGCGC
1 CGCCACTAACTATAGTATACAT-CAAGACCAAACGCTGAGTTTTGGTTAAGAAATTTAGCAGCGC
36049133 TTCT
65 TTCT
36049137 AAACAAGCGT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
73 35 0.58
74 25 0.42
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (73 bp):
CGCCACTAACTATAGTATACATCAAGACCAAACGCTGAGTTTTGGTTAAGAAATTTAGCAGCGCT
TCTCCAAA
Found at i:36049167 original size:188 final size:188
Alignment explanation
Indices: 36048863--36049311 Score: 475
Period size: 188 Copynumber: 2.4 Consensus size: 188
36048853 GTATGCTTTT
* * *
36048863 GCGGCGTTTATCCATAAGCGCCACTAATTCTAATATACCCCAAGACCAAACTCTGCGTTTTGGTG
1 GCGGCGCTTCTCCATAAGCGCCACTAATTCTAATATA-CACAAGACCAAACTCTGCGTTTTGGT-
* ** *
36048928 T-GCATATCTTACAGCGCTTATCTCAAAGCGCCACTAATATTATTATTTAGCGGCG-TTTTCTAG
64 TAGCATATCTTACAGCGCTTATCTAAAAGCGCCACTAATATTACGATTTAGCGGCGTTTTTCT-C
36048991 TAAGCGCCACTAACTATAGTATACATCAAGACCAAAACGCTG-AGTTTTGGTTAAGAAATTTA
128 TAA-CGCCACTAACTATAGTATACATCAAGACCAAAACGCTGCA-TTTTGGTTAAGAAATTTA
*
36049053 GCGGCGCTTCTCCA-AA-CGCCACTAATTCTAGTATACTACAAGACCAAACTCTGCGTTTTGGTT
1 GCGGCGCTTCTCCATAAGCGCCACTAATTCTAATATAC-ACAAGACCAAACTCTGCGTTTTGGTT
* * * * * *
36049116 AAG-ATATTTTGCAGCGC-T-TCTAAACAAGCGTCGCTAATGTTACGCTTTAGCGGCGTTTTTCT
65 -AGCATATCTTACAGCGCTTATCT-AA-AAGCGCCACTAATATTACGATTTAGCGGCGTTTTTCT
* * * ** * ** *
36049178 CTAACGCCACTAATTGTATTATACATTGAGACCAAAACGGTGCATTTTGGTTAAGATTTTTT
127 CTAACGCCACTAACTATAGTATACATCAAGACCAAAACGCTGCATTTTGGTTAAGAAATTTA
* * * * *
36049240 GCGGCACTTCT-AATAAGCGCCACTAAATCTAATATACATCAAGATCAAAACTCTGTGTTTTGGT
1 GCGGCGCTTCTCCATAAGCGCCACTAATTCTAATATACA-CAAGA-CCAAACTCTGCGTTTTGGT
*
36049304 TATCATAT
64 TAGCATAT
36049312 ATGGCGGCAC
Statistics
Matches: 217, Mismatches: 30, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
186 4 0.02
187 64 0.29
188 106 0.49
189 31 0.14
190 12 0.06
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (188 bp):
GCGGCGCTTCTCCATAAGCGCCACTAATTCTAATATACACAAGACCAAACTCTGCGTTTTGGTTA
GCATATCTTACAGCGCTTATCTAAAAGCGCCACTAATATTACGATTTAGCGGCGTTTTTCTCTAA
CGCCACTAACTATAGTATACATCAAGACCAAAACGCTGCATTTTGGTTAAGAAATTTA
Found at i:36050391 original size:13 final size:13
Alignment explanation
Indices: 36050373--36050397 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36050363 GTGTGCTACT
36050373 GAAGAGAAAAAAG
1 GAAGAGAAAAAAG
36050386 GAAGAGAAAAAA
1 GAAGAGAAAAAA
36050398 ATGGGGGGAA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
GAAGAGAAAAAAG
Found at i:36051465 original size:29 final size:30
Alignment explanation
Indices: 36051427--36051487 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
36051417 TCTTTTCTAT
36051427 TTTTTAATAAATGACCCAATAT-TTT-TAC
1 TTTTTAATAAATGACCCAATATGTTTATAC
*
36051455 TTTTTACATAAATGGCCCAATATGTTTATAC
1 TTTTTA-ATAAATGACCCAATATGTTTATAC
36051486 TT
1 TT
36051488 CTTCTCTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.21
29 15 0.52
30 3 0.10
31 5 0.17
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTTAATAAATGACCCAATATGTTTATAC
Found at i:36061656 original size:25 final size:25
Alignment explanation
Indices: 36061602--36061671 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
36061592 GGACTCACCA
* *
36061602 CAGCTCGTATGAGCTTACTGATTTG
1 CAGCTCGTAAGAGCTTACCGATTTG
* *
36061627 TAGCTCGTAGGAGCTTACCGATATT-
1 CAGCTCGTAAGAGCTTACCGAT-TTG
36061652 CAGCTCAG-AAGAGCTTACCG
1 CAGCTC-GTAAGAGCTTACCG
36061672 TTTATCCCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 35 0.92
26 3 0.08
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACCGATTTG
Found at i:36062395 original size:40 final size:40
Alignment explanation
Indices: 36062336--36062420 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
36062326 TGTGAATGTC
*
36062336 TTTATTTTGAATCGGTATTTTGGGTATCAAATGGTTGAGA
1 TTTATTTTGAATCGATATTTTGGGTATCAAATGGTTGAGA
36062376 TTTATTTTGAATCGATATTTTGGGTATCAAATGGTTGAGA
1 TTTATTTTGAATCGATATTTTGGGTATCAAATGGTTGAGA
36062416 TTTAT
1 TTTAT
36062421 AAGTGGCATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.26, C:0.05, G:0.22, T:0.47
Consensus pattern (40 bp):
TTTATTTTGAATCGATATTTTGGGTATCAAATGGTTGAGA
Found at i:36070208 original size:21 final size:21
Alignment explanation
Indices: 36070183--36070222 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
36070173 TATAATTACT
36070183 TCATG-CCAAAACATATATATA
1 TCATGACCAAAA-ATATATATA
36070204 TCATGACCAAAAATATATA
1 TCATGACCAAAAATATATA
36070223 ACTCAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (21 bp):
TCATGACCAAAAATATATATA
Found at i:36071803 original size:11 final size:11
Alignment explanation
Indices: 36071789--36071816 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36071779 ATAAGCATAG
36071789 AAAATAATATT
1 AAAATAATATT
36071800 AAAATAATATT
1 AAAATAATATT
36071811 AAAATA
1 AAAATA
36071817 TTTTTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATAATATT
Found at i:36080448 original size:17 final size:18
Alignment explanation
Indices: 36080415--36080448 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36080405 ATTTAAATTG
36080415 CGGTCGCAGTCGCGTTTT
1 CGGTCGCAGTCGCGTTTT
*
36080433 CGGTCGC-GTCGGGTTT
1 CGGTCGCAGTCGCGTTT
36080449 GTCGCGGTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.26, G:0.38, T:0.32
Consensus pattern (18 bp):
CGGTCGCAGTCGCGTTTT
Found at i:36082271 original size:14 final size:14
Alignment explanation
Indices: 36082233--36082275 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
36082223 CAAAATGTAC
36082233 AATATAATTAAA-T
1 AATATAATTAAATT
36082246 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
36082261 AA-ATAATTTAATT
1 AATATAATTAAATT
36082274 AA
1 AA
36082276 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:36084764 original size:3 final size:3
Alignment explanation
Indices: 36084749--36084838 Score: 99
Period size: 3 Copynumber: 30.0 Consensus size: 3
36084739 TAAAACAATT
* * * **
36084749 TAA TAA TAG TAA TAA TAA TGA TAT TAA TAA TAA TAA TAA TGG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
36084797 TAA TAA TAA TAA TAA TGG TAT TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
36084839 AAATCTTAAA
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:36084775 original size:24 final size:24
Alignment explanation
Indices: 36084748--36084836 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
36084738 GTAAAACAAT
*
36084748 TTAATAATAGTAATAATAAT-G-A
1 TTAATAATAATAATAATAATGGTA
*
36084770 -TATTAATAATAATAATAATGGTA
1 TTAATAATAATAATAATAATGGTA
*
36084793 ATAATAATAATAATAATAATGGTA
1 TTAATAATAATAATAATAATGGTA
*
36084817 TTAATAATAATAACAATAAT
1 TTAATAATAATAATAATAAT
36084837 AAAAATCTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
21 17 0.29
22 1 0.02
23 1 0.02
24 40 0.68
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.36
Consensus pattern (24 bp):
TTAATAATAATAATAATAATGGTA
Found at i:36092118 original size:26 final size:26
Alignment explanation
Indices: 36092089--36092144 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
36092079 AACACTCAAA
36092089 TTTTAAACTA-AACTTTTCAAAAACAC
1 TTTTAAAC-AGAACTTTTCAAAAACAC
** * *
36092115 TTTTTCACAGCACTTTTCAAAAGCAC
1 TTTTAAACAGAACTTTTCAAAAACAC
36092141 TTTT
1 TTTT
36092145 TAAAAGCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (26 bp):
TTTTAAACAGAACTTTTCAAAAACAC
Found at i:36092133 original size:12 final size:13
Alignment explanation
Indices: 36092100--36092152 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
36092090 TTTAAACTAA
*
36092100 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
*
36092113 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
36092126 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
36092139 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
36092152 A
1 A
36092153 TTGCCAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 5 0.15
13 24 0.71
14 5 0.15
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:36092152 original size:26 final size:26
Alignment explanation
Indices: 36092100--36092152 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
36092090 TTTAAACTAA
* *
36092100 ACTTTTCAAAAACACTTTTTCACAGC
1 ACTTTTCAAAAACACTTTTTAAAAGC
*
36092126 ACTTTTCAAAAGCACTTTTTAAAAGC
1 ACTTTTCAAAAACACTTTTTAAAAGC
36092152 A
1 A
36092153 TTGCCAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
ACTTTTCAAAAACACTTTTTAAAAGC
Found at i:36098694 original size:29 final size:29
Alignment explanation
Indices: 36098651--36098708 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
36098641 AGCCACGTAT
* * *
36098651 TGTATGTAGTGAGTTGTTGGAAGGAGATA
1 TGTATGTAGTAAGTTGCTGAAAGGAGATA
36098680 TGTATGTAGTAAGTTGCTGAAAGGAGATA
1 TGTATGTAGTAAGTTGCTGAAAGGAGATA
36098709 GAGTGAAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.34, T:0.33
Consensus pattern (29 bp):
TGTATGTAGTAAGTTGCTGAAAGGAGATA
Found at i:36099019 original size:11 final size:11
Alignment explanation
Indices: 36099005--36099065 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
36098995 CAAGAGAAAA
*
36099005 AGAAGAATAAG
1 AGAAGAAGAAG
*
36099016 AGAAGAAATGGAG
1 AGAAG-AA-GAAG
* *
36099029 AAAAGAAGAAA
1 AGAAGAAGAAG
*
36099040 AGAAGAAGATG
1 AGAAGAAGAAG
*
36099051 AGAAGAAAAAG
1 AGAAGAAGAAG
36099062 AGAA
1 AGAA
36099066 AATGGAAGGA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
11 28 0.74
12 4 0.11
13 6 0.16
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.05
Consensus pattern (11 bp):
AGAAGAAGAAG
Found at i:36101433 original size:14 final size:15
Alignment explanation
Indices: 36101408--36101442 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
36101398 TAAGTAATGT
36101408 TTAATATTATTAATA
1 TTAATATTATTAATA
*
36101423 TTAAT-TTATTAATG
1 TTAATATTATTAATA
36101437 TTAATA
1 TTAATA
36101443 CAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTAATATTATTAATA
Found at i:36109657 original size:67 final size:67
Alignment explanation
Indices: 36109548--36109674 Score: 202
Period size: 67 Copynumber: 1.9 Consensus size: 67
36109538 TTTTCAATTC
* * * *
36109548 AGAGAGCACACTCCTGCGAACCTCATTTCTTACAGCGGGATTACCAGTCTAGGCTAAATCTCCTG
1 AGAGAGCACACTCCCGCGAACCTCATTCCTTACAGCGAGATTACCAGTCCAGGCTAAATCTCCTG
36109613 CA
66 CA
36109615 AGAGAGCACACTCCCGCGAACC-CTATTCCTTACAGCGAGATTACCAGTCCAGGCTAAATC
1 AGAGAGCACACTCCCGCGAACCTC-ATTCCTTACAGCGAGATTACCAGTCCAGGCTAAATC
36109675 CCCTATAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 1 0.02
67 54 0.98
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTCCTTACAGCGAGATTACCAGTCCAGGCTAAATCTCCTG
CA
Found at i:36109894 original size:57 final size:60
Alignment explanation
Indices: 36109826--36109948 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 60
36109816 GCTAAATTCA
*
36109826 TTTTCCACATATTCTT-AGGGAGGGCTATATC-A-A-GATCACCCGTCCGGGCTAGAT-CT
1 TTTTCCACATATTCTTCA-AGAGGGCTATATCGATAGGATCACCCGTCCGGGCTAGATCCT
36109882 TTTTCACACATATTCTTCAAGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCT
1 TTTTC-CACATATTCTTCAAGAGGGCTATATC--GATAGGATCACCCGTCCGGGCTAGATCCT
36109945 TTTT
1 TTTT
36109949 ACCGTCAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
56 5 0.09
57 23 0.40
58 1 0.02
60 1 0.02
61 1 0.02
62 21 0.36
63 6 0.10
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (60 bp):
TTTTCCACATATTCTTCAAGAGGGCTATATCGATAGGATCACCCGTCCGGGCTAGATCCT
Found at i:36112013 original size:18 final size:18
Alignment explanation
Indices: 36111990--36112028 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
36111980 TGAAATCCAT
36111990 CATGATATTAATTGAAAA
1 CATGATATTAATTGAAAA
36112008 CATGATATTAATTGAAAA
1 CATGATATTAATTGAAAA
36112026 CAT
1 CAT
36112029 AATCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (18 bp):
CATGATATTAATTGAAAA
Found at i:36112112 original size:36 final size:36
Alignment explanation
Indices: 36112065--36112138 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
36112055 AGTAAACTCT
*
36112065 ATTCAGTTTAGCAACCTTTT-GGATCTATTCTGACTG
1 ATTCAGTTTAGCAACCTTTTAAG-TCTATTCTGACTG
* *
36112101 ATTCAGTTTAGCAGCCTTTTAAGTCTATTCTGATTG
1 ATTCAGTTTAGCAACCTTTTAAGTCTATTCTGACTG
36112137 AT
1 AT
36112139 GTGCTCCTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (36 bp):
ATTCAGTTTAGCAACCTTTTAAGTCTATTCTGACTG
Found at i:36114946 original size:54 final size:53
Alignment explanation
Indices: 36114888--36115070 Score: 219
Period size: 54 Copynumber: 3.5 Consensus size: 53
36114878 TTTCATCTCC
**
36114888 TAGGGGTATAACAGTCATTTTACCCTATGGGGATATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTATGGGG-TATTTTGGTCATTTTACCCTA
* * * * *
36114942 TAGGGGTATTTCAGTCATTCTACCTTATGAGGGTATTTTAGTTATTTTACCTTA
1 TAGGGGTATTTCAGTCATTTTACCCTATG-GGGTATTTTGGTCATTTTACCCTA
* * *
36114996 TAGGGGTATTTC-GATTATTTTACCCTATAGGGTATTTCGGTCATTTTACCCTA
1 TAGGGGTATTTCAG-TCATTTTACCCTATGGGGTATTTTGGTCATTTTACCCTA
*
36115049 T--GGGTATTTGAGTCATTTTACC
1 TAGGGGTATTTCAGTCATTTTACC
36115071 TATTTGGGGT
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
51 17 0.16
52 1 0.01
53 22 0.20
54 66 0.61
55 3 0.03
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (53 bp):
TAGGGGTATTTCAGTCATTTTACCCTATGGGGTATTTTGGTCATTTTACCCTA
Found at i:36115041 original size:26 final size:26
Alignment explanation
Indices: 36114901--36115070 Score: 182
Period size: 27 Copynumber: 6.4 Consensus size: 26
36114891 GGGTATAACA
* *
36114901 GTCATTTTACCCTATGGGGATATTTTG
1 GTCATTTTACCCTATAGGG-TATTTCG
*
36114928 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATA-GGGTATTTCG
* * **
36114955 GTCATTCTACCTTATGAGGGTATTTTA
1 GTCATTTTACCCTAT-AGGGTATTTCG
* *
36114982 GTTATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATA-GGGTATTTCG
* *
36115009 ATTATTTTACCCTATAGGGTATTTCG
1 GTCATTTTACCCTATAGGGTATTTCG
36115035 GTCATTTTACCCTAT-GGGTATTT-G
1 GTCATTTTACCCTATAGGGTATTTCG
36115059 AGTCATTTTACC
1 -GTCATTTTACC
36115071 TATTTGGGGT
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.01
25 19 0.15
26 24 0.19
27 77 0.62
28 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCCTATAGGGTATTTCG
Found at i:36129163 original size:26 final size:26
Alignment explanation
Indices: 36129104--36129164 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
36129094 TCCTCATGAT
* *
36129104 CTTCCGCATAAGATAGTCTTGATGGA
1 CTTCCACATAAGATAGTCTTAATGGA
* * * *
36129130 TTTTCACATAAGATAGTTTTAATGGG
1 CTTCCACATAAGATAGTCTTAATGGA
36129156 CTTCCACAT
1 CTTCCACAT
36129165 TTATGGTAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (26 bp):
CTTCCACATAAGATAGTCTTAATGGA
Found at i:36134745 original size:24 final size:24
Alignment explanation
Indices: 36134698--36134745 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
36134688 GATGAATTAT
* *
36134698 AATTTAAAGTATATTGGTTGAATA
1 AATTTAAAGTATAATGATTGAATA
36134722 AATTTAAAGTATGAATGATT-AATA
1 AATTTAAAGTAT-AATGATTGAATA
36134746 TACTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
AATTTAAAGTATAATGATTGAATA
Found at i:36135751 original size:5 final size:5
Alignment explanation
Indices: 36135741--36135770 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
36135731 AAAGCAAAAT
36135741 GGGCC GGGCC GGGCC GGGCC GGGCCC GGGC
1 GGGCC GGGCC GGGCC GGGCC GGG-CC GGGC
36135771 TTCATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.40, G:0.60, T:0.00
Consensus pattern (5 bp):
GGGCC
Found at i:36149953 original size:20 final size:20
Alignment explanation
Indices: 36149928--36149967 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
36149918 ACTAGGAAAA
36149928 ACCTTAATCATCATGTCTCC
1 ACCTTAATCATCATGTCTCC
36149948 ACCTTAATCATCATGTCTCC
1 ACCTTAATCATCATGTCTCC
36149968 GACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.35
Consensus pattern (20 bp):
ACCTTAATCATCATGTCTCC
Found at i:36154442 original size:32 final size:32
Alignment explanation
Indices: 36154372--36154559 Score: 209
Period size: 32 Copynumber: 5.9 Consensus size: 32
36154362 ATAAGTACAG
** *
36154372 TAATATGATTAGCACAAAGCCATCAGTAGC-A
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
* * * *
36154403 GTGATATGACCGGCA-AACAGCCATCAATAACGG
1 -TAATATGATCGGCACAA-AGCCATCAGTAACGA
* * *
36154436 TAATATGATTGGCACAAAACGATCAGTAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
* *
36154468 TAATATGATCGGTACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
**
36154500 TAATATGATCAACACAAAGCCATCAGTAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
*
36154532 TAATATGATCGGCATAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATCAGTA
36154560 GCATCGCAGT
Statistics
Matches: 127, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.02
32 123 0.97
33 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGA
Found at i:36154557 original size:64 final size:63
Alignment explanation
Indices: 36154357--36154559 Score: 248
Period size: 64 Copynumber: 3.2 Consensus size: 63
36154347 GAATGATTAC
* * * * *
36154357 AAGCCATAAGT-ACAGTAATATGATTAGCACAAAGCCATCAGTAGC-AGTGATATGACCGGCAA
1 AAGCCATCAGTAACGGTAATATGATTAGCACAAAGCCATCAGTAACGA-TAATATGATCGGCAA
* * * * *
36154419 ACAGCCATCAATAACGGTAATATGATTGGCACAAAACGATCAGTAACGATAATATGATCGGTACA
1 A-AGCCATCAGTAACGGTAATATGATTAGCACAAAGCCATCAGTAACGATAATATGATCGGCA-A
* *
36154484 AAGCCATCAGTAACGGTAATATGATCAACACAAAGCCATCAGTAACGATAATATGATCGGCATA
1 AAGCCATCAGTAACGGTAATATGATTAGCACAAAGCCATCAGTAACGATAATATGATCGGCA-A
36154548 AAGCCATCAGTA
1 AAGCCATCAGTA
36154560 GCATCGCAGT
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
62 1 0.01
63 8 0.07
64 107 0.90
65 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (63 bp):
AAGCCATCAGTAACGGTAATATGATTAGCACAAAGCCATCAGTAACGATAATATGATCGGCAA
Found at i:36154889 original size:27 final size:27
Alignment explanation
Indices: 36154822--36155105 Score: 231
Period size: 27 Copynumber: 10.6 Consensus size: 27
36154812 ATGACCTCGA
* *
36154822 GGGTATTACGGTCATTTTTTCCTTCA-
1 GGGTATTACGGTCATTTTATCCTACAG
* *
36154848 GGGCATTACGGTCATTTTATCCTATAG
1 GGGTATTACGGTCATTTTATCCTACAG
* * *
36154875 GGGCATTACGATCATTTTACCCTACAG
1 GGGTATTACGGTCATTTTATCCTACAG
* *
36154902 GGGCA-T--GGTCATTTTA-CCTTATAG
1 GGGTATTACGGTCATTTTATCC-TACAG
* * * *
36154926 GGTTATTACGGTAATTTTACCCTACAT
1 GGGTATTACGGTCATTTTATCCTACAG
** * *
36154953 GGGTATTACAATCATTTTTTCTTACAG
1 GGGTATTACGGTCATTTTATCCTACAG
* *
36154980 GGGTATTACGATCATTTT-TCCCTATAGG
1 GGGTATTACGGTCATTTTAT-CCTACA-G
* *
36155008 GGGTAATACGGTCATTTTACCCTACAG
1 GGGTATTACGGTCATTTTATCCTACAG
* * * *
36155035 GGGCATTACGGTCATTGTAACCTATAG
1 GGGTATTACGGTCATTTTATCCTACAG
*
36155062 GGATATTACGGTCATTTTA-CCATACAG
1 GGGTATTACGGTCATTTTATCC-TACAG
* *
36155089 GGGTATTATGATCATTT
1 GGGTATTACGGTCATTT
36155106 AACAACTTTT
Statistics
Matches: 207, Mismatches: 41, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.01
24 16 0.08
25 1 0.00
26 26 0.13
27 138 0.67
28 24 0.12
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTACGGTCATTTTATCCTACAG
Found at i:36155069 original size:82 final size:81
Alignment explanation
Indices: 36154822--36155093 Score: 257
Period size: 82 Copynumber: 3.4 Consensus size: 81
36154812 ATGACCTCGA
** * * * *
36154822 GGGTATTACGGTCATTTTTTCCT-TCA-GGGCATTACGGTCATTTTATCCTATAGGGGCATTACG
1 GGGTATTACGGTCATTTTACCCTAT-AGGGGTAATACGGTCATTTTACCCTACAGGGGCATTACG
*
36154885 ATCATTTTACCCTACAG
65 ATCATTTTAACCTACAG
* * * * * * * *
36154902 GGGCA-T--GGTCATTTTACCTTATAGGGTTATTACGGTAATTTTACCCTACATGGGTATTACAA
1 GGGTATTACGGTCATTTTACCCTATAGGGGTAATACGGTCATTTTACCCTACAGGGGCATTACGA
** *
36154964 TCATTTTTTCTTACAG
66 TCATTTTAACCTACAG
* *
36154980 GGGTATTACGATCATTTTTCCCTATAGGGGGTAATACGGTCATTTTACCCTACAGGGGCATTACG
1 GGGTATTACGGTCATTTTACCCTATA-GGGGTAATACGGTCATTTTACCCTACAGGGGCATTACG
* * *
36155045 GTCATTGTAACCTATAG
65 ATCATTTTAACCTACAG
* * *
36155062 GGATATTACGGTCATTTTACCATACAGGGGTA
1 GGGTATTACGGTCATTTTACCCTATAGGGGTA
36155094 TTATGATCAT
Statistics
Matches: 150, Mismatches: 36, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
77 12 0.08
78 48 0.32
79 2 0.01
80 4 0.03
81 20 0.13
82 64 0.43
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (81 bp):
GGGTATTACGGTCATTTTACCCTATAGGGGTAATACGGTCATTTTACCCTACAGGGGCATTACGA
TCATTTTAACCTACAG
Found at i:36155077 original size:109 final size:105
Alignment explanation
Indices: 36154852--36155105 Score: 276
Period size: 109 Copynumber: 2.4 Consensus size: 105
36154842 CCTTCAGGGC
* * * *
36154852 ATTACGGTCATTTTATCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATGGTCATTTT
1 ATTACGGTCATTTTATCATACAGGGGTATTACGATCATTTTACCCTACAGGGGAATGGTCATTTT
* * ** * *
36154917 ACCTTATAGGGTTATTACGGTAATTTTACCCTACATGGGT
66 ACCCTACAGGGGCATTACGGTAATTGTAACCTACATGGGT
** * * * *
36154957 ATTACAATCATTTTTTCTTACAGGGGTATTACGATCATTTTTCCCTATAGGGGGTAATACGGTCA
1 ATTACGGTCATTTTATCATACAGGGGTATTACGATCATTTTACCCTACA-GGGG-AAT--GGTCA
* *
36155022 TTTTACCCTACAGGGGCATTACGGTCATTGTAACCTATA-GGGAT
62 TTTTACCCTACAGGGGCATTACGGTAATTGTAACCTACATGGG-T
* *
36155066 ATTACGGTCATTTTACCATACAGGGGTATTATGATCATTT
1 ATTACGGTCATTTTATCATACAGGGGTATTACGATCATTT
36155106 AACAACTTTT
Statistics
Matches: 121, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
105 41 0.34
106 4 0.03
107 2 0.02
108 3 0.02
109 71 0.59
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (105 bp):
ATTACGGTCATTTTATCATACAGGGGTATTACGATCATTTTACCCTACAGGGGAATGGTCATTTT
ACCCTACAGGGGCATTACGGTAATTGTAACCTACATGGGT
Found at i:36159950 original size:40 final size:40
Alignment explanation
Indices: 36159866--36160090 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
36159856 TTGAATGCTG
* * * *
36159866 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
** *
36159906 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA-A
*
36159946 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
36159986 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
36160026 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
36160065 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
36160091 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.22
40 111 0.70
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:36160108 original size:79 final size:80
Alignment explanation
Indices: 36159946--36160123 Score: 209
Period size: 79 Copynumber: 2.2 Consensus size: 80
36159936 AGATACAAGT
* * *
36159946 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
36160011 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
36160026 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
36160090 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
36160105 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36160124 TACGTGATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.57
80 20 0.24
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:36167929 original size:80 final size:78
Alignment explanation
Indices: 36167845--36168016 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
36167835 GGACTAAGAT
*
36167845 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
36167908 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
36167925 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
36167990 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
36168004 CCGAAGGCATTTG
1 CCGAAGGCATTTG
36168017 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:36168007 original size:39 final size:39
Alignment explanation
Indices: 36167792--36168014 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
36167782 TTGAATGCTG
* * * * * *
36167792 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
36167832 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
36167872 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
36167912 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
36167952 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
36167991 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36168015 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:36168034 original size:79 final size:80
Alignment explanation
Indices: 36167872--36168049 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
36167862 AGATACAAGT
* * * *
36167872 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
36167937 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
36167952 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
36168016 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
36168031 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36168050 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:36172152 original size:19 final size:20
Alignment explanation
Indices: 36172120--36172165 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
36172110 AAATTGGGAT
36172120 AAAAA-AATTATTTAATTGA
1 AAAAATAATTATTTAATTGA
* *
36172139 AAAAATAATT-TTTATTTTA
1 AAAAATAATTATTTAATTGA
36172158 AAAAATAA
1 AAAAATAA
36172166 AAAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATAATTATTTAATTGA
Found at i:36177280 original size:20 final size:22
Alignment explanation
Indices: 36177255--36177296 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36177245 AAAAAAGGGA
36177255 CCATA-TCTCGAGA-CCTTGAC
1 CCATAGTCTCGAGACCCTTGAC
36177275 CCATATGTCTCGAGACCCTTGA
1 CCATA-GTCTCGAGACCCTTGA
36177297 TTGAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (22 bp):
CCATAGTCTCGAGACCCTTGAC
Found at i:36184847 original size:83 final size:82
Alignment explanation
Indices: 36184744--36184910 Score: 235
Period size: 83 Copynumber: 2.0 Consensus size: 82
36184734 AAAGTTCATC
* * * * *
36184744 CAGGGTTACCGAAGTACAAACAGGGATACATATGTGTAATTTAGGTGGTACCAAAGTACAAAGAG
1 CAGGGGTACCGAAGTACAAACAGGGACACATATGTGCAATTCAGG-GGTACCAAAGTACAAACAG
* *
36184809 GGGCACGCATGTGTAATT
65 GGACACGCATGTGCAATT
* *
36184827 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
1 CAGGGGTACCGAAGTACAAACAGGGACACATATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
*
36184892 GACACGTATGTGCAATT
66 GACACGCATGTGCAATT
36184909 CA
1 CA
36184911 ACAATAATAT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 35 0.47
83 39 0.53
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (82 bp):
CAGGGGTACCGAAGTACAAACAGGGACACATATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
GACACGCATGTGCAATT
Found at i:36184852 original size:20 final size:20
Alignment explanation
Indices: 36184827--36184892 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
36184817 ATGTGTAATT
36184827 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
36184847 CAGGGGCA-CGTATGTGCAATT
1 CAGGGGTACCG-AAGTACAA-A
*
36184868 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
36184888 CAGGG
1 CAGGG
36184893 ACACGTATGT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 13 0.38
22 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.32, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:36184852 original size:41 final size:41
Alignment explanation
Indices: 36184744--36184910 Score: 217
Period size: 41 Copynumber: 4.0 Consensus size: 41
36184734 AAAGTTCATC
* * * * *
36184744 CAGGGTTACCGAAGTACAAACAGGGATACATATGTGTAATT
1 CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
* * * * *
36184785 TAGGTGGTACCAAAGTACAAAGAGGGGCACGCATGTGTAATT
1 CAGG-GGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
* *
36184827 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
36184868 CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
36184909 CA
1 CA
36184911 ACAATAATAT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
41 77 0.70
42 33 0.30
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (41 bp):
CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
Found at i:36184873 original size:21 final size:21
Alignment explanation
Indices: 36184807--36184910 Score: 61
Period size: 21 Copynumber: 5.0 Consensus size: 21
36184797 AAGTACAAAG
* *
36184807 AGGGGCACGCATGTGTAATTC
1 AGGGGCACGTATGTGCAATTC
* * * *
36184828 AGGGGTACCG-AAGTACAA-AC
1 AGGGGCA-CGTATGTGCAATTC
36184848 AGGGGCACGTATGTGCAATTC
1 AGGGGCACGTATGTGCAATTC
* ** * * *
36184869 AGGGGTACCAAAGTACAA-AC
1 AGGGGCACGTATGTGCAATTC
*
36184889 AGGGACACGTATGTGCAATTC
1 AGGGGCACGTATGTGCAATTC
36184910 A
1 A
36184911 ACAATAATAT
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
19 2 0.04
20 26 0.46
21 27 0.47
22 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (21 bp):
AGGGGCACGTATGTGCAATTC
Found at i:36201137 original size:21 final size:19
Alignment explanation
Indices: 36201100--36201139 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
36201090 TAAAAAACCT
*
36201100 AAAAACTTAAGTACAAAAG
1 AAAAACTTAAATACAAAAG
36201119 AAAAACTTAGAATATCAAAAG
1 AAAAACTTA-AATA-CAAAAG
36201140 TTGTCCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (19 bp):
AAAAACTTAAATACAAAAG
Found at i:36212268 original size:6 final size:6
Alignment explanation
Indices: 36212234--36212264 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
36212224 CAGTACAAGT
*
36212234 ATAAGA ATAAGA ATAAGA ATAAGA ACAAGA A
1 ATAAGA ATAAGA ATAAGA ATAAGA ATAAGA A
36212265 CAAGTACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.13
Consensus pattern (6 bp):
ATAAGA
Found at i:36213725 original size:28 final size:28
Alignment explanation
Indices: 36213688--36213843 Score: 206
Period size: 28 Copynumber: 5.6 Consensus size: 28
36213678 TTGACAGTAT
36213688 AGTGTGGGCCTTAGCCCAATACAGTAA-C
1 AGTGTGGGCCTTAGCCCAATACAG-AATC
* *
36213716 AGTGTAGGCCTTAGCCCAATACAAAATC
1 AGTGTGGGCCTTAGCCCAATACAGAATC
*
36213744 AGTGTGGGCCTTAGCCCAATACAGAATT
1 AGTGTGGGCCTTAGCCCAATACAGAATC
*
36213772 AGTGTGGGCCTTAGCCCCATACAGAATC
1 AGTGTGGGCCTTAGCCCAATACAGAATC
* * * *
36213800 AATGTGGGCCTTAGCCCAATAAAAAATG
1 AGTGTGGGCCTTAGCCCAATACAGAATC
* *
36213828 AGTATAGGCCTTAGCC
1 AGTGTGGGCCTTAGCC
36213844 TAATGCAGTA
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
27 2 0.02
28 110 0.98
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGAATC
Found at i:36213810 original size:84 final size:84
Alignment explanation
Indices: 36213687--36213843 Score: 235
Period size: 84 Copynumber: 1.9 Consensus size: 84
36213677 ATTGACAGTA
* * * *
36213687 TAGTGTGGGCCTTAGCCCAATACAGTAACAGTGTAGGCCTTAGCCCAATACAAAATCAGTGTGGG
1 TAGTGTGGGCCTTAGCCCAATACAGTAACAATGTAGGCCTTAGCCCAATAAAAAATCAGTATAGG
36213752 CCTTAGCCCAATACAGAAT
66 CCTTAGCCCAATACAGAAT
* * *
36213771 TAGTGTGGGCCTTAGCCCCATACAG-AATCAATGTGGGCCTTAGCCCAATAAAAAATGAGTATAG
1 TAGTGTGGGCCTTAGCCCAATACAGTAA-CAATGTAGGCCTTAGCCCAATAAAAAATCAGTATAG
36213835 GCCTTAGCC
65 GCCTTAGCC
36213844 TAATGCAGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
83 2 0.03
84 63 0.97
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (84 bp):
TAGTGTGGGCCTTAGCCCAATACAGTAACAATGTAGGCCTTAGCCCAATAAAAAATCAGTATAGG
CCTTAGCCCAATACAGAAT
Found at i:36214039 original size:26 final size:26
Alignment explanation
Indices: 36213961--36214041 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
36213951 AACACACCAA
*
36213961 TATCGCAGCAAAGCTGCTAGTAATAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
* * * * *
36213987 CATCACAGCAAAGCTGCCAATATCAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
*
36214013 TATCGCAGCAAAGCTGTTAGTAACAG
1 TATCGCAGCAAAGCTGCTAGTAACAG
36214039 TAT
1 TAT
36214042 ATGTGGCAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCTAGTAACAG
Found at i:36214323 original size:54 final size:53
Alignment explanation
Indices: 36214249--36214378 Score: 129
Period size: 54 Copynumber: 2.4 Consensus size: 53
36214239 ACCATAACAG
36214249 TCATTTTATCTCTTAT-GGGTATAACAGTCATTAAACCCTATGGGGGTATTTC-A
1 TCATTTTA-CT-TTATAGGGTATAACAGTCATTAAACCCTATGGGGGTATTTCGA
** * ** *
36214302 CTCATTTTACTTTATAGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCGA
1 -TCATTTTACTTTATA-GGGTATAACAGTCATTAAACCCTATGGGGGTATTTCGA
* *
36214357 TCATTTTCCCTTATAAGGGTAT
1 TCATTTTACTTTAT-AGGGTAT
36214379 TTTAGTAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
52 4 0.06
53 2 0.03
54 56 0.88
55 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (53 bp):
TCATTTTACTTTATAGGGTATAACAGTCATTAAACCCTATGGGGGTATTTCGA
Found at i:36214532 original size:27 final size:27
Alignment explanation
Indices: 36214273--36214525 Score: 258
Period size: 27 Copynumber: 9.4 Consensus size: 27
36214263 ATGGGTATAA
**
36214273 CAGTCATTAAACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* ** *
36214300 CACTCATTTTACTTTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
36214327 CGGTCATTTTACCTTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
**
36214354 C-GATCATTTT-CCCTTATAAGGGTATTT
1 CAG-TCATTTTACCC-TATGGGGGTATTT
* * * *
36214381 TAGTAATTTTACCCTATGAGGGAATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
**
36214408 TGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
36214435 CGGCCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
36214462 TAGTCATCTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
36214489 TAGTAATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
36214516 CAGTCATTTT
1 CAGTCATTTT
36214526 CATCTATTAG
Statistics
Matches: 187, Mismatches: 35, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
26 3 0.02
27 180 0.96
28 4 0.02
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:36214586 original size:81 final size:80
Alignment explanation
Indices: 36214320--36214583 Score: 203
Period size: 81 Copynumber: 3.2 Consensus size: 80
36214310 ACTTTATAGG
* * * * * * ***
36214320 GGTATTTCGGTCATTTTACCTTATGGGGGTATTTC-GATCATTTT-CCCTTATAAGGGTATTTTA
1 GGTATTTTGGTAATTTTACCCTATGGGGGTATTTCAG-CCATTTTATCC-TATAGGGGTAAAATA
* * *
36214383 GTAATTTTACCCTATGAG
64 GTCATCTTA-CCTATGAA
* * * * ***
36214401 GGAATTTTGGTCATTTTACCCTATGGGGGTATTTCGGCCATTTTATCCTATGGGGGTATTTTAGT
1 GGTATTTTGGTAATTTTACCCTATGGGGGTATTTCAGCCATTTTATCCTATAGGGGTAAAATAGT
*
36214466 CATCTTACCCTATGAG
66 CATCTTA-CCTATGAA
* *
36214482 GGTATTTTAGTAATTTTACCCTATGGGGGTATTTCAGTCATTTTCAT-CTATTAGGGGTAAAATA
1 GGTATTTTGGTAATTTTACCCTATGGGGGTATTTCAGCCATTTT-ATCCTA-TAGGGGTAAAATA
* *
36214546 GTCATTTTA-CTATTTATA
64 GTCATCTTACCTA-TGA-A
*
36214564 GGTATTTTGGTTATTTTACC
1 GGTATTTTGGTAATTTTACC
36214584 TATTTTTGGG
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.02
81 111 0.72
82 40 0.26
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACCCTATGGGGGTATTTCAGCCATTTTATCCTATAGGGGTAAAATAGT
CATCTTACCTATGAA
Found at i:36215942 original size:27 final size:27
Alignment explanation
Indices: 36215912--36216042 Score: 95
Period size: 27 Copynumber: 4.8 Consensus size: 27
36215902 TTTCAGTTTT
*
36215912 GGGGTATTTTAGTCATTTTACTCTATA
1 GGGGTATTTTAGTCATTTTACCCTATA
* * * *
36215939 GGGGTATTTCAGTAATTTTACCCTTTT
1 GGGGTATTTTAGTCATTTTACCCTATA
* * *
36215966 GGGGTATTTCAATCATTTT-CATCTATTA
1 GGGGTATTTTAGTCATTTTAC-CCTA-TA
* ***
36215994 GAGGTAAAATAGTCATTTTACCCT-TCA
1 GGGGTATTTTAGTCATTTTACCCTAT-A
* *
36216021 GGGGTATTTTGGTTATTTTACC
1 GGGGTATTTTAGTCATTTTACC
36216043 TATTTTAGGG
Statistics
Matches: 77, Mismatches: 23, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
26 2 0.03
27 58 0.75
28 16 0.21
29 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (27 bp):
GGGGTATTTTAGTCATTTTACCCTATA
Found at i:36218701 original size:33 final size:33
Alignment explanation
Indices: 36218636--36218701 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
36218626 GCATGTAGTA
* ** *
36218636 ACAGTCTGGGCCTTAGCCCTATTCAGTGACAGT
1 ACAGTCTGGGCCTTAGCCCAACACAGTAACAGT
*
36218669 ACAGTGTGGGCCTTAGCCCAACACAGTAACAGT
1 ACAGTCTGGGCCTTAGCCCAACACAGTAACAGT
36218702 GTGGGCCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (33 bp):
ACAGTCTGGGCCTTAGCCCAACACAGTAACAGT
Found at i:36218703 original size:28 final size:28
Alignment explanation
Indices: 36218670--36218815 Score: 172
Period size: 28 Copynumber: 5.2 Consensus size: 28
36218660 AGTGACAGTA
*
36218670 CAGTGTGGGCCTTAGCCCAACACAGTAA-
1 CAGTGTGGGCCTTAGCCCAATACA-TAAT
*
36218698 CAGTGTGGGCCTTAGCCCAATATATAAT
1 CAGTGTGGGCCTTAGCCCAATACATAAT
*
36218726 CAGTGT-GGCCTTTAGCCCAATACAAAAT
1 CAGTGTGGGCC-TTAGCCCAATACATAAT
* * * *
36218754 TAGTATAGGCCTTAGCCCAATACAAAAT
1 CAGTGTGGGCCTTAGCCCAATACATAAT
*
36218782 CAGTGTGGACCTTAGCCCAATACAGTAAT
1 CAGTGTGGGCCTTAGCCCAATACA-TAAT
36218811 -AGTGT
1 CAGTGT
36218816 AGTGGAATAA
Statistics
Matches: 103, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
27 7 0.07
28 89 0.86
29 7 0.07
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACATAAT
Found at i:36219171 original size:27 final size:27
Alignment explanation
Indices: 36219140--36219418 Score: 179
Period size: 27 Copynumber: 10.3 Consensus size: 27
36219130 TGGGTATAAC
36219140 AGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* ** *
36219167 TGTCATTTTACTTTATAGGGGTA-TTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* * ** **
36219193 CGATTATTTTACTTTATGGGGAAATTTT
1 AG-TCATTTTACCCTATGGGGGTATTTT
*
36219221 GGTCATTTT-CCCTTATGGGGGTA-TTT
1 AGTCATTTTACCC-TATGGGGGTATTTT
* * *
36219247 CGATCATTTTACCCTATAGGGGTACTTT
1 AG-TCATTTTACCCTATGGGGGTATTTT
* *
36219275 GGTCATTTTACCCTATGAGGGTA-TTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* * ** *
36219301 CGACCATTTTACCCTATGACGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTT
* * * * **
36219329 AGTTACTTTACACTTTTAGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* * *
36219356 AGTCATTTTACTCTATAGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTT
* * * * *
36219383 AGTAATTTTACCTTATAGGGTTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTT
36219410 AGTCATTTT
1 AGTCATTTT
36219419 CATCTATTAG
Statistics
Matches: 199, Mismatches: 45, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
26 13 0.07
27 172 0.86
28 14 0.07
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.46
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTT
Found at i:36219202 original size:54 final size:53
Alignment explanation
Indices: 36219142--36219418 Score: 234
Period size: 54 Copynumber: 5.1 Consensus size: 53
36219132 GGTATAACAG
* *
36219142 TCATTTTACCCTATGGGGGTATTTTTGTCATTTTACTTTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTAT-GGGGTATTTCGA
* ** ** *
36219196 TTATTTTACTTTATGGGGAAATTTTGGTCATTTTCCCTTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTAT-GGGGTATTTCGA
* * *
36219250 TCATTTTACCCTATAGGGGTACTTTGGTCATTTTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATG-GGGTATTTCGA
* ** ** * * * * *
36219304 CCATTTTACCCTATGACGGTATTTCAGTTACTTTACACTTTTAGGGTATTT-TA
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTAC-CTTATGGGGTATTTCGA
* * ** * *
36219357 GTCATTTTACTCTATAGGGGTATTTCAGTAATTTTACCTTATAGGGTTATTTC-A
1 -TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTAT-GGGGTATTTCGA
36219411 GTCATTTT
1 -TCATTTT
36219419 CATCTATTAG
Statistics
Matches: 177, Mismatches: 41, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
53 6 0.03
54 168 0.95
55 3 0.02
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCTTATGGGGTATTTCGA
Found at i:36222131 original size:28 final size:28
Alignment explanation
Indices: 36222090--36222463 Score: 178
Period size: 28 Copynumber: 13.3 Consensus size: 28
36222080 CTATTCAGGA
*
36222090 ACAGT-ACAGTGTGGTCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
36222117 ATAGTAACAGTGTGGGCCTTAGCTCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
36222145 ACAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
36222173 ACAG-AATCAGTGTGGGCCTTAGCGCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
* * * *
36222201 ACA-AAATCTGTGTGGGCCGTAGCCTAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
* * * ** **** *
36222229 ACAGTAACCGTGCAGTGCAATAATGTAAC
1 ACAGTAACAGTG-TGGGCCTTAGCCCAAT
* ** * *** * *
36222258 CCA-TCCCAAT-CCAGCC--AACACACAT
1 ACAGTAACAGTGTGGGCCTTAGCCCA-AT
* * * *
36222283 GCAGCAACAGTCTAGGCCTTAGCCCTATTCAGT
1 ACAGTAACAGTGTGGGCCTTAGCCC-A---A-T
* *
36222316 GACAGT-ACAGTGTGGTCCTTCGCCCAAT
1 -ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * * *
36222344 ATAGAAACAGTGTGGGCTTTAGCTCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
36222372 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
36222400 ACAG-AATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
* *
36222428 ACCA--AATCTA-TGTAGGCCGTAGCCCAAT
1 A-CAGTAA-C-AGTGTGGGCCTTAGCCCAAT
36222456 ACAGTAAC
1 ACAGTAAC
36222464 CGTGCAGTGC
Statistics
Matches: 263, Mismatches: 63, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
24 3 0.01
25 3 0.01
26 5 0.02
27 16 0.06
28 192 0.73
29 21 0.08
30 1 0.00
32 3 0.01
33 16 0.06
34 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:36222448 original size:227 final size:227
Alignment explanation
Indices: 36222048--36222507 Score: 798
Period size: 227 Copynumber: 2.0 Consensus size: 227
36222038 TCATTCAGTA
*
36222048 AACA-ACATGCAACAACAGTCTGGGCCTTAGCCCTATTCAGGAACAGTACAGTGTGGTCCTTAGC
1 AACACACATGCAACAACAGTCTAGGCCTTAGCCCTATTCAGGAACAGTACAGTGTGGTCCTTAGC
* *
36222112 CCAATATAGTAACAGTGTGGGCCTTAGCTCAATACAGTAATAGTGTGGGCCTTAGCCCAATACAG
66 CCAATATAGAAACAGTGTGGGCCTTAGCTCAATACAGTAACAGTGTGGGCCTTAGCCCAATACAG
* * * *
36222177 AATCAGTGTGGGCCTTAGCGCAATACAAAATCTGTGTGGGCCGTAGCCTAATACAGTAACCGTGC
131 AATCAGTGTGGGCCTTAGCCCAATACAAAATCTATGTAGGCCGTAGCCCAATACAGTAACCGTGC
36222242 AGTGCAATAATGTAACCCATCCCAATCCAGCC
196 AGTGCAATAATGTAACCCATCCCAATCCAGCC
* *
36222274 AACACACATGCAGCAACAGTCTAGGCCTTAGCCCTATTCAGTG-ACAGTACAGTGTGGTCCTTCG
1 AACACACATGCAACAACAGTCTAGGCCTTAGCCCTATTCAG-GAACAGTACAGTGTGGTCCTTAG
*
36222338 CCCAATATAGAAACAGTGTGGGCTTTAGCTCAATACAGTAACAGTGTGGGCCTTAGCCCAATACA
65 CCCAATATAGAAACAGTGTGGGCCTTAGCTCAATACAGTAACAGTGTGGGCCTTAGCCCAATACA
*
36222403 GAATCAGTGTGGGCCTTAGCCCAATACCAAATCTATGTAGGCCGTAGCCCAATACAGTAACCGTG
130 GAATCAGTGTGGGCCTTAGCCCAATACAAAATCTATGTAGGCCGTAGCCCAATACAGTAACCGTG
36222468 CAGTGCAATAATGTAACCCATCCCAATCCAGCC
195 CAGTGCAATAATGTAACCCATCCCAATCCAGCC
36222501 AACACAC
1 AACACAC
36222508 CAATATCGCA
Statistics
Matches: 221, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
226 4 0.02
227 216 0.98
228 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (227 bp):
AACACACATGCAACAACAGTCTAGGCCTTAGCCCTATTCAGGAACAGTACAGTGTGGTCCTTAGC
CCAATATAGAAACAGTGTGGGCCTTAGCTCAATACAGTAACAGTGTGGGCCTTAGCCCAATACAG
AATCAGTGTGGGCCTTAGCCCAATACAAAATCTATGTAGGCCGTAGCCCAATACAGTAACCGTGC
AGTGCAATAATGTAACCCATCCCAATCCAGCC
Found at i:36222589 original size:26 final size:26
Alignment explanation
Indices: 36222519--36222611 Score: 96
Period size: 26 Copynumber: 3.5 Consensus size: 26
36222509 AATATCGCAA
* * *
36222519 CAAAGCTACCAGTAATAGAATCGCAG
1 CAAAGCTACCAGTAACAGTATTGCAG
* * *
36222545 CAGAGCTGCCAGTATCAGTATTGCAG
1 CAAAGCTACCAGTAACAGTATTGCAG
**
36222571 CAAAGCTACCAGTAACAGTATATGTGG
1 CAAAGCTACCAGTAACAGTAT-TGCAG
*
36222598 CAAAGCGACCAGTA
1 CAAAGCTACCAGTA
36222612 GGTCCATAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 38 0.70
27 16 0.30
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CAAAGCTACCAGTAACAGTATTGCAG
Found at i:36222826 original size:27 final size:27
Alignment explanation
Indices: 36222790--36222868 Score: 135
Period size: 27 Copynumber: 3.0 Consensus size: 27
36222780 AACATAAGGC
36222790 TATAACAGTCATTTTATCTCTTATAGG
1 TATAACAGTCATTTTATCTCTTATAGG
*
36222817 TATAAAAGTCATTTTATCTCTTATAGG
1 TATAACAGTCATTTTATCTCTTATAGG
36222844 TATAACAGTCATTTTA-C-CTTATAGG
1 TATAACAGTCATTTTATCTCTTATAGG
36222869 GGAACTTCTG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 8 0.16
26 1 0.02
27 41 0.82
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (27 bp):
TATAACAGTCATTTTATCTCTTATAGG
Found at i:36222881 original size:27 final size:27
Alignment explanation
Indices: 36222849--36223213 Score: 305
Period size: 27 Copynumber: 13.5 Consensus size: 27
36222839 ATAGGTATAA
* * *
36222849 CAGTCATTTTACCTTATAGGGGAACTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36222876 CTGTCATTTTACCCTATTGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36222903 CAATCATTTTACCCTATCGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* ** *
36222930 CAGTTATTTTACCCTATTTGGATATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36222957 CGGTCCTTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
** * *
36222984 TGGTTC-TTTTATCCTATTGGGGTATTT
1 CAG-TCATTTTACCCTATAGGGGTATTT
*
36223011 CAGTCATTTTACCTTAT-GAGGGTATTT
1 CAGTCATTTTACCCTATAG-GGGTATTT
* *
36223038 CAATCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36223065 CACTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
36223092 CAGTTATTTTACCCTAT-GAGGATATTT
1 CAGTCATTTTACCCTATAG-GGGTATTT
* *
36223119 CGGTCATTTTACCCTATTA-GGTTATTT
1 CAGTCATTTTACCCTA-TAGGGGTATTT
* * **
36223146 CTA-TCATTTT-CATCTATTAGGGTTAAAAT
1 C-AGTCATTTTAC-CCTA-TAGGGGT-ATTT
36223175 -AGTCATTTTACCCT-TCAGGGGTATTT
1 CAGTCATTTTACCCTAT-AGGGGTATTT
**
36223201 TTGTCATTTTACC
1 CAGTCATTTTACC
36223214 TATTTTGGGG
Statistics
Matches: 279, Mismatches: 44, Indels: 30
0.79 0.12 0.08
Matches are distributed among these distances:
26 8 0.03
27 251 0.90
28 17 0.06
29 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.45
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTATTT
Found at i:36223483 original size:19 final size:19
Alignment explanation
Indices: 36223461--36223503 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
36223451 AAGACCATTG
36223461 GGCCCACAC-AGCCCATTTC
1 GGCCCA-ACGAGCCCATTTC
*
36223480 GGCCCAACGTGGCCCATTTC
1 GGCCCAACG-AGCCCATTTC
36223500 GGCC
1 GGCC
36223504 TAAGCCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 6 0.29
20 13 0.62
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.16
Consensus pattern (19 bp):
GGCCCAACGAGCCCATTTC
Found at i:36228317 original size:24 final size:25
Alignment explanation
Indices: 36228284--36228338 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
36228274 TTCCTGAGTG
* *
36228284 AATCCCTTTGAATTAGCTTTTAAC-
1 AATCCATTTGAATTAGCTTCTAACA
36228308 AATCCATTTGAATTAGCTTCTAACA
1 AATCCATTTGAATTAGCTTCTAACA
36228333 AATCCA
1 AATCCA
36228339 AACATTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 22 0.79
25 6 0.21
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (25 bp):
AATCCATTTGAATTAGCTTCTAACA
Found at i:36230181 original size:8 final size:8
Alignment explanation
Indices: 36230168--36230192 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36230158 TTTTAAATAA
36230168 TATTTTAT
1 TATTTTAT
36230176 TATTTTAT
1 TATTTTAT
36230184 TATTTTAT
1 TATTTTAT
36230192 T
1 T
36230193 GTTTAGTATA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:36232785 original size:23 final size:22
Alignment explanation
Indices: 36232742--36232785 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
36232732 TTCTAAGTCG
36232742 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
36232765 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
36232786 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:36233001 original size:51 final size:50
Alignment explanation
Indices: 36232925--36233115 Score: 188
Period size: 51 Copynumber: 3.8 Consensus size: 50
36232915 ATGTTCGGTT
* * * *
36232925 CACATAGTAGCCTACACGTAGTACTATACATGTGACCATTACCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTGATA
* * * *
36232976 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC-CAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCTGA-TA
* * * * * *
36233027 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCT-GATA
* *
36233077 CACGTAGTAGCCTGCACATAGAACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
36233116 CACTTTCACT
Statistics
Matches: 112, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 3 0.03
50 36 0.32
51 71 0.63
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGATA
Found at i:36233103 original size:101 final size:101
Alignment explanation
Indices: 36232927--36233111 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
36232917 GTTCGGTTCA
* * *
36232927 CATAGTAGCCTACACGTAGTACTATACATGTGACCATTACCATCTGATACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCTGATACACATAGTAGCCTGCA
*
36232992 CATAGTACTACACACGTGATCGAAACTATCCAGTACG
65 CATAGAACTACACACGTGATCGAAACTATCCAGTACG
* * * * *
36233029 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCT-GATACACATAGTAGCCTGCA
36233093 CATAGAACTACACACGTGA
65 CATAGAACTACACACGTGA
36233112 CCATCACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 6 0.08
101 36 0.49
102 31 0.42
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCTGATACACATAGTAGCCTGCAC
ATAGAACTACACACGTGATCGAAACTATCCAGTACG
Found at i:36236636 original size:40 final size:40
Alignment explanation
Indices: 36236580--36236666 Score: 156
Period size: 40 Copynumber: 2.1 Consensus size: 40
36236570 AAAATTGTAG
36236580 TTGTACTTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTC
1 TTGTA-TTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTC
36236621 TTGTATTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTC
1 TTGTATTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTC
*
36236661 GTGTAT
1 TTGTAT
36236667 ACTTATGATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 40 0.89
41 5 0.11
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (40 bp):
TTGTATTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTC
Found at i:36237137 original size:27 final size:27
Alignment explanation
Indices: 36237089--36237171 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
36237079 TTTTGATTAT
*
36237089 CCTATAGGAGCATTAC-GATCATTTTAC
1 CCTACAGGAGCATTACAG-TCATTTTAC
*
36237116 TCTACAGGAGCATTACAGTCATTTTAC
1 CCTACAGGAGCATTACAGTCATTTTAC
* *
36237143 CCTACAGGGGCGTTACAGTCATTTTAC
1 CCTACAGGAGCATTACAGTCATTTTAC
36237170 CC
1 CC
36237172 ATTGAGGGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (27 bp):
CCTACAGGAGCATTACAGTCATTTTAC
Found at i:36237190 original size:27 final size:27
Alignment explanation
Indices: 36237159--36237277 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 27
36237149 GGGGCGTTAC
36237159 AGTCATTTTACCCATT-GAGGGTATTTT
1 AGTCATTTTACCC-TTCGAGGGTATTTT
* *
36237186 GGTCATTTTACCCATTGGA-GGTA-TTT
1 AGTCATTTTACCC-TTCGAGGGTATTTT
* * *
36237212 CGATCATTTTACCCTTCGAGTGTATTAT
1 AG-TCATTTTACCCTTCGAGGGTATTTT
*
36237240 AGTAATTTTACCCTTCGAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
*
36237267 AGTAATTTTAC
1 AGTCATTTTAC
36237278 AATCTTTCTG
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
26 8 0.10
27 66 0.84
28 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.44
Consensus pattern (27 bp):
AGTCATTTTACCCTTCGAGGGTATTTT
Found at i:36251009 original size:16 final size:15
Alignment explanation
Indices: 36250969--36251015 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
36250959 AGATGATAAT
36250969 TATTAATATATAATTA
1 TATTAAT-TATAATTA
36250985 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
*
36251001 TATTAATTATTATTA
1 TATTAATTATAATTA
36251016 GCTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 9 0.33
16 17 0.63
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:36251014 original size:10 final size:11
Alignment explanation
Indices: 36250967--36251015 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
36250957 AAAGATGATA
36250967 ATTATTAATAT
1 ATTATTAATAT
* *
36250978 ATAATTATATCT
1 ATTATTA-ATAT
36250990 ATTA-TAATAT
1 ATTATTAATAT
36251000 A-TATTAAT-T
1 ATTATTAATAT
36251009 ATTATTA
1 ATTATTA
36251016 GCTTTATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
9 4 0.13
10 13 0.42
11 8 0.26
12 6 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTATTAATAT
Found at i:36251014 original size:22 final size:23
Alignment explanation
Indices: 36250967--36251015 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
36250957 AAAGATGATA
36250967 ATTATTAATATATAATTATATCT
1 ATTATTAATATATAATTATATCT
36250990 ATTA-TAATATAT-ATTA-AT-T
1 ATTATTAATATATAATTATATCT
36251009 ATTATTA
1 ATTATTA
36251016 GCTTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.20
20 4 0.16
21 4 0.16
22 8 0.32
23 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTATTAATATATAATTATATCT
Found at i:36251626 original size:25 final size:25
Alignment explanation
Indices: 36251573--36251626 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
36251563 ATTTTCATTT
* *
36251573 AATTATCTAATTTTTCAATTTATTG
1 AATTATCTAATTTTTCAATTAATTA
36251598 AATTAT-TAATATTTT-ATATTAATTA
1 AATTATCTAAT-TTTTCA-ATTAATTA
36251623 AATT
1 AATT
36251627 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTATCTAATTTTTCAATTAATTA
Found at i:36253918 original size:82 final size:81
Alignment explanation
Indices: 36253802--36253957 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
36253792 AAATTGTACA
* * * *
36253802 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
36253866 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36253883 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
36253948 TGCGAGTTGA
65 TGCGAATTGA
36253958 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36253925 original size:55 final size:52
Alignment explanation
Indices: 36253801--36253954 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
36253791 TAAATTGTAC
* *
36253801 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
36253854 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
36253909 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
36253955 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:36253959 original size:27 final size:27
Alignment explanation
Indices: 36253802--36253957 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
36253792 AAATTGTACA
*
36253802 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
36253829 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
36253856 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
36253883 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
36253911 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
36253938 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
36253958 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:36253968 original size:27 final size:27
Alignment explanation
Indices: 36253794--36253978 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
36253784 GCGGGATTAA
*
36253794 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
36253821 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
36253848 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
36253875 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
36253903 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
36253930 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
36253957 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
36253979 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:36253969 original size:82 final size:81
Alignment explanation
Indices: 36253794--36253978 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
36253784 GCGGGATTAA
* * * *
36253794 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
36253859 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
36253875 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
36253939 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
36253957 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
36253979 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:36261998 original size:82 final size:81
Alignment explanation
Indices: 36261877--36262032 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
36261867 AAATTGTACA
* * * *
36261877 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAATGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAATGTGCGAAATGAATACG-TGGCACTAAGTG
36261941 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
36261958 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAATGTGCGAAATGAATACGTGGCACTAAGTG
*
36262023 TGCGAGTTGA
65 TGCGAATTGA
36262033 TTGTATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAATGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36261999 original size:55 final size:52
Alignment explanation
Indices: 36261876--36262029 Score: 166
Period size: 55 Copynumber: 2.9 Consensus size: 52
36261866 TAAATTGTAC
* * *
36261876 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAATGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
36261929 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
36261984 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
36262030 TGATTGTATA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
53 3 0.04
54 35 0.41
55 46 0.54
56 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:36262034 original size:27 final size:27
Alignment explanation
Indices: 36261877--36262032 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
36261867 AAATTGTACA
*
36261877 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* * *
36261904 GCACTAAATGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
36261931 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
36261958 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
36261986 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
36262013 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
36262033 TTGTATAGCA
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:36262043 original size:27 final size:27
Alignment explanation
Indices: 36261876--36262053 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
36261866 TAAATTGTAC
*
36261876 AGCACTAAGTGTGCGA-TTCGACTATGT
1 AGCACTAAGTGTGCGAGTT-GATTATGT
* * ** *
36261903 TGCACTAAATGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** *
36261929 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
36261957 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
36261985 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
36262012 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
36262039 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36262054 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:36262044 original size:82 final size:81
Alignment explanation
Indices: 36261869--36262053 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
36261859 GCGGGATTAA
* * * *
36261869 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAATGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAATGTGCGAAATGAATACGATGCA
36261934 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * * ** *
36261950 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAATGTGCGAAATGAATACGAT-G
*
36262014 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
36262032 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
36262054 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 21 0.26
82 60 0.74
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAATGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:36265237 original size:30 final size:30
Alignment explanation
Indices: 36265182--36265238 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
36265172 GTTAAACGAT
**
36265182 AGCTCACCAGGTTAAAGTTTGTCAAGCTTG
1 AGCTCACCAGGTTAAAGTTCATCAAGCTTG
*
36265212 AGCTCACTAGGTTAAAGTTCATCAAGC
1 AGCTCACCAGGTTAAAGTTCATCAAGC
36265239 CCAAGCCAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (30 bp):
AGCTCACCAGGTTAAAGTTCATCAAGCTTG
Found at i:36276279 original size:20 final size:20
Alignment explanation
Indices: 36276256--36276298 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36276246 ATTTAGCCAT
* * *
36276256 TTTTTATTTTTTTTATTTTA
1 TTTTTATATTTTTGATTTAA
36276276 TTTTTATATTTTTGATTTAA
1 TTTTTATATTTTTGATTTAA
36276296 TTT
1 TTT
36276299 AATTTTTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTATATTTTTGATTTAA
Found at i:36277031 original size:12 final size:12
Alignment explanation
Indices: 36277014--36277044 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
36277004 CCCTCATCAT
36277014 AGGTTACCTTTG
1 AGGTTACCTTTG
36277026 AGGTTACCTTTG
1 AGGTTACCTTTG
*
36277038 GGGTTAC
1 AGGTTAC
36277045 AAGTTCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.39
Consensus pattern (12 bp):
AGGTTACCTTTG
Found at i:36279153 original size:5 final size:5
Alignment explanation
Indices: 36279138--36279185 Score: 87
Period size: 5 Copynumber: 9.4 Consensus size: 5
36279128 TTATTGCATG
36279138 TTAATT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TT
36279186 TTAAAAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 38 0.90
6 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:36279998 original size:28 final size:28
Alignment explanation
Indices: 36279957--36280080 Score: 198
Period size: 28 Copynumber: 4.5 Consensus size: 28
36279947 CTATTCAGTG
*
36279957 ACAGT-ACAGTGTGGGCCTTAGCTCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
36279984 ATAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
36280012 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
36280040 ACAG-AATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
36280068 ACAGTAACAGTGT
1 ACAGTAACAGTGT
36280081 AGTGCAATAA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
27 6 0.07
28 81 0.91
29 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:36280237 original size:26 final size:26
Alignment explanation
Indices: 36280182--36280255 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
36280172 ACACACCAAT
*
36280182 ATCGCAGCAAAGCTGCCAGTAATTGC
1 ATCGCAGCAAAGCTGCCAGTAATAGC
*
36280208 ATCGCAGCAGAGCTGCCAGT-ATCAAG-
1 ATCGCAGCAAAGCTGCCAGTAAT--AGC
* *
36280234 ATCGTAGCAAAGCTACCAGTAA
1 ATCGCAGCAAAGCTGCCAGTAA
36280256 CAGTATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 36 0.90
27 2 0.05
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.18
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTAATAGC
Found at i:36280530 original size:54 final size:53
Alignment explanation
Indices: 36280468--36280692 Score: 258
Period size: 54 Copynumber: 4.2 Consensus size: 53
36280458 AAGGCCATTA
* * * *
36280468 CAGTCATTTTATCTCCTA-GGGGTGTAACAGTCATTTTACCCTATAGGGTTATTT
1 CAGTCATTTTA-C-CCTATGGGGTATATCAGTCATTTTACCCTATGGGGGTATTT
* *
36280522 CAGTCATTTTACCCTATAGGGGCATTTC-GATCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATATCAG-TCATTTTACCCTATGGGGGTATTT
** * * *
36280576 TGGTTATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGG-TATATCAGTCATTTTACCCTATGGGGGTATTT
* *
36280630 CGGTCATTTTACCCTATGGGGGTAT-TCAGTCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GGGGTATATCAGTCATTTTACCCTATGGGGGTATTT
36280683 CAGTCATTTT
1 CAGTCATTTT
36280693 CATCTATTGG
Statistics
Matches: 150, Mismatches: 15, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
52 4 0.03
53 41 0.27
54 100 0.67
55 5 0.03
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (53 bp):
CAGTCATTTTACCCTATGGGGTATATCAGTCATTTTACCCTATGGGGGTATTT
Found at i:36280704 original size:27 final size:27
Alignment explanation
Indices: 36280495--36280692 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
36280485 AGGGGTGTAA
* *
36280495 CAGTCATTTTACCCTATAGGGTTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
36280522 CAGTCATTTTACCCTATAGGGGCATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
36280549 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
** * *
36280576 TGGTTATTTTACCCTATGGGGATATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
36280603 CGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
36280630 CGGTCATTTTACCCTATGGGGGTA-TT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
36280656 CAGTCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
36280683 CAGTCATTTT
1 CAGTCATTTT
36280693 CATCTATTGG
Statistics
Matches: 156, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
26 25 0.16
27 130 0.83
28 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:36280707 original size:81 final size:80
Alignment explanation
Indices: 36280470--36280692 Score: 288
Period size: 81 Copynumber: 2.8 Consensus size: 80
36280460 GGCCATTACA
* * *
36280470 GTCATTTTATCTCCTA-GGGGTGTA-ACAGTCATTTTACCCTATAGGGTTATTTCAGTCATTTTA
1 GTCATTTTA-C-CCTATGGGG-GTATTCAGTCATTTTACCCTATGGGGATATTTCAGTCATTTTA
* *
36280533 CCCTATAGGGGCATTTCG
63 CCCTATGGGGGTATTTCG
* ** * *
36280551 ATCATTTTACCCTATGGGGGTATTTTGGTTATTTTACCCTATGGGGATATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTA-TTCAGTCATTTTACCCTATGGGGATATTTCAGTCATTTTACC
36280616 CTATGGGGGTATTTCG
65 CTATGGGGGTATTTCG
* *
36280632 GTCATTTTACCCTATGGGGGTATTCAGTCATTTTATCCTATGGGGGTATTTCAGTCATTTT
1 GTCATTTTACCCTATGGGGGTATTCAGTCATTTTACCCTATGGGGATATTTCAGTCATTTT
36280693 CATCTATTGG
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
79 7 0.06
80 38 0.31
81 77 0.63
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTCAGTCATTTTACCCTATGGGGATATTTCAGTCATTTTACCC
TATGGGGGTATTTCG
Found at i:36280753 original size:81 final size:81
Alignment explanation
Indices: 36280500--36280750 Score: 265
Period size: 81 Copynumber: 3.1 Consensus size: 81
36280490 TGTAACAGTC
* * * * ** *
36280500 ATTTTACCCTATAGGGTTATTTCAGTCATTTTACCCTATAGGGGCATTTCGATCATTTTACCCTA
1 ATTTTACCCTATGGGGATATTTCAGTCATTTTACCCTATGGGGGTAAATCAATCATTTTACCCTA
36280565 TGGGGGTATTTTGGTT
66 TGGGGGTATTTTGGTT
* ** **
36280581 ATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
1 ATTTTACCCTATGGGGATATTTCAGTCATTTTACCCTATGGGGGTAAATCAATCATTTTACCCTA
** *
36280646 TGGGGGTA-TTCAGTC
66 TGGGGGTATTTTGGTT
* * * *
36280661 ATTTTATCCTATGGGGGTATTTCAGTCATTTT-CATCTATTGGGGGTAAAAT-AATCATTTTATC
1 ATTTTACCCTATGGGGATATTTCAGTCATTTTAC-CCTA-TGGGGGT-AAATCAATCATTTTACC
* *
36280724 CTTTAGGGGTATTTTGGTT
63 CTATGGGGGTATTTTGGTT
36280743 ATTTTACC
1 ATTTTACC
36280751 TATTTTGATG
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 36 0.25
81 92 0.65
82 13 0.09
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTATGGGGATATTTCAGTCATTTTACCCTATGGGGGTAAATCAATCATTTTACCCTA
TGGGGGTATTTTGGTT
Found at i:36283186 original size:22 final size:23
Alignment explanation
Indices: 36283153--36283196 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
36283143 TCTGTCGAAA
36283153 ATTATCAAAATTAA-TCAAAATTT
1 ATTATCAAAATTAAGT-AAAATTT
36283176 ATTAT-AAAATTAAGTAAAATT
1 ATTATCAAAATTAAGTAAAATT
36283197 CAACATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTATCAAAATTAAGTAAAATTT
Found at i:36293076 original size:51 final size:49
Alignment explanation
Indices: 36293000--36293188 Score: 218
Period size: 51 Copynumber: 3.8 Consensus size: 49
36292990 GATGAACACG
*
36293000 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGA-AAACT--TGGTCACA
* * * *
36293051 TGTGTAGTACTAAGTGAAGACTACTATGTGTACCGAAAAGCTTTGGTCAAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAA-C-TTGGTCACA
* * * *
36293102 TGTGTAGTACTATGTGGAGGCTACTACGTGGACCGCAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-AAAACTTGGTCACA
* *
36293152 TGTGTAGCACTATGTGAAGGCTACTACGTGTATCGAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
36293189 TGATAATAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 40 0.34
51 70 0.60
52 4 0.03
53 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAACTTGGTCACA
Done.