Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 146 of 195
Found at i:24598539 original size:85 final size:84
Alignment explanation
Indices: 24598233--24598567 Score: 308
Period size: 86 Copynumber: 4.0 Consensus size: 84
24598223 TTTGATCAAG
* * * * * * *
24598233 GCTCCTCTGAGCAGAGGCTCAACGACTTTAAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTC
1 GCTCCTCTAATCAGAGGCTAAACGACTTTTAAAAA-GT-AA-ATAGCTCCTCTAATCA-AAGCTC
* * **
24598298 AATGAA-TTTGGAAAAT-AA-ACG
62 AA-CAACTTTGAAAAATAAATAAA
* * * *
24598319 GCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAA-TAACA-A-CTCCTCTAATCAGAGGCTCAA
1 GCTCCTCTAATCAGAGGCTAAACGACTTTTAAAAAGTAA-ATAGCTCCTCTAATCA-AAGCTCAA
* * *
24598381 CGACTTTAAAAAATAAAT--G
64 CAACTTTGAAAAATAAATAAA
* * *
24598400 GCTCATCTAATCAGAGGCTAAACAACTTTTGAAAAAGTAAATGGCTCCTCTAATCATAAGCTCAA
1 GCTCCTCTAATCAGAGGCTAAACGACTTTT-AAAAAGTAAATAGCTCCTCTAATCA-AAGCTCAA
24598465 CAACTTTGAAAAATAAATAAA
64 CAACTTTGAAAAATAAATAAA
* *
24598486 GCTCCTCTAATCAGAGGCTTAACGACTTTTAAAAAGTAAATAGCTTCTCTAATCAAAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTAAACGACTTTTAAAAAGTAAATAGCTCCTCTAATCAAA-GCTCAAC
*
24598551 AACTTTGAAAAGTAAAT
65 AACTTTGAAAAATAAAT
24598568 GGCTCTTTGA
Statistics
Matches: 214, Mismatches: 25, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
80 1 0.00
81 55 0.26
82 9 0.04
83 7 0.03
84 38 0.18
85 46 0.21
86 58 0.27
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (84 bp):
GCTCCTCTAATCAGAGGCTAAACGACTTTTAAAAAGTAAATAGCTCCTCTAATCAAAGCTCAACA
ACTTTGAAAAATAAATAAA
Found at i:24598583 original size:85 final size:82
Alignment explanation
Indices: 24598244--24598573 Score: 337
Period size: 81 Copynumber: 3.9 Consensus size: 82
24598234 CTCCTCTGAG
* * * * * *
24598244 CAGAGGCTCAACGACTTTAAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCAATGAA-TTTG
1 CAGAGGCTAAACGACTTTTAAAAA-GT-AA-ATAGCTCCTCTAATCAAAGGCTCAA-CAACTTTG
* *
24598308 GAAAATAAACGGCTCCTCTAAT
62 AAAAATAAATGGCT-CTCTAAT
* * * * * *
24598330 CAGAGGCTCAATGACTTTGAAAAA-TAACA-A-CTCCTCTAATCAGAGGCTCAACGACTTTAAAA
1 CAGAGGCTAAACGACTTTTAAAAAGTAA-ATAGCTCCTCTAATCAAAGGCTCAACAACTTTGAAA
24598392 AATAAATGGCTCATCTAAT
65 AATAAATGGCTC-TCTAAT
* *
24598411 CAGAGGCTAAACAACTTTTGAAAAAGTAAATGGCTCCTCTAATCATAA-GCTCAACAACTTTGAA
1 CAGAGGCTAAACGACTTTT-AAAAAGTAAATAGCTCCTCTAATCA-AAGGCTCAACAACTTTGAA
*
24598475 AAATAAATAAAGCTCCTCTAAT
64 AAATAAAT--GGCT-CTCTAAT
* *
24598497 CAGAGGCTTAACGACTTTTAAAAAGTAAATAGCTTCTCTAATCAAAGGCTCAACAACTTTGAAAA
1 CAGAGGCTAAACGACTTTTAAAAAGTAAATAGCTCCTCTAATCAAAGGCTCAACAACTTTGAAAA
*
24598562 GTAAATGGCTCT
66 ATAAATGGCTCT
24598574 TTGAAAATCA
Statistics
Matches: 211, Mismatches: 22, Indels: 26
0.81 0.08 0.10
Matches are distributed among these distances:
80 2 0.01
81 57 0.27
82 9 0.04
83 10 0.05
84 37 0.18
85 47 0.22
86 48 0.23
87 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (82 bp):
CAGAGGCTAAACGACTTTTAAAAAGTAAATAGCTCCTCTAATCAAAGGCTCAACAACTTTGAAAA
ATAAATGGCTCTCTAAT
Found at i:24599596 original size:7 final size:7
Alignment explanation
Indices: 24599586--24599632 Score: 60
Period size: 8 Copynumber: 6.4 Consensus size: 7
24599576 TCACTTTTTT
24599586 TTTTTCA
1 TTTTTCA
24599593 TTTTTTCA
1 -TTTTTCA
24599601 TTGTTTCA
1 TT-TTTCA
24599609 TTTTTTCA
1 -TTTTTCA
24599617 TTTTTCA
1 TTTTTCA
24599624 -TTTTCA
1 TTTTTCA
24599630 TTT
1 TTT
24599633 CTTTTTTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.17
7 11 0.31
8 17 0.47
9 2 0.06
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:24599596 original size:24 final size:26
Alignment explanation
Indices: 24599568--24599625 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 26
24599558 TGAGTCTTCC
24599568 TTTTTCATTCACTT-TTT-TTTTTTCA
1 TTTTTCATTCA-TTGTTTATTTTTTCA
24599593 -TTTT--TTCATTGTTTCATTTTTTCA
1 TTTTTCATTCATTGTTT-ATTTTTTCA
24599617 TTTTTCATT
1 TTTTTCATT
24599626 TTCATTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
21 2 0.07
22 7 0.26
24 12 0.44
25 4 0.15
27 2 0.07
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.72
Consensus pattern (26 bp):
TTTTTCATTCATTGTTTATTTTTTCA
Found at i:24599598 original size:8 final size:8
Alignment explanation
Indices: 24599585--24599627 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
24599575 TTCACTTTTT
24599585 TTTTTTCA
1 TTTTTTCA
24599593 TTTTTTCA
1 TTTTTTCA
*
24599601 TTGTTTCA
1 TTTTTTCA
24599609 TTTTTTCA
1 TTTTTTCA
24599617 -TTTTTCA
1 TTTTTTCA
24599624 TTTT
1 TTTT
24599628 CATTTCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:24599640 original size:7 final size:7
Alignment explanation
Indices: 24599580--24599652 Score: 51
Period size: 8 Copynumber: 9.7 Consensus size: 7
24599570 TTTCATTCAC
24599580 TTTTT-T
1 TTTTTCT
24599586 TTTTTCAT
1 TTTTTC-T
24599594 TTTTTCAT
1 TTTTTC-T
*
24599602 TGTTTCAT
1 TTTTTC-T
*
24599610 TTTTTCA
1 TTTTTCT
24599617 TTTTTCATT
1 TTTTTC--T
24599626 TTCATTTCT
1 TT--TTTCT
24599635 TTTTTCT
1 TTTTTCT
24599642 TTTTT-T
1 TTTTTCT
24599648 TTTTT
1 TTTTT
24599653 ATTTCAAGCA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
6 11 0.19
7 16 0.28
8 21 0.37
9 5 0.09
11 4 0.07
ACGTcount: A:0.08, C:0.11, G:0.01, T:0.79
Consensus pattern (7 bp):
TTTTTCT
Found at i:24609852 original size:40 final size:43
Alignment explanation
Indices: 24609799--24609881 Score: 109
Period size: 40 Copynumber: 2.0 Consensus size: 43
24609789 TTATTATCAC
* *
24609799 TATCTATTAATATATATA-TATTATTT-TC-ATTTTTATTATT
1 TATCTATTAATATACATATTATTATTTATCTATTATTATTATT
* *
24609839 TATCTGTTGATATACATATTATTATTTATCTATTATTATTATT
1 TATCTATTAATATACATATTATTATTTATCTATTATTATTATT
24609882 ATTATTTATC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 15 0.42
41 8 0.22
42 2 0.06
43 11 0.31
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (43 bp):
TATCTATTAATATACATATTATTATTTATCTATTATTATTATT
Found at i:24609863 original size:26 final size:23
Alignment explanation
Indices: 24609831--24609919 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 23
24609821 ATTTTCATTT
*
24609831 TTATTATTTATCTGTTGATATACATA
1 TTATTATTTATCTATT-AT-TA-ATA
*
24609857 TTATTATTTATCTATTATTATTA
1 TTATTATTTATCTATTATTAATA
24609880 TTATTATTTATC---TATTAATA
1 TTATTATTTATCTATTATTAATA
24609900 GTT-TTATTTATCTAATTATT
1 -TTATTATTTATCT-ATTATT
24609920 TTTTTTTGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
20 16 0.29
21 2 0.04
23 14 0.25
24 6 0.11
25 2 0.04
26 15 0.27
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (23 bp):
TTATTATTTATCTATTATTAATA
Found at i:24609880 original size:20 final size:20
Alignment explanation
Indices: 24609855--24609937 Score: 73
Period size: 20 Copynumber: 4.1 Consensus size: 20
24609845 TTGATATACA
*
24609855 TATTATTATTTATCTAT-TAT
1 TATTATTA-TTATTTATCTAT
24609875 TATTATTATTATTTATCTAT
1 TATTATTATTATTTATCTAT
*
24609895 TAATAGTT-TTATTTATCTAAT
1 TATTA-TTATTATTTATCT-AT
* *
24609916 TATT-TTTTTTTGTTATCTAT
1 TATTATTATTAT-TTATCTAT
24609936 TA
1 TA
24609938 ATATATTTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
19 9 0.17
20 32 0.59
21 13 0.24
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTATTATTTATCTAT
Found at i:24609881 original size:23 final size:23
Alignment explanation
Indices: 24609782--24609919 Score: 88
Period size: 26 Copynumber: 5.8 Consensus size: 23
24609772 TCTTAGTTAC
* *
24609782 TTATTATTTAT-TATCACTATCTA
1 TTATTATTTATCTATTATTAT-TA
* * * *
24609805 TTAATATATATATATTATTTTCATTT
1 TTATTATTTATCTATTA--TT-ATTA
* *
24609831 TTATTATTTATCTGTTGATATACATA
1 TTATTATTTATCTATT-AT-TA-TTA
24609857 TTATTATTTATCTATTATTATTA
1 TTATTATTTATCTATTATTATTA
24609880 TTATTATTTATCTATTA--A-TA
1 TTATTATTTATCTATTATTATTA
24609900 GTT-TTATTTATCTAATTATT
1 -TTATTATTTATCT-ATTATT
24609920 TTTTTTTGTT
Statistics
Matches: 91, Mismatches: 13, Indels: 22
0.72 0.10 0.17
Matches are distributed among these distances:
20 12 0.13
21 7 0.08
23 28 0.31
24 6 0.07
25 4 0.04
26 31 0.34
27 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTATTTATCTATTATTATTA
Found at i:24609947 original size:41 final size:43
Alignment explanation
Indices: 24609860--24609940 Score: 116
Period size: 41 Copynumber: 1.9 Consensus size: 43
24609850 ATACATATTA
24609860 TTATTTATCTATTATTATTATTATTATTTATCTATTAATAGTT
1 TTATTTATCTATTATTATTATTATTATTTATCTATTAATAGTT
24609903 TTATTTATCTAATTATT-TT-TT-TT-TGTTATCTATTAATA
1 TTATTTATCT-ATTATTATTATTATTAT-TTATCTATTAATA
24609941 TATTTATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
40 1 0.03
41 15 0.42
42 2 0.06
43 12 0.33
44 6 0.17
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (43 bp):
TTATTTATCTATTATTATTATTATTATTTATCTATTAATAGTT
Found at i:24610341 original size:6 final size:6
Alignment explanation
Indices: 24610330--24610412 Score: 64
Period size: 6 Copynumber: 13.5 Consensus size: 6
24610320 TTTAATATTC
* *
24610330 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT TTTACTTT TCTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT--TAT T-TTTAT TTTTAT
* *
24610380 TTTCAC TTTTA- TTTTA- TTTTAT GATTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT --TTTTAT TTT
24610413 CTTTAAATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
5 14 0.22
6 35 0.56
7 3 0.05
8 9 0.14
9 2 0.03
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:24610350 original size:17 final size:16
Alignment explanation
Indices: 24610330--24610412 Score: 87
Period size: 17 Copynumber: 4.9 Consensus size: 16
24610320 TTTAATATTC
24610330 TTTTATTTTTATCTTTA
1 TTTTATTTTTAT-TTTA
24610347 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
* *
24610363 CTTT-TCTTTATTTTTA
1 TTTTATTTTTA-TTTTA
*
24610379 TTTTCACTTTTATTTTA
1 TTTT-ATTTTTATTTTA
24610396 TTTTATGATTTTATTTT
1 TTTTAT--TTTTATTTT
24610413 CTTTAAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
15 5 0.09
16 16 0.29
17 21 0.38
18 13 0.24
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:24610412 original size:5 final size:5
Alignment explanation
Indices: 24610330--24610401 Score: 65
Period size: 5 Copynumber: 13.2 Consensus size: 5
24610320 TTTAATATTC
*
24610330 TTTTA TTTTTA TCTTTA TTTTA TTTTTA TTTTA CTTTT- CTTTA TTTTTA
1 TTTTA -TTTTA T-TTTA TTTTA -TTTTA TTTTA -TTTTA TTTTA -TTTTA
24610379 TTTTCA CTTTTA TTTTA TTTTA T
1 TTTT-A -TTTTA TTTTA TTTTA T
24610402 GATTTTATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
4 3 0.05
5 25 0.44
6 25 0.44
7 4 0.07
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:24610480 original size:58 final size:58
Alignment explanation
Indices: 24610417--24610763 Score: 401
Period size: 59 Copynumber: 5.9 Consensus size: 58
24610407 TATTTTCTTT
*
24610417 AAATAAA-ATTCAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAATTTTCAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
* * * * *
24610475 AAATAAACTTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
* * * *
24610533 AAATAAATTTTCAAAAAAGATTGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGA
1 AAATAAATTTTCAAAAAA-A-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
* * * * * *
24610593 AATTAAAGTTTCTAGAAAAATATTTTTGGAGAAAAGTTGAAATTATCAATTTTCCTCGA
1 AAATAAATTTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
* * * * * *
24610652 AATTAAAGTTTTCTAAAAAATATTTTTGGAGAAAAATTGAAAGTATCAATTTTCTTTAA
1 AAATAAA-TTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
** * *
24610711 AAATAAATTTTCAAAAAAGGA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTCC
1 AAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
24610764 CTGCACAAAA
Statistics
Matches: 247, Mismatches: 37, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
57 27 0.11
58 71 0.29
59 95 0.38
60 49 0.20
61 5 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (58 bp):
AAATAAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA
Found at i:24614770 original size:32 final size:32
Alignment explanation
Indices: 24614716--24614795 Score: 81
Period size: 32 Copynumber: 2.4 Consensus size: 32
24614706 GAAAAATGAG
* * *
24614716 AAAAAAAAAAGATGATGAAAAAAAATAGAGCAAA-
1 AAAAAAAAAA-AAGAAG-AAAAAAAT-GAGAAAAT
* *
24614750 AAAAGAAAGAAAGAAGAAAAAAATGAGAAAAT
1 AAAAAAAAAAAAGAAGAAAAAAATGAGAAAAT
24614782 AAAAAAAAAAAAGA
1 AAAAAAAAAAAAGA
24614796 GATTCAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 6 0.16
32 20 0.53
33 4 0.11
34 8 0.21
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (32 bp):
AAAAAAAAAAAAGAAGAAAAAAATGAGAAAAT
Found at i:24614788 original size:16 final size:15
Alignment explanation
Indices: 24614707--24614788 Score: 64
Period size: 16 Copynumber: 5.3 Consensus size: 15
24614697 ACAATGGATG
24614707 AAAAATGAGAAAAAA
1 AAAAATGAGAAAAAA
24614722 AAAAGATGATG-AAAAA
1 AAAA-ATGA-GAAAAAA
*
24614738 AAATA-GAGCAAAAAA
1 AAAAATGAG-AAAAAA
*
24614753 AGAAA-GA-AAGAAGAA
1 AAAAATGAGAA-AA-AA
24614768 AAAAATGAGAAAATAA
1 AAAAATGAGAAAA-AA
24614784 AAAAA
1 AAAAA
24614789 AAAAAGAGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 3 0.06
14 4 0.07
15 21 0.39
16 23 0.43
17 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.16, T:0.07
Consensus pattern (15 bp):
AAAAATGAGAAAAAA
Found at i:24617923 original size:58 final size:56
Alignment explanation
Indices: 24617706--24617931 Score: 274
Period size: 58 Copynumber: 3.9 Consensus size: 56
24617696 CTTGTGTGGG
* * *
24617706 GAAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTGGAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTC-CTAAAAATATTTTTTTTGAAATTTA-TTTTAAA
24617763 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTTAATTTTCAAA
1 GAAAATTGATACTTTCAACTTTT-CCTAAAAATA-TTTTTTTT-GAAA-TTT-ATTTT-AAA
**
24617825 GAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAATTTATTTCTAAA
1 GAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTTTGAAATTTATTT-TAAA
* * *
24617883 GAAAATTGATACTTTCAAGTTTTGCCTAAAAATATATTTTTTGGAATTT
1 GAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTTGAAATTT
24617932 TTGGTTTTTA
Statistics
Matches: 149, Mismatches: 10, Indels: 19
0.84 0.06 0.11
Matches are distributed among these distances:
57 31 0.21
58 48 0.32
59 13 0.09
60 8 0.05
61 18 0.12
62 31 0.21
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (56 bp):
GAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTGAAATTTATTTTAAA
Found at i:24617923 original size:120 final size:118
Alignment explanation
Indices: 24617706--24617933 Score: 343
Period size: 120 Copynumber: 1.9 Consensus size: 118
24617696 CTTGTGTGGG
* *
24617706 GAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTG
1 GAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAATTTATTTCTAAAGAAAATTG
*
24617771 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTTAATTTTCAAA
66 ATACTTTCAACTTTTCCCTAAAAATA-TATTTTTTGGAAATTTTAATTTTCAAA
*
24617825 GAAAATTGATACTTTCAACTTTTC-CTCAAAAACCT-TTTTTTTGAAATTTATTTCTAAAGAAAA
1 GAAAATTGATACTTTCAACTTTTCTC-CAAAAA--TATTTTTTGGAAATTTATTTCTAAAGAAAA
* * *
24617888 TTGATACTTTCAAGTTTTGCCTAAAAATATATTTTTTGGAATTTTT
63 TTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTGGAAATTTT
24617934 GGTTTTTATT
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
118 1 0.01
119 45 0.45
120 52 0.53
121 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (118 bp):
GAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAATTTATTTCTAAAGAAAATTG
ATACTTTCAACTTTTCCCTAAAAATATATTTTTTGGAAATTTTAATTTTCAAA
Found at i:24617975 original size:6 final size:6
Alignment explanation
Indices: 24617964--24618024 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
24617954 AGAATAATAA
* * *
24617964 AAAAAT AAAAAT AAAAAT AAAGAAA AGTAAAAC AAAAAT AAAAAT -GAAAT
1 AAAAAT AAAAAT AAAAAT AAA-AAT A--AAAAT AAAAAT AAAAAT AAAAAT
*
24618014 AAAGAT AAAAA
1 AAAAAT AAAAA
24618025 GAATATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
5 4 0.09
6 32 0.73
7 3 0.07
8 3 0.07
9 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:24617975 original size:22 final size:22
Alignment explanation
Indices: 24617965--24618005 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24617955 GAATAATAAA
24617965 AAAA-TAAAAATAAAAATAAAG
1 AAAAGTAAAAATAAAAATAAAG
*
24617986 AAAAGT-AAAACAAAAATAAA
1 AAAAGTAAAAATAAAAATAAA
24618006 AATGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAAGTAAAAATAAAAATAAAG
Found at i:24617979 original size:11 final size:11
Alignment explanation
Indices: 24617949--24618023 Score: 57
Period size: 11 Copynumber: 6.8 Consensus size: 11
24617939 TTATTTAAAG
*
24617949 AAAATAGAATA
1 AAAATAAAATA
24617960 ATAAA-AAAATA
1 A-AAATAAAATA
24617971 AAAATAAAAATA
1 AAAAT-AAAATA
* *
24617983 AAGA-AAAGTA
1 AAAATAAAATA
24617993 AAACA-AAAATA
1 AAA-ATAAAATA
*
24618004 AAAATGAAATA
1 AAAATAAAATA
*
24618015 AAGATAAAA
1 AAAATAAAA
24618024 AGAATATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
10 11 0.22
11 28 0.55
12 12 0.24
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:24618017 original size:27 final size:28
Alignment explanation
Indices: 24617965--24618023 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
24617955 GAATAATAAA
*
24617965 AAAATAAAAATAAAAATAAAGAAAAG-T
1 AAAACAAAAATAAAAATAAAGAAAAGAT
*
24617992 AAAACAAAAATAAAAATGAAA-TAAAGAT
1 AAAACAAAAATAAAAAT-AAAGAAAAGAT
24618020 AAAA
1 AAAA
24618024 AGAATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.14
Consensus pattern (28 bp):
AAAACAAAAATAAAAATAAAGAAAAGAT
Found at i:24619159 original size:27 final size:27
Alignment explanation
Indices: 24619120--24619180 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
24619110 AAAAAATATT
24619120 AAATAAATAAATAAATAA-AAATATACATA
1 AAAT-AAT-AATAAATAATAAA-ATACATA
*
24619149 TAATAATAATAAATAATAAAATACATA
1 AAATAATAATAAATAATAAAATACATA
24619176 AAATA
1 AAATA
24619181 CAAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 20 0.69
28 6 0.21
29 3 0.10
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.26
Consensus pattern (27 bp):
AAATAATAATAAATAATAAAATACATA
Found at i:24619504 original size:17 final size:16
Alignment explanation
Indices: 24619484--24619561 Score: 79
Period size: 17 Copynumber: 4.7 Consensus size: 16
24619474 TTTAATATTT
24619484 TTTTATCTTTATCTTTA
1 TTTTAT-TTTATCTTTA
*
24619501 TTTTATTTTTATTTTTA
1 TTTTA-TTTTATCTTTA
*
24619518 TTTTACTTT-TCTTTA
1 TTTTATTTTATCTTTA
24619533 TTTTTATTTTCA-CTTTTA
1 -TTTTATTTT-ATC-TTTA
24619551 TTTTATTTTAT
1 TTTTATTTTAT
24619562 GATTTTATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
15 5 0.10
16 12 0.24
17 29 0.57
18 5 0.10
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTTTATCTTTA
Found at i:24619533 original size:27 final size:29
Alignment explanation
Indices: 24619483--24619572 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 29
24619473 GTTTAATATT
24619483 TTTTTATCTTTATCTTTATTTTATTTTTA
1 TTTTTATCTTTATCTTTATTTTATTTTTA
24619512 TTTTTAT-TTTA-CTTT-TCTTTATTTTTA
1 TTTTTATCTTTATCTTTAT-TTTATTTTTA
*
24619539 TTTTCA-CTTTTAT-TTTATTTTATGATTTTA
1 TTTTTATC-TTTATCTTTATTTTAT--TTTTA
24619569 TTTT
1 TTTT
24619573 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
26 1 0.02
27 19 0.36
28 16 0.30
29 8 0.15
30 9 0.17
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.76
Consensus pattern (29 bp):
TTTTTATCTTTATCTTTATTTTATTTTTA
Found at i:24619540 original size:6 final size:6
Alignment explanation
Indices: 24619483--24619572 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
24619473 GTTTAATATT
* * *
24619483 TTTTTA TCTTTA TCTTTA -TTTTA TTTTTA TTTTTA TTTTACTT TTCTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA TT-TTTA
* *
24619533 TTTTTA TTTTCA CTTTTA -TTTTA -TTTTA TGATTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T--TTTTA TTTT
24619573 CTTTAAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
5 14 0.20
6 42 0.60
7 3 0.04
8 9 0.13
9 2 0.03
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:24619653 original size:58 final size:58
Alignment explanation
Indices: 24619590--24619922 Score: 368
Period size: 59 Copynumber: 5.8 Consensus size: 58
24619580 TAAAATCCAA
* * *
24619590 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAGTTTTCC
** * * * *
24619648 AAAAAATATTTTCAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAGTTTTCC
* * ** * *
24619706 AAAAAGGTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCT
1 AAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATT-AAGTTTTCC
* * * *
24619766 AAAAAATATTTTTGGGAAAAACTTGAAAGTATCAATTTTTCTAGAAATTAAAG-TTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATT-AAGTTTTCC
* * * ** *
24619824 -AAAAATA-TTTTGGGAAAAAGTTGAAACTATCAATTTTCCTCGAAATTAAAATTTCT
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAGTTTTCC
* *
24619880 AAAAAATA-TTTTGGGGAAAAATTGAAAGTATGAATTTTCCTTG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
24619923 CACAAAAGCA
Statistics
Matches: 234, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
55 2 0.01
56 40 0.17
57 44 0.19
58 60 0.26
59 76 0.32
60 12 0.05
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.36
Consensus pattern (58 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAGTTTTCC
Found at i:24621696 original size:21 final size:21
Alignment explanation
Indices: 24621670--24621717 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
24621660 TTACTCCCTC
24621670 ATAGAGGGACAGAGCTCGGGT
1 ATAGAGGGACAGAGCTCGGGT
24621691 ATAGAGGGACAGAGCTCGGGT
1 ATAGAGGGACAGAGCTCGGGT
24621712 ATAGAG
1 ATAGAG
24621718 CTCATGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.42, T:0.15
Consensus pattern (21 bp):
ATAGAGGGACAGAGCTCGGGT
Found at i:24622343 original size:17 final size:18
Alignment explanation
Indices: 24622310--24622343 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24622300 AAAAAATGAA
*
24622310 AAGAAAATAAATTATTGG
1 AAGAAAATAAATGATTGG
24622328 AAGAAAA-AAATGATTG
1 AAGAAAATAAATGATTG
24622344 CTTTTGTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (18 bp):
AAGAAAATAAATGATTGG
Found at i:24622445 original size:58 final size:59
Alignment explanation
Indices: 24622357--24622695 Score: 348
Period size: 58 Copynumber: 5.9 Consensus size: 59
24622347 TTGTGCAGGA
* ** *
24622357 AAAATTAATACTTTCAACTTTT-CCTCAAAAATCCATTTTTGAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTCAAAAATATATTTTTGAAAATTTATTTTTAAGG
* *
24622415 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCTCAAAAATA-TATTTTTGAAAATTTATTTTTAAGG
* *
24622474 AAAATTG--A---T--AC-TTTCCC-CAAAAATATTTTTTTGAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCCTCAAAAATATATTTTTGAAAATTTATTTTTAAGG
* ** * *
24622524 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTAGAAAGCTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCCTCAAAA-ATATA-TTTTT-GAAAATTTATTTTTAAGG
* * *
24622586 AAAATTGATACTTTCAACTTTT-TCTCAAAAATAT-TTTTTAGAAAGTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTCAAAAATATATTTTT-GAAAATTTATTTTTAAGG
* * *
24622644 AAAATTGATACTTTCAACTTTT-CTTCAAAAATATTGTTTTTG-AATTTTATTT
1 AAAATTGATACTTTCAACTTTTCCCTCAAAAATA-TATTTTTGAAAATTTATTT
24622696 AAAGAAAATA
Statistics
Matches: 244, Mismatches: 20, Indels: 34
0.82 0.07 0.11
Matches are distributed among these distances:
50 30 0.12
51 13 0.05
52 3 0.01
54 1 0.00
55 1 0.00
57 3 0.01
58 95 0.39
59 37 0.15
60 13 0.05
61 11 0.05
62 37 0.15
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCTCAAAAATATATTTTTGAAAATTTATTTTTAAGG
Found at i:24622509 original size:50 final size:51
Alignment explanation
Indices: 24622434--24622538 Score: 178
Period size: 50 Copynumber: 2.1 Consensus size: 51
24622424 ACTTTCAACT
*
24622434 TTTCCCTAAAAATATTTTTTTTGAAAATTTATTTTT-AAGAAAAATTGATAC
1 TTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAAG-AAAATTGATAC
24622485 TTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTTTAAAGAAAATTGATAC
1 TTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAAGAAAATTGATAC
24622535 TTTC
1 TTTC
24622539 AACTTTTCCC
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
50 36 0.69
51 16 0.31
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (51 bp):
TTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAAGAAAATTGATAC
Found at i:24622708 original size:5 final size:5
Alignment explanation
Indices: 24622700--24622802 Score: 161
Period size: 5 Copynumber: 19.6 Consensus size: 5
24622690 TTATTTAAAG
24622700 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT -AAAAT
24622752 AAGAAT AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAAT
1 AA-AAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT -AAAAT
24622800 AAA
1 AAA
24622803 CAAATATATT
Statistics
Matches: 93, Mismatches: 0, Indels: 10
0.90 0.00 0.10
Matches are distributed among these distances:
5 68 0.73
6 25 0.27
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:24622731 original size:21 final size:20
Alignment explanation
Indices: 24622700--24622802 Score: 161
Period size: 21 Copynumber: 4.9 Consensus size: 20
24622690 TTATTTAAAG
24622700 AAAATAAAATAAAATAAAAT
1 AAAATAAAATAAAATAAAAT
24622720 AAAATAAAAATAAAATAAAAT
1 AAAAT-AAAATAAAATAAAAT
24622741 AAAATAAAAATAAGAATAAAAT
1 AAAAT-AAAATAA-AATAAAAT
24622763 AAAATAAAATAAAATAAAAAT
1 AAAATAAAATAAAAT-AAAAT
24622784 AAAATAAAATAAAAATAAA
1 AAAATAAAAT-AAAATAAA
24622803 CAAATATATT
Statistics
Matches: 79, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.10
21 53 0.67
22 18 0.23
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.18
Consensus pattern (20 bp):
AAAATAAAATAAAATAAAAT
Found at i:24622834 original size:3 final size:3
Alignment explanation
Indices: 24622822--24622859 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
24622812 TAAACAAATC
*
24622822 TAA T-A TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24622860 AATGAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24623599 original size:16 final size:17
Alignment explanation
Indices: 24623578--24623609 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24623568 TCTCCAGTCG
24623578 AAAAAATAAAA-AAAAT
1 AAAAAATAAAATAAAAT
24623594 AAAAAATAAAATAAAA
1 AAAAAATAAAATAAAA
24623610 ATATTAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:24623669 original size:14 final size:15
Alignment explanation
Indices: 24623650--24623729 Score: 67
Period size: 14 Copynumber: 5.3 Consensus size: 15
24623640 AGATAAATCA
24623650 AAATAT-TAACAGAT
1 AAATATATAACAGAT
*
24623664 AAATATAATAATAGAT
1 AAATAT-ATAACAGAT
* *
24623680 AAAT-TATAATATAT
1 AAATATATAACAGAT
* *
24623694 AAATAGATAA-ATAAT
1 AAATATATAACA-GAT
24623709 AAATATATAACTAGAT
1 AAATATATAAC-AGAT
24623725 AAATA
1 AAATA
24623730 AAAAATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
14 19 0.35
15 16 0.30
16 18 0.33
17 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (15 bp):
AAATATATAACAGAT
Found at i:24623678 original size:58 final size:59
Alignment explanation
Indices: 24623604--24623793 Score: 158
Period size: 61 Copynumber: 3.2 Consensus size: 59
24623594 AAAAAATAAA
* * *
24623604 ATAAAAATATTAATAGATAATTAAAGAAAAAAAATCAGATAAATCA-AAATAT-TAAC-AG
1 ATAAATATAATAATAGATAATTAAA-AAAAAAAAT-AGATAAATAATAAATATATAACTAG
* * *
24623662 ATAAATATAATAATAGATAAATTATAATATATAAATAGATAAATAATAAATATATAACTAG
1 ATAAATATAATAATAGAT-AATTA-AAAAAAAAAATAGATAAATAATAAATATATAACTAG
* * * * *
24623723 ATAAATA-AAAAATATATATATTAACATAAAAAAAATATATTAATAAATAAATATA-AA-TAC
1 ATAAATATAATAATAGATA-ATTAA-A-AAAAAAAATAGATAAAT-AATAAATATATAACTAG
24623783 ATAAGATATAA
1 ATAA-ATATAA
24623794 AGGAAAAAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
58 25 0.23
59 19 0.18
60 25 0.23
61 26 0.24
62 12 0.11
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (59 bp):
ATAAATATAATAATAGATAATTAAAAAAAAAAATAGATAAATAATAAATATATAACTAG
Found at i:24623688 original size:7 final size:8
Alignment explanation
Indices: 24623662--24623740 Score: 69
Period size: 8 Copynumber: 10.4 Consensus size: 8
24623652 ATATTAACAG
24623662 ATAAATAT
1 ATAAATAT
*
24623670 A-ATAATAG
1 ATA-AATAT
24623678 ATAAAT-T
1 ATAAATAT
24623685 AT-AATAT
1 ATAAATAT
*
24623692 ATAAATAG
1 ATAAATAT
24623700 ATAAATA-
1 ATAAATAT
24623707 ATAAATAT
1 ATAAATAT
* *
24623715 ATAACTAG
1 ATAAATAT
24623723 ATAAATA-
1 ATAAATAT
*
24623730 AAAAATAT
1 ATAAATAT
24623738 ATA
1 ATA
24623741 TATTAACATA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
6 3 0.05
7 19 0.33
8 34 0.60
9 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (8 bp):
ATAAATAT
Found at i:24623688 original size:23 final size:23
Alignment explanation
Indices: 24623662--24623781 Score: 108
Period size: 23 Copynumber: 5.3 Consensus size: 23
24623652 ATATTAACAG
*
24623662 ATAAATATAATAATAGATAAATT
1 ATAAATATAATAATAGATAAATA
24623685 AT-AATAT-ATAAATAGATAAATA
1 ATAAATATAAT-AATAGATAAATA
24623707 ATAAATAT-ATAACTAGATAAATA
1 ATAAATATAATAA-TAGATAAATA
* * *
24623730 AAAAATATATATATTAACATAAA-A
1 ATAAATATA-ATAAT-AGATAAATA
* *
24623754 A-AAATATATTAATAAATAAAT-
1 ATAAATATAATAATAGATAAATA
24623775 ATAAATA
1 ATAAATA
24623782 CATAAGATAT
Statistics
Matches: 82, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
21 9 0.11
22 28 0.34
23 33 0.40
24 3 0.04
25 9 0.11
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (23 bp):
ATAAATATAATAATAGATAAATA
Found at i:24623690 original size:22 final size:22
Alignment explanation
Indices: 24623665--24623775 Score: 84
Period size: 22 Copynumber: 4.9 Consensus size: 22
24623655 TTAACAGATA
*
24623665 AATATAATAATAGATAAATTAT
1 AATATAATAATAGATAAATAAT
24623687 AATAT-ATAAATAGATAAATAAT
1 AATATAAT-AATAGATAAATAAT
*
24623709 AA-ATATATAACTAGATAAATAAAA
1 AATATA-ATAA-TAGATAAAT-AAT
* * *
24623733 AATATATATATTAACATAAA-AAA
1 AATATA-ATAAT-AGATAAATAAT
* *
24623756 AATATATTAATAAATAAATA
1 AATATAATAATAGATAAATA
24623776 TAAATACATA
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
21 10 0.14
22 26 0.35
23 20 0.27
24 5 0.07
25 13 0.18
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (22 bp):
AATATAATAATAGATAAATAAT
Found at i:24623713 original size:4 final size:4
Alignment explanation
Indices: 24623662--24623775 Score: 54
Period size: 4 Copynumber: 27.8 Consensus size: 4
24623652 ATATTAACAG
* * *
24623662 ATAA ATATA AT-A ATAG ATAA ATTATA ATAT ATAA ATAG ATAA AT-A ATAA
1 ATAA ATA-A ATAA ATAA ATAA A-TA-A ATAA ATAA ATAA ATAA ATAA ATAA
* * * * * * *
24623711 ATAT ATAA CTAG ATAA ATAA A-AA ATAT ATATA TTAA CATAAA AAAA ATAT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA -AT-AA ATAA ATAA
*
24623761 ATTA ATAA ATAA ATA
1 ATAA ATAA ATAA ATA
24623776 TAAATACATA
Statistics
Matches: 79, Mismatches: 22, Indels: 18
0.66 0.18 0.15
Matches are distributed among these distances:
3 9 0.11
4 55 0.70
5 11 0.14
6 4 0.05
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (4 bp):
ATAA
Found at i:24623736 original size:30 final size:32
Alignment explanation
Indices: 24623650--24623736 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 32
24623640 AGATAAATCA
* *
24623650 AAATAT-TAAC-AGATAAATATAATAATAGAT
1 AAATATATAACTAGATAAATAGAAAAATAGAT
* *
24623680 AAAT-TATAA-TATATAAATAGATAAATA-AT
1 AAATATATAACTAGATAAATAGAAAAATAGAT
24623709 AAATATATAACTAGATAAATA-AAAAATA
1 AAATATATAACTAGATAAATAGAAAAATA
24623737 TATATATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
29 7 0.15
30 31 0.66
31 9 0.19
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (32 bp):
AAATATATAACTAGATAAATAGAAAAATAGAT
Found at i:24623760 original size:19 final size:21
Alignment explanation
Indices: 24623727--24623777 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
24623717 AACTAGATAA
24623727 ATAAAAAATATATATATTAAC
1 ATAAAAAATATATATATTAAC
24623748 ATAAAAAA-A-ATATATT-A-
1 ATAAAAAATATATATATTAAC
24623765 ATAAATAAATATA
1 ATAAA-AAATATA
24623778 AATACATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 8 0.30
20 2 0.07
21 8 0.30
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAAAAATATATATATTAAC
Found at i:24623815 original size:15 final size:15
Alignment explanation
Indices: 24623751--24623825 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
24623741 TATTAACATA
*
24623751 AAAAAAATATATTAAT
1 AAAAAAATATA-AAAT
*
24623767 AAATAAATAT-AAAT
1 AAAAAAATATAAAAT
* * **
24623781 ACATAAGATATAAAGG
1 A-AAAAAATATAAAAT
24623797 AAAAAAATATAAAAT
1 AAAAAAATATAAAAT
24623812 AAAAATAATA-AAAA
1 AAAAA-AATATAAAA
24623826 AACAAAGTGG
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.09
15 25 0.56
16 16 0.36
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (15 bp):
AAAAAAATATAAAAT
Found at i:24627832 original size:2 final size:2
Alignment explanation
Indices: 24627825--24627849 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24627815 CAGACCAAAT
24627825 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 T
24627850 CTAAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24632353 original size:59 final size:59
Alignment explanation
Indices: 24632226--24632803 Score: 815
Period size: 59 Copynumber: 9.8 Consensus size: 59
24632216 TCTTGTGTGG
*
24632226 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
24632283 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGGAAATTTATTTC-TAA
* * *
24632342 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTATGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
* *
24632401 GGAAAATTGATACTTTCAACTTTTCTCC-AAAAATATTTTTTTTTGAAACTTTGATCT-TAA
1 GGAAAATTGATACTTTCAACTTTTC-CCTAAAAATATTTTTTTTGGAAA-TTT-ATTTCTAA
* *
24632461 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT-GAAATTTATTTATGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
*
24632519 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTA--TTTC---TAA
24632583 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTC-TAA
* * *
24632639 AGAAAATTGATAATTTCAACTTTTCCCTAAAAATATATTTTTTT-GAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTTGGAAATTTATTTCTAA
*
24632698 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
24632755 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-T-TTTTTTGGAA
24632804 TTTTTTTATT
Statistics
Matches: 474, Mismatches: 20, Indels: 50
0.87 0.04 0.09
Matches are distributed among these distances:
56 45 0.09
57 82 0.17
58 53 0.11
59 168 0.35
60 60 0.13
61 30 0.06
64 36 0.08
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
Found at i:24632851 original size:16 final size:17
Alignment explanation
Indices: 24632820--24632852 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24632810 TATTTTTATT
*
24632820 TAAAGAAAATAGAATAA
1 TAAAAAAAATAGAATAA
24632837 TAAAAAAAATA-AATAA
1 TAAAAAAAATAGAATAA
24632853 AAAGAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAAAAAAATAGAATAA
Found at i:24633303 original size:19 final size:19
Alignment explanation
Indices: 24633251--24633303 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
24633241 AGAACACCGA
* * *
24633251 TGGAATTTTCGCCGGATTC
1 TGGAAATTTCACCGGAATC
**
24633270 TGGAAAAAGTCACCGGAATC
1 TGG-AAATTTCACCGGAATC
24633290 TGGAAATTTCACCG
1 TGGAAATTTCACCG
24633304 AAAGTTGGCC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (19 bp):
TGGAAATTTCACCGGAATC
Found at i:24633353 original size:20 final size:19
Alignment explanation
Indices: 24633330--24633370 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
24633320 TCACCGGTTT
*
24633330 CTGGGATTCTTCGCCGGAAA
1 CTGGG-TTCGTCGCCGGAAA
*
24633350 CTGGGTTGGTCGCCGGAAA
1 CTGGGTTCGTCGCCGGAAA
24633369 CT
1 CT
24633371 TCAAGGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (19 bp):
CTGGGTTCGTCGCCGGAAA
Found at i:24633890 original size:23 final size:23
Alignment explanation
Indices: 24633842--24633889 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
24633832 ATAATTAGAT
24633842 AAATAAAAATACAAAAATAAATA
1 AAATAAAAATACAAAAATAAATA
24633865 AAATAAAAGATA-AAAAAT-AATA
1 AAATAAAA-ATACAAAAATAAATA
24633887 AAA
1 AAA
24633890 ATATATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (23 bp):
AAATAAAAATACAAAAATAAATA
Found at i:24633967 original size:12 final size:12
Alignment explanation
Indices: 24633937--24633965 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
24633927 TAGGATATAC
24633937 ATAAAATATAAA
1 ATAAAATATAAA
24633949 ATAAAATA-AAA
1 ATAAAATATAAA
24633960 ATAAAA
1 ATAAAA
24633966 ATGACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:24635795 original size:6 final size:6
Alignment explanation
Indices: 24635786--24635855 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
24635776 AATTTATTGT
* * * * * * *
24635786 TATTAA TATTAA TATGAT TATTAA TATCAA TAATAA TAATAA TAATAT
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
* * *
24635834 TATTAT TATTAT TATTAT TATT
1 TATTAA TATTAA TATTAA TATT
24635856 TTGCATGAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:24635837 original size:3 final size:3
Alignment explanation
Indices: 24635831--24635855 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24635821 ATAATAATAA
24635831 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
24635856 TTGCATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24637512 original size:20 final size:21
Alignment explanation
Indices: 24637468--24637522 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
24637458 AGGTCTATTT
** *
24637468 ATTTTGACTAAATTTTACATA
1 ATTTTGACTTTATTTGACATA
24637489 ATTTTGACTTTATTTGAC-TA
1 ATTTTGACTTTATTTGACATA
24637509 ATTTT-ATCTTTATT
1 ATTTTGA-CTTTATT
24637523 GATCAAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 14 0.47
21 15 0.50
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTGACTTTATTTGACATA
Found at i:24638221 original size:35 final size:35
Alignment explanation
Indices: 24638080--24638238 Score: 119
Period size: 35 Copynumber: 4.5 Consensus size: 35
24638070 AAGCCATGAA
* *
24638080 TCAAA-AATAAAAGATGAAT-AGGATTAAATTGCTAG
1 TCAAAGAATAAAA-ATG-ATCAGGATTAAACTGCAAG
* * * * *
24638115 TTGAAA-AATAAAAATGAACAAGATTAAATTACAAG
1 -TCAAAGAATAAAAATGATCAGGATTAAACTGCAAG
* * * **
24638150 TCAAAGAATAAAAATGAT-GGGATTGAACCGTGAG
1 TCAAAGAATAAAAATGATCAGGATTAAACTGCAAG
*
24638184 TCAAAGAATAAAAATGATCAGGATTTAACTGCAAG
1 TCAAAGAATAAAAATGATCAGGATTAAACTGCAAG
*
24638219 TCAATGAATGAAAATATGAT
1 TCAAAGAAT-AAAA-ATGAT
24638239 TGAAATTGAA
Statistics
Matches: 97, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
34 31 0.32
35 46 0.47
36 15 0.15
37 5 0.05
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (35 bp):
TCAAAGAATAAAAATGATCAGGATTAAACTGCAAG
Found at i:24638283 original size:35 final size:34
Alignment explanation
Indices: 24638118--24638425 Score: 172
Period size: 35 Copynumber: 8.8 Consensus size: 34
24638108 TTGCTAGTTG
* ** * **
24638118 AAAAATAAAAATGAACAAGATTAAATTACAAGTC
1 AAAAATAAAAATGATCGGGATTGAATCGCAAGTC
* **
24638152 AAAGAATAAAAATGAT-GGGATTGAACCGTGAGTC
1 AAA-AATAAAAATGATCGGGATTGAATCGCAAGTC
* *
24638186 AAAGAATAAAAATGATCAGGATTTAA-CTGCAAGTC
1 AAA-AATAAAAATGATCGGGATTGAATC-GCAAGTC
* * **
24638221 AATGAATGAAAATATGATTGAAATTGAATCGCAAGTC
1 AA-AAAT-AAAA-ATGATCGGGATTGAATCGCAAGTC
* * * *
24638258 AAGAAATAAAAATGATCGGGTTTGAATCGTGAATTG
1 AA-AAATAAAAATGATCGGGATTGAATCG-CAAGTC
* * * ***
24638294 AAGAATAAATATGATTGGGATTGAATCATGAGTC
1 AAAAATAAAAATGATCGGGATTGAATCGCAAGTC
* * * ** **
24638328 AAAGAATAAAAATTACCGAGATTGCGTTACAAGTC
1 AAA-AATAAAAATGATCGGGATTGAATCGCAAGTC
* *
24638363 GAGAAATAAAAATGATCGAGATTGAATCGCAAGTC
1 -AAAAATAAAAATGATCGGGATTGAATCGCAAGTC
*
24638398 GAAAAATAAAAATGA-CTAGGATTGAATC
1 -AAAAATAAAAATGATC-GGGATTGAATC
24638426 ATAAGTCCTA
Statistics
Matches: 205, Mismatches: 58, Indels: 21
0.72 0.20 0.07
Matches are distributed among these distances:
34 35 0.17
35 132 0.64
36 15 0.07
37 22 0.11
38 1 0.00
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (34 bp):
AAAAATAAAAATGATCGGGATTGAATCGCAAGTC
Found at i:24638482 original size:35 final size:34
Alignment explanation
Indices: 24638442--24638624 Score: 122
Period size: 35 Copynumber: 5.3 Consensus size: 34
24638432 CCTAAAATGG
* * *
24638442 AGATTGAACCTCCAGTTAAAGAATAAAAATGATCA
1 AGATTGAACCT-AAGTCAAAGAATAAATATGATCA
* * * **
24638477 AGATTGAATCGTGACTTGAAGAATAAATATGA--A
1 AGATTGAA-CCTAAGTCAAAGAATAAATATGATCA
* ** *
24638510 AGATATTGAACCACAAGTCAAAGAATGGATATGATCG
1 AG--ATTGAACC-TAAGTCAAAGAATAAATATGATCA
* * *
24638547 AGATTGAACCATGAGTCGAAGAATAAATATGA-CT
1 AGATTGAACC-TAAGTCAAAGAATAAATATGATCA
*
24638581 GGATTGAACCGTAAGTCAAAGAATGAAA-ATGATCA
1 AGATTGAACC-TAAGTCAAAGAAT-AAATATGATCA
24638616 AGATTGAAC
1 AGATTGAAC
24638625 AGCGAGTTGG
Statistics
Matches: 114, Mismatches: 26, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
33 3 0.03
34 26 0.23
35 81 0.71
36 2 0.02
37 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (34 bp):
AGATTGAACCTAAGTCAAAGAATAAATATGATCA
Found at i:24638620 original size:69 final size:70
Alignment explanation
Indices: 24638441--24638624 Score: 217
Period size: 70 Copynumber: 2.6 Consensus size: 70
24638431 TCCTAAAATG
* * * * * * *
24638441 GAGATTGAACCTCCAGTTAAAGAATAAAAATGATCAAGATTGAATCGTGACTTGAAGAATAAATA
1 GAGATTGAACCACAAGTCAAAGAATGAAAATGATCAAGATTGAACCATGACTCGAAGAATAAATA
24638506 TGAAA
66 TGAAA
* * * * *
24638511 GATATTGAACCACAAGTCAAAGAATGGATATGATCGAGATTGAACCATGAGTCGAAGAATAAATA
1 GAGATTGAACCACAAGTCAAAGAATGAAAATGATCAAGATTGAACCATGACTCGAAGAATAAATA
**
24638576 TGACT
66 TGAAA
**
24638581 G-GATTGAACCGTAAGTCAAAGAATGAAAATGATCAAGATTGAAC
1 GAGATTGAACCACAAGTCAAAGAATGAAAATGATCAAGATTGAAC
24638625 AGCGAGTTGG
Statistics
Matches: 94, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
69 37 0.39
70 57 0.61
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (70 bp):
GAGATTGAACCACAAGTCAAAGAATGAAAATGATCAAGATTGAACCATGACTCGAAGAATAAATA
TGAAA
Found at i:24638754 original size:35 final size:35
Alignment explanation
Indices: 24638514--24638754 Score: 142
Period size: 35 Copynumber: 6.9 Consensus size: 35
24638504 TATGAAAGAT
* * * * *
24638514 ATTGAACCACAAGTCAAAGAATGGATATGATC-GAG
1 ATTGAACTACGAGTCGAAGAATGAAAATGATCAG-G
* * *
24638549 ATTGAACCATGAGTCGAAGAAT-AAATATGA-CTGG
1 ATTGAACTACGAGTCGAAGAATGAAA-ATGATCAGG
* *
24638583 ATTGAAC--CGTAAGTCAAAGAATGAAAATGATCAAG
1 ATTGAACTACG--AGTCGAAGAATGAAAATGATCAGG
* ** * *
24638618 ATTGAAC-AGCGAGTTGGGGAATGAAAAATGCTTAGG
1 ATTGAACTA-CGAGTCGAAGAATG-AAAATGATCAGG
* * *
24638654 ATTGAACTACAAGTCAAAGAAT-AAATATGATTAGG
1 ATTGAACTACGAGTCGAAGAATGAAA-ATGATCAGG
*
24638689 ATTGAA-TGC-AGGTC-AAGAAATGAAAATGATCAGG
1 ATTGAACTACGA-GTCGAAG-AATGAAAATGATCAGG
* *
24638723 ATTGAACTACGAGTCGATGAATGAAATTGATC
1 ATTGAACTACGAGTCGAAGAATGAAAATGATC
24638755 GAGATTAAAT
Statistics
Matches: 162, Mismatches: 27, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
32 1 0.01
33 4 0.02
34 49 0.30
35 78 0.48
36 27 0.17
37 3 0.02
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.23
Consensus pattern (35 bp):
ATTGAACTACGAGTCGAAGAATGAAAATGATCAGG
Found at i:24638807 original size:35 final size:35
Alignment explanation
Indices: 24638732--24638810 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
24638722 GATTGAACTA
* * * *
24638732 CGAGTCGATGAATGAAATTGATCGAGATTAAATCG
1 CGAGTCAAAGAATGAAATTGACCGAGATTAAACCG
*
24638767 CGAGTCAAAGAAT-AAATATGACCGAGATTGAACCG
1 CGAGTCAAAGAATGAAAT-TGACCGAGATTAAACCG
*
24638802 TGAGTCAAA
1 CGAGTCAAA
24638811 AAAAATGGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 4 0.11
35 33 0.89
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (35 bp):
CGAGTCAAAGAATGAAATTGACCGAGATTAAACCG
Found at i:24638809 original size:105 final size:105
Alignment explanation
Indices: 24638540--24638810 Score: 263
Period size: 105 Copynumber: 2.6 Consensus size: 105
24638530 AAGAATGGAT
* * *
24638540 ATGATCGAGATTGAACCATGAGTCGAAGAATAAATATGACTG-GATTGAACCGTAAGTCAAAGAA
1 ATGATCGAGATTGAA-CACGAGTCAAAGAATAAATATGACTGAGATTGAACCGTGAGTCAAAGAA
* *
24638604 TGAAAATGATCAAGATTGAACAGCGAGTTGGGGAATGAAAA
65 TGAAAATGATCAAGATTGAACAGCGAGTCGAGGAATGAAAA
* * * *
24638645 ATGCT-TAGGATTGAACTACAAGTCAAAGAATAAATATGA-TTAGGATTGAA---TGCAGGTC-A
1 ATGATCGA-GATTGAAC-ACGAGTCAAAGAATAAATATGACTGA-GATTGAACCGTG-A-GTCAA
* *
24638704 AGAAATGAAAATGATCAGGATTGAACTA-CGAGTCGATGAATG-AAA
61 AG-AATGAAAATGATCAAGATTGAAC-AGCGAGTCGAGGAATGAAAA
* * * *
24638749 TTGATCGAGATTAAATCGCGAGTCAAAGAATAAATATGACCGAGATTGAACCGTGAGTCAAA
1 ATGATCGAGATTGAA-CACGAGTCAAAGAATAAATATGACTGAGATTGAACCGTGAGTCAAA
24638811 AAAAATGGGA
Statistics
Matches: 132, Mismatches: 19, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
103 1 0.01
104 46 0.35
105 72 0.55
106 11 0.08
107 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (105 bp):
ATGATCGAGATTGAACACGAGTCAAAGAATAAATATGACTGAGATTGAACCGTGAGTCAAAGAAT
GAAAATGATCAAGATTGAACAGCGAGTCGAGGAATGAAAA
Found at i:24638963 original size:35 final size:35
Alignment explanation
Indices: 24638884--24638963 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
24638874 AATAAAAGTG
* *
24638884 ACCGAAATTGGACCATAAATCGAAGAATAAATATA
1 ACCGAGATTGGACCATAAATCAAAGAATAAATATA
* * *
24638919 A-CTAGGATTGGACCATGAGTCAAAGAATAAATATA
1 ACCGA-GATTGGACCATAAATCAAAGAATAAATATA
24638954 ACCGAGATTG
1 ACCGAGATTG
24638964 AACTGCAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
34 2 0.05
35 33 0.89
36 2 0.05
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (35 bp):
ACCGAGATTGGACCATAAATCAAAGAATAAATATA
Found at i:24639014 original size:69 final size:69
Alignment explanation
Indices: 24638935--24639065 Score: 201
Period size: 69 Copynumber: 1.9 Consensus size: 69
24638925 ATTGGACCAT
* **
24638935 GAGTCAAAGAATAAATATAACCGAGATTGAACT-GCAAGTTGAAAAATGAAAATGATTAAGATGA
1 GAGTCAAAGAATAAAGATAACCGAGATTGAA-TAGCAAGTCAAAAAATGAAAATGATTAAGATGA
24638999 ATCGC
65 ATCGC
* *
24639004 GAGTCAAAGAATAAAGATAACTGAGATTGAATAGCAAGTCAAAAAATGAAAATGATTGAGAT
1 GAGTCAAAGAATAAAGATAACCGAGATTGAATAGCAAGTCAAAAAATGAAAATGATTAAGAT
24639066 TGAAGTGTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 1 0.02
69 55 0.98
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (69 bp):
GAGTCAAAGAATAAAGATAACCGAGATTGAATAGCAAGTCAAAAAATGAAAATGATTAAGATGAA
TCGC
Found at i:24639044 original size:35 final size:34
Alignment explanation
Indices: 24638936--24639069 Score: 105
Period size: 35 Copynumber: 3.9 Consensus size: 34
24638926 TTGGACCATG
*
24638936 AGTCAAAGAAT-AAATATAACCGAGATTGAACTGCA
1 AGTCAAAGAATGAAA-ATAACTGAGATTGAA-TGCA
* * * * *
24638971 AGTTGAAA-AATGAAAATGATTAAGA-TGAATCGCG
1 AG-TCAAAGAATGAAAATAACTGAGATTGAAT-GCA
24639005 AGTCAAAGAAT-AAAGATAACTGAGATTGAATAGCA
1 AGTCAAAGAATGAAA-ATAACTGAGATTGAAT-GCA
* * *
24639040 AGTCAAAAAATGAAAATGATTGAGATTGAA
1 AGTCAAAGAATGAAAATAACTGAGATTGAA
24639070 GTGTGAAGAA
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
33 8 0.10
34 18 0.23
35 41 0.53
36 10 0.13
ACGTcount: A:0.50, C:0.08, G:0.20, T:0.22
Consensus pattern (34 bp):
AGTCAAAGAATGAAAATAACTGAGATTGAATGCA
Found at i:24639168 original size:36 final size:35
Alignment explanation
Indices: 24639104--24639171 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
24639094 ACTAAGCCAC
* * *
24639104 AAGTCAAAAAATAAATATGACCGGGATTAAACCGT
1 AAGTCAAAAAATAAAGATAACCGAGATTAAACCGT
*
24639139 AAGTCAAAAAATAAAGGATAACTGAGATTAAAC
1 AAGTCAAAAAATAAA-GATAACCGAGATTAAAC
24639172 TATAGGTCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (35 bp):
AAGTCAAAAAATAAAGATAACCGAGATTAAACCGT
Found at i:24639251 original size:22 final size:23
Alignment explanation
Indices: 24639202--24639257 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
24639192 TTCCAATGTG
* *
24639202 AGCTTGCGTGCTAACTAATTCTA
1 AGCTTGCATGCCAACTAATTCTA
* *
24639225 GGCTTTCATGCCAACTAA-TCTA
1 AGCTTGCATGCCAACTAATTCTA
24639247 AGCTTGCATGC
1 AGCTTGCATGC
24639258 AGCTAAACTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (23 bp):
AGCTTGCATGCCAACTAATTCTA
Found at i:24639362 original size:80 final size:80
Alignment explanation
Indices: 24639270--24639428 Score: 264
Period size: 80 Copynumber: 2.0 Consensus size: 80
24639260 CTAAACTGGA
*
24639270 TTTAAATTTAGGTAGCAAATAATCTGGGCTTAAATTTTCATTAGGTGCTAATTACACTTGCTTAA
1 TTTAAATTTAGGTAGCAAATAATCTGGGCTTAAATTTTCATTAGGTGCTAATTACACTGGCTTAA
24639335 AATCTTTTCATGGTG
66 AATCTTTTCATGGTG
* * ** *
24639350 TTTAAATTTAGGTAGTAGATAATCTGGGCTTAAATTTTCATTTTGTGCTAATTACAGTGGCTTAA
1 TTTAAATTTAGGTAGCAAATAATCTGGGCTTAAATTTTCATTAGGTGCTAATTACACTGGCTTAA
24639415 AATCTTTTCATGGT
66 AATCTTTTCATGGT
24639429 ATGCCAAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (80 bp):
TTTAAATTTAGGTAGCAAATAATCTGGGCTTAAATTTTCATTAGGTGCTAATTACACTGGCTTAA
AATCTTTTCATGGTG
Found at i:24648525 original size:22 final size:23
Alignment explanation
Indices: 24648500--24648542 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
24648490 GGTTTTTAAA
24648500 TTTTTTA-AAAACATGGTTTCAG
1 TTTTTTAGAAAACATGGTTTCAG
*
24648522 TTTTTTAGAATACATGGTTTC
1 TTTTTTAGAAAACATGGTTTC
24648543 TTAATTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (23 bp):
TTTTTTAGAAAACATGGTTTCAG
Found at i:24650113 original size:5 final size:5
Alignment explanation
Indices: 24650103--24650151 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
24650093 AAGCCAATTG
* *
24650103 ATATT ATATT ATATTT AAATT TTATT ATATT ATATAT ATATAT ATATT
1 ATATT ATATT ATA-TT ATATT ATATT ATATT ATAT-T ATAT-T ATATT
24650151 A
1 A
24650152 ATAAAATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 23 0.61
6 15 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:24652152 original size:2 final size:2
Alignment explanation
Indices: 24652145--24652172 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24652135 ATTTCTATTC
24652145 AT 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 AT
24652173 GAACATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24656426 original size:1 final size:1
Alignment explanation
Indices: 24656420--24656478 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
24656410 CGTTGGTTCC
* * * * * * *
24656420 TTTTTTTTTTTTTTTTTTCTTTTTGTTTGTGTTTTTTTCTGTTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24656479 GACTTTTGGC
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:24656770 original size:13 final size:12
Alignment explanation
Indices: 24656748--24656779 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
24656738 TAAAGATTGT
24656748 AAAAAATTATAA
1 AAAAAATTATAA
24656760 AAAACAATTATAA
1 AAAA-AATTATAA
24656773 AAAAAAT
1 AAAAAAT
24656780 CTATTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAAATTATAA
Found at i:24656919 original size:30 final size:30
Alignment explanation
Indices: 24656861--24656958 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
24656851 TCTTTTTTTA
* **
24656861 TTTTTTTCAAAAATTTTTACATTTATTTAAT
1 TTTTTTTCAAAATTTTTTA-AAATATTTAAT
*
24656892 TTTTTTTCAAAATTTTTTAAAAAATTTAAAT
1 TTTTTTTCAAAATTTTTTAAAATATTT-AAT
* *
24656923 ATTTTATTT-GAAATTTTAT-AAATATTTAAT
1 -TTTT-TTTCAAAATTTTTTAAAATATTTAAT
24656953 TTTTTT
1 TTTTTT
24656959 CATTTTTGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.04
29 4 0.07
30 8 0.14
31 28 0.49
32 12 0.21
33 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTTTTTCAAAATTTTTTAAAATATTTAAT
Found at i:24657258 original size:2 final size:2
Alignment explanation
Indices: 24657245--24657277 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
24657235 GTACAATCCA
*
24657245 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24657278 TTATTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:24657363 original size:22 final size:23
Alignment explanation
Indices: 24657332--24657378 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
24657322 TTATTTTCAT
*
24657332 TTTTTCTCTATATATTTAATAAA
1 TTTTTCTCTACATATTTAATAAA
*
24657355 TTTTT-TCTACATATTTAATGAA
1 TTTTTCTCTACATATTTAATAAA
24657377 TT
1 TT
24657379 ATCTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTCTCTACATATTTAATAAA
Found at i:24658035 original size:15 final size:16
Alignment explanation
Indices: 24658016--24658047 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24658006 TTGGTTTTTT
24658016 ATTTTT-TTT-AAATA
1 ATTTTTGTTTAAAATA
24658030 ATTTTTGTTTAAAATA
1 ATTTTTGTTTAAAATA
24658046 AT
1 AT
24658048 AGAGTTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTTTTGTTTAAAATA
Found at i:24658576 original size:19 final size:19
Alignment explanation
Indices: 24658554--24658591 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24658544 ATTATTACTT
24658554 AATATCATA-ATTTAATAAA
1 AATATCATATATTT-ATAAA
*
24658573 AATATTATATATTTATAAA
1 AATATCATATATTTATAAA
24658592 TAATTAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATCATATATTTATAAA
Found at i:24658594 original size:23 final size:20
Alignment explanation
Indices: 24658566--24658624 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 20
24658556 TATCATAATT
24658566 TAATAAAAATATTATATATTTA
1 TAATAAAAATA-TATAT-TTTA
* *
24658588 TAAATAATTAAGATATATTTTA
1 T-AATAA-AAATATATATTTTA
24658610 TAATAAAAATA-ATAT
1 TAATAAAAATATATAT
24658625 CCATAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 5 0.16
22 6 0.19
23 10 0.32
24 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TAATAAAAATATATATTTTA
Found at i:24658624 original size:21 final size:22
Alignment explanation
Indices: 24658553--24658624 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 22
24658543 AATTATTACT
*
24658553 TAATATCATAATT-TAATAAAAA
1 TAATAT-ATATTTATAATAAAAA
* * *
24658575 TATTATATATTTATAA-ATAAT
1 TAATATATATTTATAATAAAAA
*
24658596 TAAGATATATTTTATAATAAAAA
1 TAATATATA-TTTATAATAAAAA
24658619 TAATAT
1 TAATAT
24658625 CCATAAAATA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
21 15 0.39
22 15 0.39
23 8 0.21
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (22 bp):
TAATATATATTTATAATAAAAA
Found at i:24659248 original size:63 final size:64
Alignment explanation
Indices: 24659135--24659262 Score: 181
Period size: 63 Copynumber: 2.0 Consensus size: 64
24659125 TGGATGGCTA
* *
24659135 ATGTGTTTAGATCGAAAATTTACTTTGACTTGCTTTTTATCTTTTTATCATTTCTATTTCTTTT
1 ATGTGTTTAGATAGAAAATTTACTTTGACTTACTTTTTATCTTTTTATCATTTCTATTTCTTTT
* *
24659199 ATGTG-TTAGATAGAAAAATGTT-CTTTGACTTACTTTTT-TTTTTTTATCATTTTTATTTCTTT
1 ATGTGTTTAGATAG-AAAAT-TTACTTTGACTTACTTTTTATCTTTTTATCATTTCTATTTCTTT
24659261 T
64 T
24659262 A
1 A
24659263 CTCTTTCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
63 31 0.53
64 25 0.43
65 2 0.03
ACGTcount: A:0.22, C:0.10, G:0.09, T:0.59
Consensus pattern (64 bp):
ATGTGTTTAGATAGAAAATTTACTTTGACTTACTTTTTATCTTTTTATCATTTCTATTTCTTTT
Found at i:24660982 original size:17 final size:18
Alignment explanation
Indices: 24660951--24660985 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24660941 AAAGTCGATT
24660951 GGTAAAAAAATAAAAAAG
1 GGTAAAAAAATAAAAAAG
*
24660969 GGTAAAAAGA-AAAAAAG
1 GGTAAAAAAATAAAAAAG
24660986 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
GGTAAAAAAATAAAAAAG
Found at i:24661579 original size:20 final size:18
Alignment explanation
Indices: 24661554--24661591 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
24661544 TTTTGAATGA
24661554 ATTTGCATTACTAATATTAT
1 ATTTGCATTA-TAAT-TTAT
24661574 ATTTGCATTATAATTTAT
1 ATTTGCATTATAATTTAT
24661592 TTGCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTGCATTATAATTTAT
Found at i:24661594 original size:16 final size:17
Alignment explanation
Indices: 24661554--24661614 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
24661544 TTTTGAATGA
24661554 ATTTGCATTACTAATATTAT
1 ATTTGCATTA-T-ATATT-T
24661574 ATTTGCATTATA-ATTT
1 ATTTGCATTATATATTT
* *
24661590 ATTTGCCTAATATATTT
1 ATTTGCATTATATATTT
*
24661607 GTTTGCAT
1 ATTTGCAT
24661615 GATTAACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.31
17 13 0.36
18 1 0.03
19 1 0.03
20 10 0.28
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (17 bp):
ATTTGCATTATATATTT
Found at i:24661627 original size:21 final size:21
Alignment explanation
Indices: 24661601--24661640 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24661591 TTTGCCTAAT
*
24661601 ATATTTGTTTGCATGATTAAC
1 ATATTTATTTGCATGATTAAC
*
24661622 ATATTTATTTGTATGATTA
1 ATATTTATTTGCATGATTA
24661641 TATTTAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (21 bp):
ATATTTATTTGCATGATTAAC
Found at i:24661711 original size:24 final size:24
Alignment explanation
Indices: 24661597--24661712 Score: 91
Period size: 24 Copynumber: 5.0 Consensus size: 24
24661587 TTTATTTGCC
*
24661597 TAATATATTTGTTTGCATG---AT
1 TAATATATTTATTTGCATGATTAT
* *
24661618 TAACATATTTATTTGTATGATTA-
1 TAATATATTTATTTGCATGATTAT
* * *
24661641 T-ATTTAAGTTGA-TTGCATGATTAG
1 TAATAT-A-TTTATTTGCATGATTAT
* * *
24661665 TAATATATTTAATTGCTTAATTAT
1 TAATATATTTATTTGCATGATTAT
24661689 TAATATATTTATTTGCATGATTAT
1 TAATATATTTATTTGCATGATTAT
24661713 ATATTTAATT
Statistics
Matches: 72, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
21 16 0.22
22 2 0.03
23 15 0.21
24 36 0.50
25 3 0.04
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (24 bp):
TAATATATTTATTTGCATGATTAT
Found at i:24661795 original size:31 final size:31
Alignment explanation
Indices: 24661759--24661855 Score: 133
Period size: 31 Copynumber: 3.1 Consensus size: 31
24661749 ATTGCATATT
*
24661759 TTGCATGATTTATATATTATTATTTACATGA
1 TTGCATGATTTATATATTATTATTTGCATGA
*
24661790 TTGCATGATTTATGTATTATTATTTGCAT-A
1 TTGCATGATTTATATATTATTATTTGCATGA
*
24661820 TTTTGCATGGTTTTATATATTATTATTTGCATGA
1 --TTGCAT-GATTTATATATTATTATTTGCATGA
24661854 TT
1 TT
24661856 ATATATGTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.02
31 27 0.47
32 8 0.14
33 21 0.36
34 1 0.02
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (31 bp):
TTGCATGATTTATATATTATTATTTGCATGA
Found at i:24661843 original size:22 final size:24
Alignment explanation
Indices: 24661821--24661957 Score: 92
Period size: 24 Copynumber: 5.7 Consensus size: 24
24661811 ATTTGCATAT
* *
24661821 TTTGCATGGTTTTATATATTATTA
1 TTTGCATGATTATATATATTATTA
24661845 TTTGCATGATTATATATGTAATTGCATATTTA
1 TTTGCATGATTATATA--T-A-T---TA-TTA
* *
24661877 TTTGCATGGTT-TATATATTTTTA
1 TTTGCATGATTATATATATTATTA
*
24661900 TTTGTATGA-T-TATATATTA-TA
1 TTTGCATGATTATATATATTATTA
24661921 -TTGCAT-ATT-T-TATATTATTA
1 TTTGCATGATTATATATATTATTA
*
24661941 ATTGCATGATTATATAT
1 TTTGCATGATTATATAT
24661958 TTAATTACAT
Statistics
Matches: 91, Mismatches: 8, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
19 8 0.09
20 9 0.10
21 8 0.09
22 12 0.13
23 11 0.12
24 18 0.20
26 1 0.01
27 2 0.02
28 2 0.02
29 1 0.01
31 6 0.07
32 13 0.14
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.55
Consensus pattern (24 bp):
TTTGCATGATTATATATATTATTA
Found at i:24661869 original size:20 final size:19
Alignment explanation
Indices: 24661835--24661973 Score: 78
Period size: 20 Copynumber: 7.2 Consensus size: 19
24661825 CATGGTTTTA
*
24661835 TATATTATTATTTGCATGAT
1 TATA-TATTAATTGCATGAT
24661855 TATATATGTAATTGCAT-A-
1 TATATAT-TAATTGCATGAT
*
24661873 T-T-TA-T--TTGCATGGTT
1 TATATATTAATTGCAT-GAT
* *
24661888 TATATATTTTTATTTGTATGAT
1 TATATA---TTAATTGCATGAT
24661910 TATATATTATATTGCAT-ATTT
1 TATATATTA-ATTGCATGA--T
24661931 TATATTATTAATTGCATGAT
1 TATA-TATTAATTGCATGAT
*
24661951 TATATATTTAATTACATGAT
1 TATATA-TTAATTGCATGAT
24661971 TAT
1 TAT
24661974 TAATTTATTT
Statistics
Matches: 94, Mismatches: 7, Indels: 36
0.69 0.05 0.26
Matches are distributed among these distances:
12 6 0.06
14 1 0.01
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 10 0.11
20 37 0.39
21 13 0.14
22 14 0.15
23 5 0.05
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (19 bp):
TATATATTAATTGCATGAT
Found at i:24661909 original size:55 final size:56
Alignment explanation
Indices: 24661790--24661930 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 56
24661780 ATTTACATGA
*
24661790 TTGCATGATTTATGTATTATTATTTGCATA--T-TTTGCATGGTTTTATATATTATTAT
1 TTGCATGA-TTATATATTA-TA-TTGCATATTTATTTGCATGGTTTTATATATTATTAT
*
24661846 TTGCATGATTATATATGTA-ATTGCATATTTATTTGCATGG-TTTATATATTTTTAT
1 TTGCATGATTATATAT-TATATTGCATATTTATTTGCATGGTTTTATATATTATTAT
*
24661901 TTGTATGATTATATATTATATTGCATATTT
1 TTGCATGATTATATATTATATTGCATATTT
24661931 TATATTATTA
Statistics
Matches: 77, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
53 7 0.09
54 3 0.04
55 48 0.62
56 19 0.25
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (56 bp):
TTGCATGATTATATATTATATTGCATATTTATTTGCATGGTTTTATATATTATTAT
Found at i:24661933 original size:43 final size:40
Alignment explanation
Indices: 24661870--24661958 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 40
24661860 ATGTAATTGC
* * * *
24661870 ATAT-TTATTTGCATGGTTTATATATTTTTATTTGTATGATT
1 ATATATTATTTGCAT-ATTT-TATATTATTAATTGCATGATT
24661911 ATATATTATATTGCATATTTTATATTATTAATTGCATGATT
1 ATATATTAT-TTGCATATTTTATATTATTAATTGCATGATT
24661952 ATATATT
1 ATATATT
24661959 TAATTACATG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 29 0.69
42 7 0.17
43 6 0.14
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.57
Consensus pattern (40 bp):
ATATATTATTTGCATATTTTATATTATTAATTGCATGATT
Found at i:24663849 original size:23 final size:23
Alignment explanation
Indices: 24663815--24663859 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
24663805 GGCTGTTTCA
24663815 ATTTTTTGGTTTGCAT-TTGCATC
1 ATTTTTTGGTTT-CATGTTGCATC
24663838 ATTTATTT-GTTTCATGTTGCAT
1 ATTT-TTTGGTTTCATGTTGCAT
24663860 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 14 0.70
24 3 0.15
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.58
Consensus pattern (23 bp):
ATTTTTTGGTTTCATGTTGCATC
Found at i:24664078 original size:16 final size:16
Alignment explanation
Indices: 24664051--24664173 Score: 84
Period size: 16 Copynumber: 7.7 Consensus size: 16
24664041 GAAGCCCTAT
*
24664051 AACCTCAAAACCTTGA
1 AACCTTAAAACCTTGA
* *
24664067 AACTTTAAAACCTTAA
1 AACCTTAAAACCTTGA
* * *
24664083 AATCTTAAAACTTTAA
1 AACCTTAAAACCTTGA
* ***
24664099 AACCTCAAAACCCCAA
1 AACCTTAAAACCTTGA
* * *
24664115 AACCCTAAAACCCTAA
1 AACCTTAAAACCTTGA
* *
24664131 AACCTTATAACCCTGA
1 AACCTTAAAACCTTGA
**
24664147 AATTTTAAAACCTTGA
1 AACCTTAAAACCTTGA
*
24664163 AACCCTAAAAC
1 AACCTTAAAAC
24664174 ACTAAATAAA
Statistics
Matches: 83, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 83 1.00
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (16 bp):
AACCTTAAAACCTTGA
Found at i:24664078 original size:24 final size:24
Alignment explanation
Indices: 24664051--24664137 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
24664041 GAAGCCCTAT
*
24664051 AACCTCAAAACCTTGAAACTTTAA
1 AACCTCAAAACCTTAAAACTTTAA
* *
24664075 AACCTTAAAATCTTAAAACTTTAA
1 AACCTCAAAACCTTAAAACTTTAA
** **
24664099 AACCTCAAAACCCCAAAACCCTAA
1 AACCTCAAAACCTTAAAACTTTAA
24664123 AACC-CTAAAACCTTA
1 AACCTC-AAAACCTTA
24664138 TAACCCTGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 1 0.02
24 50 0.98
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (24 bp):
AACCTCAAAACCTTAAAACTTTAA
Found at i:24664173 original size:8 final size:8
Alignment explanation
Indices: 24664026--24664179 Score: 69
Period size: 8 Copynumber: 19.2 Consensus size: 8
24664016 TAAAGCATCG
24664026 AAACCCTA
1 AAACCCTA
* *
24664034 CAACCCTG
1 AAACCCTA
*
24664042 AAGCCCTA
1 AAACCCTA
*
24664050 TAA-CCTCA
1 AAACCCT-A
* *
24664058 AAACCTTG
1 AAACCCTA
**
24664066 AAACTTTA
1 AAACCCTA
*
24664074 AAACCTTA
1 AAACCCTA
* *
24664082 AAATCTTA
1 AAACCCTA
**
24664090 AAACTTTA
1 AAACCCTA
24664098 AAA-CCTCA
1 AAACCCT-A
*
24664106 AAACCCCA
1 AAACCCTA
24664114 AAACCCTA
1 AAACCCTA
24664122 AAACCCTA
1 AAACCCTA
*
24664130 AAACCTTA
1 AAACCCTA
* *
24664138 TAACCCTG
1 AAACCCTA
***
24664146 AAATTTTA
1 AAACCCTA
* *
24664154 AAACCTTG
1 AAACCCTA
24664162 AAACCCTA
1 AAACCCTA
*
24664170 AAACACTA
1 AAACCCTA
24664178 AA
1 AA
24664180 TAAAAACCTT
Statistics
Matches: 107, Mismatches: 35, Indels: 8
0.71 0.23 0.05
Matches are distributed among these distances:
7 4 0.04
8 99 0.93
9 4 0.04
ACGTcount: A:0.46, C:0.29, G:0.03, T:0.21
Consensus pattern (8 bp):
AAACCCTA
Found at i:24665996 original size:17 final size:17
Alignment explanation
Indices: 24665974--24666009 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
24665964 TCGAAGGGTA
24665974 TAACATCTTTAGATATT
1 TAACATCTTTAGATATT
*
24665991 TAACATCTTTAGTTATT
1 TAACATCTTTAGATATT
24666008 TA
1 TA
24666010 TAAGCATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (17 bp):
TAACATCTTTAGATATT
Found at i:24666987 original size:43 final size:43
Alignment explanation
Indices: 24666938--24667022 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
24666928 AAAGAATCAT
24666938 TACTCAAACTTCTTTACGATCTCAACCTCAAAGAATTTTTCGC
1 TACTCAAACTTCTTTACGATCTCAACCTCAAAGAATTTTTCGC
* * *
24666981 TACTCAAACTTCTTTATGATCTCATCCTCAAAGATTTTTTCG
1 TACTCAAACTTCTTTACGATCTCAACCTCAAAGAATTTTTCG
24667023 TTTACTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (43 bp):
TACTCAAACTTCTTTACGATCTCAACCTCAAAGAATTTTTCGC
Found at i:24669393 original size:16 final size:16
Alignment explanation
Indices: 24669352--24669436 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 16
24669342 TCTTCTGCCC
*
24669352 TTTTTGTAATTTAATTT
1 TTTTTATAA-TTAATTT
*
24669369 TAATTTATAATTAATTT
1 T-TTTTATAATTAATTT
*
24669386 TTTTTATAATTAATTA
1 TTTTTATAATTAATTT
* *
24669402 TTTTTATTATGTATTATT
1 TTTTTATAAT-TAAT-TT
24669420 TTTTTATTAATTTAATT
1 TTTTTA-TAA-TTAATT
24669437 AACTTAAATG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
16 22 0.41
17 12 0.22
18 14 0.26
19 5 0.09
20 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTATAATTAATTT
Found at i:24669417 original size:20 final size:19
Alignment explanation
Indices: 24669373--24669437 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 19
24669363 TAATTTTAAT
24669373 TTATAATTAA-T-TTTTT-
1 TTATAATTAATTATTTTTA
24669389 TTATAATTAATTATTTTTA
1 TTATAATTAATTATTTTTA
*
24669408 TTATGTATT-ATT-TTTTTA
1 TTAT-AATTAATTATTTTTA
*
24669426 TTA-ATTTAATTA
1 TTATAATTAATTA
24669438 ACTTAAATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 12 0.30
17 4 0.10
18 14 0.35
19 7 0.17
20 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATAATTAATTATTTTTA
Found at i:24672033 original size:8 final size:8
Alignment explanation
Indices: 24672020--24672118 Score: 62
Period size: 9 Copynumber: 12.2 Consensus size: 8
24672010 AATTAATCAA
24672020 AAAATATT
1 AAAATATT
24672028 AAAATATT
1 AAAATATT
*
24672036 AAAAATTTT
1 -AAAATATT
* *
24672045 TAATTAATT
1 AAAAT-ATT
24672054 AAAA-ATT
1 AAAATATT
*
24672061 AAGAAAATT
1 AA-AATATT
*
24672070 AAAGATTTT
1 AAA-ATATT
24672079 AAAAT-TT
1 AAAATATT
24672086 AAAAT-TT
1 AAAATATT
*
24672093 AAAATTTT
1 AAAATATT
*
24672101 AAAAATTTT
1 -AAAATATT
24672110 AAAA-ATT
1 AAAATATT
24672117 AA
1 AA
24672119 GAAATAATAA
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
7 23 0.31
8 22 0.29
9 30 0.40
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
AAAATATT
Found at i:24672116 original size:9 final size:8
Alignment explanation
Indices: 24672068--24672113 Score: 60
Period size: 7 Copynumber: 5.8 Consensus size: 8
24672058 ATTAAGAAAA
24672068 TTAAAGATT
1 TTAAA-ATT
24672077 TTAAAA-T
1 TTAAAATT
24672084 TTAAAA-T
1 TTAAAATT
24672091 TTAAAATT
1 TTAAAATT
24672099 TTAAAAATT
1 TT-AAAATT
24672108 TTAAAA
1 TTAAAA
24672114 ATTAAGAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.40
8 8 0.23
9 13 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
TTAAAATT
Found at i:24672223 original size:24 final size:25
Alignment explanation
Indices: 24672196--24672251 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
24672186 AATTTAAAAA
*
24672196 CCCAAAACAT-AAAAAAGAGAGAAG
1 CCCAAAACATAAAAAAAGAGACAAG
**
24672220 CCCAAAATGTAAAAAAAGAGACAAG
1 CCCAAAACATAAAAAAAGAGACAAG
*
24672245 CCTAAAA
1 CCCAAAA
24672252 AATGCAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.61, C:0.18, G:0.14, T:0.07
Consensus pattern (25 bp):
CCCAAAACATAAAAAAAGAGACAAG
Found at i:24672857 original size:23 final size:22
Alignment explanation
Indices: 24672805--24672857 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
24672795 GAAGAAAAAT
**
24672805 TGAAGAAAAAAAAAGAATTAAG
1 TGAAGAAAAAAAAAGAAGCAAG
* *
24672827 TGGTAGAAAAAAAAAGACAGCACG
1 T-GAAGAAAAAAAAAGA-AGCAAG
24672851 TGAAGAA
1 TGAAGAA
24672858 GAACCAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 1 0.04
23 19 0.79
24 4 0.17
ACGTcount: A:0.60, C:0.06, G:0.23, T:0.11
Consensus pattern (22 bp):
TGAAGAAAAAAAAAGAAGCAAG
Found at i:24674121 original size:18 final size:18
Alignment explanation
Indices: 24674098--24674157 Score: 120
Period size: 18 Copynumber: 3.3 Consensus size: 18
24674088 TATTGTCGCT
24674098 ATTCACCGTTATACCGCA
1 ATTCACCGTTATACCGCA
24674116 ATTCACCGTTATACCGCA
1 ATTCACCGTTATACCGCA
24674134 ATTCACCGTTATACCGCA
1 ATTCACCGTTATACCGCA
24674152 ATTCAC
1 ATTCAC
24674158 GACTGCGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.28
Consensus pattern (18 bp):
ATTCACCGTTATACCGCA
Found at i:24675471 original size:22 final size:21
Alignment explanation
Indices: 24675429--24675484 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
24675419 AAAATGTTGG
* *
24675429 AAAATTATTAAATATTAAATA
1 AAAATAATAAAATATTAAATA
24675450 TAAAATAATAAAATGATT-AATA
1 -AAAATAATAAAAT-ATTAAATA
*
24675472 AATGATAATAAAA
1 AA-AATAATAAAA
24675485 ATAATGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.83
23 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAATAATAAAATATTAAATA
Found at i:24675589 original size:23 final size:22
Alignment explanation
Indices: 24675563--24675611 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
24675553 AGATGAGGGT
*
24675563 AAATAAATAAT-AATAATTTAAAA
1 AAATAAAT-ATGAA-AATATAAAA
*
24675586 AAATATATATGAAAATATAAAA
1 AAATAAATATGAAAATATAAAA
24675608 AAAT
1 AAAT
24675612 TTGATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
AAATAAATATGAAAATATAAAA
Found at i:24684923 original size:16 final size:16
Alignment explanation
Indices: 24684904--24684939 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24684894 CTAAAGTCAT
*
24684904 TTTAGTCATTTATTTA
1 TTTAATCATTTATTTA
*
24684920 TTTAATCTTTTATTTA
1 TTTAATCATTTATTTA
24684936 TTTA
1 TTTA
24684940 TTTTTAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTAATCATTTATTTA
Found at i:24691009 original size:32 final size:31
Alignment explanation
Indices: 24690964--24691035 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
24690954 CTAAAATTAT
* * *
24690964 AATTATGAAAATG-CCCTCCTATTATCATAAAA
1 AATTATTATAATGCCCCTCATATTAT-AT-AAA
*
24690996 AATTATTATAATGCCCCTCATATTATATTAA
1 AATTATTATAATGCCCCTCATATTATATAAA
24691027 AATTATTAT
1 AATTATTAT
24691036 TTTTTCTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 11 0.31
32 13 0.37
33 11 0.31
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (31 bp):
AATTATTATAATGCCCCTCATATTATATAAA
Found at i:24691579 original size:33 final size:33
Alignment explanation
Indices: 24691537--24691602 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
24691527 CAAAACTAGA
24691537 CCAGCTTTTAAACTGTATTAGAATTAGATTCAC
1 CCAGCTTTTAAACTGTATTAGAATTAGATTCAC
24691570 CCAGCTTTTAAACTGTATTAGAATTAGATTCAC
1 CCAGCTTTTAAACTGTATTAGAATTAGATTCAC
24691603 ACTTCAGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
CCAGCTTTTAAACTGTATTAGAATTAGATTCAC
Found at i:24692160 original size:24 final size:24
Alignment explanation
Indices: 24692133--24692182 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24692123 AATAATATTT
*
24692133 TAATAAAATACAT-ATATAAATATA
1 TAATAAAATAAATAATA-AAATATA
*
24692157 TAATTAAATAAATAATAAAATATA
1 TAATAAAATAAATAATAAAATATA
24692181 TA
1 TA
24692183 TTTTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TAATAAAATAAATAATAAAATATA
Found at i:24692164 original size:12 final size:12
Alignment explanation
Indices: 24692149--24692182 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24692139 AATACATATA
24692149 TAAATATATAAT
1 TAAATATATAAT
*
24692161 TAAATAAATAAT
1 TAAATATATAAT
*
24692173 AAAATATATA
1 TAAATATATA
24692183 TTTTATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAATATATAAT
Found at i:24693119 original size:52 final size:52
Alignment explanation
Indices: 24693015--24693119 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
24693005 TATAATCATA
*
24693015 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * * **
24693067 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
24693119 C
1 C
24693120 TTCTTGTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.38
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:24693160 original size:11 final size:11
Alignment explanation
Indices: 24693144--24693185 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
24693134 GCAATATCTG
24693144 ACAAATCCCAA
1 ACAAATCCCAA
*
24693155 ACAAATCTCAA
1 ACAAATCCCAA
*
24693166 ACAAATCTCAA
1 ACAAATCCCAA
*
24693177 ACTAATCCC
1 ACAAATCCC
24693186 TGTAGAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (11 bp):
ACAAATCCCAA
Found at i:24703738 original size:20 final size:20
Alignment explanation
Indices: 24703713--24703754 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
24703703 CAGATCGAAC
24703713 TTTCAAATTTGATATCTAAG
1 TTTCAAATTTGATATCTAAG
24703733 TTTCAAATTTGATATCTAAG
1 TTTCAAATTTGATATCTAAG
24703753 TT
1 TT
24703755 GTGTCCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (20 bp):
TTTCAAATTTGATATCTAAG
Found at i:24703870 original size:17 final size:17
Alignment explanation
Indices: 24703846--24703898 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
24703836 GTGGAACATA
*
24703846 AAAAATGTAGTCTTTTT
1 AAAAATGTAGTATTTTT
* * *
24703863 ACAAATGTAGTATTGTA
1 AAAAATGTAGTATTTTT
*
24703880 AAAAATGTAGTTTTTTT
1 AAAAATGTAGTATTTTT
24703897 AA
1 AA
24703899 GCACAACGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (17 bp):
AAAAATGTAGTATTTTT
Found at i:24704037 original size:24 final size:25
Alignment explanation
Indices: 24704003--24704051 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
24703993 TTTCTTATAT
*
24704003 AAAAAATGTAGTTAAAAC-ACTCTA
1 AAAAAACGTAGTTAAAACTACTCTA
24704027 AAAAAACGTAGTTAAAACTACTCTA
1 AAAAAACGTAGTTAAAACTACTCTA
24704052 TGTCAATGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.24
Consensus pattern (25 bp):
AAAAAACGTAGTTAAAACTACTCTA
Found at i:24706018 original size:3 final size:3
Alignment explanation
Indices: 24706005--24706066 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
24705995 TATTTAAACA
*
24706005 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
24706053 AAT AAT AAG AAT AA
1 AAT AAT AAT AAT AA
24706067 ATCATTGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24706294 original size:5 final size:5
Alignment explanation
Indices: 24706278--24706309 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
24706268 CTTTTATTAT
24706278 ATAAA TATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA A
24706310 ATTATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
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):
ATAAA
Found at i:24706496 original size:21 final size:21
Alignment explanation
Indices: 24706470--24706509 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24706460 ATAAAAATTG
24706470 AAAATAATAAA-TAATAAAAAA
1 AAAATAA-AAAGTAATAAAAAA
24706491 AAAATAAAAAGTAATAAAA
1 AAAATAAAAAGTAATAAAA
24706510 GTATTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (21 bp):
AAAATAAAAAGTAATAAAAAA
Found at i:24706744 original size:25 final size:24
Alignment explanation
Indices: 24706686--24706736 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
24706676 TCTCTCGAGT
24706686 AAAAATTTTAAGAAAATTGAGGAA
1 AAAAATTTTAAGAAAATTGAGGAA
*
24706710 AAAAATTTTTAAGAAAATT-AGGGA
1 AAAAA-TTTTAAGAAAATTGAGGAA
24706734 AAA
1 AAA
24706737 CTCATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (24 bp):
AAAAATTTTAAGAAAATTGAGGAA
Done.