Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 74 of 141
Found at i:21295556 original size:705 final size:705
Alignment explanation
Indices: 21294685--21296094 Score: 2734
Period size: 705 Copynumber: 2.0 Consensus size: 705
21294675 ATAAAGATCG
* * * *
21294685 TTTTCACGAGATGTTGGCAATTTTACGATCCCAAAACGGCGAAGGGGCGGACTACCTTTGTAACA
1 TTTTCACGAGATGTTGACAATTATACGATCCCAAAACGGAGAAGGGGCGGACTACCTCTGTAACA
21294750 TACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGTTGAAC
66 TACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGTTGAAC
21294815 CTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTTGTGCG
131 CTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTTGTGCG
21294880 AGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGATGC
196 AGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGATGC
21294945 AGGGAGGCCATGTATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGACAAAC
261 AGGGAGGCCATGTATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGACAAAC
21295010 ACTATGTACACAGTGTGTCACGATCGAGACAATTTATGGTTTCGCGTGATAGAGTTTGACAGACC
326 ACTATGTACACAGTGTGTCACGATCGAGACAATTTATGGTTTCGCGTGATAGAGTTTGACAGACC
21295075 ACACCAAGGTGTTGTTGGCGAGCAATATCGTGTACACTTAAAAAATAAGACTTGTGACTGTGGGA
391 ACACCAAGGTGTTGTTGGCGAGCAATATCGTGTACACTTAAAAAATAAGACTTGTGACTGTGGGA
21295140 TGTTTGATGCACTTCATTATCCATGCGCTCATGTTATTGCAGCTTGTCAGAATCTCCATCTAGAT
456 TGTTTGATGCACTTCATTATCCATGCGCTCATGTTATTGCAGCTTGTCAGAATCTCCATCTAGAT
21295205 CTGATGAGTTATGTGGACGAAGTGTACAAATTAGAAAACATGTACAGCGTTTGAAGACACGTTTT
521 CTGATGAGTTATGTGGACGAAGTGTACAAATTAGAAAACATGTACAGCGTTTGAAGACACGTTTT
21295270 CCCACCAGTCTCAGATGAACGTAAGTGGCCGCCCGTATCTCTTGCTCATTTTAAGTTGTTACCAG
586 CCCACCAGTCTCAGATGAACGTAAGTGGCCGCCCGTATCTCTTGCTCATTTTAAGTTGTTACCAG
21295335 ATAGAGAATTACGTCGTAAACCAAAGGGTCGACCTTGCTCGACTAGAATACGTAA
651 ATAGAGAATTACGTCGTAAACCAAAGGGTCGACCTTGCTCGACTAGAATACGTAA
* *
21295390 TTTTTACGAGATGTTGACAATTATACG-T-TCAATTAACGGAGAAGGGGCGGACTACCTCTGTAA
1 TTTTCACGAGATGTTGACAATTATACGATCCCAA--AACGGAGAAGGGGCGGACTACCTCTGTAA
21295453 CATACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGTTGA
64 CATACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGTTGA
21295518 ACCTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTTGTG
129 ACCTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTTGTG
21295583 CGAGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGAT
194 CGAGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGAT
21295648 GCAGGGAGGCCATGTATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGACAA
259 GCAGGGAGGCCATGTATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGACAA
21295713 ACACTATGTACACAGTGTGTCACGATCGAGACAATTTATGGTTTCGCGTGATAGAGTTTGACAGA
324 ACACTATGTACACAGTGTGTCACGATCGAGACAATTTATGGTTTCGCGTGATAGAGTTTGACAGA
21295778 CCACACCAAGGTGTTGTTGGCGAGCAATATCGTGTACACTTAAAAAATAAGACTTGTGACTGTGG
389 CCACACCAAGGTGTTGTTGGCGAGCAATATCGTGTACACTTAAAAAATAAGACTTGTGACTGTGG
21295843 GATGTTTGATGCACTTCATTATCCATGCGCTCATGTTATTGCAGCTTGTCAGAATCTCCATCTAG
454 GATGTTTGATGCACTTCATTATCCATGCGCTCATGTTATTGCAGCTTGTCAGAATCTCCATCTAG
21295908 ATCTGATGAGTTATGTGGACGAAGTGTACAAATTAGAAAACATGTACAGCGTTTGAAGACACGTT
519 ATCTGATGAGTTATGTGGACGAAGTGTACAAATTAGAAAACATGTACAGCGTTTGAAGACACGTT
21295973 TTCCCACCAGTCTCAGATGAACGTAAGTGGCCGCCCGTATCTCTTGCTCATTTTAAGTTGTTACC
584 TTCCCACCAGTCTCAGATGAACGTAAGTGGCCGCCCGTATCTCTTGCTCATTTTAAGTTGTTACC
21296038 AGATAGAGAATTACGTCGTAAACCAAAGGGTCGACCTTGCTCGACTAGAATACGTAA
649 AGATAGAGAATTACGTCGTAAACCAAAGGGTCGACCTTGCTCGACTAGAATACGTAA
21296095 CAATATGGAT
Statistics
Matches: 697, Mismatches: 6, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
703 3 0.00
704 1 0.00
705 693 0.99
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (705 bp):
TTTTCACGAGATGTTGACAATTATACGATCCCAAAACGGAGAAGGGGCGGACTACCTCTGTAACA
TACGTTTCAAACAGTGGGCACAAGCATACGACGGCGGCCTACGATATGGCCATATGACGTTGAAC
CTGGCTGAATGCATAAATTTTGTTCTTAAAAGAACGCGCCATCTACCAATAACATCGGTTGTGCG
AGAGATATATTTATGTTTGGCGGCGCTATTTCCAAAGCGAGCAGCAAGTTATGTAGGCCAGATGC
AGGGAGGCCATGTATGGTGCAGTAAGGTAGTTCAAGAAATTAACAAGGCCAAGGCGAGGACAAAC
ACTATGTACACAGTGTGTCACGATCGAGACAATTTATGGTTTCGCGTGATAGAGTTTGACAGACC
ACACCAAGGTGTTGTTGGCGAGCAATATCGTGTACACTTAAAAAATAAGACTTGTGACTGTGGGA
TGTTTGATGCACTTCATTATCCATGCGCTCATGTTATTGCAGCTTGTCAGAATCTCCATCTAGAT
CTGATGAGTTATGTGGACGAAGTGTACAAATTAGAAAACATGTACAGCGTTTGAAGACACGTTTT
CCCACCAGTCTCAGATGAACGTAAGTGGCCGCCCGTATCTCTTGCTCATTTTAAGTTGTTACCAG
ATAGAGAATTACGTCGTAAACCAAAGGGTCGACCTTGCTCGACTAGAATACGTAA
Found at i:21296428 original size:8 final size:7
Alignment explanation
Indices: 21296415--21296590 Score: 51
Period size: 7 Copynumber: 24.3 Consensus size: 7
21296405 GGTTTTAAAG
21296415 TTAAGGCT
1 TTAAGG-T
21296423 TTAAGGT
1 TTAAGGT
21296430 TT-AGTGTTT
1 TTAAG-G--T
21296439 TTAA-GT
1 TTAAGGT
*
21296445 TTATGGT
1 TTAAGGT
*
21296452 TTATGGTT
1 TTAAGG-T
*
21296460 TTTAGG-
1 TTAAGGT
*
21296466 TTAGGGT
1 TTAAGGT
*
21296473 TTATGGTT
1 TTAAGG-T
21296481 TTAA-GT
1 TTAAGGT
*
21296487 TTAGGGT
1 TTAAGGT
21296494 TTAAGGTT
1 TTAAGG-T
*
21296502 TTTAGGT
1 TTAAGGT
*
21296509 TTAGGGT
1 TTAAGGT
**
21296516 TTGAGATTT
1 TT-A-AGGT
21296525 TTAA-G-
1 TTAAGGT
*
21296530 TTAAGGG
1 TTAAGGT
*
21296537 TTAGGGTT
1 TTAAGG-T
*
21296545 TTTAGGT
1 TTAAGGT
*
21296552 TTAGGGT
1 TTAAGGT
21296559 TTAAGGTTTT
1 TTAAGG---T
21296569 TTAA-GT
1 TTAAGGT
*
21296575 TTAAAGT
1 TTAAGGT
21296582 TTAAGGT
1 TTAAGGT
21296589 TT
1 TT
21296591 TTAGGTTTGG
Statistics
Matches: 125, Mismatches: 24, Indels: 39
0.66 0.13 0.21
Matches are distributed among these distances:
5 4 0.03
6 20 0.16
7 60 0.48
8 28 0.22
9 7 0.06
10 6 0.05
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.51
Consensus pattern (7 bp):
TTAAGGT
Found at i:21296447 original size:22 final size:21
Alignment explanation
Indices: 21296422--21297063 Score: 227
Period size: 22 Copynumber: 29.6 Consensus size: 21
21296412 AAGTTAAGGC
21296422 TTTAAGGTTTAGTGTTTTTAAG
1 TTTAAGGTTTAG-GTTTTTAAG
*
21296444 TTTATGGTTTATGGTTTTT-AG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
21296465 GTTAGGGTTTATGG-TTTTAAG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
21296486 TTTAGGGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
* *
21296508 TTTAGGGTTTGAGATTTTTAAG
1 TTTAAGGTTT-AGGTTTTTAAG
* *
21296530 -TTAAGGGTTAGGGTTTTTAGG
1 TTTAAGGTTTA-GGTTTTTAAG
*
21296551 TTTAGGGTTTAAGGTTTTTTAAG
1 TTTAAGGTTT-AGG-TTTTTAAG
* *
21296574 TTTAAAGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
** * *
21296596 TTTGGGGTTTTTAAG--TTTAGGG
1 TTTAAGG--TTTAGGTTTTTA-AG
*
21296618 TTTATGGTTTAGTGTTTTTAAG
1 TTTAAGGTTTAG-GTTTTTAAG
* *
21296640 TTAAAGG-TTAGCATTTTTAA-
1 TTTAAGGTTTAG-GTTTTTAAG
* *
21296660 TTTAAGGGTTAGGGTTTTAAG
1 TTTAAGGTTTAGGTTTTTAAG
* ** *
21296681 -TTAAGGGTTAGG--ACTAGG
1 TTTAAGGTTTAGGTTTTTAAG
* * *
21296699 GTT-AGGATTTTAAAG--TTAAAG
1 TTTAAGG--TTT-AGGTTTTTAAG
*
21296720 TTTTAGA-GTTTAGGGTTTTAAG
1 -TTTA-AGGTTTAGGTTTTTAAG
21296742 TTTAAGGTTTATGGTTTTTAAG
1 TTTAAGGTTTA-GGTTTTTAAG
* *
21296764 -TTAGGGTTTATGATTTAGGGTTTAAAG
1 TTTAAGGTTTA-G-GTT----TTT-AAG
* * *
21296791 TTAAAGGTTTATGGTTTAT-GG
1 TTTAAGGTTTA-GGTTTTTAAG
* * *
21296812 TTTTGAA-TTTTAGGGTTTATAAT
1 -TTT-AAGGTTTA-GGTTTTTAAG
* *
21296835 TTTTAGGTTTAGGGTTTTTAGG
1 TTTAAGGTTTA-GGTTTTTAAG
* * *
21296857 TTTAGGGTTTAAAGTTTTCAAG
1 TTTAAGGTTT-AGGTTTTTAAG
*
21296879 -TTAAGAG-TTAGGGTTTTTAGG
1 TTTAAG-GTTTA-GGTTTTTAAG
*
21296900 TTTAGGGTTTTTAGG-TTTTAAG
1 TTTAAGG--TTTAGGTTTTTAAG
* *
21296922 TTTAGGGTTTAAGGTTTTTAGG
1 TTTAAGGTTT-AGGTTTTTAAG
*
21296944 TTTAATGTTTAGGGGTTTTTAAG
1 TTTAAGGTTTA--GGTTTTTAAG
*
21296967 TTTAGGGTTTAGGGTTTTT-AG
1 TTTAAGGTTTA-GGTTTTTAAG
*
21296988 TTTTAAGGTTTGGGGTTTTTAAG
1 -TTTAAGGTTT-AGGTTTTTAAG
* *
21297011 -TTAAGGATTAGCATTTTTAA-
1 TTTAAGGTTTAG-GTTTTTAAG
*
21297031 TTTAAAGGTTAAGG-TTTTAAG
1 TTT-AAGGTTTAGGTTTTTAAG
*
21297052 -TTAAGGATTAGG
1 TTTAAGGTTTAGG
21297064 GTTAGGGTTG
Statistics
Matches: 474, Mismatches: 90, Indels: 115
0.70 0.13 0.17
Matches are distributed among these distances:
18 6 0.01
19 10 0.02
20 51 0.11
21 128 0.27
22 199 0.42
23 55 0.12
24 7 0.01
26 3 0.01
27 5 0.01
28 10 0.02
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTAGGTTTTTAAG
Found at i:21296473 original size:21 final size:21
Alignment explanation
Indices: 21296427--21296597 Score: 148
Period size: 21 Copynumber: 7.9 Consensus size: 21
21296417 AAGGCTTTAA
* *
21296427 GGTTT-AGTGTTTTTAAGTTTAT
1 GGTTTAAG-GTTTTT-AGGTTAG
*
21296449 GGTTTATGGTTTTTAGGTTAG
1 GGTTTAAGGTTTTTAGGTTAG
* * *
21296470 GGTTTATGGTTTTAAGTTTAG
1 GGTTTAAGGTTTTTAGGTTAG
21296491 GGTTTAAGGTTTTTAGGTTTAG
1 GGTTTAAGGTTTTTAGG-TTAG
* * *
21296513 GGTTTGAGATTTTTAAGTTAAG
1 GGTTTAAGGTTTTTAGGTT-AG
*
21296535 GG-TTAGGGTTTTTAGGTTTAG
1 GGTTTAAGGTTTTTAGG-TTAG
* *
21296556 GGTTTAAGGTTTTTTAAGTTTAA
1 GGTTTAAGG-TTTTT-AGGTTAG
*
21296579 AGTTTAAGGTTTTTAGGTT
1 GGTTTAAGGTTTTTAGGTT
21296598 TGGGGTTTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 15
0.78 0.13 0.10
Matches are distributed among these distances:
21 58 0.48
22 45 0.37
23 17 0.14
24 2 0.02
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (21 bp):
GGTTTAAGGTTTTTAGGTTAG
Found at i:21296557 original size:15 final size:15
Alignment explanation
Indices: 21296537--21296637 Score: 66
Period size: 15 Copynumber: 6.8 Consensus size: 15
21296527 AAGTTAAGGG
21296537 TTAGGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
*
21296552 TTAGGG-TTTAAGGTTTT
1 TTAGGGTTTTTAGG---T
* * *
21296569 TTA-AG-TTTAAAGT
1 TTAGGGTTTTTAGGT
*
21296582 TTAAGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
* *
21296597 TTGGGGTTTTTAAGT
1 TTAGGGTTTTTAGGT
*
21296612 TTAGGGTTTAT-GGT
1 TTAGGGTTTTTAGGT
*
21296626 TTAGTGTTTTTA
1 TTAGGGTTTTTA
21296638 AGTTAAAGGT
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
13 4 0.06
14 18 0.27
15 33 0.50
16 7 0.11
17 4 0.06
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (15 bp):
TTAGGGTTTTTAGGT
Found at i:21296590 original size:37 final size:36
Alignment explanation
Indices: 21296548--21296634 Score: 86
Period size: 37 Copynumber: 2.4 Consensus size: 36
21296538 TAGGGTTTTT
*
21296548 AGGTTTAGGGTTTAAGGTTTTTTAAGTTTAAAGTTTA
1 AGGTTTAGGGTTT-AGGGTTTTTAAGTTTAAAGTTTA
* **
21296585 AGGTTTTTA-GGTTTGGGGTTTTTAAGTTTAGGGTTTA
1 AGG--TTTAGGGTTTAGGGTTTTTAAGTTTAAAGTTTA
* *
21296622 TGGTTTAGTGTTT
1 AGGTTTAGGGTTT
21296635 TTAAGTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
35 4 0.10
36 4 0.10
37 24 0.59
38 5 0.12
39 4 0.10
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (36 bp):
AGGTTTAGGGTTTAGGGTTTTTAAGTTTAAAGTTTA
Found at i:21296627 original size:29 final size:30
Alignment explanation
Indices: 21296492--21296648 Score: 96
Period size: 29 Copynumber: 5.3 Consensus size: 30
21296482 TAAGTTTAGG
* *
21296492 GTTTAAGGTTTTTAGGTTTAGGG-TTTGAGA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTA-A
* * *
21296522 TTTTTAA-G-TTA-AGGGTTAGGGTTTTTAG
1 -GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
* * *
21296550 GTTTAGGGTTTA-AGGTTTTTTA-AG-TTTAAA
1 GTTTAAGGTTTATAGG---TTTAGGGTTTTTAA
* *
21296580 GTTTAAGGTTTTTAGGTTTGGGGTTTTTAA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
* *
21296610 GTTTAGGGTTTAT-GGTTTAGTGTTTTTAA
1 GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
*
21296639 GTTAAAGGTT
1 GTTTAAGGTT
21296649 AGCATTTTTA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
27 4 0.04
28 13 0.14
29 35 0.37
30 31 0.33
31 9 0.09
32 3 0.03
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (30 bp):
GTTTAAGGTTTATAGGTTTAGGGTTTTTAA
Found at i:21296650 original size:21 final size:20
Alignment explanation
Indices: 21296626--21296692 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
21296616 GGTTTATGGT
*
21296626 TTAGTGTTTTTAAGTTAAAGG
1 TTAG-GTTTTTAAGTTAAGGG
* *
21296647 TTAGCATTTTTAATTTAAGGG
1 TTAG-GTTTTTAAGTTAAGGG
*
21296668 TTAGGGTTTTAAGTTAAGGG
1 TTAGGTTTTTAAGTTAAGGG
21296688 TTAGG
1 TTAGG
21296693 ACTAGGGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (20 bp):
TTAGGTTTTTAAGTTAAGGG
Found at i:21296692 original size:20 final size:20
Alignment explanation
Indices: 21296633--21296692 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
21296623 GGTTTAGTGT
* **
21296633 TTTTAAGTTAAAGGTTAGCAT
1 TTTTAAGTTAAGGGTTAG-GG
*
21296654 TTTTAATTTAAGGGTTAGGG
1 TTTTAAGTTAAGGGTTAGGG
21296674 TTTTAAGTTAAGGGTTAGG
1 TTTTAAGTTAAGGGTTAGG
21296693 ACTAGGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (20 bp):
TTTTAAGTTAAGGGTTAGGG
Found at i:21296743 original size:14 final size:15
Alignment explanation
Indices: 21296714--21296751 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
21296704 GATTTTAAAG
*
21296714 TTAAAGTTTTAGAGT
1 TTAAGGTTTTAGAGT
*
21296729 TTAGGGTTTTA-AGT
1 TTAAGGTTTTAGAGT
21296743 TTAAGGTTT
1 TTAAGGTTT
21296752 ATGGTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (15 bp):
TTAAGGTTTTAGAGT
Found at i:21296837 original size:15 final size:15
Alignment explanation
Indices: 21296748--21296833 Score: 56
Period size: 14 Copynumber: 6.0 Consensus size: 15
21296738 TAAGTTTAAG
* *
21296748 GTTTATGGTTTTTAA
1 GTTTAGGGTTTATAA
*
21296763 G-TTAGGGTTTATGA
1 GTTTAGGGTTTATAA
21296777 -TTTAGGGTTTA-AA
1 GTTTAGGGTTTATAA
* * *
21296790 GTTAAAGGTTTAT-G
1 GTTTAGGGTTTATAA
*
21296804 GTTTATGGTTT-TGAA
1 GTTTAGGGTTTAT-AA
*
21296819 TTTTAGGGTTTATAA
1 GTTTAGGGTTTATAA
21296834 TTTTTAGGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 12
0.69 0.16 0.16
Matches are distributed among these distances:
13 2 0.04
14 38 0.72
15 12 0.23
16 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (15 bp):
GTTTAGGGTTTATAA
Found at i:21296843 original size:15 final size:15
Alignment explanation
Indices: 21296805--21296861 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
21296795 AGGTTTATGG
*
21296805 TTTATGGTTTTGAA-T
1 TTTA-GGTTTAGAATT
*
21296820 TTTAGGGTTTATAATT
1 TTTA-GGTTTAGAATT
**
21296836 TTTAGGTTTAGGGTT
1 TTTAGGTTTAGAATT
21296851 TTTAGGTTTAG
1 TTTAGGTTTAG
21296862 GGTTTAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 30 0.86
16 5 0.14
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (15 bp):
TTTAGGTTTAGAATT
Found at i:21296862 original size:15 final size:15
Alignment explanation
Indices: 21296834--21296947 Score: 80
Period size: 15 Copynumber: 7.8 Consensus size: 15
21296824 GGGTTTATAA
21296834 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
21296849 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
** * *
21296864 TTTAAAGTTTTCA-AG
1 TTTTTAGGTTT-AGGG
*
21296879 --TTAAGAG-TTAGGG
1 TTTTTAG-GTTTAGGG
21296892 TTTTTAGGTTTAGGG
1 TTTTTAGGTTTAGGG
*
21296907 TTTTTAGGTTTTA-AG
1 TTTTTAGG-TTTAGGG
*
21296922 --TTTAGGGTTTAAGG
1 TTTTTA-GGTTTAGGG
21296936 TTTTTAGGTTTA
1 TTTTTAGGTTTA
21296948 ATGTTTAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
12 1 0.01
13 15 0.19
14 4 0.05
15 49 0.63
16 9 0.12
ACGTcount: A:0.20, C:0.01, G:0.28, T:0.51
Consensus pattern (15 bp):
TTTTTAGGTTTAGGG
Found at i:21296930 original size:29 final size:29
Alignment explanation
Indices: 21296894--21296957 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
21296884 AGTTAGGGTT
*
21296894 TTTA-GGTTTAGGGTTTTTAGGTTTTAA-G
1 TTTAGGGTTTAAGGTTTTTAGG-TTTAATG
21296922 TTTAGGGTTTAAGGTTTTTAGGTTTAATG
1 TTTAGGGTTTAAGGTTTTTAGGTTTAATG
21296951 TTTAGGG
1 TTTAGGG
21296958 GTTTTTAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (29 bp):
TTTAGGGTTTAAGGTTTTTAGGTTTAATG
Found at i:21296960 original size:15 final size:13
Alignment explanation
Indices: 21296909--21296977 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 13
21296899 GTTTAGGGTT
*
21296909 TTTAGGTTTTAAG
1 TTTAGGGTTTAAG
21296922 TTTAGGGTTTAAGG
1 TTTAGGGTTTAA-G
21296936 TTTTTA-GGTTTAATG
1 --TTTAGGGTTTAA-G
21296951 TTTAGGGGTTTTTAAG
1 TTTA-GGG--TTTAAG
21296967 TTTAGGGTTTA
1 TTTAGGGTTTA
21296978 GGGTTTTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
13 19 0.40
14 1 0.02
15 13 0.28
16 9 0.19
17 5 0.11
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:21297094 original size:14 final size:13
Alignment explanation
Indices: 21297038--21297113 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
21297028 TAATTTAAAG
21297038 GTTAAGGTTTTAA
1 GTTAAGGTTTTAA
* *
21297051 GTTAAGG-ATTAGG
1 GTTAAGGTTTTA-A
* *
21297064 GTTAGGGTTGTAAA
1 GTTAAGGTT-TTAA
21297078 GTTAAGGTTTTAGA
1 GTTAAGGTTTTA-A
*
21297092 GTTTAGGATTTTTAA
1 GTTAAGG--TTTTAA
21297107 GTTAAGG
1 GTTAAGG
21297114 GTCTAAGGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
12 3 0.06
13 15 0.32
14 15 0.32
15 9 0.19
16 5 0.11
ACGTcount: A:0.29, C:0.00, G:0.30, T:0.41
Consensus pattern (13 bp):
GTTAAGGTTTTAA
Found at i:21297124 original size:29 final size:27
Alignment explanation
Indices: 21297045--21297127 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 27
21297035 AAGGTTAAGG
* * *
21297045 TTTTAAGTTAAGGATTAGGGTTAGGGT
1 TTTTAAGTTAAGGGTTAGGTTTAGGAT
* * *
21297072 TGTAAAGTTAAGGTTTTAGAGTTTAGGAT
1 TTTTAAGTTAAGG-GTTAG-GTTTAGGAT
21297101 TTTTAAGTTAAGGGTCTAAGGTTTAGG
1 TTTTAAGTTAAGGGT-T-AGGTTTAGG
21297128 GTTTAAAGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
27 11 0.25
28 5 0.11
29 26 0.59
30 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.30, T:0.41
Consensus pattern (27 bp):
TTTTAAGTTAAGGGTTAGGTTTAGGAT
Found at i:21297138 original size:14 final size:14
Alignment explanation
Indices: 21297065--21297153 Score: 61
Period size: 15 Copynumber: 6.1 Consensus size: 14
21297055 AGGATTAGGG
21297065 TTAGGGTTGTAAAGT
1 TTAGGGTT-TAAAGT
* * *
21297080 TAAGGTTTTAGAGT
1 TTAGGGTTTAAAGT
* *
21297094 TTAGGATTTTTAAGT
1 TTAGG-GTTTAAAGT
* * *
21297109 TAAGGGTCTAAGGT
1 TTAGGGTTTAAAGT
21297123 TTAGGGTTTAAAGTT
1 TTAGGGTTTAAAG-T
* *
21297138 TTAGGATTTAAGGT
1 TTAGGGTTTAAAGT
21297152 TT
1 TT
21297154 TTAGGTTTAG
Statistics
Matches: 56, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
14 27 0.48
15 29 0.52
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (14 bp):
TTAGGGTTTAAAGT
Found at i:21297168 original size:15 final size:16
Alignment explanation
Indices: 21297122--21297162 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
21297112 GGGTCTAAGG
* *
21297122 TTTAGGGTTTAAAG-T
1 TTTAGGATTTAAGGTT
21297137 TTTAGGATTTAAGGTT
1 TTTAGGATTTAAGGTT
21297153 TTTAGG-TTTA
1 TTTAGGATTTA
21297163 GTGTTTGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (16 bp):
TTTAGGATTTAAGGTT
Found at i:21297256 original size:43 final size:42
Alignment explanation
Indices: 21296422--21296605 Score: 192
Period size: 43 Copynumber: 4.2 Consensus size: 42
21296412 AAGTTAAGGC
* * * *
21296422 TTTAAGGTTTAGTGTTTTTAAGTTTATGGTTTATGGTTTTTAGG
1 TTTAGGGTTTAG-GTTTTTAAG-TTAAGGGTTAAGGTTTTTAGG
*
21296466 -TTAGGGTTTATGG-TTTTAAGTTTAGGGTTTAAGGTTTTTAGG
1 TTTAGGGTTTA-GGTTTTTAAGTTAAGGG-TTAAGGTTTTTAGG
* *
21296508 TTTAGGGTTTGAGATTTTTAAGTTAAGGGTTAGGGTTTTTAGG
1 TTTAGGGTTT-AGGTTTTTAAGTTAAGGGTTAAGGTTTTTAGG
* *
21296551 TTTAGGGTTTAAGGTTTTTTAAGTTTAAAGTTTAAGGTTTTTAGG
1 TTTAGGGTTT-AGG-TTTTTAAG-TTAAGGGTTAAGGTTTTTAGG
*
21296596 TTTGGGGTTT
1 TTTAGGGTTT
21296606 TTAAGTTTAG
Statistics
Matches: 119, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
41 4 0.03
42 20 0.17
43 45 0.38
44 23 0.19
45 27 0.23
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (42 bp):
TTTAGGGTTTAGGTTTTTAAGTTAAGGGTTAAGGTTTTTAGG
Found at i:21297284 original size:43 final size:43
Alignment explanation
Indices: 21297120--21297629 Score: 224
Period size: 43 Copynumber: 11.5 Consensus size: 43
21297110 AAGGGTCTAA
* *
21297120 GGTTTAGGGTTTAAAGTTTTAGGATTTAAGGTTTTTAGGTTTAG
1 GGTTTAGGGTTTTAAG-TTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * ** * *
21297164 TGTTT-GTGGTTTTTAAGATTAAGGTTTGGGGTTTTTATGTTTAA
1 GGTTTAG-GG-TTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * *
21297208 GGTTTAGAGTTTTTAAGTTAAGGG-TTAAGGTTTTTAGGTTTGG
1 GGTTTAG-GGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * *
21297251 GGTTTATGGTTTTAAGTTTAGGGTTTAATGTTTTTAGATTTAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * * **
21297294 AGATTGGGGTTTAAAGTTTAGGGTTTGGGGTTTTTAGGTTTAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* *
21297337 GGTTTTTAAGTTAAGG-GTTAAGATTAGGG-TT-AGTGTTTTAAAGTTAAGGTTTTAG
1 GG--TTT-AG----GGTTTTAAGTTTAGGGTTTAAG-G-TTT----TT-AGG-TTTAG
* *
21297392 GGTTTATGGTTTTTAAGTTTAGGGCTTATA-GTTTTTAGGTTTAG
1 GGTTTA-GGGTTTTAAGTTTAGGGTTTA-AGGTTTTTAGGTTTAG
* *
21297436 AGTTTTTA-GG-TTT-AGTGTTTGTGGTTTTTAA-G--TTTAGGGTTTAG
1 -G-GTTTAGGGTTTTAAGT-TTAG-GG--TTTAAGGTTTTTA-GGTTTAG
* * ** * *
21297480 GGTTTAGGG-TTTAGGTTTATGGTTTGGGGTTTTTAAGTTAAG
1 GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
** * * *
21297522 GG-TTATGATTTTTAGGTTTAGGGTTT-AGGGTTTTATGTTTAG
1 GGTTTA-GGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* * * * *
21297564 AGTCTAAGGTTTTTAAGTTTAGGGTTTGAGGTTTTTAAGTTTAG
1 GGT-TTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
* *
21297608 GG-TTAGTGTTTTTAGGTTTAGG
1 GGTTTAG-GGTTTTAAGTTTAGG
21297630 ATGAGGGTTT
Statistics
Matches: 351, Mismatches: 73, Indels: 85
0.69 0.14 0.17
Matches are distributed among these distances:
40 3 0.01
41 4 0.01
42 47 0.13
43 141 0.40
44 75 0.21
45 16 0.05
46 10 0.03
47 1 0.00
48 3 0.01
49 14 0.04
50 16 0.05
51 3 0.01
52 1 0.00
53 7 0.02
54 3 0.01
55 7 0.02
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (43 bp):
GGTTTAGGGTTTTAAGTTTAGGGTTTAAGGTTTTTAGGTTTAG
Found at i:21297338 original size:22 final size:22
Alignment explanation
Indices: 21296820--21297643 Score: 313
Period size: 22 Copynumber: 36.6 Consensus size: 22
21296810 GGTTTTGAAT
* *
21296820 TTTAGGGTTTATAATTTTTA-GG
1 TTTAGGGTTTTTAA-GTTTAGGG
*
21296842 TTTAGGGTTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
** * * *
21296864 TTTAAAGTTTTCAAGTTAAGAG
1 TTTAGGGTTTTTAAGTTTAGGG
*
21296886 -TTAGGGTTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
21296907 TTTTTA-GG-TTTTAAGTTTAGGG
1 --TTTAGGGTTTTTAAGTTTAGGG
* * **
21296929 TTTAAGGTTTTTAGGTTTAATG
1 TTTAGGGTTTTTAAGTTTAGGG
21296951 TTTAGGGGTTTTTAAGTTTAGGG
1 TTTA-GGGTTTTTAAGTTTAGGG
*
21296974 TTTAGGGTTTTT-AGTTTTAAGG
1 TTTAGGGTTTTTAAG-TTTAGGG
* *
21296996 TTTGGGGTTTTTAAG-TTAAGG
1 TTTAGGGTTTTTAAGTTTAGGG
* ** *
21297017 ATTAGCATTTTTAA-TTTAAAGG
1 TTTAGGGTTTTTAAGTTT-AGGG
* * *
21297039 TTAAGGTTTTAAGTTAAGGATTAGGG
1 TTTAGGGTTT---TTAA-GTTTAGGG
*
21297065 -TTAGGGTTGTAAAGTTAAGGTTTTAGAG
1 TTTAGGGTT-T----TTAA-G-TTTAGGG
* *
21297093 TTTAGGATTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * **
21297115 TCTAAGGTTTAGGGTTTAAAGTTTTAGG
1 T-TTAGGGTT----TTT-AAGTTTAGGG
* * *
21297143 ATTTAAGGTTTTTAGGTTTAGTG
1 -TTTAGGGTTTTTAAGTTTAGGG
* *
21297166 TTT-GTGGTTTTTAAGATTAAGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* * *
21297188 TTTGGGGTTTTTATGTTTAAGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
21297210 TTTAGAGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * *
21297232 -TTAAGGTTTTTAGGTTTGGGG
1 TTTAGGGTTTTTAAGTTTAGGG
*
21297253 TTTATGG-TTTTAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
** *
21297274 TTTAATGTTTTT-AGATTTAGAG
1 TTTAGGGTTTTTAAG-TTTAGGG
* * *
21297296 ATT-GGGGTTTAAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
*
21297317 TTT-GGG--GTT---TTTA-GG
1 TTTAGGGTTTTTAAGTTTAGGG
*
21297332 TTTAGGGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
21297354 TTAAGATTAGGGTTAGTGTTTTAAAGTTAAGGT
1 -T----TTAGGG----T-TTTT-AAGTTTAGGG
* * *
21297387 TTTAGGGTTTAT-GGTTTTTA-AG
1 TTTAGGGTTTTTAAG--TTTAGGG
* *
21297409 TTTAGGGCTTAT-AGTTTTTA-GG
1 TTTAGGGTTTTTAAG--TTTAGGG
* * *
21297431 TTTAGAGTTTTTAGGTTTAGTG
1 TTTAGGGTTTTTAAGTTTAGGG
21297453 TTT-GTGGTTTTTAAGTTTAGGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* *
21297475 TTTAGGGTTTAGGGTTTAGGTTTATGG
1 TTTAGGG-TT----TTTAAGTTTAGGG
* *
21297502 TTTGGGGTTTTTAAGTTAAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* * *
21297524 -TTATGATTTTTAGGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
21297545 TTTAGGG-TTTTATGTTTAGAG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
21297566 TCTAAGGTTTTTAAGTTTAGGG
1 TTTAGGGTTTTTAAGTTTAGGG
21297588 TTT-GAGGTTTTTAAGTTTAGGG
1 TTTAG-GGTTTTTAAGTTTAGGG
* *
21297610 -TTAGTGTTTTTAGGTTTA-GG
1 TTTAGGGTTTTTAAGTTTAGGG
* *
21297630 ATGAGGGTTTTTAA
1 TTTAGGGTTTTTAA
21297644 ATTAAGTGTT
Statistics
Matches: 604, Mismatches: 131, Indels: 135
0.69 0.15 0.16
Matches are distributed among these distances:
15 5 0.01
16 7 0.01
18 2 0.00
19 1 0.00
20 6 0.01
21 157 0.26
22 268 0.44
23 47 0.08
24 11 0.02
25 10 0.02
26 6 0.01
27 37 0.06
28 24 0.04
29 8 0.01
31 1 0.00
32 5 0.01
33 9 0.01
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (22 bp):
TTTAGGGTTTTTAAGTTTAGGG
Found at i:21297339 original size:15 final size:15
Alignment explanation
Indices: 21297310--21297355 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
21297300 GGGTTTAAAG
*
21297310 TTTAGGGTTTGGGGTT
1 TTTA-GGTTTAGGGTT
21297326 TTTAGGTTTAGGGTT
1 TTTAGGTTTAGGGTT
* *
21297341 TTTAAGTTAAGGGTT
1 TTTAGGTTTAGGGTT
21297356 AAGATTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (15 bp):
TTTAGGTTTAGGGTT
Found at i:21297441 original size:15 final size:15
Alignment explanation
Indices: 21297421--21297455 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
21297411 TAGGGCTTAT
21297421 AGTTTTTAGGTTTAG
1 AGTTTTTAGGTTTAG
21297436 AGTTTTTAGGTTTAG
1 AGTTTTTAGGTTTAG
*
21297451 TGTTT
1 AGTTT
21297456 GTGGTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (15 bp):
AGTTTTTAGGTTTAG
Found at i:21297496 original size:13 final size:13
Alignment explanation
Indices: 21297462--21297504 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
21297452 GTTTGTGGTT
*
21297462 TTTAAGTTTAGGG
1 TTTAGGTTTAGGG
21297475 TTTAGGGTTTAGGG
1 TTTA-GGTTTAGGG
*
21297489 TTTAGGTTTATGG
1 TTTAGGTTTAGGG
21297502 TTT
1 TTT
21297505 GGGGTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (13 bp):
TTTAGGTTTAGGG
Found at i:21297510 original size:7 final size:7
Alignment explanation
Indices: 21297467--21297511 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
21297457 TGGTTTTTAA
21297467 GTTTAGG
1 GTTTAGG
21297474 GTTTAGG
1 GTTTAGG
21297481 GTTTAGG
1 GTTTAGG
21297488 GTTTA-G
1 GTTTAGG
*
21297494 GTTTATG
1 GTTTAGG
*
21297501 GTTTGGG
1 GTTTAGG
21297508 GTTT
1 GTTT
21297512 TTAAGTTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.11, C:0.00, G:0.40, T:0.49
Consensus pattern (7 bp):
GTTTAGG
Found at i:21297535 original size:21 final size:21
Alignment explanation
Indices: 21297509--21297629 Score: 95
Period size: 21 Copynumber: 5.7 Consensus size: 21
21297499 TGGTTTGGGG
*
21297509 TTTTTAAGTTAAGGGTTATGA
1 TTTTTAAGTTTAGGGTTATGA
* *
21297530 TTTTTAGGTTTAGGGTT-TAGG
1 TTTTTAAGTTTAGGGTTAT-GA
* * * * *
21297551 GTTTTATGTTTAGAGTCTAAGG
1 TTTTTAAGTTTAGGGT-TATGA
21297573 TTTTTAAGTTTAGGGTT-TGA
1 TTTTTAAGTTTAGGGTTATGA
21297593 GGTTTTTAAGTTTAGGGTTAGTG-
1 --TTTTTAAGTTTAGGGTTA-TGA
*
21297616 TTTTTAGGTTTAGG
1 TTTTTAAGTTTAGG
21297630 ATGAGGGTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
20 2 0.03
21 43 0.54
22 33 0.41
24 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (21 bp):
TTTTTAAGTTTAGGGTTATGA
Found at i:21297639 original size:21 final size:21
Alignment explanation
Indices: 21297571--21297643 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
21297561 TAGAGTCTAA
*
21297571 GGTTTTTAAGTTTAGGGTTTGA-
1 GGTTTTTAAGTTTA-GG-ATGAG
* *
21297593 GGTTTTTAAGTTTAGGGTTAG
1 GGTTTTTAAGTTTAGGATGAG
* *
21297614 TGTTTTTAGGTTTAGGATGAG
1 GGTTTTTAAGTTTAGGATGAG
21297635 GGTTTTTAA
1 GGTTTTTAA
21297644 ATTAAGTGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.05
21 26 0.62
22 14 0.33
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
GGTTTTTAAGTTTAGGATGAG
Found at i:21297710 original size:22 final size:22
Alignment explanation
Indices: 21297685--21297752 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
21297675 AAGTTAAGGT
21297685 TTTAGGGTTTATGGTTTTTAAG
1 TTTAGGGTTTATGGTTTTTAAG
* *
21297707 TTTAGGGTTTATAGTTTTTATG
1 TTTAGGGTTTATGGTTTTTAAG
*
21297729 TTTAGGGTTT-GGAGTTTTTAAG
1 TTTAGGGTTTATG-GTTTTTAAG
21297751 TT
1 TT
21297753 AACAGTTAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (22 bp):
TTTAGGGTTTATGGTTTTTAAG
Found at i:21297723 original size:29 final size:29
Alignment explanation
Indices: 21297668--21297723 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
21297658 TTAGGGTTAA
* *
21297668 GGTTTTAAAGTTAAGGTTTTAGGGTTTAT
1 GGTTTTAAAGTTAAGGGTTTAGAGTTTAT
* * *
21297697 GGTTTTTAAGTTTAGGGTTTATAGTTT
1 GGTTTTAAAGTTAAGGGTTTAGAGTTT
21297724 TTATGTTTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (29 bp):
GGTTTTAAAGTTAAGGGTTTAGAGTTTAT
Found at i:21298268 original size:18 final size:18
Alignment explanation
Indices: 21298245--21298284 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
21298235 TACTCGGAAA
* *
21298245 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
21298263 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
21298281 AGGA
1 AGGA
21298285 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:21300201 original size:11 final size:12
Alignment explanation
Indices: 21300185--21300239 Score: 73
Period size: 11 Copynumber: 4.8 Consensus size: 12
21300175 ATTAAATATG
21300185 AATTTGAGA-GA
1 AATTTGAGAGGA
21300196 AATTTG-GAAGGA
1 AATTTGAG-AGGA
21300208 AA-TTGAGAGGA
1 AATTTGAGAGGA
21300219 AA-TTGAGAGGA
1 AATTTGAGAGGA
21300230 AATTTGAGAG
1 AATTTGAGAG
21300240 AGTATTTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.03
11 27 0.68
12 12 0.30
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.24
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:21306973 original size:24 final size:24
Alignment explanation
Indices: 21306939--21306990 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
21306929 ATAAATTTAA
* *
21306939 AAATT-TTAAAAATA-AATAAACT
1 AAATTCTTAAAAATACAAAAAAAT
21306961 AAATTCTTAAAAATACAAAAAAAT
1 AAATTCTTAAAAATACAAAAAAAT
21306985 AAATTC
1 AAATTC
21306991 CTAATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 9 0.35
24 12 0.46
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATTCTTAAAAATACAAAAAAAT
Found at i:21311147 original size:18 final size:17
Alignment explanation
Indices: 21311105--21311154 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
21311095 TAATATCGAT
21311105 TATTCAAATAA-AAAAG
1 TATTCAAATAACAAAAG
*
21311121 TATTTAAATAACAAAA-
1 TATTCAAATAACAAAAG
*
21311137 TAAATTCAAATTACAAAA
1 T--ATTCAAATAACAAAA
21311155 AGAAGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.39
17 4 0.14
18 13 0.46
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (17 bp):
TATTCAAATAACAAAAG
Found at i:21313176 original size:30 final size:30
Alignment explanation
Indices: 21313142--21313203 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
21313132 ATTTATTTTA
21313142 TTGTTAATTTTATTAGTATTTTAAAGGCAT
1 TTGTTAATTTTATTAGTATTTTAAAGGCAT
* * *
21313172 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTAGTATTTTAAAGGCAT
21313202 TT
1 TT
21313204 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTATTAGTATTTTAAAGGCAT
Found at i:21313343 original size:11 final size:11
Alignment explanation
Indices: 21313327--21313357 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21313317 TATATATATT
21313327 TAAAAATTATA
1 TAAAAATTATA
*
21313338 TAAAAATAATA
1 TAAAAATTATA
21313349 TAAAAATTA
1 TAAAAATTA
21313358 ATACGGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:21319561 original size:31 final size:30
Alignment explanation
Indices: 21319520--21319580 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
21319510 ATGGTATAAT
*
21319520 TACACTAAATCAAAATTCATGTATCAAATTA
1 TACACTAAATCAAAATTCATATAT-AAATTA
* *
21319551 TACATTAAATCAAAATTTATATATAAATTA
1 TACACTAAATCAAAATTCATATATAAATTA
21319581 AATTTTCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (30 bp):
TACACTAAATCAAAATTCATATATAAATTA
Found at i:21328296 original size:12 final size:12
Alignment explanation
Indices: 21328279--21328319 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
21328269 ACAATTGTAT
21328279 TTTTTTCCTTAA
1 TTTTTTCCTTAA
**
21328291 TTTTTT-CTTTC
1 TTTTTTCCTTAA
21328302 TTTTTTCCTTAA
1 TTTTTTCCTTAA
21328314 TTTTTT
1 TTTTTT
21328320 TTTATTTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTCCTTAA
Found at i:21330463 original size:27 final size:27
Alignment explanation
Indices: 21330433--21330484 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
21330423 GTTCGTGTTT
*
21330433 TGTTCGTGTTCATTAATTTTAAATTTA
1 TGTTCGTGTTCATTAATTTAAAATTTA
*
21330460 TGTTCGTGTTCATTTATTTAAAATT
1 TGTTCGTGTTCATTAATTTAAAATT
21330485 ATATATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.56
Consensus pattern (27 bp):
TGTTCGTGTTCATTAATTTAAAATTTA
Found at i:21330559 original size:23 final size:23
Alignment explanation
Indices: 21330516--21330560 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
21330506 TTTTTTAAGC
* **
21330516 TAAACGAGCATGTTTGTGAATAT
1 TAAACAAGCATGTTTACGAATAT
21330539 TAAACAAGCATGTTTACGAATA
1 TAAACAAGCATGTTTACGAATA
21330561 ATGTTCATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (23 bp):
TAAACAAGCATGTTTACGAATAT
Found at i:21335756 original size:29 final size:30
Alignment explanation
Indices: 21335724--21335784 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
21335714 TCATTCATTT
21335724 TTTCATTTGGTTGATCTGAAAAAAT-CTCG
1 TTTCATTTGGTTGATCTGAAAAAATGCTCG
21335753 TTTCATTTGGTTGATCTGAAAAAATGCTCG
1 TTTCATTTGGTTGATCTGAAAAAATGCTCG
21335783 TT
1 TT
21335785 GATGGTCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (30 bp):
TTTCATTTGGTTGATCTGAAAAAATGCTCG
Found at i:21337123 original size:6 final size:6
Alignment explanation
Indices: 21337112--21337156 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
21337102 TAGGTTTCTA
* * **
21337112 AAATGG AAATGG AAATGA AAATGA AAATAA AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
21337157 CTTGCAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:21337331 original size:26 final size:26
Alignment explanation
Indices: 21337300--21337371 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
21337290 AAATTTCTCG
*
21337300 AAATTTTACTAGGGGTAAAATCGTCA
1 AAATTTTACTAGGAGTAAAATCGTCA
* *
21337326 AAATTTTACCAGGAGTAAAATCGTTA
1 AAATTTTACTAGGAGTAAAATCGTCA
21337352 AAATTTTACT-GGAGTAAAAT
1 AAATTTTACTAGGAGTAAAAT
21337372 TGGGATGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 10 0.24
26 32 0.76
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (26 bp):
AAATTTTACTAGGAGTAAAATCGTCA
Found at i:21338865 original size:12 final size:11
Alignment explanation
Indices: 21338848--21338911 Score: 60
Period size: 12 Copynumber: 5.6 Consensus size: 11
21338838 TTATTTAGTG
21338848 TTATTTTATTAT
1 TTATTTTATT-T
*
21338860 TTATTTT-TCT
1 TTATTTTATTT
*
21338870 TAATGTTTA-TT
1 TTAT-TTTATTT
21338881 TTATTTTATTTT
1 TTATTTTA-TTT
21338893 TTATTTTTATTT
1 TTA-TTTTATTT
21338905 TTATTTT
1 TTATTTT
21338912 GGTTTTGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 8 0.19
11 12 0.28
12 18 0.42
13 5 0.12
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:21338899 original size:6 final size:6
Alignment explanation
Indices: 21338875--21338911 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
21338865 TTTCTTAATG
21338875 TTTA-T TTTA-T TTTATTT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT TTTATT TT
21338912 GGTTTTGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.30
6 16 0.53
7 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:21339567 original size:21 final size:21
Alignment explanation
Indices: 21339541--21339586 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
21339531 ACGGGCGACT
21339541 CACACGGGCGTGTGTCCCCTC
1 CACACGGGCGTGTGTCCCCTC
**
21339562 CACACGGGCGTGTGTGGCCTC
1 CACACGGGCGTGTGTCCCCTC
21339583 CACA
1 CACA
21339587 TAGGCATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.39, G:0.30, T:0.17
Consensus pattern (21 bp):
CACACGGGCGTGTGTCCCCTC
Found at i:21342471 original size:14 final size:14
Alignment explanation
Indices: 21342452--21342487 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
21342442 TCATTTAATC
*
21342452 ACCAAAATTATTAG
1 ACCAAAATTATCAG
21342466 ACCAAAATTATCAG
1 ACCAAAATTATCAG
21342480 ACCAAAAT
1 ACCAAAAT
21342488 CTAATTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (14 bp):
ACCAAAATTATCAG
Found at i:21351623 original size:3 final size:3
Alignment explanation
Indices: 21351617--21351661 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
21351607 GATAAGTAGC
*
21351617 AAT AAT -AT AAGT AAT AAT AAT AAT AAT AGT AAT AAT AAAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
21351662 AAGATGATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21351654 original size:15 final size:16
Alignment explanation
Indices: 21351598--21351654 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
21351588 AGCTATTATA
21351598 TAATAATATGATAAGTAG
1 TAATAATA--ATAAGTAG
* *
21351616 CAATAAT-ATAAGTAA
1 TAATAATAATAAGTAG
21351631 TAATAATAATAA-TAG
1 TAATAATAATAAGTAG
21351646 TAATAATAA
1 TAATAATAA
21351655 ATAATAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 24 0.71
16 4 0.12
18 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (16 bp):
TAATAATAATAAGTAG
Found at i:21353435 original size:98 final size:98
Alignment explanation
Indices: 21353274--21353463 Score: 285
Period size: 98 Copynumber: 1.9 Consensus size: 98
21353264 ACCTGATGCG
*
21353274 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
* *
21353339 GGGAGATAGAATTA-TCGGCTTCAATCTGATGTT
66 GAGAGATAGAATTACT-AGCTTCAATCTGATGTT
* *
21353372 ATCTACTCTACTGTAACTTCAAAGAGATAAGATCCT-TTATTTTAATCCACTCCACTGTAACTTC
1 ATCTACTCTACTGTAACTTCAAAGAGATAAGAT-CTGTGATTTTAATCCACTCCACTGCAACTTC
* *
21353436 AGAGAGTTAGGATTACTAGCTTCAATCT
65 AGAGAGATAGAATTACTAGCTTCAATCT
21353464 ACTCCGTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
98 80 0.96
99 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (98 bp):
ATCTACTCTACTGTAACTTCAAAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
GAGAGATAGAATTACTAGCTTCAATCTGATGTT
Found at i:21353504 original size:44 final size:44
Alignment explanation
Indices: 21353454--21354896 Score: 527
Period size: 44 Copynumber: 32.9 Consensus size: 44
21353444 AGGATTACTA
** * *
21353454 GCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * **
21353498 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* ** * *
21353543 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA--TCT-
1 -GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * * *
21353585 GATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * ** * **
21353629 ATTTTAATCCGCTCCACTGTAACTTTTGGGAGATAGGAT-AGTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* ** * * * *
21353672 TCTTGGATCTGCTCCGCTATAATCTCAGGAAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * **
21353716 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* ** * *
21353761 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA--TCT-
1 -GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * * *
21353803 GATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * * **
21353847 ATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-AGTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* ** * * * * *
21353890 TCTTGGATCTGCTCCTCTGTAATCTTAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * **
21353934 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* ** * *
21353979 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA--TCT-
1 -GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * *
21354021 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * * * * * * * *
21354065 ATTTTAATCCACTCCACTGTAACTTCAGAGAGTTAGGAT-TACTA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
** * *
21354109 GCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * **
21354153 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* ** * *
21354198 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA--TCT-
1 -GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * *
21354240 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * * * * * * * *
21354284 ATTTTAATCCACTCCACTGTAACTTCAGAGAGTTAGGAT-TACTA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
** * *
21354328 GCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * **
21354372 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* ** * *
21354417 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA--TCT-
1 -GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * * * * * *
21354459 GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * * * * * * * *
21354503 ATTTTAATCCACTCCACTGTAACTTCAGAGAGTTAGGAT-TACTA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
** * *
21354547 GCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * *
21354591 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT---CTG
* ** * * *
21354637 CCTTCGGTCTACTCCACTGTAACTTCAGAGAGATAAGA-C-CT-
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * * *** * * ** *
21354678 GATGCGATCTACTGTGCTGTAACTTCAAAGAGATAAGATC-CTTT
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTC-TG
** * ** * * * * *
21354722 ATTTTAATCCGCTCCACTGTAATCTCAGGGAGTTAGGAT-TACTA
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
** * *
21354766 GCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGATCTCTG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
* * **
21354810 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAG
1 GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT-CTG
* ** * *
21354855 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAAATAAGATCT
1 -GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCT
21354897 GATGCGATCT
Statistics
Matches: 1036, Mismatches: 309, Indels: 106
0.71 0.21 0.07
Matches are distributed among these distances:
41 179 0.17
42 7 0.01
43 63 0.06
44 538 0.52
45 15 0.01
46 233 0.22
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTATAACCTCAGGGAGATAAGATCTCTG
Found at i:21353609 original size:219 final size:219
Alignment explanation
Indices: 21353362--21355221 Score: 2875
Period size: 219 Copynumber: 8.5 Consensus size: 219
21353352 ATCGGCTTCA
** * *
21353362 ATCTGATGTTATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCAC
1 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
*
21353427 TGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
66 TGTAACTTCAGGGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
21353492 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACT
131 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACT
21353557 CCACTGTAACCTCAGGGAAATAAG
196 CCACTGTAACCTCAGGGAAATAAG
*
21353581 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCAC
1 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
** * * ** * * * *
21353646 TGTAACTTTTGGGAGATAGGA-TAGT-GTCTTGGATCTGCTCCGCTATAATCTCAGGAAGATAAG
66 TGTAACTTCAGGGAGTTAGGATTACTAG-CTTCAATCTACTCCGTTATAATCTGAGGGAGATAAG
21353709 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTAC
130 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTAC
21353774 TCCACTGTAACCTCAGGGAAATAAG
195 TCCACTGTAACCTCAGGGAAATAAG
*
21353799 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCAC
1 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* * ** * * *
21353864 TGTAACTTCAGGGAGATAGGA-TAGT-GTCTTGGATCTGCTCC-TCTGTAATCTTAGGGAGATAA
66 TGTAACTTCAGGGAGTTAGGATTACTAG-CTTCAATCTACTCCGT-TATAATCTGAGGGAGATAA
21353926 GATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTA
129 GATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTA
21353991 CTCCACTGTAACCTCAGGGAAATAAG
194 CTCCACTGTAACCTCAGGGAAATAAG
*
21354017 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCAC
1 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
*
21354082 TGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
66 TGTAACTTCAGGGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
21354147 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACT
131 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACT
21354212 CCACTGTAACCTCAGGGAAATAAG
196 CCACTGTAACCTCAGGGAAATAAG
*
21354236 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCAC
1 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
*
21354301 TGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
66 TGTAACTTCAGGGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
21354366 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACT
131 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACT
21354431 CCACTGTAACCTCAGGGAAATAAG
196 CCACTGTAACCTCAGGGAAATAAG
*
21354455 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCAC
1 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
*
21354520 TGTAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
66 TGTAACTTCAGGGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
* *
21354585 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATCCTTCGGTCTACT
131 TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACT
* * *
21354650 CCACTGTAACTTCAGAGAGATAAG
196 CCACTGTAACCTCAGGGAAATAAG
* * * *
21354674 ACCTGATGCGATCTACTGTGCTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
21354739 TGTAA-TCTCAGGGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAG
66 TGTAACT-TCAGGGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAG
21354803 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTAC
130 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTAC
21354868 TCCACTGTAACCTCAGGGAAATAAG
195 TCCACTGTAACCTCAGGGAAATAAG
*
21354893 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCAC
1 ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* * * *
21354958 TGTAA-TCTCAGGGAGATAGGATTACTAGGTTCAATCTACTCCGTTGTAATCTCAGGGAGATAAG
66 TGTAACT-TCAGGGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAG
* * * * * * * * ** ** **
21355022 A-C-CT-GATACGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTA-TT-TT-AATCCG
130 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAGTTCTTCGGTCTA
* *
21355081 CTCCACTGTAATCTTAGGGAGATAGGATTACTAG
194 CTCCACTGTAACCTCA-GG-GA-A--A-TA--AG
* *
21355115 CTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGC
1 -----ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
*
21355180 TCCACTGTAATCTT-AGGGAGATAGGATTACTAGCTTCAATCT
61 TCCACTGTAA-CTTCAGGGAGTTAGGATTACTAGCTTCAATCT
21355222 GATGTGATCT
Statistics
Matches: 1542, Mismatches: 77, Indels: 36
0.93 0.05 0.02
Matches are distributed among these distances:
214 16 0.01
215 4 0.00
216 35 0.02
217 7 0.00
218 418 0.27
219 960 0.62
220 4 0.00
222 2 0.00
227 94 0.06
228 1 0.00
229 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (219 bp):
ATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
TGTAACTTCAGGGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATCTGAGGGAGATAAGA
TCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACT
CCACTGTAACCTCAGGGAAATAAG
Found at i:21353899 original size:87 final size:87
Alignment explanation
Indices: 21353773--21353968 Score: 197
Period size: 87 Copynumber: 2.3 Consensus size: 87
21353763 CTTCGGTCTA
* * * *
21353773 CTCCACTGTAACCTCAGGGAAATAAGAT-CTG--ATGCGATCTACT-CTACTGTAA-CTTCAGAG
1 CTCCACTGTAACCTCAGGGAGATAGGATAGTGTCTTG-GATCTACTCCT-CTGTAATCTT-AGAG
* * * *
21353833 AGATGAGATC-CTTTATTTTAATCCG
63 AGATAAGATCTC-TGACTTCAATCCG
* * *
21353858 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCTCTGTAATCTTAGGGAGA
1 CTCCACTGTAACCTCAGGGAGATAGGATAGTGTCTTGGATCTACTCCTCTGTAATCTTAGAGAGA
* *
21353923 TAAGATCTCTGGCTTCAATCTG
66 TAAGATCTCTGACTTCAATCCG
21353945 CTCCACTGTAACCTCAGGGAGATA
1 CTCCACTGTAACCTCAGGGAGATA
21353969 AGATCTGAAG
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
85 25 0.27
86 2 0.02
87 56 0.62
88 8 0.09
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (87 bp):
CTCCACTGTAACCTCAGGGAGATAGGATAGTGTCTTGGATCTACTCCTCTGTAATCTTAGAGAGA
TAAGATCTCTGACTTCAATCCG
Found at i:21355093 original size:129 final size:129
Alignment explanation
Indices: 21354815--21355123 Score: 451
Period size: 129 Copynumber: 2.4 Consensus size: 129
21354805 CTCTGGCTTC
* * * **
21354815 AATCTGCTCCACTGTAACCTCAGGGAGATAAGA-T-CTGAAGTTCTTCGGTCTACTCCACTGTAA
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACT--AG--CTTCAATCTACTCCACTGTAA
* *
21354878 CCTCAGGGAAATAAGATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTAT
62 CCTCAGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTAT
21354943 TTT
127 TTT
* ** *
21354946 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGGTTCAATCTACTCCGTTGTAATCTC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAACCTC
*
21355011 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTT
66 AGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTT
*
21355075 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCT
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
21355124 GATGTGATCT
Statistics
Matches: 162, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
129 127 0.78
131 32 0.20
132 1 0.01
133 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (129 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAACCTC
AGGGAAATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTT
Found at i:21355193 original size:98 final size:98
Alignment explanation
Indices: 21355031--21355496 Score: 905
Period size: 98 Copynumber: 4.8 Consensus size: 98
21355021 GACCTGATAC
* *
21355031 GATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
1 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
21355096 AGGGAGATAGGATTACTAGCTTCAATCTGATGT
66 AGGGAGATAGGATTACTAGCTTCAATCTGATGT
21355129 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
1 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
21355194 AGGGAGATAGGATTACTAGCTTCAATCTGATGT
66 AGGGAGATAGGATTACTAGCTTCAATCTGATGT
21355227 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
1 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
21355292 AGGGAGATAGGATTACTAGCTTCAATCTGATGT
66 AGGGAGATAGGATTACTAGCTTCAATCTGATGT
21355325 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
1 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
21355390 AGGGAGATAGGATTACTAGCTTCAATCTGATGT
66 AGGGAGATAGGATTACTAGCTTCAATCTGATGT
*
21355423 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
21355488 AGGGAGATA
66 AGGGAGATA
21355497 TGATAGTGTC
Statistics
Matches: 365, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 365 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (98 bp):
GATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTT
AGGGAGATAGGATTACTAGCTTCAATCTGATGT
Found at i:21355527 original size:43 final size:44
Alignment explanation
Indices: 21355467--21355938 Score: 232
Period size: 44 Copynumber: 10.8 Consensus size: 44
21355457 CCTTTATTTT
* * * * *
21355467 AATCCGCTCCACTGTAATCTCAGGGAGATATGAT-AGTGTCTTG
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * *
21355510 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
*
21355554 AATCTGCTCCACTGTAACCTCAGGGAGATAAGAT--CTGAAGTTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTG--G--CTTC
** * * * *
21355600 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * ** ** *** *
21355641 GATCTACTCTGCTGTAA-CTTCAGAAAGATAAGATC-CTTTATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCAC-TGGCTTC
* * ** *
21355685 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * * * * *
21355729 AATATGCTCCGCTGTAATATCAGTGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATC---ACTGGCTTC
** * * * * *
21355775 GGTCTACTCTACTGTAACCTCAGGGAGATAAGA-C-CT-GATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
* * * * * *** *
21355816 GATCTACTCTACTGTAACCTCAGAGAGATAAGATC-CTAAATTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACT-GGCTTC
** * * * *
21355860 AATCCACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
*
21355904 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATC
21355939 TAAAATTCTT
Statistics
Matches: 326, Mismatches: 84, Indels: 37
0.73 0.19 0.08
Matches are distributed among these distances:
40 1 0.00
41 62 0.19
42 8 0.02
43 32 0.10
44 153 0.47
45 5 0.02
46 64 0.20
47 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTC
Found at i:21355569 original size:87 final size:88
Alignment explanation
Indices: 21355467--21355955 Score: 272
Period size: 87 Copynumber: 5.6 Consensus size: 88
21355457 CCTTTATTTT
* * * * *
21355467 AATCCGCTCCACTGTAATCTCAGGGAGATATGA-T-AGTGTCTT-GGATCTGCTCCGCTGTAATC
1 AATCCGCTCCACTGTAACCTCAGGGAGATAAGACTAAGT-TCTTCGG-TCTACTCCACTGTAACC
21355529 TCAGGGAGATAAGATCTCTGGCTTC
64 TCAGGGAGATAAGATCTCTGGCTTC
*
21355554 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACC
1 AATCCGCTCCACTGTAACCTCAGGGAGATAAGA-CT-AAGTTCTTCGGTCTACTCCACTGTAACC
* *
21355619 TCAGGGAGATAAGA-C-CT-GATGC
64 TCAGGGAGATAAGATCTCTGGCTTC
* ** ** * ** * ** ** *
21355641 GATCTACTCTGCTGTAACTTCAGAAAGATAAGATCCTTTA-TT-TT-AATCCGCTCCACTGTAAT
1 AATCCGCTCCACTGTAACCTCAGGGAGATAAGA--C-TAAGTTCTTCGGTCTACTCCACTGTAAC
* *
21355703 CTCAGGGAGATAGGAT-TGCTAGCTTC
63 CTCAGGGAGATAAGATCT-CTGGCTTC
** * ** * * *
21355729 AATATGCTCCGCTGTAATATCAGTGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACC
1 AATCCGCTCCACTGTAACCTCAGGGAGATAAGA-CT-AAGTTCTTCGGTCTACTCCACTGTAACC
* *
21355794 TCAGGGAGATAAGA-C-CT-GATGC
64 TCAGGGAGATAAGATCTCTGGCTTC
* ** * * * ** * *
21355816 GATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATT-TT-AATCCACTCCACTGTAATC
1 AATCCGCTCCACTGTAACCTCAGGGAGATAAGA--CTAAGTTCTTCGGTCTACTCCACTGTAACC
* * *
21355879 TCAAGGAGATAGGAT-TACTAGCTTC
64 TCAGGGAGATAAGATCT-CTGGCTTC
* * * *
21355904 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTA
1 AATCCGCTCCACTGTAACCTCAGGGAGATAAGA-CT-AAGTTCTTCGGTCTA
21355956 TTCCCTGGGG
Statistics
Matches: 306, Mismatches: 72, Indels: 45
0.72 0.17 0.11
Matches are distributed among these distances:
85 53 0.17
86 5 0.02
87 102 0.33
88 73 0.24
89 7 0.02
90 61 0.20
91 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (88 bp):
AATCCGCTCCACTGTAACCTCAGGGAGATAAGACTAAGTTCTTCGGTCTACTCCACTGTAACCTC
AGGGAGATAAGATCTCTGGCTTC
Found at i:21355710 original size:85 final size:85
Alignment explanation
Indices: 21355605--21355889 Score: 295
Period size: 85 Copynumber: 3.3 Consensus size: 85
21355595 TCTTCGGTCT
*
21355605 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAAAGAT
1 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGAT
**
21355670 AAGATCCTTTATTTTAATCC
66 AAGATCCTAAATTTTAATCC
* * * * * * * * * * *
21355690 GCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGCTTCAATATGCTCCGCTGTAA-TATCAGTG
1 ACTCCACTGTAACCTCAGGGAGATAAGA--CCT-GATGCGATCTACTCTGCTGTAACT-TCAGAG
** *
21355754 AGATAAGAT-CTGAAATTCTTCGGTCT
62 AGATAAGATCCT-AAATT-TT-AATCC
* * *
21355780 ACTCTACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGAT
1 ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGAT
21355845 AAGATCCTAAATTTTAATCC
66 AAGATCCTAAATTTTAATCC
* *
21355865 ACTCCACTGTAATCTCAAGGAGATA
1 ACTCCACTGTAACCTCAGGGAGATA
21355890 GGATTACTAG
Statistics
Matches: 154, Mismatches: 37, Indels: 18
0.74 0.18 0.09
Matches are distributed among these distances:
85 49 0.32
86 2 0.01
87 39 0.25
88 36 0.23
89 2 0.01
90 26 0.17
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (85 bp):
ACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGAT
AAGATCCTAAATTTTAATCC
Found at i:21355730 original size:175 final size:174
Alignment explanation
Indices: 21355515--21355955 Score: 693
Period size: 175 Copynumber: 2.5 Consensus size: 174
21355505 TCTTGGATCT
* * * * *
21355515 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAGGAT-TCTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
*
21355580 GATAAGATCTGAAGTTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
65 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
* * **
21355645 TACTCTGCTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCC
130 TACTCTACTGTAACCTCAGAAAGATAAGATCCTAAATTTTAATCC
* * *
21355690 GCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGCTTCAATATGCTCCGCTGTAATATCAGTGA
1 GCTCCACTGTAATCTCAGGGAGATAGGATT-CTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
*
21355755 GATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
65 GATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATC
*
21355820 TACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCC
130 TACTCTACTGTAACCTCAGAAAGATAAGATCCTAAATTTTAATCC
* *
21355865 ACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAGGATT-CTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
*
21355930 GATAAGATCTAAAATTCTTCGGTCTA
65 GATAAGATCTGAAATTCTTCGGTCTA
21355956 TTCCCTGGGG
Statistics
Matches: 243, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
174 1 0.00
175 242 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (174 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATTCTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACCTCAGAAAGATAAGATCCTAAATTTTAATCC
Found at i:21355888 original size:131 final size:130
Alignment explanation
Indices: 21355424--21355938 Score: 307
Period size: 131 Copynumber: 3.9 Consensus size: 130
21355414 ATCTGATGTG
* * * ** *
21355424 ATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
* * * * * * *
21355489 GGGAGATATGA-T-AGTGTCTT-GGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGC
66 AGGAGATAAGACTGAAT-TCTTCGG-TCTACTCTGCTGTAACCTCAGGGAGATAAGATC-CT-GA
*
21355551 TTCA
127 TGCA
* * * ** * *
21355555 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAGTTCTTCGGTCTACTCCACTGTAACC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCT-AAATT-TT-AATCCACTCCACTGTAATC
* * * * ** *
21355619 TCAGGGAGATAAGACCTG-A---TGCGATCTACTCTGCTGTAACTTCAGAAAGATAAGATCCTTT
63 TCAAGGAGATAAGA-CTGAATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCC-TG
**
21355680 ATTTTA
126 A-TGCA
** * * * * ** * *** * *
21355686 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTGCT-AGCTTCAATATGCTCCGCTGTAATATC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGA-TCCTAAATTTTAATCCACTCCACTGTAATCTC
*
21355750 -AGTGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGA-CCTGA
65 AAG-GAGATAAGA-CTG-AATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCCTGA
*
21355813 TGCG
127 TGCA
*
21355817 ATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
* * * * ** * * *
21355882 AGGAGATAGGA-TTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
66 AGGAGATAAGACTGAAT-TCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATC
21355939 TAAAATTCTT
Statistics
Matches: 288, Mismatches: 75, Indels: 43
0.71 0.18 0.11
Matches are distributed among these distances:
128 3 0.01
129 58 0.20
130 8 0.03
131 149 0.52
132 8 0.03
133 31 0.11
134 30 0.10
135 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (130 bp):
ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTAAATTTTAATCCACTCCACTGTAATCTCA
AGGAGATAAGACTGAATTCTTCGGTCTACTCTGCTGTAACCTCAGGGAGATAAGATCCTGATGCA
Found at i:21357186 original size:7 final size:7
Alignment explanation
Indices: 21357174--21357220 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
21357164 TTAGCCTCTC
21357174 CATTTTT
1 CATTTTT
21357181 CA-TTTT
1 CATTTTT
21357187 CATTTTT
1 CATTTTT
21357194 CATTTTT
1 CATTTTT
*
21357201 CA-TTCT
1 CATTTTT
21357207 CATTTTT
1 CATTTTT
21357214 CATTTTT
1 CATTTTT
21357221 TTTACTCAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:21357192 original size:13 final size:13
Alignment explanation
Indices: 21357177--21357219 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
21357167 GCCTCTCCAT
21357177 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
21357189 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
21357203 TTCTCATTTTTCA
1 TTTTCATTTTTCA
21357216 TTTT
1 TTTT
21357220 TTTTACTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:21357228 original size:20 final size:20
Alignment explanation
Indices: 21357174--21357220 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
21357164 TTAGCCTCTC
*
21357174 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
21357194 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
21357214 CATTTTT
1 CATTTTT
21357221 TTTACTCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:21358097 original size:17 final size:16
Alignment explanation
Indices: 21358084--21358146 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
21358074 TCCTTTTTTC
21358084 TTTTTCTTCTTTTTTGA
1 TTTTTCTT-TTTTTTGA
* *
21358101 TTTTTCTTTTTTCTGC
1 TTTTTCTTTTTTTTGA
**
21358117 TTTTGATTTTGATTTTGA
1 TTTTTCTTTT--TTTTGA
21358135 TTTTTCTTTTTT
1 TTTTTCTTTTTT
21358147 CTTTTCCTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
16 16 0.44
17 8 0.22
18 12 0.33
ACGTcount: A:0.06, C:0.10, G:0.08, T:0.76
Consensus pattern (16 bp):
TTTTTCTTTTTTTTGA
Found at i:21358121 original size:22 final size:23
Alignment explanation
Indices: 21358078--21358126 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
21358068 GACCTCTCCT
*
21358078 TTTTTCTTTTTCTTCTTTTTTGA
1 TTTTTCTTTTTCTTCTCTTTTGA
21358101 TTTTTC-TTTT-TTCTGCTTTTGA
1 TTTTTCTTTTTCTTCT-CTTTTGA
21358123 TTTT
1 TTTT
21358127 GATTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 14 0.58
23 6 0.25
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTTCTTTTTCTTCTCTTTTGA
Found at i:21362670 original size:3 final size:3
Alignment explanation
Indices: 21362664--21362708 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
21362654 GATAAGTAGC
*
21362664 AAT AAT -AT AAGT AAT AAT AAT AAT AAT AGT AAT AAT AAAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
21362709 AAGATGATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21362701 original size:15 final size:16
Alignment explanation
Indices: 21362645--21362701 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
21362635 AGCTATTATA
21362645 TAATAATATGATAAGTAG
1 TAATAATA--ATAAGTAG
* *
21362663 CAATAAT-ATAAGTAA
1 TAATAATAATAAGTAG
21362678 TAATAATAATAA-TAG
1 TAATAATAATAAGTAG
21362693 TAATAATAA
1 TAATAATAA
21362702 ATAATAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
15 24 0.71
16 4 0.12
18 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (16 bp):
TAATAATAATAAGTAG
Found at i:21363644 original size:23 final size:26
Alignment explanation
Indices: 21363600--21363649 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
21363590 TTTTTTGTAA
21363600 AAAAAAAAGAAGCCCCAATTACAGTG
1 AAAAAAAAGAAGCCCCAATTACAGTG
*
21363626 AAAAAAAA-AA-CCCC-GTTACAGTG
1 AAAAAAAAGAAGCCCCAATTACAGTG
21363649 A
1 A
21363650 TGAAGCCCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 9 0.39
24 4 0.17
25 2 0.09
26 8 0.35
ACGTcount: A:0.54, C:0.20, G:0.14, T:0.12
Consensus pattern (26 bp):
AAAAAAAAGAAGCCCCAATTACAGTG
Found at i:21366112 original size:42 final size:42
Alignment explanation
Indices: 21366060--21366214 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 42
21366050 CTGAAGGCTT
* * *
21366060 AACAAAAGCTCATGAGAGCTAAACAGAAACCCATAAAGGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACACATAAAGGTTG
* * * *
21366102 AACAGAAGCTCGTAAGAGCTGAAC-GACAACACATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGA-AACACATAAAGGTTG
* * * * * *
21366144 AACAGGAGCTCAAAAGAGCTGAACATAAACTCAT-ATGAGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACACATAAAG-GTTG
*
21366186 AACAGAAGCTTATGAA-AGCTAAACAGAAA
1 AACAGAAGCTCAT-AAGAGCTAAACAGAAA
21366215 GTAAATACGA
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 4 0.04
42 83 0.92
43 3 0.03
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACACATAAAGGTTG
Found at i:21366430 original size:12 final size:12
Alignment explanation
Indices: 21366413--21366453 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
21366403 TATCAATTCA
21366413 ATATATTTATAT
1 ATATATTTATAT
21366425 ATATA--TATAT
1 ATATATTTATAT
* *
21366435 ATATCTTTGTAT
1 ATATATTTATAT
21366447 ATATATT
1 ATATATT
21366454 AAATTTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
ATATATTTATAT
Found at i:21367730 original size:21 final size:21
Alignment explanation
Indices: 21367700--21367791 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
21367690 CGTGTTTTAC
*
21367700 TTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTATAAG
* * *
21367721 TTTATGTTCAGCTCTTACAAG
1 TTTCTGTTCAACTCTTATAAG
* * *
21367742 CTTCTGTTTAACTCTTATGAG
1 TTTCTGTTCAACTCTTATAAG
21367763 TTTCTGTTCAACTCTTATAAG
1 TTTCTGTTCAACTCTTATAAG
21367784 TTTCTGTT
1 TTTCTGTT
21367792 TAGCTCCTAC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTCTGTTCAACTCTTATAAG
Found at i:21367760 original size:42 final size:42
Alignment explanation
Indices: 21367701--21367793 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
21367691 GTGTTTTACT
* *
21367701 TTCTGTTCAACTCTTATGAGTTTATGTTCAGCTCTTACAAGC
1 TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
* * *
21367743 TTCTGTTTAACTCTTATGAGTTTCTGTTCAACTCTTATAAGT
1 TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
21367785 TTCTGTTTA
1 TTCTGTTTA
21367794 GCTCCTACGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (42 bp):
TTCTGTTTAACTCTTATGAGTTTATGTTCAACTCTTACAAGC
Found at i:21367809 original size:21 final size:21
Alignment explanation
Indices: 21367701--21367814 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
21367691 GTGTTTTACT
** *
21367701 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAACTCTTACAAGC
* *
21367722 TTATGTTCAGCTCTTACAAGC
1 TTCTGTTCAACTCTTACAAGC
* ** *
21367743 TTCTGTTTAACTCTTATGAGT
1 TTCTGTTCAACTCTTACAAGC
* *
21367764 TTCTGTTCAACTCTTATAAGT
1 TTCTGTTCAACTCTTACAAGC
* * * *
21367785 TTCTGTTTAGCTCCTACGAGC
1 TTCTGTTCAACTCTTACAAGC
*
21367806 TTCTATTCA
1 TTCTGTTCA
21367815 GTTTTTGAGC
Statistics
Matches: 72, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAACTCTTACAAGC
Found at i:21371387 original size:23 final size:23
Alignment explanation
Indices: 21371338--21371394 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
21371328 TTTTTTGTGC
* *
21371338 TTTTTTATATTGTTTTGCTACTG
1 TTTTTAATATTGTTTTGCTACTA
* **
21371361 TTTTTAATGTTGTTTTGCTGTTA
1 TTTTTAATATTGTTTTGCTACTA
21371384 TTTTTAATATT
1 TTTTTAATATT
21371395 ATTTAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.67
Consensus pattern (23 bp):
TTTTTAATATTGTTTTGCTACTA
Found at i:21371999 original size:24 final size:23
Alignment explanation
Indices: 21371963--21372015 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
21371953 ATGTTCATAT
21371963 ATTTCCACATGTTATTTCCTTCTA
1 ATTTCCACATGTTATTTCCTT-TA
*
21371987 ATTTCCACGTGTTATTTCCTTTA
1 ATTTCCACATGTTATTTCCTTTA
*
21372010 CTTTCC
1 ATTTCC
21372016 GATTTCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (23 bp):
ATTTCCACATGTTATTTCCTTTA
Found at i:21377217 original size:31 final size:31
Alignment explanation
Indices: 21377179--21377336 Score: 316
Period size: 31 Copynumber: 5.1 Consensus size: 31
21377169 AGAAGCTAAC
21377179 TCAATGAAGCACATTCGTTTGATCTTATCTT
1 TCAATGAAGCACATTCGTTTGATCTTATCTT
21377210 TCAATGAAGCACATTCGTTTGATCTTATCTT
1 TCAATGAAGCACATTCGTTTGATCTTATCTT
21377241 TCAATGAAGCACATTCGTTTGATCTTATCTT
1 TCAATGAAGCACATTCGTTTGATCTTATCTT
21377272 TCAATGAAGCACATTCGTTTGATCTTATCTT
1 TCAATGAAGCACATTCGTTTGATCTTATCTT
21377303 TCAATGAAGCACATTCGTTTGATCTTATCTT
1 TCAATGAAGCACATTCGTTTGATCTTATCTT
21377334 TCA
1 TCA
21377337 TTCCTTTTTT
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 127 1.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.42
Consensus pattern (31 bp):
TCAATGAAGCACATTCGTTTGATCTTATCTT
Found at i:21386529 original size:17 final size:17
Alignment explanation
Indices: 21386507--21386540 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21386497 ATCCACTAAT
*
21386507 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
21386524 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
21386541 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:21387220 original size:10 final size:10
Alignment explanation
Indices: 21387205--21387232 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
21387195 ATTAATTTTA
21387205 ATATTATTAT
1 ATATTATTAT
21387215 ATATTATTAT
1 ATATTATTAT
21387225 ATATTATT
1 ATATTATT
21387233 TTTTCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTATTAT
Found at i:21388419 original size:13 final size:13
Alignment explanation
Indices: 21388401--21388426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21388391 TTAAAATAAA
21388401 TTTAATTAAATTT
1 TTTAATTAAATTT
21388414 TTTAATTAAATTT
1 TTTAATTAAATTT
21388427 CTCAACTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTAAATTT
Found at i:21390997 original size:30 final size:30
Alignment explanation
Indices: 21390961--21391019 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
21390951 CTTATTTTAT
21390961 TGTTAATTTTGTTATTATTTTAAAGACATC
1 TGTTAATTTTGTTATTATTTTAAAGACATC
*
21390991 TGTTAATTTTGTTATTATTTTAGAGACAT
1 TGTTAATTTTGTTATTATTTTAAAGACAT
21391020 TTGCTTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTTAATTTTGTTATTATTTTAAAGACATC
Found at i:21391178 original size:12 final size:12
Alignment explanation
Indices: 21391148--21391180 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
21391138 TATATATTTT
21391148 AAAATT-ATATA
1 AAAATTAATATA
21391159 AAAA-TAATATA
1 AAAATTAATATA
21391170 AAAATTAATAT
1 AAAATTAATAT
21391181 GGGCGGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:21391439 original size:14 final size:15
Alignment explanation
Indices: 21391414--21391446 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
21391404 AGATTCTTCA
*
21391414 AATTATTATTTAATT
1 AATTATTATTTAAAT
21391429 AATTA-TATTTAAAT
1 AATTATTATTTAAAT
21391443 AATT
1 AATT
21391447 TAAATACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTATTATTTAAAT
Found at i:21393907 original size:28 final size:26
Alignment explanation
Indices: 21393847--21393907 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
21393837 AGGTTGAACC
* *
21393847 TAAAGTTAATGAAAATTTGTTTATAAA
1 TAAA-TTAATGAAAATTTCTTAATAAA
*
21393874 TCAATTAATGAATAATTTCTTCAATAAA
1 TAAATTAATGAA-AATTTCTT-AATAAA
21393902 TAAATT
1 TAAATT
21393908 TTTATACAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.29
27 10 0.36
28 10 0.36
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (26 bp):
TAAATTAATGAAAATTTCTTAATAAA
Found at i:21399869 original size:34 final size:35
Alignment explanation
Indices: 21399825--21399891 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
21399815 CAGTAAAATA
21399825 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
21399859 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
21399892 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:21401526 original size:3 final size:3
Alignment explanation
Indices: 21401520--21401564 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
21401510 TCAGATTTTT
* * * *
21401520 TTA TTA TCA TTG TTA TTA TTA ATA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21401565 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:21414301 original size:132 final size:132
Alignment explanation
Indices: 21414058--21414694 Score: 938
Period size: 132 Copynumber: 4.8 Consensus size: 132
21414048 GTGTATTAAA
* *
21414058 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAAGGAAGCAGATTTAAGCCACCAGTCTTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * * * *
21414123 CCTGAGTAGCAGTGGAGTAGGTTGAATATTGTAGATCTTGTATCCCTAATCAGTAGTAGAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
21414188 TC
131 TC
* *
21414190 GAAGACGATGAATCTTATCTTCCCAAAGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * *
21414255 CCTGAGCAACAGTGGAGTAAGTTGAAGATTGTAGATCCTGTCTCCCTAAGTAGTAGTGAAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
21414320 TC
131 TC
* * * *
21414322 GAATACGGTGAATCTTATCTTTCCAAGGAAGTAGGGAAGCAAATTTAAGCCATCAGTCCTATC-C
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* * * *
21414386 CCTTAAGCAACAGTGGAGTAGGTTGAATATTATAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAG
66 CC-TGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAG
21414451 ATC
130 ATC
* *
21414454 GAAGACGGTGGATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCATCAGTCCTATCTC
1 GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
* *
21414519 CTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
66 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
21414584 TC
131 TC
* *
21414586 GAAGACGGCGAATCTTATCTTCCCAA-GATAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCT
1 GAAGACGGTGAATCTTATCTTCCCAAGGA-AGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCT
* * * *
21414650 -CCTTAGGCAGTAGTGGAGTAGGTTGAAGATTGTAAATCATGTCTC
65 CCCTGA-GCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTC
21414695 TTTGAGCAGC
Statistics
Matches: 455, Mismatches: 46, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
131 8 0.02
132 445 0.98
133 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
GAAGACGGTGAATCTTATCTTCCCAAGGAAGTAGGGAAGCAGATTTAAGCCACCAGTCCTATCTC
CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGA
TC
Found at i:21414578 original size:44 final size:44
Alignment explanation
Indices: 21414378--21414590 Score: 123
Period size: 44 Copynumber: 4.8 Consensus size: 44
21414368 AAGCCATCAG
** * * * *
21414378 TCCTATC-CCCTTAAGCAACAGTGGAGTAGGTTGAATATTATAGA
1 TCCTATCTCCC-TAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* * ** *
21414422 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* * * *
21414466 TCTTATCTTCCC-AAGGAAGTAG-GGAAGCAGATTTAAGCCA-T-CAG-
1 TCCTATC-TCCCTAA-GCAGTAGTGG-AGCAGATTGAAG--ATTGTAGA
* * * * * *
21414510 TCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
* *
21414554 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
21414591 CGGCGAATCT
Statistics
Matches: 122, Mismatches: 36, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 18 0.15
44 77 0.63
45 24 0.20
47 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGA
Found at i:21416367 original size:3 final size:3
Alignment explanation
Indices: 21416361--21416423 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
21416351 TCAGATTTTT
*
21416361 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
21416409 TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
21416424 GTTTTTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:21418986 original size:3 final size:3
Alignment explanation
Indices: 21418970--21419012 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
21418960 AATTTAAAAA
*
21418970 AAT ATAT AAA AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
21419013 AGGAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:21418986 original size:13 final size:12
Alignment explanation
Indices: 21418964--21419012 Score: 64
Period size: 12 Copynumber: 4.0 Consensus size: 12
21418954 TTTATTAATT
21418964 TAAAAA-AATATA
1 TAAAAATAATA-A
21418976 TAAAAATAATAA
1 TAAAAATAATAA
21418988 TAATAAATAATAA
1 TAA-AAATAATAA
*
21419001 TAATAATAATAA
1 TAAAAATAATAA
21419013 AGGAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
12 18 0.53
13 16 0.47
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:21418997 original size:19 final size:19
Alignment explanation
Indices: 21418970--21419013 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
21418960 AATTTAAAAA
*
21418970 AATATATAAAAATAATAAT
1 AATAAATAAAAATAATAAT
*
21418989 AATAAATAATAATAATAAT
1 AATAAATAAAAATAATAAT
21419008 AATAAA
1 AATAAA
21419014 GGAAAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAATAAAAATAATAAT
Found at i:21418999 original size:16 final size:15
Alignment explanation
Indices: 21418970--21419009 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
21418960 AATTTAAAAA
21418970 AATATATAAAAATAAT
1 AATA-ATAAAAATAAT
21418986 AATAATAAATAATAAT
1 AATAATAAA-AATAAT
21419002 AATAATAA
1 AATAATAA
21419010 TAAAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAATAAAAATAAT
Found at i:21419098 original size:29 final size:28
Alignment explanation
Indices: 21419047--21419106 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
21419037 AATATACCAT
* *
21419047 TTACATTTTGGCCTCAACTTTTTCTAAAA
1 TTACATTTTGGCCCCAACTTTTT-GAAAA
21419076 TTACATTTTGGCCCCTAAC-TTTTGAAAA
1 TTACATTTTGGCCCC-AACTTTTTGAAAA
21419104 TTA
1 TTA
21419107 ATAGAACGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 18 0.64
30 3 0.11
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.43
Consensus pattern (28 bp):
TTACATTTTGGCCCCAACTTTTTGAAAA
Found at i:21419494 original size:26 final size:26
Alignment explanation
Indices: 21419465--21419519 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
21419455 ATAATTATAT
*
21419465 TTTAAAATATTAAAATTTAATACTTA
1 TTTAAAATATTAAAATTTAATAATTA
* *
21419491 TTTAGAATATTTAAATTTAATAATTA
1 TTTAAAATATTAAAATTTAATAATTA
21419517 TTT
1 TTT
21419520 TCATACACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTAAAATATTAAAATTTAATAATTA
Found at i:21422571 original size:16 final size:16
Alignment explanation
Indices: 21422547--21422584 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
21422537 TTTGGTTCAC
* *
21422547 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
21422563 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
21422579 TGTAAT
1 TGTAAT
21422585 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:21422614 original size:45 final size:44
Alignment explanation
Indices: 21422563--21422657 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
21422553 GGATTAGAGG
*
21422563 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
21422608 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
21422652 TGTAAT
1 TGTAAT
21422658 AGATGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:21422839 original size:18 final size:17
Alignment explanation
Indices: 21422818--21422852 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21422808 TTATTATTAA
*
21422818 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21422836 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21422853 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21424313 original size:11 final size:11
Alignment explanation
Indices: 21424299--21424325 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21424289 AAAAATAAAT
21424299 ACAAAAGTTTC
1 ACAAAAGTTTC
21424310 ACAAAAGTTTC
1 ACAAAAGTTTC
21424321 ACAAA
1 ACAAA
21424326 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:21429614 original size:19 final size:19
Alignment explanation
Indices: 21429592--21429652 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
21429582 ACAGGAAAAT
21429592 AAAAAAATTAAAAAAGTGA
1 AAAAAAATTAAAAAAGTGA
**
21429611 AAAAAAATTAGCAAA---A
1 AAAAAAATTAAAAAAGTGA
*
21429627 AAAAAAACTAAAAAAGTGA
1 AAAAAAATTAAAAAAGTGA
21429646 AAAAAAA
1 AAAAAAA
21429653 AAATTGGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 13 0.38
19 21 0.62
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAAAATTAAAAAAGTGA
Found at i:21429757 original size:28 final size:29
Alignment explanation
Indices: 21429688--21429757 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
21429678 GACAATAGCT
* * *
21429688 TTTTCCTTGCATTTAAATGTTTTTATGTT
1 TTTTCCTTGCATTTAAATGTCTTAATGTC
*
21429717 TTTTCCATGCATTT-AATGTCTTAATGTC
1 TTTTCCTTGCATTTAAATGTCTTAATGTC
*
21429745 TTTTCCTTACATT
1 TTTTCCTTGCATT
21429758 CAACACTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.57
Consensus pattern (29 bp):
TTTTCCTTGCATTTAAATGTCTTAATGTC
Found at i:21430369 original size:20 final size:20
Alignment explanation
Indices: 21430314--21430372 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
21430304 ACACATTAAC
21430314 ATATATAAAAATAAAATAAAT
1 ATATATAAAAATAAAA-AAAT
21430335 ATATA-AAAAAT-AAAAAAT
1 ATATATAAAAATAAAAAAAT
**
21430353 ATATATAAATCTAAAAAAAT
1 ATATATAAAAATAAAAAAAT
21430373 TGTAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 9 0.26
19 7 0.21
20 13 0.38
21 5 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
ATATATAAAAATAAAAAAAT
Found at i:21430602 original size:19 final size:20
Alignment explanation
Indices: 21430578--21430624 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
21430568 TTTAATTATT
21430578 TTTTTATAATATT-TTTTGA-
1 TTTTTA-AATATTATTTTGAC
*
21430597 TTTTTAGATATTATTTTGAC
1 TTTTTAAATATTATTTTGAC
21430617 TTTTTAAA
1 TTTTTAAA
21430625 ATTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (20 bp):
TTTTTAAATATTATTTTGAC
Found at i:21430871 original size:19 final size:18
Alignment explanation
Indices: 21430827--21430875 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
21430817 AATATTATAA
21430827 TTTA-TTTTTATAATATT
1 TTTATTTTTTATAATATT
*
21430844 TTTCCATTTTTGTATATTATT
1 TTT--ATTTTT-TATAATATT
21430865 TTTATTTTTTA
1 TTTATTTTTTA
21430876 AAATTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.11
18 2 0.07
19 7 0.26
20 4 0.15
21 11 0.41
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTTTTTATAATATT
Found at i:21430921 original size:16 final size:16
Alignment explanation
Indices: 21430891--21430922 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21430881 TAAAATTATA
*
21430891 TATTTTTAAATTTTTT
1 TATTTTTAAACTTTTT
21430907 TATTTTTAAACTTTTT
1 TATTTTTAAACTTTTT
21430923 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTTAAACTTTTT
Found at i:21441301 original size:25 final size:24
Alignment explanation
Indices: 21441266--21441377 Score: 93
Period size: 25 Copynumber: 4.5 Consensus size: 24
21441256 GACACACCAC
*
21441266 AGCTCGTATGAGCTTCCCATTATTA
1 AGCTCGCATGAGCTTCCCATT-TTA
*
21441291 AGCTCGCATGAGCTTCTCGA-TTTA
1 AGCTCGCATGAGCTTC-CCATTTTA
* *
21441315 CAGCTCGCATGAGCTTCCCTTTTTTC
1 -AGCTCGCATGAGCTTCCC-ATTTTA
* * *
21441341 AGCTCACATGAGTTTCCC-GTTTA
1 AGCTCGCATGAGCTTCCCATTTTA
*
21441364 CAGCTCGTATGAGC
1 -AGCTCGCATGAGC
21441378 ATACATGTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
23 3 0.04
24 14 0.20
25 48 0.69
26 5 0.07
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.34
Consensus pattern (24 bp):
AGCTCGCATGAGCTTCCCATTTTA
Found at i:21441327 original size:50 final size:49
Alignment explanation
Indices: 21441264--21441377 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 49
21441254 CGGACACACC
* *
21441264 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCGCATGAGCTTCTCGATTT
1 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCG-TTT
* * * * *
21441314 ACAGCTCGCATGAGCTTCCCTTTTTTCAGCTCACATGAGTTTCCCGTTT
1 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCGTTT
21441363 ACAGCTCGTATGAGC
1 ACAGCTCGTATGAGC
21441378 ATACATGTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 17 0.30
50 39 0.70
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (49 bp):
ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCGTTT
Found at i:21452823 original size:16 final size:18
Alignment explanation
Indices: 21452802--21452838 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21452792 TACACACGTT
21452802 ATATTA-TCA-AAATTTA
1 ATATTATTCATAAATTTA
*
21452818 ATATTATTCATTAATTTA
1 ATATTATTCATAAATTTA
21452836 ATA
1 ATA
21452839 ACATTACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 9 0.50
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTATTCATAAATTTA
Found at i:21453081 original size:22 final size:22
Alignment explanation
Indices: 21453055--21453105 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
21453045 TGTTTGCTGC
*
21453055 CATTTTGATATTGT-TTAGCTAT
1 CATTTTGATATTATATTA-CTAT
*
21453077 CATTTTGCTATTATATTACTAT
1 CATTTTGATATTATATTACTAT
*
21453099 TATTTTG
1 CATTTTG
21453106 TTGTTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (22 bp):
CATTTTGATATTATATTACTAT
Found at i:21454998 original size:42 final size:42
Alignment explanation
Indices: 21454939--21455022 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
21454929 CACTTTCGTC
21454939 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
1 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
* *
21454981 CATGCATAATGTGTATAAATGTTGTTTCAACACCAATCGGTT
1 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
21455023 AGCTAGAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (42 bp):
CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
Found at i:21457269 original size:20 final size:20
Alignment explanation
Indices: 21457246--21457296 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
21457236 TCTCAACAAA
*
21457246 AATTACAAAAAATTCAAAAT
1 AATTATAAAAAATTCAAAAT
* *
21457266 AATTTTTAAAAATTCAAAAT
1 AATTATAAAAAATTCAAAAT
*
21457286 ATTTATAAAAA
1 AATTATAAAAA
21457297 TTACAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTATAAAAAATTCAAAAT
Found at i:21457303 original size:20 final size:20
Alignment explanation
Indices: 21457253--21457304 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
21457243 AAAAATTACA
*
21457253 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTAT
21457273 AAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
21457292 AAAAATTACAAAA
1 AAAAATT-CAAAA
21457305 ATTATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:21461859 original size:17 final size:18
Alignment explanation
Indices: 21461825--21461859 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21461815 ACTGCACGAC
21461825 CTCATGCAAATTACCAAAG
1 CTCATGCAAA-TACCAAAG
21461844 CTCATGCAAA-ACCAAA
1 CTCATGCAAATACCAAA
21461860 ATGAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.46, C:0.29, G:0.09, T:0.17
Consensus pattern (18 bp):
CTCATGCAAATACCAAAG
Found at i:21462636 original size:10 final size:11
Alignment explanation
Indices: 21462602--21462635 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
21462592 TTGGCCCGCC
21462602 TATATTAATTTT
1 TATA-TAATTTT
21462614 TATATAATTTT
1 TATATAATTTT
21462625 TATATAATTTT
1 TATATAATTTT
21462636 AAAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATAATTTT
Found at i:21462797 original size:30 final size:30
Alignment explanation
Indices: 21462761--21462819 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
21462751 CTTAACAATC
21462761 AAATGTCTCTAAAATAATAACAAAATTAAA
1 AAATGTCTCTAAAATAATAACAAAATTAAA
*
21462791 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
21462820 CAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAA
Found at i:21465252 original size:7 final size:6
Alignment explanation
Indices: 21465209--21465251 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
21465199 AAACTGTTTG
* *
21465209 TATTCTT TATTTT TATTTT TATTTT TGTTTT T-CTTT TATTTT T
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
21465252 TTAAAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
5 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:21465899 original size:3 final size:3
Alignment explanation
Indices: 21465891--21465966 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
21465881 ATTATCATCT
* * * *
21465891 TTA TTA TTA TTA TTG TTT TTA TTA TCT- TTA CTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
21465936 TTA TTA TTA ATA TTA TTG TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21465967 GTTTTTATTT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
2 1 0.02
3 56 0.97
4 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:21466166 original size:17 final size:17
Alignment explanation
Indices: 21466141--21466175 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21466131 TATATATATA
*
21466141 TTATTTTATTTTATTTT
1 TTATCTTATTTTATTTT
21466158 TTATCTTATTTTATTTT
1 TTATCTTATTTTATTTT
21466175 T
1 T
21466176 ATAATTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (17 bp):
TTATCTTATTTTATTTT
Found at i:21467422 original size:33 final size:33
Alignment explanation
Indices: 21467385--21467452 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
21467375 ATATAAATAT
21467385 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
21467418 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
21467451 GT
1 GT
21467453 TATATAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (33 bp):
GTATACATATATTCGTGAGAAAAAAAGAAAAAA
Found at i:21467474 original size:33 final size:33
Alignment explanation
Indices: 21467385--21467467 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
21467375 ATATAAATAT
* * *
21467385 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACAGATATACATGAGAAAAAAAGAAAAAA
* * *
21467418 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACAGATATACATGAGAAAAAAAGAAAAAA
*
21467451 GTTATATAGATATACAT
1 G-TATACAGATATACAT
21467468 ATAAAAAGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 34 0.76
34 11 0.24
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.25
Consensus pattern (33 bp):
GTATACAGATATACATGAGAAAAAAAGAAAAAA
Found at i:21467594 original size:20 final size:20
Alignment explanation
Indices: 21467560--21467608 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
21467550 AAACTATCGT
* *
21467560 ATAATAATATGATAA-ATAAA
1 ATAATAAAATAATAATAT-AA
*
21467580 ATAATAAAATAATAATATTA
1 ATAATAAAATAATAATATAA
21467600 ATAATAAAA
1 ATAATAAAA
21467609 GATGATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAATAAAATAATAATATAA
Done.