Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 116 of 130
Found at i:22803320 original size:13 final size:12
Alignment explanation
Indices: 22803302--22803364 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 12
22803292 TTCCAAGGTT
22803302 TTTTTTTCATTTA
1 TTTTTTT-ATTTA
*
22803315 TTTTTTTATTTT
1 TTTTTTTATTTA
22803327 TATTTTTTATTTA
1 T-TTTTTTATTTA
*
22803340 TTATTATTA-TTA
1 TT-TTTTTATTTA
*
22803352 -TTATTTATTTA
1 TTTTTTTATTTA
22803363 TT
1 TT
22803365 AGATTAGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.10
11 4 0.10
12 10 0.24
13 23 0.56
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:22803346 original size:23 final size:23
Alignment explanation
Indices: 22803310--22803365 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
22803300 TTTTTTTTTC
*
22803310 ATTTATTT-TT-TTATTTTTATT
1 ATTTATTTATTATTATTATTATT
*
22803331 TTTTATTTATTATTATTATTATT
1 ATTTATTTATTATTATTATTATT
22803354 ATTTATTTATTA
1 ATTTATTTATTA
22803366 GATTAGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 7 0.23
22 2 0.07
23 21 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTTATTTATTATTATTATTATT
Found at i:22803370 original size:19 final size:19
Alignment explanation
Indices: 22803333--22803370 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22803323 TTTTTATTTT
*
22803333 TTATTTATTATTATTATTA
1 TTATTTATTATTATGATTA
22803352 TTATTTATTTATTA-GATTA
1 TTATTTA-TTATTATGATTA
22803371 GAATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTATTTATTATTATGATTA
Found at i:22803504 original size:59 final size:58
Alignment explanation
Indices: 22803430--22803697 Score: 318
Period size: 59 Copynumber: 4.6 Consensus size: 58
22803420 ATAAAAATTT
*
22803430 TAAAAAATATATTTTTGAAGAGAAGTTGAAAGTATT-ATTTTCTTTGAAAATAAGTTTTTC
1 TAAAAAATAT-TTTTTG-AGAAAAGTTGAAAGTATTCATTTTCTTTGAAAATAAG-TTTTC
**
22803490 TAAAAAATATTTTTTGAGAAGAAGTTGAAAGTA-TCAATTTTCTTAAAAAATAAGTTTTC
1 TAAAAAATATTTTTTGAGAA-AAGTTGAAAGTATTC-ATTTTCTTTGAAAATAAGTTTTC
22803549 TAAAAAATA-TTTTT-AGAAAAGTTGAAAGTATTCATTTT-TCTTGAAAATAAGTTTTC
1 TAAAAAATATTTTTTGAGAAAAGTTGAAAGTATTCATTTTCT-TTGAAAATAAGTTTTC
* *
22803605 TAAAAAATA-TATTCGACTGAAAA-TTGAAAGTATTCATTTTCTTTGATAAATAA-TTTTC
1 TAAAAAATATTTTTTGA--GAAAAGTTGAAAGTATTCATTTTCTTTGA-AAATAAGTTTTC
* *
22803663 TAAAAAAAGTTTTTTTTTAGAAAAGTTGAAAGTAT
1 T-AAAAAA-TATTTTTTGAGAAAAGTTGAAAGTAT
22803698 GCAATTTTTT
Statistics
Matches: 183, Mismatches: 11, Indels: 28
0.82 0.05 0.13
Matches are distributed among these distances:
55 1 0.01
56 43 0.23
57 7 0.04
58 36 0.20
59 55 0.30
60 37 0.20
61 4 0.02
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (58 bp):
TAAAAAATATTTTTTGAGAAAAGTTGAAAGTATTCATTTTCTTTGAAAATAAGTTTTC
Found at i:22815210 original size:42 final size:42
Alignment explanation
Indices: 22815141--22815237 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
22815131 GTCAATGAGT
*
22815141 AATTTATTTTTC-AAAGTCGTGGTGCCTCTATTTAGAGGAGC
1 AATTTATTTTTCAAAAGTCGTAGTGCCTCTATTTAGAGGAGC
*
22815182 AATTTATTTTTCAAAAGTCGTAGTGCCTCTGTTTAGAGGAGC
1 AATTTATTTTTCAAAAGTCGTAGTGCCTCTATTTAGAGGAGC
22815224 AATTTATTTTTCAA
1 AATTTATTTTTCAA
22815238 CATTCGTGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
41 12 0.23
42 41 0.77
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (42 bp):
AATTTATTTTTCAAAAGTCGTAGTGCCTCTATTTAGAGGAGC
Found at i:22815300 original size:86 final size:83
Alignment explanation
Indices: 22815141--22815309 Score: 203
Period size: 86 Copynumber: 2.0 Consensus size: 83
22815131 GTCAATGAGT
* * * * * * *
22815141 AATTTATTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAAGTCGTAGT
1 AATTTATTTTTCAAAGTCGTGGTACCTCCATTTAGAAGAGCAATTCATTCTCCAAAAGTCGTAGA
22815206 GCCTCTGTTTAGAGGAGC
66 GCCTCTGTTTAGAGGAGC
* * * *
22815224 AATTTATTTTTCAACATTCGTGGTTACCTCCGTTTAGAAGAGCAATTCATTGCTCCCAAAGTTGT
1 AATTTATTTTTCAA-AGTCGTGG-TACCTCCATTTAGAAGAGCAATTCATT-CTCCAAAAGTCGT
*
22815289 TGAGCCTCTGTTTAGAGGAGC
63 AGAGCCTCTGTTTAGAGGAGC
22815310 TTTGTTTATT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
83 14 0.20
84 7 0.10
85 22 0.31
86 28 0.39
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (83 bp):
AATTTATTTTTCAAAGTCGTGGTACCTCCATTTAGAAGAGCAATTCATTCTCCAAAAGTCGTAGA
GCCTCTGTTTAGAGGAGC
Found at i:22815381 original size:43 final size:43
Alignment explanation
Indices: 22815290--22815438 Score: 210
Period size: 43 Copynumber: 3.5 Consensus size: 43
22815280 CAAAGTTGTT
* *
22815290 GAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTTCAAAGTCATG
1 GAGCCTCTGCTTAGAGGAGCTTTGTTTA-TTTTTCAAAGTCATC
*
22815334 GAGCCTCTGCTTAGAGGAGCTCTGTTTATTTTTCAAAGTCATC
1 GAGCCTCTGCTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATC
* * * *
22815377 GAGCCTCTGTTTAGAGGAGCTTTGCTTATTTTT-AAAGTCGTT
1 GAGCCTCTGCTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATC
*
22815419 GAGCCTCTACTTAGAGGAGC
1 GAGCCTCTGCTTAGAGGAGC
22815439 CTTGATCAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 25 0.26
43 44 0.46
44 26 0.27
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (43 bp):
GAGCCTCTGCTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATC
Found at i:22815659 original size:4 final size:4
Alignment explanation
Indices: 22815645--22815774 Score: 51
Period size: 4 Copynumber: 32.8 Consensus size: 4
22815635 TTTTTGTATC
*
22815645 TTAT TTA- TTAT TTAT TTAT TTAT TAATAT ATAT TTA- TTA- TTA- TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT TTAT TTAT TTAT TTAT
* * * * * *
22815691 TTAT CTGT TAAT ATAT ATACT TTA- TTAT TTAT CTA- TTA- TTATT GTTAT
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTA-T -TTAT
* * *
22815739 TTAT CTAT TAATAT TT-T TTAT TTAT CTAA TTAT TTA
1 TTAT TTAT T--TAT TTAT TTAT TTAT TTAT TTAT TTA
22815775 ATTTTAGTTA
Statistics
Matches: 96, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
3 23 0.24
4 59 0.61
5 4 0.04
6 10 0.10
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:22815731 original size:14 final size:13
Alignment explanation
Indices: 22815645--22815813 Score: 73
Period size: 14 Copynumber: 12.5 Consensus size: 13
22815635 TTTTTGTATC
22815645 TTATTTATTATTTA
1 TTATTTATTA-TTA
*
22815659 TTTATTTATTAATA
1 -TTATTTATTATTA
22815673 TATATTTATTATTA
1 T-TATTTATTATTA
*
22815687 TTATTTATCTGTTA
1 TTATTTAT-TATTA
* *
22815701 ATATATA-TACTTTA
1 TTATTTATTA--TTA
22815715 TTATTTATCTATTA
1 TTATTTAT-TATTA
*
22815729 TTA-TTGTTA-T-
1 TTATTTATTATTA
* *
22815739 TTATCTATTAATA
1 TTATTTATTATTA
*
22815752 TTTTTTATTTATCTAA
1 TTATTTA-TTAT-T-A
22815768 TTATTTAATT-TTA
1 TTATTT-ATTATTA
*
22815781 GTTATCTATTAATATA
1 -TTATTTATT-AT-TA
*
22815797 TTATCT-TTATT-
1 TTATTTATTATTA
22815808 TTATTT
1 TTATTT
22815814 TTTTCTTTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 38
0.69 0.10 0.22
Matches are distributed among these distances:
10 3 0.03
11 10 0.08
12 5 0.04
13 22 0.18
14 48 0.40
15 19 0.16
16 12 0.10
17 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:22815740 original size:20 final size:19
Alignment explanation
Indices: 22815609--22815791 Score: 94
Period size: 20 Copynumber: 9.3 Consensus size: 19
22815599 AAGCCCATTT
*
22815609 TATT-TTATTTTATTT-TG
1 TATTATTATTTTATTTATC
22815626 TATT-TGTATTTT-TTGTATC
1 TATTAT-TATTTTATT-TATC
*
22815645 TTATTTATTA-TTTATTTATT
1 -TA-TTATTATTTTATTTATC
* *
22815665 TATTAATA-TATATTTAT-
1 TATTATTATTTTATTTATC
* *
22815682 TATTATTATTTATCTGTTAATA
1 TATTATTATTT-TAT-TT-ATC
*
22815704 TATATACTT-TATTATTTATC
1 TAT-TA-TTATTTTATTTATC
22815724 TATTATTATTGTTATTTATC
1 TATTATTATT-TTATTTATC
*
22815744 TATTAATATTTTTTATTTATC
1 TATT-AT-TATTTTATTTATC
*
22815765 TAATTATTTAATTTTAGTTATC
1 T-ATTA-TT-ATTTTATTTATC
22815787 TATTA
1 TATTA
22815792 ATATATTATC
Statistics
Matches: 131, Mismatches: 14, Indels: 38
0.72 0.08 0.21
Matches are distributed among these distances:
17 14 0.11
18 23 0.18
19 8 0.06
20 28 0.21
21 28 0.21
22 24 0.18
23 4 0.03
24 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTATTATTTTATTTATC
Found at i:22815763 original size:48 final size:48
Alignment explanation
Indices: 22815653--22815795 Score: 131
Period size: 48 Copynumber: 3.1 Consensus size: 48
22815643 TCTTATTTAT
*
22815653 TATTTATTTATTTATTAATATATATTTATTATTATTATTTATCTGTTAA
1 TATTT-TTTATTTATTAATATATATTTATTATTATTATTTATCTATTAA
* * * * *
22815702 TA-TATATACTTTATT-ATTTATCTATTATTATTGTTATTTATCTATTAA
1 TATTTTTTA-TTTATTAATATATAT-TTATTATTATTATTTATCTATTAA
*
22815750 TATTTTTTATTTATCT-A-AT-TATTTA--ATT-TTAGTTATCTATTAA
1 TATTTTTTATTTAT-TAATATATATTTATTATTATTATTTATCTATTAA
22815793 TAT
1 TAT
22815796 ATTATCTTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
43 17 0.22
44 3 0.04
46 3 0.04
47 11 0.14
48 37 0.47
49 8 0.10
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (48 bp):
TATTTTTTATTTATTAATATATATTTATTATTATTATTTATCTATTAA
Found at i:22815806 original size:21 final size:21
Alignment explanation
Indices: 22815715--22815798 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 21
22815705 ATATACTTTA
22815715 TTATTTATCTATT-AT-TATT
1 TTATTTATCTATTAATATATT
*
22815734 GTTATTTATCTATTAATATTTT
1 -TTATTTATCTATTAATATATT
*
22815756 TTATTTATCTAATT-ATTTAATT
1 TTATTTATCT-ATTAATAT-ATT
*
22815778 TTAGTTATCTATTAATATATT
1 TTATTTATCTATTAATATATT
22815799 ATCTTTATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
20 13 0.24
21 21 0.39
22 20 0.37
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTATCTATTAATATATT
Found at i:22815806 original size:43 final size:41
Alignment explanation
Indices: 22815716--22815806 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 41
22815706 TATACTTTAT
* * *
22815716 TATTTATCTATTATTATTGTTATTTATCTATTAATATTTTT
1 TATTTATCTATTATTATTGTTAGTTATCTATTAATATATTA
22815757 TATTTATCTAATTATTTAATT-TTAGTTATCTATTAATATATTA
1 TATTTATCT-ATTA-TT-ATTGTTAGTTATCTATTAATATATTA
*
22815800 TCTTTAT
1 TATTTAT
22815807 TTTATTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 9 0.21
42 4 0.09
43 27 0.63
44 3 0.07
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (41 bp):
TATTTATCTATTATTATTGTTAGTTATCTATTAATATATTA
Found at i:22816608 original size:20 final size:19
Alignment explanation
Indices: 22816581--22816673 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 19
22816571 CGTTCCAAGG
22816581 TTTTATTTATTTATTATTA
1 TTTTATTTATTTATTATTA
*
22816600 TTATTATTTATTGATTAGATTA
1 TT-TTATTTATTTATT--ATTA
**
22816622 GAATTATTTA-TTATTTATTA
1 -TTTTATTTATTTA-TTATTA
22816642 TTTTATTTTATTTTATT-TTA
1 TTTTA-TTTA-TTTATTATTA
22816662 TTTTATTTATTT
1 TTTTATTTATTT
22816674 TGTTTAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
18 3 0.05
19 9 0.15
20 28 0.47
21 4 0.07
22 16 0.27
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTATTTATTTATTATTA
Found at i:22816610 original size:10 final size:10
Alignment explanation
Indices: 22816583--22816672 Score: 64
Period size: 10 Copynumber: 8.9 Consensus size: 10
22816573 TTCCAAGGTT
22816583 TTATTTATTTA
1 TTATTTA-TTA
22816594 TTA-TTATTA
1 TTATTTATTA
22816603 TTATTTATTGA
1 TTATTTATT-A
* **
22816614 TTAGATTAGAA
1 TTA-TTTATTA
22816625 TTATTTATTA
1 TTATTTATTA
22816635 TT-TATTATT-
1 TTAT-TTATTA
22816644 TTATTTTATT-
1 TTA-TTTATTA
22816654 TTATTTTATT-
1 TTA-TTTATTA
22816664 TTATTTATT
1 TTATTTATT
22816673 TTGTTTAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
9 15 0.22
10 37 0.55
11 12 0.18
12 3 0.04
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (10 bp):
TTATTTATTA
Found at i:22816649 original size:5 final size:5
Alignment explanation
Indices: 22816639--22816674 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
22816629 TTATTATTTA
22816639 TTATT TTATT TTATT TTATT TTATT TTA-T TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
22816675 GTTTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:22816824 original size:15 final size:16
Alignment explanation
Indices: 22816787--22816824 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22816777 TGAAAGTATC
*
22816787 AATTTTTCTTAAAAAT
1 AATTTTTCTAAAAAAT
*
22816803 AAGTTTTCTAAAAAAT
1 AATTTTTCTAAAAAAT
22816819 -ATTTTT
1 AATTTTT
22816825 GAGAAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTTTCTAAAAAAT
Found at i:22816849 original size:58 final size:58
Alignment explanation
Indices: 22816688--22816930 Score: 328
Period size: 58 Copynumber: 4.1 Consensus size: 58
22816678 TAAATAAAAA
* * *
22816688 TTCTAAAAAATATATTTTTGAGGAGAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGTTT
1 TTCT-AAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG-TT
* * *
22816749 TTTTAAAAAATATGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTT
1 TTCTAAAAAATAT-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
* *
22816808 TTCTAAAAAATATTTTTGAGAAAAAGTTGAAGGTATTAATTTTTCTTGAAAATAAGTT
1 TTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
* * *
22816866 TTTTAAAAAATATTTTCGA-AGAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAA-TT
1 TTCTAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
22816923 TTCTAAAA
1 TTCTAAAA
22816931 CTGATTTTTT
Statistics
Matches: 165, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
57 10 0.06
58 89 0.54
59 18 0.11
60 45 0.27
61 3 0.02
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (58 bp):
TTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
Found at i:22816911 original size:118 final size:117
Alignment explanation
Indices: 22816688--22816930 Score: 375
Period size: 118 Copynumber: 2.1 Consensus size: 117
22816678 TAAATAAAAA
* *
22816688 TTCTAAAAAATATATTTTTGAGGAGAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGTTTTTTT
1 TTCT-AAAAATATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGTTTTTTT
* *
22816753 AAAAAATATGTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTT
65 AAAAAATATGTTTCGAAGAAAAGTTGAAAGTATCAATTTTT-TTAAAAATAA-TT
*
22816808 TTCTAAAAA-ATATTTTTGAGAAAAAGTTGAAGGTATTAATTTTTCTTGAAAATAAG-TTTTTTA
1 TTCTAAAAATATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGTTTTTTTA
*
22816871 AAAAATAT-TTTCGAAGAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAATT
66 AAAAATATGTTTCGAAGAAAAGTTGAAAGTATCAA-TTTTTTTAAAAATAATT
22816923 TTCTAAAA
1 TTCTAAAA
22816931 CTGATTTTTT
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
115 10 0.09
116 33 0.28
117 20 0.17
118 44 0.38
119 5 0.04
120 4 0.03
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.42
Consensus pattern (117 bp):
TTCTAAAAATATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAGTTTTTTTA
AAAAATATGTTTCGAAGAAAAGTTGAAAGTATCAATTTTTTTAAAAATAATT
Found at i:22818429 original size:10 final size:10
Alignment explanation
Indices: 22818386--22818435 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
22818376 TTTTTTCTTT
22818386 TGTATT-TTA
1 TGTATTATTA
*
22818395 TGTATTTTTA
1 TGTATTATTA
*
22818405 TAT-TTATTA
1 TGTATTATTA
22818414 T-TATTATTA
1 TGTATTATTA
*
22818423 TGTATTAATA
1 TGTATTATTA
22818433 TGT
1 TGT
22818436 GTATATCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 1 0.03
9 19 0.54
10 15 0.43
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (10 bp):
TGTATTATTA
Found at i:22818492 original size:15 final size:15
Alignment explanation
Indices: 22818474--22818522 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
22818464 TTTAGAATAG
22818474 ATTTATATGTATATT
1 ATTTATATGTATATT
22818489 ATTTATATAGT-TATAT
1 ATTTATAT-GTATAT-T
22818505 ATTTATTAT-TATATT
1 ATTTA-TATGTATATT
22818520 ATT
1 ATT
22818523 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 16 0.53
16 11 0.37
17 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (15 bp):
ATTTATATGTATATT
Found at i:22818502 original size:23 final size:22
Alignment explanation
Indices: 22818476--22818518 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
22818466 TAGAATAGAT
*
22818476 TTATATGTATATTATTTATATAG
1 TTATATATATATTA-TTATATAG
*
22818499 TTATATATTTATTATTATAT
1 TTATATATATATTATTATAT
22818519 TATTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TTATATATATATTATTATATAG
Found at i:22818532 original size:19 final size:20
Alignment explanation
Indices: 22818510--22818561 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
22818500 TATATATTTA
22818510 TTATTATATTA-TTATTTTT
1 TTATTATATTATTTATTTTT
*
22818529 TTA-TATTTTATTTATTTTT
1 TTATTATATTATTTATTTTT
22818548 TTATT-T-TTATTTAT
1 TTATTATATTATTTAT
22818562 CTAATTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.47
19 15 0.50
20 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTATATTATTTATTTTT
Found at i:22818559 original size:18 final size:19
Alignment explanation
Indices: 22818521--22818561 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
22818511 TATTATATTA
22818521 TTATTTTTTTATATTTTAT
1 TTATTTTTTTATATTTTAT
22818540 TTATTTTTTTAT-TTTTAT
1 TTATTTTTTTATATTTTAT
22818558 TTAT
1 TTAT
22818562 CTAATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTATTTTTTTATATTTTAT
Found at i:22818569 original size:18 final size:19
Alignment explanation
Indices: 22818529--22818571 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
22818519 TATTATTTTT
* **
22818529 TTATATTTTATTTATTTTT
1 TTATATTTTATTTATCTAA
22818548 TTAT-TTTTATTTATCTAA
1 TTATATTTTATTTATCTAA
22818566 TTATAT
1 TTATAT
22818572 ATCTGTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATATTTTATTTATCTAA
Found at i:22818592 original size:32 final size:28
Alignment explanation
Indices: 22818551--22818647 Score: 88
Period size: 32 Copynumber: 3.2 Consensus size: 28
22818541 TATTTTTTTA
*
22818551 TTTTTATTTATCTAATTATATATCTGTTATTT
1 TTTTTATTTATCT-ATAATATATC---TATTT
22818583 TTTTTATTTATCCTATAATATATCTATTT
1 TTTTTATTTAT-CTATAATATATCTATTT
*
22818612 TTTTTGATTTATCTGTTCTAAT-TATCTATTT
1 TTTTT-ATTTATC---TATAATATATCTATTT
22818643 TTTTT
1 TTTTT
22818648 TATATTTATT
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
29 11 0.19
30 6 0.10
31 14 0.24
32 25 0.43
33 2 0.03
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTTATTTATCTATAATATATCTATTT
Found at i:22819543 original size:18 final size:18
Alignment explanation
Indices: 22819505--22819558 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
22819495 CCGCTCCAGG
* *
22819505 TTTTTTTTTTTTTTGA-A
1 TTTTTTTTTTTTTTTATT
22819522 TTTTTTTTTTTTTTTATT
1 TTTTTTTTTTTTTTTATT
* * *
22819540 TTTTCTATTGTTTTTATT
1 TTTTTTTTTTTTTTTATT
22819558 T
1 T
22819559 ATTAGATTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.09, C:0.02, G:0.04, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTATT
Found at i:22819548 original size:9 final size:8
Alignment explanation
Indices: 22819505--22819558 Score: 56
Period size: 8 Copynumber: 6.4 Consensus size: 8
22819495 CCGCTCCAGG
22819505 TTTTTTT-
1 TTTTTTTA
22819512 TTTTTTTGAA
1 TTTTTTT--A
*
22819522 TTTTTTTT
1 TTTTTTTA
22819530 TTTTTTTA
1 TTTTTTTA
22819538 TTTTTTCTA
1 TTTTTT-TA
22819547 TTGTTTTTA
1 TT-TTTTTA
22819556 TTT
1 TTT
22819559 ATTAGATTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 7 0.17
8 14 0.35
9 8 0.20
10 11 0.28
ACGTcount: A:0.09, C:0.02, G:0.04, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:22819614 original size:22 final size:22
Alignment explanation
Indices: 22819579--22819653 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 22
22819569 ATTTATTTAA
*
22819579 TATTTTTATCTTTATCTTATTTT
1 TATTTTTGT-TTTATCTTATTTT
22819602 TATTTTTGTTTTA-CTT-TTTT
1 TATTTTTGTTTTATCTTATTTT
* * *
22819622 T-TTCTT-CTTTAT-TTACTTT
1 TATTTTTGTTTTATCTTATTTT
22819641 TA-TTTTGTTTTAT
1 TATTTTTGTTTTAT
22819654 ATTCTTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
18 6 0.14
19 11 0.26
20 10 0.24
21 3 0.07
22 4 0.10
23 8 0.19
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (22 bp):
TATTTTTGTTTTATCTTATTTT
Found at i:22819719 original size:12 final size:12
Alignment explanation
Indices: 22819702--22819726 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22819692 AAGTTGAAAG
22819702 TATCAATTTTCC
1 TATCAATTTTCC
22819714 TATCAATTTTCC
1 TATCAATTTTCC
22819726 T
1 T
22819727 TAGAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TATCAATTTTCC
Found at i:22819888 original size:58 final size:56
Alignment explanation
Indices: 22819714--22819897 Score: 296
Period size: 57 Copynumber: 3.2 Consensus size: 56
22819704 TCAATTTTCC
* *
22819714 TATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAG
1 TATCAATTTTCCTTA-AAATAAATTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAG
* *
22819771 TATCAATTTTTCTTAAAAATAAATTTCAAAAAAATATTTTTAGGAAAAAGTTGAAAG
1 TATCAATTTTCCTT-AAAATAAATTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAG
22819828 TATCAATTTTCCTTAAAAGTAAATTTCTAAAAAAATATTTTTGGGAAAAAGTTGAAAG
1 TATCAATTTTCCTTAAAA-TAAATTTC-AAAAAAATATTTTTGGGAAAAAGTTGAAAG
22819886 TATCAATTTTCC
1 TATCAATTTTCC
22819898 CTACACAAGA
Statistics
Matches: 118, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
56 4 0.03
57 72 0.61
58 42 0.36
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (56 bp):
TATCAATTTTCCTTAAAATAAATTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAG
Found at i:22823717 original size:9 final size:9
Alignment explanation
Indices: 22823702--22823757 Score: 78
Period size: 9 Copynumber: 6.0 Consensus size: 9
22823692 AACAATGGAT
22823702 GAAAAAAGAA
1 GAAAAAA-AA
22823712 -AAAAAAAA
1 GAAAAAAAA
22823720 GAAAAAAAAA
1 G-AAAAAAAA
22823730 GAAAAAAAAA
1 G-AAAAAAAA
22823740 GAAAAAAAA
1 GAAAAAAAA
22823749 GAAAAAAAA
1 GAAAAAAAA
22823758 AATGAGAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
8 2 0.05
9 23 0.52
10 19 0.43
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:22823759 original size:11 final size:10
Alignment explanation
Indices: 22823703--22823758 Score: 96
Period size: 10 Copynumber: 5.6 Consensus size: 10
22823693 ACAATGGATG
22823703 AAAAAAGAAAA
1 AAAAAAG-AAA
22823714 AAAAAAGAAA
1 AAAAAAGAAA
22823724 AAAAAAGAAA
1 AAAAAAGAAA
22823734 AAAAAAG-AA
1 AAAAAAGAAA
22823743 AAAAAAGAAA
1 AAAAAAGAAA
22823753 AAAAAA
1 AAAAAA
22823759 ATGAGAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
9 9 0.20
10 28 0.64
11 7 0.16
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:22823767 original size:20 final size:19
Alignment explanation
Indices: 22823700--22823775 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 19
22823690 TCAACAATGG
22823700 ATGAAAAAAGAAAAAAAAA
1 ATGAAAAAAGAAAAAAAAA
*
22823719 A-GAAAAAAAAAGAAAAAAA
1 ATGAAAAAAGAA-AAAAAAA
*
22823738 AAGAAAAAAAAGAAAAAAAAA
1 ATG--AAAAAAGAAAAAAAAA
*
22823759 ATGAGAAAATGAAAAAA
1 ATGA-AAAAAGAAAAAA
22823776 GGAGATCTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
18 9 0.19
19 10 0.21
20 12 0.25
21 9 0.19
22 8 0.17
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (19 bp):
ATGAAAAAAGAAAAAAAAA
Found at i:22823767 original size:21 final size:20
Alignment explanation
Indices: 22823702--22823767 Score: 89
Period size: 20 Copynumber: 3.2 Consensus size: 20
22823692 AACAATGGAT
22823702 GAAAAAAGAAAAAAAAAAGA
1 GAAAAAAGAAAAAAAAAAGA
*
22823722 -AAAAAAAAGAAAAAAAAAGA
1 GAAAAAAGA-AAAAAAAAAGA
*
22823742 AAAAAAAGAAAAAAAAAATGA
1 GAAAAAAGAAAAAAAAAA-GA
22823763 GAAAA
1 GAAAA
22823768 TGAAAAAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 7 0.17
20 20 0.50
21 13 0.32
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAAAAAAAAAAGA
Found at i:22823775 original size:1 final size:1
Alignment explanation
Indices: 22823703--22823759 Score: 69
Period size: 1 Copynumber: 57.0 Consensus size: 1
22823693 ACAATGGATG
* * * * *
22823703 AAAAAAGAAAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22823760 TGAGAAAATG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:22825157 original size:40 final size:38
Alignment explanation
Indices: 22825020--22825248 Score: 347
Period size: 40 Copynumber: 5.9 Consensus size: 38
22825010 TGTAGAGAGG
22825020 ACTTTTCAAAGT-GTGCCTCTGTTTAGAGGAGCAATTT
1 ACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCAATTT
22825057 ACTTTTCAAAAGTCGTGCCTCTGTTTAGAGGAGCAATTT
1 ACTTTTC-AAAGTCGTGCCTCTGTTTAGAGGAGCAATTT
*
22825096 ACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTT
1 ACTTTTCAAAGTC---GTGCCTCTGTTTAGAGGAGCAATTT
22825137 AC-TTTCAAAGTCGTGTTGCCTCTGTTTAGAGGAGCAATTT
1 ACTTTTCAAAGTC--G-TGCCTCTGTTTAGAGGAGCAATTT
22825177 ACTTTTCAAAGTCGTGCCTCTG-TTAGAGGAGCAATTT
1 ACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCAATTT
22825214 ACTTTTCCAAAGTCGTTGCCTCTGTTTAGAGGAGC
1 ACTTTT-CAAAGTCG-TGCCTCTGTTTAGAGGAGC
22825249 TTGTGGTAAA
Statistics
Matches: 178, Mismatches: 4, Indels: 17
0.89 0.02 0.09
Matches are distributed among these distances:
37 28 0.16
38 27 0.15
39 41 0.23
40 45 0.25
41 37 0.21
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (38 bp):
ACTTTTCAAAGTCGTGCCTCTGTTTAGAGGAGCAATTT
Found at i:22825277 original size:11 final size:10
Alignment explanation
Indices: 22825256--22825298 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
22825246 AGCTTGTGGT
22825256 AAAAAA-AAA
1 AAAAAACAAA
*
22825265 AAAACACAAA
1 AAAAAACAAA
22825275 AAAAAACAAA
1 AAAAAACAAA
22825285 AAAAATACAAA
1 AAAAA-ACAAA
22825296 AAA
1 AAA
22825299 CAAAAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 5 0.17
10 17 0.57
11 8 0.27
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:22825277 original size:12 final size:11
Alignment explanation
Indices: 22825259--22825303 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
22825249 TTGTGGTAAA
22825259 AAAAAAAAAAC
1 AAAAAAAAAAC
22825270 ACAAAAAAAAAC
1 A-AAAAAAAAAC
*
22825282 AAAAAAAATAC
1 AAAAAAAAAAC
22825293 AAAAAACAAAA
1 AAAAAA-AAAA
22825304 AATGACAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:22825285 original size:21 final size:20
Alignment explanation
Indices: 22825256--22825305 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
22825246 AGCTTGTGGT
22825256 AAAAAAAAAAAAACACAAAA
1 AAAAAAAAAAAAACACAAAA
*
22825276 AAAAACAAAAAAAATACAAAA
1 AAAAA-AAAAAAAACACAAAA
22825297 AACAAAAAA
1 AA-AAAAAA
22825306 TGACAATGTN
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 5 0.19
21 19 0.70
22 3 0.11
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAAAAACACAAAA
Found at i:22826472 original size:42 final size:42
Alignment explanation
Indices: 22826426--22826682 Score: 389
Period size: 42 Copynumber: 6.1 Consensus size: 42
22826416 ATGATTGTCA
22826426 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
22826468 AGGAGTAATTTAC-TTTTCAAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
22826510 AGGAGCAATTTACTTTTCCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAG-T-CGTGGTGCCTCTGTTTAG
*
22826552 ATGAGCAATTTAC--TTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
22826593 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
22826635 AGGAGCAATTTACTTTTCCAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
22826677 AGGAGC
1 AGGAGC
22826683 TTTGGTAAAA
Statistics
Matches: 196, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
39 3 0.02
40 4 0.02
41 34 0.17
42 144 0.73
43 9 0.05
44 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:22826589 original size:125 final size:124
Alignment explanation
Indices: 22826426--22826682 Score: 412
Period size: 125 Copynumber: 2.0 Consensus size: 124
22826416 ATGATTGTCA
*
22826426 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTAC-TTTTCAAAA
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTC-AAA
22826490 GTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTTCCGT-TGCCTCTGTTTAG
64 GTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-T-CGTATGCCTCTGTTTAG
*
22826552 ATGAGCAATTTAC-TTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG
*
22826616 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGATGCCTCTGTTTAG
65 TCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT-ATGCCTCTGTTTAG
22826677 AGGAGC
1 AGGAGC
22826683 TTTGGTAAAA
Statistics
Matches: 123, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
123 3 0.02
124 5 0.04
125 98 0.80
126 17 0.14
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (124 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGT
CATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTATGCCTCTGTTTAG
Found at i:22826710 original size:10 final size:10
Alignment explanation
Indices: 22826689--22826739 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
22826679 GAGCTTTGGT
22826689 AAAAAA-AAA
1 AAAAAACAAA
*
22826698 AAAACACAAA
1 AAAAAACAAA
22826708 AAAAAACAAA
1 AAAAAACAAA
* *
22826718 AAAAAA-TAC
1 AAAAAACAAA
22826727 AAAAAACAAA
1 AAAAAACAAA
22826737 AAA
1 AAA
22826740 TGACAATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 12 0.35
10 22 0.65
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:22826710 original size:12 final size:11
Alignment explanation
Indices: 22826692--22826737 Score: 65
Period size: 12 Copynumber: 3.9 Consensus size: 11
22826682 CTTTGGTAAA
22826692 AAAAAAAAAAC
1 AAAAAAAAAAC
22826703 ACAAAAAAAAAC
1 A-AAAAAAAAAC
22826715 AAAAAAAAATAC
1 AAAAAAAAA-AC
22826727 AAAAAACAAAA
1 AAAAAA-AAAA
22826738 AATGACAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.28
12 20 0.62
13 3 0.09
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:22826721 original size:22 final size:21
Alignment explanation
Indices: 22826689--22826739 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
22826679 GAGCTTTGGT
22826689 AAAAAAAAAAAAACACAAAAA
1 AAAAAAAAAAAAACACAAAAA
*
22826710 AAAACAAAAAAAAATACAAAAA
1 AAAA-AAAAAAAAACACAAAAA
*
22826732 ACAAAAAA
1 AAAAAAAA
22826740 TGACAATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAAAAACACAAAAA
Found at i:22826958 original size:10 final size:10
Alignment explanation
Indices: 22826915--22826964 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
22826905 TTTTTTCTTT
22826915 TGTATT-TTA
1 TGTATTATTA
*
22826924 TGTATTTTTA
1 TGTATTATTA
*
22826934 TAT-TTATTA
1 TGTATTATTA
22826943 T-TATTATTA
1 TGTATTATTA
*
22826952 TGTATTAATA
1 TGTATTATTA
22826962 TGT
1 TGT
22826965 GTATATCTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 1 0.03
9 19 0.54
10 15 0.43
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (10 bp):
TGTATTATTA
Found at i:22826996 original size:17 final size:17
Alignment explanation
Indices: 22826974--22827097 Score: 50
Period size: 17 Copynumber: 7.4 Consensus size: 17
22826964 TGTATATCTG
22826974 TATTTATTTATTTATTT
1 TATTTATTTATTTATTT
** **
22826991 TATTTA-GAATAGATTT
1 TATTTATTTATTTATTT
* *
22827007 ATATGTATATTATTTA-TA
1 -TATTTAT-TTATTTATTT
* *
22827025 TAGTTATATATTTA--T
1 TATTTATTTATTTATTT
22827040 TA-TTA-TTATTATATTAT
1 TATTTATTTATT-TATT-T
22827057 TA-TTA-TTATTATATTT
1 TATTTATTTATT-TATTT
22827073 TATTTATTT-TTGTATTTT
1 TATTTATTTATT-TA-TTT
22827091 TATTTAT
1 TATTTAT
22827098 CTAATTATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
13 4 0.05
14 5 0.06
15 2 0.02
16 15 0.19
17 39 0.48
18 13 0.16
19 3 0.04
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TATTTATTTATTTATTT
Found at i:22827031 original size:23 final size:20
Alignment explanation
Indices: 22827005--22827107 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
22826995 TAGAATAGAT
22827005 TTATATGTATATTATTTA-TA
1 TTATAT-TATATTATTTATTA
*
22827025 -TA-GTTATA-TATTTATTA
1 TTATATTATATTATTTATTA
22827042 TTATTATTATATTA-TTATTA
1 TTA-TATTATATTATTTATTA
* *
22827062 TTAT-TATATTTTATTTATTT
1 TTATAT-TATATTATTTATTA
*
22827082 TTGTATT-T-TTATTTATCTAA
1 TTATATTATATTATTTAT-T-A
22827102 TTATAT
1 TTATAT
22827108 ATCTGTTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
16 6 0.09
17 6 0.09
18 12 0.18
19 11 0.17
20 28 0.42
21 3 0.05
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (20 bp):
TTATATTATATTATTTATTA
Found at i:22827044 original size:3 final size:3
Alignment explanation
Indices: 22827036--22827076 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
22827026 AGTTATATAT
22827036 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA -TA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22827077 TATTTTTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22827079 original size:14 final size:15
Alignment explanation
Indices: 22827014--22827080 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 15
22827004 TTTATATGTA
22827014 TATTATTTA-TATAGT
1 TATTATTTATTATA-T
22827029 TATATATTTATTATTAT
1 TAT-TATTTATTA-TAT
22827046 TATTATATTATTATTAT
1 TATTAT-TTATTA-TAT
22827063 TATTATATT-TTAT-T
1 TATTAT-TTATTATAT
22827077 TATT
1 TATT
22827081 TTTGTATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.10
15 4 0.08
16 12 0.25
17 25 0.52
18 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (15 bp):
TATTATTTATTATAT
Found at i:22827122 original size:31 final size:29
Alignment explanation
Indices: 22827087--22827185 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 29
22827077 TATTTTTGTA
22827087 TTTTTATTTATCTAATTATATATCTGTTATT
1 TTTTTATTTATCT-ATTATATATCT-TTATT
* *
22827118 TTTTTATTTATCCTATAATATATCTAT-TT
1 TTTTTATTTAT-CTATTATATATCTTTATT
* *
22827147 TTTTTATTTATCTGTTCTAATTATCTATTATT
1 TTTTTATTTATCTATTAT-A-TATCT-TTATT
22827179 TTTTTAT
1 TTTTTAT
22827186 ATTTATTTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
28 4 0.07
29 14 0.25
30 6 0.11
31 22 0.39
32 11 0.19
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (29 bp):
TTTTTATTTATCTATTATATATCTTTATT
Found at i:22827721 original size:20 final size:19
Alignment explanation
Indices: 22827679--22827726 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
22827669 TCGATGAACC
* *
22827679 TCCGGTGAATTTTCTAGAT
1 TCCGGTGAATTTTCTAAAA
*
22827698 TCCGGTGACTTTTTCTAAAA
1 TCCGGTGA-ATTTTCTAAAA
*
22827718 TCCGATGAA
1 TCCGGTGAA
22827727 AATTCACCGG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (19 bp):
TCCGGTGAATTTTCTAAAA
Found at i:22828106 original size:21 final size:19
Alignment explanation
Indices: 22828080--22828118 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
22828070 TTATCTTATT
22828080 TTTATTTTTGTTTTACTTTTC
1 TTTATTTTT-TTTT-CTTTTC
22828101 TTTATTTTTTTTTCTTTT
1 TTTATTTTTTTTTCTTTT
22828119 TTATTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTATTTTTTTTTCTTTTC
Found at i:22828106 original size:27 final size:27
Alignment explanation
Indices: 22828062--22828140 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 27
22828052 TATTTAATAT
22828062 TTTTATCTTTATC-TTATTTTTATTTT-TG
1 TTTTA-CTTT-TCTTTATTTTT-TTTTCTG
*
22828090 TTTTACTTTTCTTTATTTTTTTTTCTT
1 TTTTACTTTTCTTTATTTTTTTTTCTG
* *
22828117 TTTTA-TTTACTTTTATTTTGTTTT
1 TTTTACTTTTC-TTTATTTTTTTTT
22828141 ATATTCTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
26 10 0.22
27 30 0.67
28 5 0.11
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (27 bp):
TTTTACTTTTCTTTATTTTTTTTTCTG
Found at i:22828120 original size:11 final size:11
Alignment explanation
Indices: 22828078--22828135 Score: 52
Period size: 10 Copynumber: 5.4 Consensus size: 11
22828068 CTTTATCTTA
22828078 TTTTTA-TTTT
1 TTTTTACTTTT
22828088 TGTTTTAC-TTT
1 T-TTTTACTTTT
*
22828099 TCTTTA-TTTT
1 TTTTTACTTTT
22828109 TTTTT-CTTTT
1 TTTTTACTTTT
22828119 TTATTTACTTTT
1 TT-TTTACTTTT
22828131 ATTTT
1 -TTTT
22828136 GTTTTATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
10 18 0.46
11 12 0.31
12 7 0.18
13 2 0.05
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTACTTTT
Found at i:22828120 original size:21 final size:21
Alignment explanation
Indices: 22828080--22828145 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
22828070 TTATCTTATT
*
22828080 TTTATTTTTGTTTTAC--TTTTC
1 TTTATTTTT-TTTT-CTTTTTTA
22828101 TTTATTTTTTTTTCTTTTTTA
1 TTTATTTTTTTTTCTTTTTTA
* * *
22828122 TTTACTTTTATTTTGTTTTATA
1 TTTA-TTTTTTTTTCTTTTTTA
22828144 TT
1 TT
22828146 CTTTAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 17 0.45
22 16 0.42
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTATTTTTTTTTCTTTTTTA
Found at i:22828141 original size:10 final size:9
Alignment explanation
Indices: 22828061--22828142 Score: 51
Period size: 10 Copynumber: 8.8 Consensus size: 9
22828051 TTATTTAATA
22828061 TTTTTATCTT
1 TTTTTAT-TT
*
22828071 TATCTTATTT
1 T-TTTTATTT
*
22828081 TTATT-TTT
1 TTTTTATTT
*
22828089 GTTTTACTTT
1 TTTTTA-TTT
*
22828099 TCTTTATTT
1 TTTTTATTT
*
22828108 TTTTT-TCT
1 TTTTTATTT
22828116 TTTTTATTT
1 TTTTTATTT
*
22828125 ACTTTTATTT
1 -TTTTTATTT
22828135 TGTTTTAT
1 T-TTTTAT
22828143 ATTCTTTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
8 13 0.24
9 12 0.22
10 25 0.45
11 5 0.09
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTTATTT
Found at i:22828211 original size:57 final size:57
Alignment explanation
Indices: 22828150--22828488 Score: 545
Period size: 57 Copynumber: 5.9 Consensus size: 57
22828140 TATATTCTTT
** ** * *
22828150 AAATAAAAATCAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTAG
1 AAATAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
22828207 AAATAAATTTTC-AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAA-TTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
22828264 AAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAATAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* *
22828321 AAATAAATTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
22828378 AAATAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 AAATAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
*
22828435 AAGTAAATTTCTAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAATAAATTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
22828489 CTACACAAGA
Statistics
Matches: 264, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
56 4 0.02
57 216 0.82
58 44 0.17
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (57 bp):
AAATAAATTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:22828534 original size:6 final size:6
Alignment explanation
Indices: 22828523--22828551 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22828513 ATTCCTTTCT
22828523 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
22828552 TCTTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:22829041 original size:18 final size:18
Alignment explanation
Indices: 22829020--22829054 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22829010 TTGAATTAAC
*
22829020 CATGACTAAATAATTGAT
1 CATGACAAAATAATTGAT
*
22829038 CATGACAAAATTATTGA
1 CATGACAAAATAATTGA
22829055 CAAAAGGCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (18 bp):
CATGACAAAATAATTGAT
Found at i:22833819 original size:59 final size:60
Alignment explanation
Indices: 22833632--22833978 Score: 488
Period size: 59 Copynumber: 5.7 Consensus size: 60
22833622 TTTTGTGTAG
* * *
22833632 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTGATTTTCAA
* *
22833690 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-A-TTTTTTTTTTGAAAATTTGATTTTCAA
*
22833753 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTGATTTTCAA
*
22833812 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-TATTTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAA-TTTGATTTTCAA
* * *
22833871 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-AT-T-TTTTTTTTGAAAATTTGATTTTCAA
22833935 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTT
22833979 TTGAAATTAT
Statistics
Matches: 260, Mismatches: 16, Indels: 23
0.87 0.05 0.08
Matches are distributed among these distances:
57 13 0.05
58 34 0.13
59 72 0.28
60 18 0.07
61 12 0.05
62 23 0.09
63 38 0.15
64 39 0.15
65 11 0.04
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.46
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTGATTTTCAA
Found at i:22833851 original size:122 final size:122
Alignment explanation
Indices: 22833632--22833984 Score: 529
Period size: 122 Copynumber: 2.9 Consensus size: 122
22833622 TTTTGTGTAG
* *
22833632 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTATTTTTAAGGAAAA
22833696 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTTGAAACTTTGATTTCCAA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTTGAAACTTTGATTTCCAA
22833753 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTATTTTTAAGGAAAA
* *
22833818 TTGATACTTTCAACTTTTCCTC-AAAATA----TTTTTTTGAAAATTTTGATTTTCAA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTTG-AAACTTTGATTTCCAA
* * **
22833871 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATATATTTTTTTTGAAACTTTGATTTCCAAG
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-AT-T-TTTTTTTTGAAAATTT-ATTTTTAAG
*
22833936 GAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTGAAA
61 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTTGAAA
22833985 TTATTATTTT
Statistics
Matches: 211, Mismatches: 9, Indels: 18
0.89 0.04 0.08
Matches are distributed among these distances:
117 8 0.04
118 41 0.19
119 4 0.02
120 2 0.01
121 39 0.18
122 67 0.32
123 34 0.16
124 5 0.02
127 3 0.01
128 8 0.04
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (122 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGAAAATTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTTGAAACTTTGATTTCCAA
Found at i:22836156 original size:23 final size:23
Alignment explanation
Indices: 22836114--22836189 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
22836104 AGAAAGAAAA
*
22836114 AAAAAAATAAATCATAAAATGAA-
1 AAAAATATAAAT-ATAAAATGAAC
* *
22836137 AAAAATGATAAATATGAAATAAAC
1 AAAAAT-ATAAATATAAAATGAAC
*
22836161 AAAAATATAAA-ATAAAAATGAAT
1 AAAAATATAAATAT-AAAATGAAC
22836184 AAAAAT
1 AAAAAT
22836190 CCCTGCAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 2 0.05
23 30 0.68
24 12 0.27
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (23 bp):
AAAAATATAAATATAAAATGAAC
Found at i:22838281 original size:15 final size:16
Alignment explanation
Indices: 22838261--22838293 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
22838251 CGAATCTGAC
*
22838261 TTTCTTTTCT-TTTCT
1 TTTCTTTTATATTTCT
22838276 TTTCTTTTATATTTCT
1 TTTCTTTTATATTTCT
22838292 TT
1 TT
22838294 ATGGGATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTTATATTTCT
Found at i:22840506 original size:2 final size:2
Alignment explanation
Indices: 22840499--22840527 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
22840489 GGTAAGATCA
22840499 TC TC TC TC TC TC TC TC TC -C TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22840528 CCTGAAGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:22842888 original size:31 final size:31
Alignment explanation
Indices: 22842847--22842908 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
22842837 ATATTAAAAA
* * *
22842847 AATGTATAATTTGCATAATGAACTTTTAAAT
1 AATGTATAATTTACACAATGAACTTTCAAAT
* *
22842878 AATGTGTAATTTACACATTGAACTTTCAAAT
1 AATGTATAATTTACACAATGAACTTTCAAAT
22842909 TATATACCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (31 bp):
AATGTATAATTTACACAATGAACTTTCAAAT
Found at i:22843219 original size:20 final size:22
Alignment explanation
Indices: 22843196--22843242 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
22843186 TAAATACCAT
*
22843196 ATATGT-GAA-TTAAATTAATA
1 ATATGTAGAATTTAAATTAAAA
*
22843216 ATAT-TAGAATTTAGATTAAAA
1 ATATGTAGAATTTAAATTAAAA
22843237 ATATGT
1 ATATGT
22843243 TATTTGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.05
20 7 0.32
21 13 0.59
22 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
ATATGTAGAATTTAAATTAAAA
Found at i:22843577 original size:2 final size:2
Alignment explanation
Indices: 22843570--22843595 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22843560 AACAAGATAA
22843570 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22843596 TTCAAGGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22844034 original size:12 final size:12
Alignment explanation
Indices: 22844017--22844059 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
22844007 TACGATATAA
22844017 TAATTAATTATT
1 TAATTAATTATT
22844029 TAATTAATTATAT
1 TAATTAATTAT-T
*
22844042 GAATGTAA-TATT
1 TAAT-TAATTATT
22844054 TAATTA
1 TAATTA
22844060 TGATTATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 2 0.07
12 15 0.56
13 7 0.26
14 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (12 bp):
TAATTAATTATT
Found at i:22846462 original size:2 final size:2
Alignment explanation
Indices: 22846422--22846447 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22846412 TAAATACTTC
22846422 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22846448 CCTCTTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22847356 original size:2 final size:2
Alignment explanation
Indices: 22847349--22847389 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
22847339 TAAAAGGGGT
22847349 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22847390 TGTTTAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22849424 original size:2 final size:2
Alignment explanation
Indices: 22849412--22849443 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
22849402 TTAAAGTAAG
22849412 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22849444 AAAGGAGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22849481 original size:22 final size:22
Alignment explanation
Indices: 22849453--22849496 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22849443 AAAAGGAGCC
22849453 TACAAGTAAGAGATTTAGAGAG
1 TACAAGTAAGAGATTTAGAGAG
22849475 TACAAGTAAGAGATTTAGAGAG
1 TACAAGTAAGAGATTTAGAGAG
22849497 ATTATTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.27, T:0.23
Consensus pattern (22 bp):
TACAAGTAAGAGATTTAGAGAG
Found at i:22864481 original size:2 final size:2
Alignment explanation
Indices: 22864474--22864509 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
22864464 ACTTTGGGAC
22864474 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22864510 CACTTACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22865562 original size:52 final size:52
Alignment explanation
Indices: 22865474--22865630 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 52
22865464 TGGACAAGAA
* * * * * *
22865474 GACTTGCAAAAGAAGAATTC-CAAGAGAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAAA-AGGATTCTTAATAGGCAAGTTT
** *
22865526 GACTTGTAAGAGAAGAATTCTAAAAAGAAATGGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAAAAGGATTCTTAATAGGCAAGTTT
* * * *
22865578 GACTTACATGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAAAAGGATTCTTAATAGGCAAGTTT
22865630 G
1 G
22865631 TATGGTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 83 0.92
53 7 0.08
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAAAAGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:22866471 original size:11 final size:11
Alignment explanation
Indices: 22866455--22866483 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
22866445 AATCCCATAA
22866455 GAGATTTGTTT
1 GAGATTTGTTT
22866466 GAGATTTGTTT
1 GAGATTTGTTT
22866477 GAGATTT
1 GAGATTT
22866484 ATCAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:22866597 original size:52 final size:51
Alignment explanation
Indices: 22866510--22866666 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 51
22866500 TGGACAAGAA
* * *
22866510 GACTTGCAAAAGAAGAATTCCAAGAGAA-AAAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAA-A-AAGAAAGGATTCTTAATAGGCAAGTTT
*
22866562 GACTTGTAAGAGAAGAATTCTAAAAAGAAATGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGAAA-GGATTCTTAATAGGCAAGTTT
* * * * * *
22866614 GACTTACAGGAGAAGAATTCTAAGAGGAGAAGGATTCTTAATGGGCAAATTT
1 GACTTGCAAGAGAAGAATTCTAAAAAGA-AAGGATTCTTAATAGGCAAGTTT
22866666 G
1 G
22866667 TATGGTTATA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 83 0.91
53 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAAAAGAAAGGATTCTTAATAGGCAAGTTT
Found at i:22868475 original size:21 final size:22
Alignment explanation
Indices: 22868434--22868477 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22868424 CAAGTTTTTC
* *
22868434 TTAAATGATGATTTCAAAATAA
1 TTAAATGAAGAATTCAAAATAA
22868456 TTAAATGAAGAATT-AAAATAA
1 TTAAATGAAGAATTCAAAATAA
22868477 T
1 T
22868478 AAGCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (22 bp):
TTAAATGAAGAATTCAAAATAA
Found at i:22870210 original size:2 final size:2
Alignment explanation
Indices: 22870203--22870229 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22870193 AAGCTTACAT
22870203 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
22870230 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:22870234 original size:2 final size:2
Alignment explanation
Indices: 22870229--22870254 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22870219 ACACACACAC
22870229 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
22870255 GTAAAACTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22874992 original size:153 final size:153
Alignment explanation
Indices: 22874713--22875018 Score: 470
Period size: 153 Copynumber: 2.0 Consensus size: 153
22874703 ACTTCAAAGT
* *
22874713 TTATTTTATATCGACAAAGGAAACTAATTCACTTTGTTTCTTCAGGGGAATTATGGACATGGAAG
1 TTATTTTATATCGACAAAGGAAACTAATCCACTTTGTTTCTTCAGGGGAATTATGAACATGGAAG
* * *
22874778 TCCAAAGAGCCATCATAAGTCATTAATCTTCAGTCAAGTTTCTTCATTCCATCATATTCATCATT
66 TCCAAAGAGCCATCATAAGTCATTAAACTTCAATCAAGTTTCTTCATTCCATCATACTCATCATT
22874843 TCATTATCAATTTCATTCGACCA
131 TCATTATCAATTTCATTCGACCA
* * *
22874866 TTATTTTATATTGACAAAGGAAACTAATCCACTTTGTTTCTTTAGGGGAATTATGAACCTGGAAG
1 TTATTTTATATCGACAAAGGAAACTAATCCACTTTGTTTCTTCAGGGGAATTATGAACATGGAAG
* ** * *
22874931 TCGAAAGAGCTGTCATAAGTCATTAAACTTCAAT-AAGATTTCTTCATTCCTTTATACTCATCAT
66 TCCAAAGAGCCATCATAAGTCATTAAACTTCAATCAAG-TTTCTTCATTCCATCATACTCATCAT
*
22874995 TTCATTATCCATTTCATTCGACCA
130 TTCATTATCAATTTCATTCGACCA
22875019 GACTTTCCAA
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
152 3 0.02
153 135 0.98
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (153 bp):
TTATTTTATATCGACAAAGGAAACTAATCCACTTTGTTTCTTCAGGGGAATTATGAACATGGAAG
TCCAAAGAGCCATCATAAGTCATTAAACTTCAATCAAGTTTCTTCATTCCATCATACTCATCATT
TCATTATCAATTTCATTCGACCA
Found at i:22876188 original size:13 final size:13
Alignment explanation
Indices: 22876170--22876208 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
22876160 TCCTATGTAT
22876170 TTATTATTTATTA
1 TTATTATTTATTA
22876183 TTATTATTTATTA
1 TTATTATTTATTA
*
22876196 ATATATATTTATT
1 TTAT-TATTTATT
22876209 TTTTTCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:22876280 original size:24 final size:23
Alignment explanation
Indices: 22876250--22876368 Score: 108
Period size: 22 Copynumber: 5.3 Consensus size: 23
22876240 TTCGTATGTA
*
22876250 TTTTTATTTATCTAATTATATA-
1 TTTTTATTTATCTTATTATATAT
*
22876272 --TCTATTTATCTGTTATTAT-TAT
1 TTTTTATTTATC--TTATTATATAT
*
22876294 TTTTTATTTATCTTATAATATTAT
1 TTTTTATTTATCTTATTATA-TAT
22876318 TTTTTATTTATCTTATTAT-TAT
1 TTTTTATTTATCTTATTATATAT
* *
22876340 TTTTCTAATTATC-TATTA-ATTT
1 TTTT-TATTTATCTTATTATATAT
22876362 TTTTTAT
1 TTTTTAT
22876369 GTGATTTTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
20 9 0.11
21 4 0.05
22 30 0.38
23 7 0.09
24 30 0.38
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.67
Consensus pattern (23 bp):
TTTTTATTTATCTTATTATATAT
Found at i:22876300 original size:44 final size:45
Alignment explanation
Indices: 22876250--22876355 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 45
22876240 TTCGTATGTA
*
22876250 TTTTTATTTATCTA-ATTA-TA-TATCTATTTATCTGTTATTATTAT
1 TTTTTATTTATCTATAATATTATTATCTATTTATC--TTATTATTAT
* *
22876294 TTTTTATTTATCTTATAATATTATTTTTTATTTATCTTATTATTAT
1 TTTTTATTTATC-TATAATATTATTATCTATTTATCTTATTATTAT
*
22876340 TTTTCTAATTATCTAT
1 TTTT-TATTTATCTAT
22876356 TAATTTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
44 12 0.23
45 2 0.04
46 20 0.38
47 9 0.17
48 10 0.19
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (45 bp):
TTTTTATTTATCTATAATATTATTATCTATTTATCTTATTATTAT
Found at i:22876328 original size:19 final size:21
Alignment explanation
Indices: 22876300--22876342 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
22876290 TTATTTTTTA
22876300 TTTATCTTATAATATTATT-T
1 TTTATCTTATAATATTATTAT
**
22876320 TTTAT-TTATCTTATTATTAT
1 TTTATCTTATAATATTATTAT
22876340 TTT
1 TTT
22876343 TCTAATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATCTTATAATATTATTAT
Found at i:22876380 original size:46 final size:46
Alignment explanation
Indices: 22876284--22876380 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 46
22876274 TATTTATCTG
* *
22876284 TTATTATTATTTTTTATTTATCTTATAATATTATTTTTTATTTATC
1 TTATTATTATTTTTTAATTATCTTATAATATTATTTTTTATTGATC
*
22876330 TTATTATTATTTTTCTAATTATC-TATTA-ATT-TTTTTTATGTGAT-
1 TTATTATTATTTTT-TAATTATCTTATAATATTATTTTTTAT-TGATC
22876374 TT-TTATT
1 TTATTATT
22876381 TTGGAAGGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
43 5 0.11
44 10 0.22
45 6 0.13
46 18 0.39
47 7 0.15
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (46 bp):
TTATTATTATTTTTTAATTATCTTATAATATTATTTTTTATTGATC
Found at i:22876713 original size:23 final size:23
Alignment explanation
Indices: 22876663--22876713 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
22876653 GAATTAGCAG
* * *
22876663 AAATTTTTTTGAAGATTTTTGGT
1 AAATTTTTTTGAAAATTTCTGGA
*
22876686 GAATTTTTTTGAAAATTTCTGGA
1 AAATTTTTTTGAAAATTTCTGGA
22876709 AAATT
1 AAATT
22876714 CCAGATTCTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (23 bp):
AAATTTTTTTGAAAATTTCTGGA
Found at i:22877301 original size:5 final size:5
Alignment explanation
Indices: 22877293--22877367 Score: 80
Period size: 5 Copynumber: 14.4 Consensus size: 5
22877283 TTGTTTTATT
* *
22877293 TTTTA TTTTTG TTTTA CTTTT- CTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
22877344 TTTTCA CTTTTA TTTTG TTTTA TT
1 TTTT-A -TTTTA TTTTA TTTTA TT
22877368 ATTTATTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
4 3 0.05
5 42 0.71
6 10 0.17
7 4 0.07
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:22877463 original size:59 final size:58
Alignment explanation
Indices: 22877394--22877854 Score: 520
Period size: 59 Copynumber: 7.7 Consensus size: 58
22877384 TAAAAATAAA
* *
22877394 AAAAATAATATTTTTGGAGAAAAGTTGAAAATATCAATTTTCCTTTAAAATCAAAATTTC
1 AAAAA-AATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
* *
22877454 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT--AAATTT-
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
* *
22877510 AAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTC
1 AAAAAAATA---TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
* * *
22877572 AAAAAAAAAAAACATTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 ---AAAAAAATA-TTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
* *
22877635 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
*** *
22877693 AAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTC
1 AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
* *
22877752 AAAAAAAAAAAAACATTTTTGGGAAAAAGTTGAAAATATCAATTTTCCTTAAAAAT--AAATTTC
1 ------AAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
*
22877815 CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTT
22877855 TTCTGCACAA
Statistics
Matches: 348, Mismatches: 30, Indels: 49
0.81 0.07 0.11
Matches are distributed among these distances:
56 7 0.02
57 40 0.11
58 55 0.16
59 119 0.34
60 16 0.05
61 5 0.01
62 2 0.01
63 50 0.14
64 2 0.01
65 52 0.15
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
Found at i:22877745 original size:180 final size:182
Alignment explanation
Indices: 22877391--22877854 Score: 801
Period size: 181 Copynumber: 2.6 Consensus size: 182
22877381 AAATAAAAAT
* * * *
22877391 AAAAAAAATAATATTTTTGGAGAAAAGTTGAAAATATCAATTTTCCTTTAAAATCAAAATTTCCA
1 AAAAAAAAAAACATTTTGGGA-AAAAGTTGAAAATATCAATTTTCCTTAAAAATCAAAATTTCCA
*
22877456 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTAAAAAAAAAGG
65 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAGG
22877521 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTC-A
130 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCAA
* *
22877573 AAAAAAAAAAACATTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAA
1 AAAAAAAAAAACATTTTGGGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATCAAAATTTCCAA
**
22877638 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGGG
66 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAGGG
22877703 -TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCAA
131 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCAA
22877754 AAAAAAAAAAACATTTTTGGGAAAAAGTTGAAAATATCAATTTTCCTTAAAAAT--AAATTTCCA
1 AAAAAAAAAAACA-TTTTGGGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATCAAAATTTCCA
22877817 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
65 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
22877855 TTCTGCACAA
Statistics
Matches: 270, Mismatches: 10, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
180 96 0.36
181 118 0.44
182 56 0.21
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (182 bp):
AAAAAAAAAAACATTTTGGGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATCAAAATTTCCAA
AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAGGG
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCAA
Found at i:22878884 original size:22 final size:24
Alignment explanation
Indices: 22878856--22878902 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
22878846 TATTATAAAT
22878856 AAATTTT-TTATTAAA-TAA-TAGA
1 AAATTTTATT-TTAAATTAATTAGA
22878878 AAATTTTATTTTAAATTAATTAGA
1 AAATTTTATTTTAAATTAATTAGA
22878902 A
1 A
22878903 CTAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 12 0.55
23 5 0.23
24 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
AAATTTTATTTTAAATTAATTAGA
Found at i:22890267 original size:21 final size:21
Alignment explanation
Indices: 22890241--22890291 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
22890231 ACCGATTAAA
22890241 AAAATGTATTAAGAAAGCTTT
1 AAAATGTATTAAGAAAGCTTT
*
22890262 AAAATGAATTAAGAAAGCTTT
1 AAAATGTATTAAGAAAGCTTT
*
22890283 AAATTGTAT
1 AAAATGTAT
22890292 CAAACTAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (21 bp):
AAAATGTATTAAGAAAGCTTT
Found at i:22896938 original size:15 final size:14
Alignment explanation
Indices: 22896907--22896945 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
22896897 TTATTCTTTT
*
22896907 AAAACAATAAAACA-
1 AAAAC-ATAAATCAC
22896921 AAAACATAAATCAC
1 AAAACATAAATCAC
22896935 AAAACATAAAT
1 AAAACATAAAT
22896946 AGTACCGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.72, C:0.15, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACATAAATCAC
Found at i:22897986 original size:23 final size:24
Alignment explanation
Indices: 22897886--22897976 Score: 73
Period size: 24 Copynumber: 4.0 Consensus size: 24
22897876 TTATGACTTT
22897886 TAAAAA-A-TAAATAAATATATTA
1 TAAAAATATTAAATAAATATATTA
* ***
22897908 TGAAAATATTAAATAAATCGGTTA
1 TAAAAATATTAAATAAATATATTA
** ** *
22897932 TTCATGTGTT-AATAAATATATTA
1 TAAAAATATTAAATAAATATATTA
22897955 TAAAAATATTAAATAAAT-TATT
1 TAAAAATATTAAATAAATATATT
22897977 TTATAGATAT
Statistics
Matches: 49, Mismatches: 17, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
22 5 0.10
23 20 0.41
24 24 0.49
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.38
Consensus pattern (24 bp):
TAAAAATATTAAATAAATATATTA
Found at i:22899953 original size:16 final size:17
Alignment explanation
Indices: 22899923--22899960 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
22899913 CTATTAATTT
22899923 TAATTTCATCATTAT-A
1 TAATTTCATCATTATAA
**
22899939 TAATTTCATTGTTATAA
1 TAATTTCATCATTATAA
22899956 TAATT
1 TAATT
22899961 AATTTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (17 bp):
TAATTTCATCATTATAA
Found at i:22900399 original size:15 final size:16
Alignment explanation
Indices: 22900379--22900408 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22900369 TTATTTTATA
22900379 AAAATTAA-AAAAAAG
1 AAAATTAATAAAAAAG
22900394 AAAATTAATAAAAAA
1 AAAATTAATAAAAAA
22900409 TATATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAATTAATAAAAAAG
Found at i:22900535 original size:24 final size:25
Alignment explanation
Indices: 22900508--22900556 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
22900498 TAATTTGAAC
22900508 CAAA-CAAAAATATTT-ATTTCAAAT
1 CAAACCAAAAAT-TTTAATTTCAAAT
*
22900532 CAAACCAAACATTTTAATTTCAAAT
1 CAAACCAAAAATTTTAATTTCAAAT
22900557 TGATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (25 bp):
CAAACCAAAAATTTTAATTTCAAAT
Found at i:22903162 original size:3 final size:3
Alignment explanation
Indices: 22903154--22903199 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
22903144 TTTCCAGTAA
22903154 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22903200 TTCAGTTAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22905210 original size:3 final size:3
Alignment explanation
Indices: 22905202--22905236 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22905192 TAGTTTAGAG
22905202 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22905237 TAAAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22911239 original size:14 final size:15
Alignment explanation
Indices: 22911204--22911245 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
22911194 TTAAATAATA
*
22911204 AATAATAAATAAAAT
1 AATAATAACTAAAAT
*
22911219 AACAATAACT-AAAT
1 AATAATAACTAAAAT
22911233 AATAATAAC-AAAA
1 AATAATAACTAAAA
22911246 AATGATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAATAACTAAAAT
Found at i:22911292 original size:5 final size:5
Alignment explanation
Indices: 22911282--22911313 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
22911272 TTCTTTAAAT
22911282 AATAA AATAA AATAA AATAA AATAA TAATAA A
1 AATAA AATAA AATAA AATAA AATAA -AATAA A
22911314 GTAGAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:22911302 original size:15 final size:16
Alignment explanation
Indices: 22911282--22911323 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
22911272 TTCTTTAAAT
22911282 AATAAAATAA-AATAA
1 AATAAAATAATAATAA
22911297 AATAAAATAATAATAA
1 AATAAAATAATAATAA
* *
22911313 AGTAGAATAAT
1 AATAAAATAAT
22911324 GACCAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (16 bp):
AATAAAATAATAATAA
Found at i:22911365 original size:15 final size:16
Alignment explanation
Indices: 22911347--22911387 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
22911337 TAAAAAAACA
*
22911347 ATAATAAAA-AAAGTG
1 ATAATAAAATAAAATG
22911362 ATAATGAAAATAAAATG
1 ATAAT-AAAATAAAATG
22911379 ATAA-AAAAT
1 ATAATAAAAT
22911388 TTTCCCTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 4 0.17
17 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (16 bp):
ATAATAAAATAAAATG
Found at i:22911366 original size:43 final size:43
Alignment explanation
Indices: 22911279--22911386 Score: 104
Period size: 43 Copynumber: 2.6 Consensus size: 43
22911269 TTCTTCTTTA
* *
22911279 AATAAT-AAAAT-AAA--ATAAAATAAAATAATAATAAAGTAG
1 AATAATGAAAATAAAATGATAAAAAAAAATAATAAAAAAGTAG
* *
22911318 AATAATGACCAA-AAAATGCTAAAAAAACAATAATAAAAAAAGT-G
1 AATAATGA-AAATAAAATGATAAAAAAA-AATAAT-AAAAAAGTAG
22911362 -ATAATGAAAATAAAATGATAAAAAA
1 AATAATGAAAATAAAATGATAAAAAA
22911387 TTTTCCCTGC
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
39 6 0.11
40 1 0.02
41 5 0.09
42 2 0.04
43 27 0.49
44 7 0.13
45 7 0.13
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.19
Consensus pattern (43 bp):
AATAATGAAAATAAAATGATAAAAAAAAATAATAAAAAAGTAG
Found at i:22911694 original size:21 final size:21
Alignment explanation
Indices: 22911668--22911738 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
22911658 CTTTAAAACC
*
22911668 TTAAAACACGAAACCTTAAAA
1 TTAAAACACAAAACCTTAAAA
*
22911689 TTAAAACTA-TAAACCTCT-AAA
1 TTAAAAC-ACAAAACCT-TAAAA
22911710 TCCTAAAAC-CAAAACCTTAAAA
1 T--TAAAACACAAAACCTTAAAA
*
22911732 TCAAAAC
1 TTAAAAC
22911739 TTTAAACTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
20 5 0.12
21 18 0.44
22 12 0.29
23 6 0.15
ACGTcount: A:0.55, C:0.23, G:0.01, T:0.21
Consensus pattern (21 bp):
TTAAAACACAAAACCTTAAAA
Found at i:22911736 original size:14 final size:14
Alignment explanation
Indices: 22911662--22911744 Score: 55
Period size: 14 Copynumber: 5.8 Consensus size: 14
22911652 CTAAATCTTT
22911662 AAAACCTTAAAA-C
1 AAAACCTTAAAATC
*
22911675 ACGAAACCTTAAAATT
1 A--AAACCTTAAAATC
*
22911691 AAAA-CTATAAACCTC
1 AAAACCT-TAAA-ATC
* *
22911706 TAAATCC-TAAAACC
1 -AAAACCTTAAAATC
22911720 AAAACCTTAAAATC
1 AAAACCTTAAAATC
*
22911734 AAAACTTTAAA
1 AAAACCTTAAA
22911745 CTTTCAAACC
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
13 8 0.15
14 24 0.45
15 16 0.30
16 4 0.08
17 1 0.02
ACGTcount: A:0.55, C:0.22, G:0.01, T:0.22
Consensus pattern (14 bp):
AAAACCTTAAAATC
Found at i:22911836 original size:30 final size:30
Alignment explanation
Indices: 22911780--22911842 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
22911770 CTAAAATCCT
* *
22911780 AATTCCAAAACCTTTCAAACCTAAACCCAA
1 AATTCCAAAACCTCTCAAACCAAAACCCAA
* *
22911810 AATTTCAAAACC-CTCAAAGCCAAAACCCTA
1 AATTCCAAAACCTCTCAAA-CCAAAACCCAA
22911840 AAT
1 AAT
22911843 AAAAAATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.19
Consensus pattern (30 bp):
AATTCCAAAACCTCTCAAACCAAAACCCAA
Found at i:22913487 original size:16 final size:16
Alignment explanation
Indices: 22913468--22913534 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
22913458 ATAATGGATG
22913468 AAGAAAAAAATGAAAA
1 AAGAAAAAAATGAAAA
* *
22913484 AAGAAGAAAACGAAAA
1 AAGAAAAAAATGAAAA
* *
22913500 AGGTGAAAAAAT-AAAA
1 AAG-AAAAAAATGAAAA
* *
22913516 AATAAAAAATGTGAAAA
1 AAGAAAAAA-ATGAAAA
22913533 AA
1 AA
22913535 ATTAAAAAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
15 5 0.13
16 22 0.58
17 11 0.29
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (16 bp):
AAGAAAAAAATGAAAA
Found at i:22913506 original size:25 final size:24
Alignment explanation
Indices: 22913478--22913534 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
22913468 AAGAAAAAAA
*
22913478 TGAAAAAAGAAGAAAACGAAAAAGG
1 TGAAAAAAGAA-AAAACAAAAAAGG
* * *
22913503 TGAAAAAATAAAAAATAAAAAATG
1 TGAAAAAAGAAAAAACAAAAAAGG
22913527 TGAAAAAA
1 TGAAAAAA
22913535 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.72, C:0.02, G:0.16, T:0.11
Consensus pattern (24 bp):
TGAAAAAAGAAAAAACAAAAAAGG
Found at i:22913517 original size:24 final size:24
Alignment explanation
Indices: 22913478--22913543 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
22913468 AAGAAAAAAA
* *
22913478 TGAAAAAAGAAGAAAACGAAAAAGG
1 TGAAAAAATAA-AAAACAAAAAAGG
* *
22913503 TGAAAAAATAAAAAATAAAAAATG
1 TGAAAAAATAAAAAACAAAAAAGG
22913527 TGAAAAAAATTAAAAAA
1 TG-AAAAAA-TAAAAAA
22913544 AATTTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.34
25 16 0.46
26 7 0.20
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.12
Consensus pattern (24 bp):
TGAAAAAATAAAAAACAAAAAAGG
Found at i:22914416 original size:15 final size:15
Alignment explanation
Indices: 22914398--22914445 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
22914388 TAGAGTTGTG
22914398 TTCATTAACATTGCA
1 TTCATTAACATTGCA
*
22914413 TTCA-T-GCATTGCA
1 TTCATTAACATTGCA
* *
22914426 TTCATAAACATTGCT
1 TTCATTAACATTGCA
22914441 TTCAT
1 TTCAT
22914446 CTATTGCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 11 0.41
14 1 0.04
15 15 0.56
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (15 bp):
TTCATTAACATTGCA
Found at i:22914424 original size:13 final size:12
Alignment explanation
Indices: 22914406--22914458 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
22914396 TGTTCATTAA
22914406 CATTGCATTCAT
1 CATTGCATTCAT
22914418 GCATTGCATTCAT
1 -CATTGCATTCAT
*
22914431 AAACATTGCTTTCAT
1 ---CATTGCATTCAT
22914446 CTATTGCATTCAT
1 C-ATTGCATTCAT
22914459 ACACTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.03
13 22 0.65
15 11 0.32
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (12 bp):
CATTGCATTCAT
Found at i:22914438 original size:28 final size:28
Alignment explanation
Indices: 22914398--22914459 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
22914388 TAGAGTTGTG
*
22914398 TTCATTAACATTGCATTCATGC-ATTGCA
1 TTCATAAACATTGCATTCAT-CTATTGCA
*
22914426 TTCATAAACATTGCTTTCATCTATTGCA
1 TTCATAAACATTGCATTCATCTATTGCA
22914454 TTCATA
1 TTCATA
22914460 CACTTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (28 bp):
TTCATAAACATTGCATTCATCTATTGCA
Found at i:22915402 original size:44 final size:45
Alignment explanation
Indices: 22915364--22915465 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 45
22915354 TTCAATTGTG
*
22915364 AATCTTTGAAA-TTT-GGATGTGAATT-TCTAAAATTTTCAAATGAT
1 AATCTTTAAAATTTTAGG-TGTGAATTCT-TAAAATTTTCAAATGAT
*
22915408 AATTTTTAAAATTTTAGGTGTGAATTCTTAAAATTTTTCAAAT-AT
1 AATCTTTAAAATTTTAGGTGTGAATTCTTAAAA-TTTTCAAATGAT
*
22915453 GAATCCTTAAAAT
1 -AATCTTTAAAAT
22915466 ATTTTATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
44 9 0.18
45 18 0.37
46 22 0.45
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (45 bp):
AATCTTTAAAATTTTAGGTGTGAATTCTTAAAATTTTCAAATGAT
Found at i:22927103 original size:19 final size:20
Alignment explanation
Indices: 22927078--22927128 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
22927068 TATTTTGCTT
22927078 AAAAAAAAGAAAAAAAAT-A
1 AAAAAAAAGAAAAAAAATGA
* **
22927097 TAAAAAACCAAAAAAAATGA
1 AAAAAAAAGAAAAAAAATGA
22927117 AAAAAAAAGAAA
1 AAAAAAAAGAAA
22927129 TGAGAAAGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.84, C:0.04, G:0.06, T:0.06
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAAATGA
Found at i:22927120 original size:11 final size:10
Alignment explanation
Indices: 22927078--22927128 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
22927068 TATTTTGCTT
22927078 AAAAAAAAG-
1 AAAAAAAAGA
*
22927087 AAAAAAAATA
1 AAAAAAAAGA
* **
22927097 TAAAAAACCA
1 AAAAAAAAGA
*
22927107 AAAAAAATGA
1 AAAAAAAAGA
22927117 AAAAAAAAGA
1 AAAAAAAAGA
22927127 AA
1 AA
22927129 TGAGAAAGGA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
9 8 0.24
10 25 0.76
ACGTcount: A:0.84, C:0.04, G:0.06, T:0.06
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:22928563 original size:102 final size:102
Alignment explanation
Indices: 22928387--22928707 Score: 439
Period size: 102 Copynumber: 3.1 Consensus size: 102
22928377 TATGACTCGC
* * * *
22928387 GGTTTAATC-CTGATCTTTTTATTCTCCAATTCGTGGTTTAATCCCGATCTCTTTAATTCAAAGT
1 GGTTTAATCTC-GATCTTTTTATTCTTCGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGT
*
22928451 CCGCA-TTTAATCTCGATTGTTGTTATCCTTTGACACAT
65 -CGCAGTTTAATCTCGATTGTTGTTATCCTTTGACTCAT
* * *
22928489 GGTTTAATCTCGATCTTTTTATTTTTCGATTTGTGGTTCAATCTCGATCTTTTTAATTCAAAGTC
1 GGTTTAATCTCGATCTTTTTATTCTTCGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTC
* *
22928554 ACAGTTTAATCTCGATTGTTGTTATCCTTTGACTCAC
66 GCAGTTTAATCTCGATTGTTGTTATCCTTTGACTCAT
* * ** *
22928591 GATTTAATTTCGATCTTTTTATTCTTCGATTCACGGTTCAATGTCGATCTCTTTAATTCAAAGTC
1 GGTTTAATCTCGATCTTTTTATTCTTCGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTC
* * *
22928656 GTAGTTTAATCTCGATTGTTGTTATACTTTGACTCGT
66 GCAGTTTAATCTCGATTGTTGTTATCCTTTGACTCAT
*
22928693 GGATTAATCTCGATC
1 GGTTTAATCTCGATC
22928708 ATTTCATTAT
Statistics
Matches: 191, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
101 3 0.02
102 187 0.98
103 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (102 bp):
GGTTTAATCTCGATCTTTTTATTCTTCGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTC
GCAGTTTAATCTCGATTGTTGTTATCCTTTGACTCAT
Found at i:22928638 original size:34 final size:34
Alignment explanation
Indices: 22928489--22928645 Score: 113
Period size: 34 Copynumber: 4.6 Consensus size: 34
22928479 TTTGACACAT
* ***
22928489 GGTTTAATCTCGATCTTTTTATTTTTCGATTTGT
1 GGTTTAATCTCGATCTTTTTATTCTTCGATTCAC
* ** *
22928523 GGTTCAATCTCGATCTTTTTAATTC--AAAGTCAC
1 GGTTTAATCTCGATCTTTTT-ATTCTTCGATTCAC
* * * *
22928556 AGTTTAATCTCGAT-TGTTGTTATCCTTTGACTCAC
1 GGTTTAATCTCGATCT-TT-TTATTCTTCGATTCAC
* *
22928591 GATTTAATTTCGATCTTTTTATTCTTCGATTCAC
1 GGTTTAATCTCGATCTTTTTATTCTTCGATTCAC
* * *
22928625 GGTTCAATGTCGATCTCTTTA
1 GGTTTAATCTCGATCTTTTTA
22928646 ATTCAAAGTC
Statistics
Matches: 93, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
32 1 0.01
33 19 0.20
34 51 0.55
35 21 0.23
36 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (34 bp):
GGTTTAATCTCGATCTTTTTATTCTTCGATTCAC
Found at i:22928770 original size:35 final size:36
Alignment explanation
Indices: 22928731--22928834 Score: 111
Period size: 39 Copynumber: 2.8 Consensus size: 36
22928721 CTTGACTTAC
*
22928731 GGTTTAGTCCCAATCATCTTTAATCTTT-AACTTGT
1 GGTTTAGTCCCAATCATTTTTAATCTTTGAACTTGT
* * * *
22928766 GGTTTAATCCCGATCATTTTTATAATTTTTTGGACTTGT
1 GGTTTAGTCCCAATCA-TTTT-TAA-TCTTTGAACTTGT
* *
22928805 GGTTTAGTCCTAGTCATTTTTAATCTTTGA
1 GGTTTAGTCCCAATCATTTTTAATCTTTGA
22928835 TTCATGGTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
35 14 0.26
36 8 0.15
37 6 0.11
38 8 0.15
39 18 0.33
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.49
Consensus pattern (36 bp):
GGTTTAGTCCCAATCATTTTTAATCTTTGAACTTGT
Found at i:22928784 original size:73 final size:73
Alignment explanation
Indices: 22928682--22928905 Score: 247
Period size: 74 Copynumber: 3.1 Consensus size: 73
22928672 TGTTGTTATA
* * * *
22928682 CTTTGACTCGTGGATTAATCTCGATCATTTCATTATTTTCTTGACTTACGGTTTAGTCCCAATCA
1 CTTTGACTTGTGGTTTAATCCCGATCATTTCATTATTTTCTTGACTTACGGTTTAGTCCCAGTCA
22928747 TCTTTAAT
66 TCTTTAAT
* * * ** *
22928755 CTTTAACTTGTGGTTTAATCCCGATCATTTTTATAATTTT-TTGGACTTGTGGTTTAGTCCTAGT
1 CTTTGACTTGTGGTTTAATCCCGATCA-TTTCATTATTTTCTT-GACTTACGGTTTAGTCCCAGT
*
22928819 CATTTTTAAT
64 CATCTTTAAT
* * * *
22928829 CTTTGA-TTCATGGTTTAATCCCGATCATTTCTATTATTTTCCTGACTTACGGTATAATCCCAGT
1 CTTTGACTT-GTGGTTTAATCCCGATCATTTC-ATTATTTTCTTGACTTACGGTTTAGTCCCAGT
*
22928893 C-TCTTTTAT
64 CATCTTTAAT
22928902 CTTT
1 CTTT
22928906 TTAACTTGCA
Statistics
Matches: 123, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
73 40 0.33
74 82 0.67
75 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (73 bp):
CTTTGACTTGTGGTTTAATCCCGATCATTTCATTATTTTCTTGACTTACGGTTTAGTCCCAGTCA
TCTTTAAT
Done.