Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 15 of 84
Found at i:2839342 original size:288 final size:287
Alignment explanation
Indices: 2838804--2839709 Score: 1081
Period size: 288 Copynumber: 3.1 Consensus size: 287
2838794 ATAATTGCCC
* * * * *
2838804 GACTTGTGGTTCA-ATCTCAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCAT
1 GACTTGCGGTTCAGTTC-CAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCAT
* * * *
2838868 TCTCTGACTTACGGTTTAGTCCCAGTCATCTTTATTCTTTGGCTCGTGGTTTAATCTCAGTCATT
65 TCTTTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGGTCATT
* * *
2838933 TCATTAATTTCCT-ATCTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATC
130 TCATTAATTTCTTGA-CTTGTGATTTAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATC
* * * * * *
2838997 CCGGTCATTTCATTAATTTTTTGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGGCTTACG
194 CTGATCATTTCATTAATTCTCTGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACTCACG
* *
2839062 ATTTAATCTCGATCATTTCATTAATTTTTT
259 GTTTAATC-CGATCATTTCATTAATTCTTT
* * *
2839092 GACTTACGGTTCAGTTCCAGTCGTCTTTAATCTTTGACTCATGATTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAGTTCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATT
* * ** ** * *
2839157 CTTTGACTTGCAGTTCAGTCCCAGTCATCTTTAATCTTTAACTTATGGTTTAATCCCGGTTATTT
66 CTTTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGGTCATTT
* *
2839222 CATTAATTTTTTGACTTGTGATTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCT
131 CATTAATTTCTTGACTTGTGATTTAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCT
* ** ** * *
2839287 GATCATTTCATTAATTCTCTGACTTACGATTCAGTTTCAGTTGTCTTTCATCTTTGACTCATGGT
196 GATCATTTCATTAATTCTCTGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGT
*
2839352 TTAATCCTGATCATTTC----ATTCTCT
261 TTAATCC-GATCATTTCATTAATTCTTT
* * *
2839376 GACTTGCGGTTCAGTCCCAGTCAT-TTTAATCTTTGACTTATGGTTTAATCCTGATCATTTCATT
1 GACTTGCGGTTCAGTTCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTC---
* * *
2839440 AATTTTTTGACTTGTGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATC
63 -ATTCTTTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGGTC
* * * * * * *
2839505 ATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTAATCATCTTTAATCTTTGACTCGCGATTTA
127 ATTTCATTAATT-TCTTGACTTGTGATTTAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTA
* * * *
2839570 ATCCTGATCATTTCATTAATTCCCTCGACTTGCGGTTCAGTCCCAGTCATCTTTAATTTTTAACT
191 ATCCTGATCATTTCATTAATTCTCT-GACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACT
* * *
2839635 CACGGTTTAATCCCAATCATTTCATTAATTCCCTC
255 CACGGTTTAAT-CCGATCATTTCATTAATT-CTTT
*
2839670 GACTTGCAGTTCAG-TCTCAGTCATCTTTAATCTTTGACTC
1 GACTTGCGGTTCAGTTC-CAGTCATCTTTAATCTTTGACTC
2839710 GCGGTGTCGT
Statistics
Matches: 518, Mismatches: 83, Indels: 27
0.82 0.13 0.04
Matches are distributed among these distances:
283 34 0.07
284 26 0.05
287 66 0.13
288 300 0.58
289 51 0.10
290 2 0.00
293 4 0.01
294 21 0.04
295 14 0.03
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (287 bp):
GACTTGCGGTTCAGTTCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATT
CTTTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGGTCATTT
CATTAATTTCTTGACTTGTGATTTAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCT
GATCATTTCATTAATTCTCTGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGT
TTAATCCGATCATTTCATTAATTCTTT
Found at i:2839545 original size:39 final size:39
Alignment explanation
Indices: 2839502--2839612 Score: 122
Period size: 35 Copynumber: 2.9 Consensus size: 39
2839492 TTTAATCTCG
2839502 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
* * * * * *
2839541 ATCA--TCTTTAA-TCT-TTGACTCGCGATTTAATCCTG
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
* *
2839576 ATCATTTCATTAATTCCCTCGACTTGCGGTTCAGTCC
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCC
2839613 CAGTCATCTT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
35 20 0.36
36 3 0.05
37 12 0.22
38 2 0.04
39 18 0.33
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.41
Consensus pattern (39 bp):
ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
Found at i:2839580 original size:35 final size:35
Alignment explanation
Indices: 2839468--2839580 Score: 93
Period size: 35 Copynumber: 3.1 Consensus size: 35
2839458 TTAGTCCCAG
* * *
2839468 TCATCTTTAATCTTTGGCTCGTGGTTTAAT-CTCGA
1 TCATCTTTAATCTTTGACTCGCGATTTAATCCT-GA
* * * * * *
2839503 TCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTAA
1 TCA--TCTTTAA-TCT-TTGACTCGCGATTTAATCCTGA
2839542 TCATCTTTAATCTTTGACTCGCGATTTAATCCTGA
1 TCATCTTTAATCTTTGACTCGCGATTTAATCCTGA
2839577 TCAT
1 TCAT
2839581 TTCATTAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
35 24 0.41
36 3 0.05
37 12 0.21
38 3 0.05
39 14 0.24
40 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (35 bp):
TCATCTTTAATCTTTGACTCGCGATTTAATCCTGA
Found at i:2843528 original size:15 final size:15
Alignment explanation
Indices: 2843487--2843530 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2843477 ATTTTTTAAA
*
2843487 TTAATTTTTATTTTAT
1 TTAATTTTTA-TTTAG
**
2843503 TTAATAATTATTTAG
1 TTAATTTTTATTTAG
2843518 TTAATTTTTATTT
1 TTAATTTTTATTT
2843531 TTGTTTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTAATTTTTATTTAG
Found at i:2843551 original size:20 final size:21
Alignment explanation
Indices: 2843526--2843566 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2843516 AGTTAATTTT
*
2843526 TATTTTTGTT-TAATAAAAAA
1 TATTTTTATTATAATAAAAAA
*
2843546 TATTTTTATTATATTAAAAAA
1 TATTTTTATTATAATAAAAAA
2843567 CTTTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTTTATTATAATAAAAAA
Found at i:2844011 original size:21 final size:20
Alignment explanation
Indices: 2843985--2844036 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
2843975 CATAAATAAT
*
2843985 AATAATATTAAAAATATTAAA
1 AATAATATTAAAAAT-TAAAA
2844006 AATAATATTAAAAATTAAAA
1 AATAATATTAAAAATTAAAA
*
2844026 AAAAAT-TTAAA
1 AATAATATTAAA
2844037 CTTAATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.17
20 9 0.31
21 15 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATATTAAAAATTAAAA
Found at i:2844012 original size:12 final size:12
Alignment explanation
Indices: 2843966--2844020 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
2843956 ATTTAAAATT
2843966 TTAAAAATACATAA
1 TTAAAAATA-AT-A
* *
2843980 ATAATAATAATA
1 TTAAAAATAATA
2843992 TT--AAA-AATA
1 TTAAAAATAATA
2844001 TTAAAAATAATA
1 TTAAAAATAATA
2844013 TTAAAAAT
1 TTAAAAAT
2844021 TAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 6 0.18
10 2 0.06
11 3 0.09
12 14 0.41
13 2 0.06
14 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAAATAATA
Found at i:2844035 original size:19 final size:21
Alignment explanation
Indices: 2843960--2844036 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
2843950 TAACAAATTT
*
2843960 AAAATTTTAAAAATACATAAATAA
1 AAAATATTAAAAAT--ATAAA-AA
*
2843984 TAATAATATTAAAAATATTAAAA
1 -AA-AATATTAAAAATATAAAAA
*
2844007 ATAATATTAAAAAT-TAAAAA
1 AAAATATTAAAAATATAAAAA
2844027 AAAAT-TTAAA
1 AAAATATTAAA
2844037 CTTAATCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.11
20 9 0.20
21 12 0.26
22 1 0.02
23 2 0.04
24 4 0.09
25 2 0.04
26 11 0.24
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATATTAAAAATATAAAAA
Found at i:2845071 original size:3 final size:3
Alignment explanation
Indices: 2845063--2845096 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
2845053 TAATTAATTA
*
2845063 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2845097 GTCAAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:2845374 original size:38 final size:37
Alignment explanation
Indices: 2845330--2845519 Score: 145
Period size: 38 Copynumber: 5.2 Consensus size: 37
2845320 TCTTTGGCTC
2845330 GCGGTTTAATCTCGGTCATTTCATTAATTTTCTGACTT
1 GCGGTTTAATCTCGGTCATTTCATTAATTTT-TGACTT
* * ** * * * *
2845368 GTGGTTTAGTCTTAGTCA--TCTTTAATCTTTGGCTC
1 GCGGTTTAATCTCGGTCATTTCATTAATTTTTGACTT
* *
2845403 GTGGTTTAATCCCGGTCATTTCATTAATTTTTTGACTT
1 GCGGTTTAATCTCGGTCATTTCATTAA-TTTTTGACTT
* * * * * * * *
2845441 GCGGTTCAGTCCCAGTCA--TCTTTAATCTTTGGCTC
1 GCGGTTTAATCTCGGTCATTTCATTAATTTTTGACTT
* *
2845476 GCGATTTAATCTCGATCATTTCATTAATTTTTTGACTT
1 GCGGTTTAATCTCGGTCATTTCATTAA-TTTTTGACTT
2845514 GCGGTT
1 GCGGTT
2845520 CAGTTCCAGT
Statistics
Matches: 111, Mismatches: 35, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
35 37 0.33
36 15 0.14
37 12 0.11
38 47 0.42
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.46
Consensus pattern (37 bp):
GCGGTTTAATCTCGGTCATTTCATTAATTTTTGACTT
Found at i:2845397 original size:73 final size:73
Alignment explanation
Indices: 2845250--2846127 Score: 952
Period size: 73 Copynumber: 12.2 Consensus size: 73
2845240 ACATATATAC
* * * *
2845250 ATCTTTGACTCGTGGTTTAATCCCGGTCATTTC----ATTCTCTGACTTACGATTCAGTCCCAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
2845311 CATCTTTA
66 CATCTTTA
* * ** * * * * * **
2845319 TTCTTTGGCTCGCGGTTTAATCTCGGTCATTTCATTAATTTTCTGACTTGTGGTTTAGTCTTAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
2845384 CATCTTTA
66 CATCTTTA
* * * * *
2845392 ATCTTTGGCTCGTGGTTTAATCCCGGTCATTTCATTAATTTTTTGACTTGCGGTTCAGTCCCAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
2845457 CATCTTTA
66 CATCTTTA
* ** * * * * *
2845465 ATCTTTGGCTCGCGATTTAATCTCGATCATTTCATTAATTTTTTGACTTGCGGTTCAGTTCCAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
2845530 CATCTTTA
66 CATCTTTA
* * * *
2845538 ATCTTTGACTCATGATTTAATCCTGATCATTTC----ATTCTCTAACTTGTGGTTCAGTCCCAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
2845599 CATCTTTA
66 CATCTTTA
* * * * * * * **
2845607 ATCTTTAACTTATGGTTTAATCCCGATCATTTCATTAATTTTTTGATTTGTGATTTTGTCCCAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
2845672 CATCTTTA
66 CATCTTTA
* * ** * * ***
2845680 ATCTTTGGCTCGTGGTTTAATCTTGATCATTTCATTAATTCTCTGACTTACGATTCAGTTTTAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
* *
2845745 CGTCTTTC
66 CATCTTTA
2845753 ATCTTTGACTCATGGTTTAATCCCGATCATTTC----ATTCTCTGACTTGCGGTTCAGTCCCAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
2845814 CATCTTTA
66 CATCTTTA
* * * * * * * *
2845822 GTCTTTGACTTATGGTTTAATCCTGATCATTTCATTAATTTTTTGGCTTGTGGTTTAGTCCCAGT
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
2845887 CATCTTTA
66 CATCTTTA
* * * * * *
2845895 ATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTAA
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCT-GACTTGCGGTTCAGTCCCAG
2845960 TCATCTTTA
65 TCATCTTTA
* * * * *
2845969 ATCTTTGACTCACGATTTAATCCTGATCATTTCATTAATTCCCTCGACTTGTGGTTCAGTCCCAG
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCT-GACTTGCGGTTCAGTCCCAG
2846034 TCATCTTTA
65 TCATCTTTA
* * * * * *
2846043 ATTTTTGACTCACGGTTTAATCCCGATCATTTCATTAATTCCCTCGACTTGCAGTTCAATCTCAG
1 ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCT-GACTTGCGGTTCAGTCCCAG
2846108 TCATCTTTA
65 TCATCTTTA
2846117 ATCTTTGACTC
1 ATCTTTGACTC
2846128 GCGGTGTCGT
Statistics
Matches: 681, Mismatches: 115, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
69 148 0.22
73 370 0.54
74 163 0.24
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (73 bp):
ATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTGACTTGCGGTTCAGTCCCAGT
CATCTTTA
Found at i:2845623 original size:35 final size:34
Alignment explanation
Indices: 2845516--2845623 Score: 92
Period size: 35 Copynumber: 3.1 Consensus size: 34
2845506 TTTGACTTGC
* *
2845516 GGTTCAGTTCCAGTCATCTTTAATCTTTGACTCAT
1 GGTTCAG-TCCAGTCATCTTTAATCTTTAACTTAT
* * * * * * * *
2845551 GATTTAATCCTGATCAT-TTCATTCTCTAACTTGT
1 GGTTCAGTCCAG-TCATCTTTAATCTTTAACTTAT
2845585 GGTTCAGTCCCAGTCATCTTTAATCTTTAACTTAT
1 GGTTCAGT-CCAGTCATCTTTAATCTTTAACTTAT
2845620 GGTT
1 GGTT
2845624 TAATCCCGAT
Statistics
Matches: 52, Mismatches: 18, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
34 24 0.46
35 28 0.54
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (34 bp):
GGTTCAGTCCAGTCATCTTTAATCTTTAACTTAT
Found at i:2845625 original size:215 final size:215
Alignment explanation
Indices: 2845289--2846132 Score: 1035
Period size: 215 Copynumber: 3.9 Consensus size: 215
2845279 TTTCATTCTC
* * * * ** * *
2845289 TGACTTACGATTCAGTCCCAGTCATCTTTATTCTTTGGCTCGCGGTTTAAT-CTCGGTCATTTCA
1 TGACTTGCGATTCAGTTCCAGTCATCTTTAATCTTTGACTCATGATTTAATCCT-GATCATTTC-
* * ** * * *
2845353 TTAATTTTCTGACTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGG
64 ---ATTCTCTGACTTGTGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGA
*
2845418 TCATTTCATTAATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGATTT
126 TCATTTCATTAATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGGTTT
2845483 AATCTCGATCATTTCATTAATTTTT
191 AATCTCGATCATTTCATTAATTTTT
*
2845508 TGACTTGCGGTTCAGTTCCAGTCATCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTCAT
1 TGACTTGCGATTCAGTTCCAGTCATCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTCAT
* * *
2845573 TCTCTAACTTGTGGTTCAGTCCCAGTCATCTTTAATCTTTAACTTATGGTTTAATCCCGATCATT
66 TCTCTGACTTGTGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATT
* * * ** *
2845638 TCATTAATTTTTTGATTTGTGATTTTGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCT
131 TCATTAATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGGTTTAATCT
* * *
2845703 TGATCATTTCATTAATTCTC
196 CGATCATTTCATTAATTTTT
* ** * * * *
2845723 TGACTTACGATTCAGTTTTAGTCGTCTTTCATCTTTGACTCATGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGATTCAGTTCCAGTCATCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTCAT
* * * *
2845788 TCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAGTCTTTGACTTATGGTTTAATCCTGATCATT
66 TCTCTGACTTGTGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATT
* * * *
2845853 TCATTAATTTTTTGGCTTGTGGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCT
131 TCATTAATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGGTTTAATCT
*
2845918 CGATCATTTCATTAATTCTCT
196 CGATCATTTCATTAATT-TTT
* * *
2845939 CGACTTGCGATTCAG-TCCTAATCATCTTTAATCTTTGACTCACGATTTAATCCTGATCATTTCA
1 TGACTTGCGATTCAGTTCC-AGTCATCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTC-
* * *
2846003 TTAATTCCCTCGACTTGTGGTTCAGTCCCAGTCATCTTTAATTTTTGACTCACGGTTTAATCCCG
64 ---ATTCTCT-GACTTGTGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCG
** * * * * *
2846068 ATCATTTCATTAATTCCCTCGACTTGCAGTTCAATCTCAGTCATCTTTAATCTTTGACTCGCGGT
125 ATCATTTCATTAATT-TTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGGT
2846133 GTCGTCCCGA
Statistics
Matches: 538, Mismatches: 78, Indels: 15
0.85 0.12 0.02
Matches are distributed among these distances:
215 327 0.61
216 51 0.09
219 51 0.09
220 8 0.01
221 63 0.12
222 38 0.07
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (215 bp):
TGACTTGCGATTCAGTTCCAGTCATCTTTAATCTTTGACTCATGATTTAATCCTGATCATTTCAT
TCTCTGACTTGTGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATT
TCATTAATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGGTTTAATCT
CGATCATTTCATTAATTTTT
Found at i:2845774 original size:288 final size:288
Alignment explanation
Indices: 2845250--2846127 Score: 1073
Period size: 288 Copynumber: 3.0 Consensus size: 288
2845240 ACATATATAC
* * * ** *
2845250 ATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTCTCTGACTTACGATTCAGTCCCAGTCATC
1 ATCTTTGACTCATGGTTTAATCCTGATCATTTCATTCTCTGACTTGTGGTTCAGTCCCAGTCATC
* * * * * *
2845315 TTTATTCTTTGGCTCGCGGTTTAATCTCGGTCATTTCATTAATTTTCTGACTTGTGGTTTAGTCT
66 TTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTTTTTGACTTGTGATTTAGTCC
* * * *
2845380 TAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGGTCATTTCATTAATTTTTTGACTTGCGG
131 TAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGATCATTTCATTAATTCTCTGACTTGCGG
* * * * *
2845445 TTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGATTTAATCTCGATCATTTCATTAATTTTTTG
196 TTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCATTAATTCTTTG
2845510 ACTTGCGGTTCAGTTCCAGTCATCTTTA
261 ACTTGCGGTTCAGTTCCAGTCATCTTTA
* *
2845538 ATCTTTGACTCATGATTTAATCCTGATCATTTCATTCTCTAACTTGTGGTTCAGTCCCAGTCATC
1 ATCTTTGACTCATGGTTTAATCCTGATCATTTCATTCTCTGACTTGTGGTTCAGTCCCAGTCATC
** ** * * *
2845603 TTTAATCTTTAACTTATGGTTTAATCCCGATCATTTCATTAATTTTTTGATTTGTGATTTTGTCC
66 TTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTTTTTGACTTGTGATTTAGTCC
* * * *
2845668 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTTGATCATTTCATTAATTCTCTGACTTACGA
131 TAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGATCATTTCATTAATTCTCTGACTTGCGG
*** * * * *
2845733 TTCAGTTTTAGTCGTCTTTCATCTTTGACTCATGGTTTAATCCCGATCATTTC----ATTCTCTG
196 TTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCATTAATTCTTTG
*
2845794 ACTTGCGGTTCAGTCCCAGTCATCTTTA
261 ACTTGCGGTTCAGTTCCAGTCATCTTTA
* * * * * *
2845822 GTCTTTGACTTATGGTTTAATCCTGATCATTTCATTAATTTTTTGGCTTGTGGTTTAGTCCCAGT
1 ATCTTTGACTCATGGTTTAATCCTGATCATTTC----ATTCTCTGACTTGTGGTTCAGTCCCAGT
* * * *
2845887 CATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTCTCTCGACTTGCGATTC
62 CATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATT-TTTTGACTTGTGATTT
* * ** * *
2845952 AGTCCTAATCATCTTTAATCTTTGACTCACGATTTAATCCTGATCATTTCATTAATTCCCTCGAC
126 AGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGATCATTTCATTAATTCTCT-GAC
* *
2846017 TTGTGGTTCAGTCCCAGTCATCTTTAATTTTTGACTCACGGTTTAATCCCGATCATTTCATTAAT
190 TTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCATTAAT
* * * *
2846082 TCCCTCGACTTGCAGTTCA-ATCTCAGTCATCTTTA
255 T-CTTTGACTTGCGGTTCAGTTC-CAGTCATCTTTA
2846117 ATCTTTGACTC
1 ATCTTTGACTC
2846128 GCGGTGTCGT
Statistics
Matches: 491, Mismatches: 87, Indels: 17
0.83 0.15 0.03
Matches are distributed among these distances:
284 63 0.13
288 275 0.56
289 63 0.13
290 52 0.11
294 4 0.01
295 34 0.07
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (288 bp):
ATCTTTGACTCATGGTTTAATCCTGATCATTTCATTCTCTGACTTGTGGTTCAGTCCCAGTCATC
TTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTTTTTGACTTGTGATTTAGTCC
TAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGATCATTTCATTAATTCTCTGACTTGCGG
TTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCATTAATTCTTTG
ACTTGCGGTTCAGTTCCAGTCATCTTTA
Found at i:2845963 original size:39 final size:39
Alignment explanation
Indices: 2845920--2846030 Score: 104
Period size: 35 Copynumber: 2.9 Consensus size: 39
2845910 TTTAATCTCG
2845920 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
* * ** * * *
2845959 ATCA--TCTTTAA-TCT-TTGACTCACGATTTAATCCTG
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
* * *
2845994 ATCATTTCATTAATTCCCTCGACTTGTGGTTCAGTCC
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCC
2846031 CAGTCATCTT
Statistics
Matches: 52, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
35 19 0.37
36 3 0.06
37 12 0.23
38 2 0.04
39 16 0.31
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (39 bp):
ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
Found at i:2846384 original size:3 final size:3
Alignment explanation
Indices: 2846376--2846421 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
2846366 CATTTTAAGT
2846376 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2846422 ATATTTAAAA
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):
ATA
Found at i:2846439 original size:18 final size:16
Alignment explanation
Indices: 2846384--2846449 Score: 73
Period size: 15 Copynumber: 4.1 Consensus size: 16
2846374 GTATAATAAT
*
2846384 AATAATAATAA-TAAT
1 AATAATAATAATTAAA
*
2846399 AATAATAATAA-TAAT
1 AATAATAATAATTAAA
*
2846414 AATAATAAATATTTAAA
1 AATAAT-AATAATTAAA
2846431 AATATATAATAATTAAA
1 AATA-ATAATAATTAAA
2846448 AA
1 AA
2846450 AATTAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
15 21 0.47
16 4 0.09
17 18 0.40
18 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAATAATTAAA
Found at i:2846458 original size:27 final size:26
Alignment explanation
Indices: 2846378--2846459 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
2846368 TTTTAAGTAT
*
2846378 AATAATAATAATAATAATAA-TAATAA
1 AATAATAATAATAATAAAAATTAA-AA
* *
2846404 TAATAATAATAATAATAAATATTTAAA
1 -AATAATAATAATAATAAAAATTAAAA
2846431 AATATATAATAATTAA-AAAAATTAAAA
1 AATA-ATAATAA-TAATAAAAATTAAAA
2846458 AA
1 AA
2846460 GAATTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
26 4 0.09
27 38 0.81
28 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
AATAATAATAATAATAAAAATTAAAA
Found at i:2846543 original size:22 final size:22
Alignment explanation
Indices: 2846515--2846562 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
2846505 CACTGCTGTC
2846515 GCCCCTGTCAGCCTCCCGACCA
1 GCCCCTGTCAGCCTCCCGACCA
* *
2846537 GCCCCTGTTAGCCTCCTGACCA
1 GCCCCTGTCAGCCTCCCGACCA
2846559 GCCC
1 GCCC
2846563 TTTGACCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.12, C:0.52, G:0.19, T:0.17
Consensus pattern (22 bp):
GCCCCTGTCAGCCTCCCGACCA
Found at i:2848019 original size:34 final size:32
Alignment explanation
Indices: 2847965--2848034 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
2847955 TTTTAATTTT
* *
2847965 CAAAATTTTAAGTTTTAAAACCCCTAAAAATC
1 CAAAATTTTAAGATTCAAAACCCCTAAAAATC
* *
2847997 CAAAATTTCTTAAGATTCAAAACCTCTTAAAATC
1 CAAAA-TT-TTAAGATTCAAAACCCCTAAAAATC
2848031 CAAA
1 CAAA
2848035 GTCCTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 2 0.06
34 25 0.78
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (32 bp):
CAAAATTTTAAGATTCAAAACCCCTAAAAATC
Found at i:2848034 original size:17 final size:17
Alignment explanation
Indices: 2847981--2848034 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
2847971 TTTAAGTTTT
* *
2847981 AAAACCCCTAAAAATCC
1 AAAACCTCTTAAAATCC
** * *
2847998 AAAATTTCTTAAGATTC
1 AAAACCTCTTAAAATCC
2848015 AAAACCTCTTAAAATCC
1 AAAACCTCTTAAAATCC
2848032 AAA
1 AAA
2848035 GTCCTAAAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAACCTCTTAAAATCC
Found at i:2849929 original size:22 final size:23
Alignment explanation
Indices: 2849901--2849944 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2849891 ATTTTTCATC
2849901 ATTTTTATTATT-TTTAA-AATTA
1 ATTTTTATT-TTATTTAATAATTA
2849923 ATTTTTATTTTATTTAATAATT
1 ATTTTTATTTTATTTAATAATT
2849945 GTTTAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 14 0.70
23 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTTTATTTTATTTAATAATTA
Found at i:2849984 original size:20 final size:21
Alignment explanation
Indices: 2849959--2850004 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
2849949 AGTTAATTTT
*
2849959 TATTTTTGTT-TAATAAAAAA
1 TATTTTTATTATAATAAAAAA
*
2849979 TATTTTTATTATATTAAAAAA
1 TATTTTTATTATAATAAAAAA
2850000 -ATTTT
1 TATTTT
2850005 ATAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTTATTATAATAAAAAA
Found at i:2850434 original size:18 final size:19
Alignment explanation
Indices: 2850413--2850452 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2850403 AAAAATACAT
*
2850413 AAATAATAAT-AATATTAA
1 AAATAATAATAAAAATTAA
*
2850431 AAATAATATTAAAAATTAA
1 AAATAATAATAAAAATTAA
2850450 AAA
1 AAA
2850453 AAAATTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATAATAATAAAAATTAA
Found at i:2850437 original size:12 final size:12
Alignment explanation
Indices: 2850401--2850446 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
2850391 ATTTAAAATT
2850401 TTAAAAATACATAA
1 TTAAAAATA-AT-A
* *
2850415 ATAATAATAATA
1 TTAAAAATAATA
2850427 TTAAAAATAATA
1 TTAAAAATAATA
2850439 TTAAAAAT
1 TTAAAAAT
2850447 TAAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 19 0.68
13 2 0.07
14 7 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAAATAATA
Found at i:2851001 original size:16 final size:18
Alignment explanation
Indices: 2850975--2851015 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
2850965 ACCACATCCC
* *
2850975 TCTTTTCTTTGGTTT-TT
1 TCTTTTTTTTGATTTGTT
2850992 T-TTTTTTTTGATTTGTT
1 TCTTTTTTTTGATTTGTT
2851009 TCTTTTT
1 TCTTTTT
2851016 CTGGGGTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.02, C:0.07, G:0.10, T:0.80
Consensus pattern (18 bp):
TCTTTTTTTTGATTTGTT
Found at i:2851500 original size:3 final size:3
Alignment explanation
Indices: 2851494--2851519 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2851484 TAATTAATAA
2851494 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
2851520 GTCAAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2851696 original size:14 final size:14
Alignment explanation
Indices: 2851665--2851708 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2851655 TGTCTACAAC
* **
2851665 ATATATACATATAC
1 ATATATATATATGT
2851679 ATATATATATATGT
1 ATATATATATATGT
*
2851693 ATATGTATATATGT
1 ATATATATATATGT
2851707 AT
1 AT
2851709 GTATTTGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (14 bp):
ATATATATATATGT
Found at i:2853281 original size:4 final size:4
Alignment explanation
Indices: 2853272--2853297 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2853262 AATAGAGAAC
2853272 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
2853298 ATATATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:2858173 original size:42 final size:42
Alignment explanation
Indices: 2858094--2858173 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
2858084 CCAAGAAATT
* * *
2858094 ATTTCTTTTGAAATATTATTTTATTTTATTTATAATATCATA
1 ATTTCTTTTAAAATATTATTCTATTTTATTTAAAATATCATA
2858136 ATTT-TTTTAAAAGTATTATTCT-TTTTATTATAAAATAT
1 ATTTCTTTTAAAA-TATTATTCTATTTTATT-TAAAATAT
2858174 TTTATCATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 14 0.42
42 19 0.58
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (42 bp):
ATTTCTTTTAAAATATTATTCTATTTTATTTAAAATATCATA
Found at i:2858611 original size:16 final size:14
Alignment explanation
Indices: 2858592--2858639 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
2858582 GGGTTTTTGA
2858592 TTTTAGAGTTTGGAG
1 TTTTAG-GTTTGGAG
2858607 ATTTTAGGATTTGG-G
1 -TTTTAGG-TTTGGAG
2858622 TTTTAGGTTTGGAG
1 TTTTAGGTTTGGAG
2858636 TTTT
1 TTTT
2858640 GATTTAGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
15 2 0.07
16 11 0.37
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (14 bp):
TTTTAGGTTTGGAG
Found at i:2858704 original size:15 final size:15
Alignment explanation
Indices: 2858642--2858704 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 15
2858632 GGAGTTTTGA
*
2858642 TTTA-GGGTTTGGAT
1 TTTAGGGGTTCGGAT
* *
2858656 TTTAGGGACTTTGGAT
1 TTTAGGG-GTTCGGAT
* *
2858672 TTTAGGTGTTTCGAAT
1 TTTAGG-GGTTCGGAT
2858688 TTTAGGGGTTCGGAT
1 TTTAGGGGTTCGGAT
2858703 TT
1 TT
2858705 AAGAGATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 4 0.10
15 11 0.28
16 24 0.60
17 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.32, T:0.48
Consensus pattern (15 bp):
TTTAGGGGTTCGGAT
Found at i:2858753 original size:32 final size:32
Alignment explanation
Indices: 2858649--2858765 Score: 94
Period size: 32 Copynumber: 3.7 Consensus size: 32
2858639 TGATTTAGGG
* * *
2858649 TTTGGATTTTAGGGACTTTGGATTTTAG-GTGT
1 TTTGGATTTTAGGG-GTTTAGATTTTAGAGAGT
* * ** * *
2858681 TTCGAATTTTAGGGGTTCGGATTTAAGAGATT
1 TTTGGATTTTAGGGGTTTAGATTTTAGAGAGT
*
2858713 TTTAGATTTTAGGGGTTTAGATTTTAGTAG-GT
1 TTTGGATTTTAGGGGTTTAGATTTTAG-AGAGT
* *
2858745 TTTGGATTTTAAGGTTTTAGA
1 TTTGGATTTTAGGGGTTTAGA
2858766 AACCTAGGAT
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
31 10 0.15
32 54 0.82
33 2 0.03
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (32 bp):
TTTGGATTTTAGGGGTTTAGATTTTAGAGAGT
Found at i:2858761 original size:15 final size:15
Alignment explanation
Indices: 2858649--2858762 Score: 52
Period size: 15 Copynumber: 7.2 Consensus size: 15
2858639 TGATTTAGGG
* *
2858649 TTTGGATTTTAGGGAC
1 TTTGGATTTTAAGG-T
2858665 TTTGGATTTT-AGGT
1 TTTGGATTTTAAGGT
* * *
2858679 GTTTCGAATTTTAGGGG
1 -TTT-GGATTTTAAGGT
*
2858696 TTCGGA-TTTAAGAGATT
1 TTTGGATTTTAAG-G--T
* * *
2858713 TTTAGATTTTAGGGG
1 TTTGGATTTTAAGGT
*
2858728 TTTAGATTTTAGTAGGT
1 TTTGGATTTTA--AGGT
2858745 TTTGGATTTTAAGGT
1 TTTGGATTTTAAGGT
2858760 TTT
1 TTT
2858763 AGAAACCTAG
Statistics
Matches: 73, Mismatches: 16, Indels: 19
0.68 0.15 0.18
Matches are distributed among these distances:
14 5 0.07
15 26 0.36
16 18 0.25
17 19 0.26
18 5 0.07
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.49
Consensus pattern (15 bp):
TTTGGATTTTAAGGT
Found at i:2860112 original size:16 final size:16
Alignment explanation
Indices: 2860091--2860121 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2860081 GGGTAAGATG
2860091 AACAGGGTATGGGATA
1 AACAGGGTATGGGATA
2860107 AACAGGGTATGGGAT
1 AACAGGGTATGGGAT
2860122 GGGTGGTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.39, T:0.19
Consensus pattern (16 bp):
AACAGGGTATGGGATA
Found at i:2860809 original size:107 final size:107
Alignment explanation
Indices: 2860616--2860812 Score: 243
Period size: 108 Copynumber: 1.8 Consensus size: 107
2860606 TTACAGAAAT
* * * *
2860616 GATTGGGATAACACCATAAGTCAAAAATAAAAAATCGATCGGGACAGCATCGTAAATCAAAATTA
1 GATTGGGATAACACCATAAGTCAAAAATAAAAAATCGATCGAGACAACACCGCAAATCAAAATTA
*
2860681 TACCCGAAGGTTTTAGAAATCATGCCCGAAAGTTTTAGAATC
66 TACCCGAAGGTCTTAGAAATCATGCCCGAAAGTTTTAGAATC
** * * * *
2860723 GATTGGGATAACACTGTAAGTCAAAAGATAAAAAATCGATCGAGATAACACCGCGAATCGAATTT
1 GATTGGGATAACACCATAAGTCAAAA-ATAAAAAATCGATCGAGACAACACCGCAAATCAAAATT
* * * *
2860788 ATGCTCGGAGGTCTTCG-AATCATGC
65 ATACCCGAAGGTCTTAGAAATCATGC
2860813 ATGAAGGTCC
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
107 32 0.43
108 42 0.57
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (107 bp):
GATTGGGATAACACCATAAGTCAAAAATAAAAAATCGATCGAGACAACACCGCAAATCAAAATTA
TACCCGAAGGTCTTAGAAATCATGCCCGAAAGTTTTAGAATC
Found at i:2860850 original size:22 final size:24
Alignment explanation
Indices: 2860804--2860854 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2860794 GGAGGTCTTC
*
2860804 GAATCATGCATGAAGGTCCTTACA
1 GAATCATGCACGAAGGTCCTTACA
*
2860828 GAATCATGCCCGAA-GT-CTTACA
1 GAATCATGCACGAAGGTCCTTACA
2860850 GAATC
1 GAATC
2860855 GACTAGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.44
23 2 0.08
24 12 0.48
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (24 bp):
GAATCATGCACGAAGGTCCTTACA
Found at i:2860940 original size:131 final size:131
Alignment explanation
Indices: 2860698--2860943 Score: 329
Period size: 131 Copynumber: 1.9 Consensus size: 131
2860688 AGGTTTTAGA
* * * ***
2860698 AATCATGCCCGAAAGTTTTAGAATCGATTGGGATAACACTGTAAGTCAAAAGATAAAAAATCGAT
1 AATCATGCCCGAAAGTTTCAGAATCGACTAGGATAACACCAAAAGTCAAAAGATAAAAAATCGAT
* * *
2860763 CGAGATAACACCGCGAATCGAATTTATGCTCGGAGGTCTTCGAATCATGCATGAAGGTCCTTACA
66 CGAGATAACACCACGAATCGAATTTATGCTCAGAGGTCTTAGAATCATGCATGAAGGTCCTTACA
2860828 G
131 G
*
2860829 AATCATGCCCG-AAGTCTTACAGAATCGACTAGGATAACACCAAAAGTCAAAAGAT-AGAAATCG
1 AATCATGCCCGAAAGT-TT-CAGAATCGACTAGGATAACACCAAAAGTCAAAAGATAAAAAATCG
*
2860892 ATCGGGATAA-ACCACGAATCGAATTTATG-TCCAGAGGTCTTAGAAATCATGC
64 ATCGAGATAACACCACGAATCGAATTTATGCT-CAGAGGTCTTAG-AATCATGC
2860944 CCGGAGGTCT
Statistics
Matches: 100, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
129 1 0.01
130 32 0.32
131 37 0.37
132 30 0.30
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (131 bp):
AATCATGCCCGAAAGTTTCAGAATCGACTAGGATAACACCAAAAGTCAAAAGATAAAAAATCGAT
CGAGATAACACCACGAATCGAATTTATGCTCAGAGGTCTTAGAATCATGCATGAAGGTCCTTACA
G
Found at i:2860952 original size:131 final size:130
Alignment explanation
Indices: 2860685--2860961 Score: 321
Period size: 130 Copynumber: 2.1 Consensus size: 130
2860675 AAATTATACC
* * * * * ***
2860685 CGAAGGTTTTAGA-AATCATGCCCGAAAGTTTTAGAATCGATTGGGATAACACTGTAAGTCAAAA
1 CGAAGGTCTTACAGAATCATGCCCGAAAGTTTCAGAATCGACTAGGATAACACCAAAAGTCAAAA
* * *
2860749 GATAAAAAATCGATCGAGATAACACCGCGAATCGAATTTATGCTCGGAGGTCTTCGAATCATGCA
66 GATAAAAAATCGATCGAGATAACACCACGAATCGAATTTATGCTCAGAGGTCTTAGAATCATGCA
*
2860814 TGAAGGTCCTTACAGAATCATGCCCG-AAGTCTTACAGAATCGACTAGGATAACACCAAAAGTCA
1 CGAAGGT-CTTACAGAATCATGCCCGAAAGT-TT-CAGAATCGACTAGGATAACACCAAAAGTCA
* *
2860878 AAAGAT-AGAAATCGATCGGGATAA-ACCACGAATCGAATTTATG-TCCAGAGGTCTTAGAAATC
63 AAAGATAAAAAATCGATCGAGATAACACCACGAATCGAATTTATGCT-CAGAGGTCTTAG-AATC
*
2860940 ATGCC
126 ATGCA
* *
2860945 CGGAGGTCTTATAGAAT
1 CGAAGGTCTTACAGAAT
2860962 TGACTGAGAT
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
129 7 0.06
130 45 0.36
131 42 0.34
132 30 0.24
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (130 bp):
CGAAGGTCTTACAGAATCATGCCCGAAAGTTTCAGAATCGACTAGGATAACACCAAAAGTCAAAA
GATAAAAAATCGATCGAGATAACACCACGAATCGAATTTATGCTCAGAGGTCTTAGAATCATGCA
Found at i:2860997 original size:239 final size:239
Alignment explanation
Indices: 2860425--2861039 Score: 590
Period size: 239 Copynumber: 2.6 Consensus size: 239
2860415 GATAATAGTG
* * * * *
2860425 CGAATTGAATTTATGCCTAAAGGTCTTAAAAATCATACCCGGAGGTCTTACAGAATCGACTGGGA
1 CGAATCGAATTTATGCC-AGAGGTCTTAGAAATCATGCCCGGAGGTCTTATAGAATCGACTGGGA
* * *
2860490 TAACATC-AAAGTCAAAAAGATAAGAAATTGATCGGGATATACACCTGCGAATCAAAATTATGCC
65 TAACACCGAAAGTCAAAAAGA-AA-AAATCGATCGAGATATACACCTGCGAATCAAAATTATGCC
* * * * * *
2860554 CGGAGGTCTTACAGAATTGCGCCGGAGGTCTTGAGAAATCATGTCCGAGGTCTTACAGAAATGAT
128 CGGAGGTCTTACAGAATTGCGACGAAGGTCTTCAGAAATCATGCCCGAAGTCTTACAGAAATGAC
* * * *
2860619 TGGGATAACACCATAAGTCAAAAATAAAAAATCGATCGGGACAGCAT
193 TAGGATAACACCAAAAGTCAAAAATAAAAAATCGATCGGGAAACCAT
* * * * * * * *
2860666 CGTAAATCAAAATTATACCCGAAGGTTTTAGAAATCATGCCCGAAAGT-TT-TAGAATCGATTGG
1 CG--AATCGAATTTATGCCAG-AGGTCTTAGAAATCATGCCCGGAGGTCTTATAGAATCGACTGG
* * * * *
2860729 GATAACACTGTAAGTCAAAAGATAAAAAATCGATCGAGATA-ACACC-GCGAATCGAATTTATGC
63 GATAACACCGAAAGTCAAAA-AGAAAAAATCGATCGAGATATACACCTGCGAATCAAAATTATGC
* *
2860792 TCGGAGGTCTT-C-GAATCATGC-ATGAAGGTCCTTACAG-AATCATGCCCGAAGTCTTACAG-A
127 CCGGAGGTCTTACAGAAT--TGCGACGAAGGT-CTT-CAGAAATCATGCCCGAAGTCTTACAGAA
*
2860852 ATCGACTAGGATAACACCAAAAGTCAAAAGAT-AGAAATCGATCGGGATAAACCA-
188 AT-GACTAGGATAACACCAAAAGTCAAAA-ATAAAAAATCGATCGGG--AAACCAT
* *
2860906 CGAATCGAATTTATGTCCAGAGGTCTTAGAAATCATGCCCGGAGGTCTTATAGAATTGACTGAGA
1 CGAATCGAATTTATG-CCAGAGGTCTTAGAAATCATGCCCGGAGGTCTTATAGAATCGACTGGGA
* * * * * * * *
2860971 TAACACCGCAAGTCAAAAAGAAAAAATTGATTGGGACA-ATAGCTGCGAATCGAAATTATGCCCT
65 TAACACCGAAAGTCAAAAAGAAAAAATCGATCGAGATATACACCTGCGAATCAAAATTATGCCC-
2861035 GGAGG
129 GGAGG
2861040 GTATTAGGAG
Statistics
Matches: 301, Mismatches: 55, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
237 4 0.01
238 42 0.14
239 110 0.37
240 56 0.19
241 42 0.14
242 13 0.04
243 34 0.11
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (239 bp):
CGAATCGAATTTATGCCAGAGGTCTTAGAAATCATGCCCGGAGGTCTTATAGAATCGACTGGGAT
AACACCGAAAGTCAAAAAGAAAAAATCGATCGAGATATACACCTGCGAATCAAAATTATGCCCGG
AGGTCTTACAGAATTGCGACGAAGGTCTTCAGAAATCATGCCCGAAGTCTTACAGAAATGACTAG
GATAACACCAAAAGTCAAAAATAAAAAATCGATCGGGAAACCAT
Found at i:2861386 original size:42 final size:42
Alignment explanation
Indices: 2861339--2861422 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 42
2861329 CTCAAACCAG
* * **
2861339 AGGCTTT-GAAATCTTGATTGAAAATTGGTTCCTCTTAAACAA
1 AGGCTTTCCAAATCTTGATTAAAAAACGGTT-CTCTTAAACAA
*
2861381 AGGCTTTCCAAATCTTGATTAAAAAACGGTTCTTTTAAACAA
1 AGGCTTTCCAAATCTTGATTAAAAAACGGTTCTCTTAAACAA
2861423 GAGACTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 17 0.47
43 19 0.53
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (42 bp):
AGGCTTTCCAAATCTTGATTAAAAAACGGTTCTCTTAAACAA
Found at i:2861711 original size:24 final size:25
Alignment explanation
Indices: 2861684--2861730 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
2861674 ATACAAATGC
2861684 TATGATGCAAATGCAAAT-TCTTCT
1 TATGATGCAAATGCAAATGTCTTCT
* **
2861708 TATGGTGTGAATGCAAATGTCTT
1 TATGATGCAAATGCAAATGTCTT
2861731 ATACAAATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (25 bp):
TATGATGCAAATGCAAATGTCTTCT
Found at i:2867317 original size:22 final size:23
Alignment explanation
Indices: 2867287--2867335 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
2867277 TAATAACAAT
* *
2867287 TAAATATTTATCCT-AATAAATA
1 TAAACATTTATCATGAATAAATA
*
2867309 TAAACATTTATCATGCATAAATA
1 TAAACATTTATCATGAATAAATA
2867332 TAAA
1 TAAA
2867336 ATAACAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAACATTTATCATGAATAAATA
Found at i:2867493 original size:26 final size:26
Alignment explanation
Indices: 2867457--2867517 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
2867447 GGAGGTTGGA
2867457 TCGACGGTTCGGACGATCTGATCGGT
1 TCGACGGTTCGGACGATCTGATCGGT
2867483 TCGACGGTTCGGACGATCTGATCGGT
1 TCGACGGTTCGGACGATCTGATCGGT
2867509 TCGACGGTT
1 TCGACGGTT
2867518 GGATCGACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
TCGACGGTTCGGACGATCTGATCGGT
Found at i:2868463 original size:23 final size:22
Alignment explanation
Indices: 2868437--2868485 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
2868427 AGGGCGTTAG
2868437 GGGGCTGATCAGGAGCCTGACAA
1 GGGGCTGATCAGGAGCCTGAC-A
* * * *
2868460 GGGGTTGGTCGGGAGGCTGACA
1 GGGGCTGATCAGGAGCCTGACA
2868482 GGGG
1 GGGG
2868486 TGACAGCAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.18, C:0.16, G:0.51, T:0.14
Consensus pattern (22 bp):
GGGGCTGATCAGGAGCCTGACA
Found at i:2868585 original size:3 final size:3
Alignment explanation
Indices: 2868579--2868619 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2868569 TTTTTAAAAA
*
2868579 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2868620 ATATACTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2869086 original size:33 final size:33
Alignment explanation
Indices: 2869047--2869112 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2869037 GAGGAAGTAA
*
2869047 TGGGTTTAAGTGGGCTTATATCATGGGTTGGGG
1 TGGGTTTAAGTGAGCTTATATCATGGGTTGGGG
* *
2869080 TGGGTTTAAGTGAGCTTTTATCGTGGGTTGGGG
1 TGGGTTTAAGTGAGCTTATATCATGGGTTGGGG
2869113 GTGAGGTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.14, C:0.06, G:0.42, T:0.38
Consensus pattern (33 bp):
TGGGTTTAAGTGAGCTTATATCATGGGTTGGGG
Found at i:2869425 original size:11 final size:11
Alignment explanation
Indices: 2869409--2869434 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2869399 GGTGGCATAT
2869409 AATATAAAATA
1 AATATAAAATA
2869420 AATATAAAATA
1 AATATAAAATA
2869431 AATA
1 AATA
2869435 CGGTAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AATATAAAATA
Found at i:2870611 original size:14 final size:14
Alignment explanation
Indices: 2870592--2870618 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2870582 GAGGATATGA
2870592 CCAATTATGTTCTT
1 CCAATTATGTTCTT
2870606 CCAATTATGTTCT
1 CCAATTATGTTCT
2870619 CCCATTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (14 bp):
CCAATTATGTTCTT
Found at i:2871834 original size:3 final size:3
Alignment explanation
Indices: 2871826--2871859 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2871816 GAAATACGAT
2871826 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2871860 TGTCTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2873821 original size:16 final size:15
Alignment explanation
Indices: 2873799--2873873 Score: 66
Period size: 14 Copynumber: 5.1 Consensus size: 15
2873789 AAATCCGAAC
*
2873799 CCCTAAAATTCTAAA
1 CCCTAAAATTCAAAA
*
2873814 CGCCTAAAA-TCCAAA
1 C-CCTAAAATTCAAAA
*
2873829 CCCCAAAATTCAAAA
1 CCCTAAAATTCAAAA
*
2873844 TCCCTAAAA-TCCAAA
1 -CCCTAAAATTCAAAA
*
2873859 CCCTTAAA-TCAAAA
1 CCCTAAAATTCAAAA
2873873 C
1 C
2873874 TCCAAACCCC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
14 19 0.38
15 17 0.34
16 14 0.28
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (15 bp):
CCCTAAAATTCAAAA
Found at i:2873839 original size:30 final size:31
Alignment explanation
Indices: 2873779--2873866 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 31
2873769 AAAACCTGCT
* * *
2873779 AAAATCTCTTAAATCCGAACCCCTAAAATTC
1 AAAATCCCTAAAATCCAAACCCCTAAAATTC
*
2873810 TAAA-CGCCTAAAATCCAAACCCC-AAAATTC
1 AAAATC-CCTAAAATCCAAACCCCTAAAATTC
*
2873840 AAAATCCCTAAAATCCAAACCCTTAAA
1 AAAATCCCTAAAATCCAAACCCCTAAA
2873867 TCAAAACTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 27 0.56
31 21 0.44
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (31 bp):
AAAATCCCTAAAATCCAAACCCCTAAAATTC
Found at i:2873867 original size:14 final size:14
Alignment explanation
Indices: 2873789--2873873 Score: 71
Period size: 15 Copynumber: 5.7 Consensus size: 14
2873779 AAAATCTCTT
*
2873789 AAATCCGAACCCCTA
1 AAATCC-AAACCCTA
*
2873804 AAATTCTAAACGCCTA
1 AAA-TCCAAAC-CCTA
*
2873820 AAATCCAAACCCCA
1 AAATCCAAACCCTA
*
2873834 AAATTCAAAATCCCTA
1 AAA-TCCAAA-CCCTA
*
2873850 AAATCCAAACCCTT
1 AAATCCAAACCCTA
*
2873864 AAATCAAAAC
1 AAATCCAAAC
2873874 TCCAAACCCC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
14 19 0.33
15 22 0.39
16 16 0.28
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:2873901 original size:14 final size:15
Alignment explanation
Indices: 2873868--2873910 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2873858 ACCCTTAAAT
2873868 CAAAACTCCAAACCC
1 CAAAACTCCAAACCC
*
2873883 CAAAAC-CCAAATCC
1 CAAAACTCCAAACCC
*
2873897 TAAAATCTCCAAAC
1 CAAAA-CTCCAAAC
2873911 TCTAAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 11 0.48
15 7 0.30
16 5 0.22
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (15 bp):
CAAAACTCCAAACCC
Found at i:2873932 original size:51 final size:51
Alignment explanation
Indices: 2873819--2873922 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
2873809 CTAAACGCCT
* *
2873819 AAAA-TCCAAACCCCAAAATTCAAAATCCCTAAAATCCAAACCCTTAAATC
1 AAAACTCCAAACCCCAAAATCCAAAATCCCTAAAATCCAAACCCTAAAATC
* *
2873869 AAAACTCCAAACCCCAAAA-CCCAAAT-CCTAAAATCTCCAAACTCTAAAATC
1 AAAACTCCAAACCCCAAAATCCAAAATCCCTAAAA--TCCAAACCCTAAAATC
2873920 AAA
1 AAA
2873923 TCCCTAAACC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 7 0.15
50 9 0.19
51 31 0.66
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (51 bp):
AAAACTCCAAACCCCAAAATCCAAAATCCCTAAAATCCAAACCCTAAAATC
Found at i:2879828 original size:20 final size:20
Alignment explanation
Indices: 2879803--2879850 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
2879793 AAAAAGCTGA
2879803 TCAAATACCTCCACACCTTT
1 TCAAATACCTCCACACCTTT
2879823 TCAAATACCTCCACACCTTT
1 TCAAATACCTCCACACCTTT
2879843 TCAAATAC
1 TCAAATAC
2879851 TTTCATGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.29
Consensus pattern (20 bp):
TCAAATACCTCCACACCTTT
Found at i:2882085 original size:41 final size:41
Alignment explanation
Indices: 2882032--2882127 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
2882022 TTAAAGTTTT
* ** *
2882032 AAAGTCTCTGTTTAAAAAGAACCGTTTTTAATCAAGATTTA
1 AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTA
* * * * *
2882073 AAAGCCTTTGTTTAAGAGGAATCAATTTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTA
2882114 AAAGCCTCTGTTTA
1 AAAGCCTCTGTTTA
2882128 GAGGGAACCT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (41 bp):
AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTA
Found at i:2882620 original size:110 final size:109
Alignment explanation
Indices: 2882382--2882638 Score: 284
Period size: 109 Copynumber: 2.3 Consensus size: 109
2882372 AAGATTTTGG
* * * * * * *
2882382 GATT-TGTAAGACTTCCAGGCATAATCTCTAATACCTCAGGGCATAATTTCGATTCGCAGTATTG
1 GATTCTGTAAGACTTCCGGGCATGATTTCTAAGACCTCAGGACATAAATTCGATTCGCAGTATTA
*
2882446 TCCCAATCGATTTTTTCTTTTTGACTTGCGGTGTTATCTCAGTC
66 TCCCAATCGATTTTTTCTTTTTGACTTGCGGTGTTATCCCAGTC
* * ** * ** *
2882490 AATTCTATAAGACCACCGGGCATGATTTCTAAGACCTCTGGACATAAATTCGATTCGTGGTGTTA
1 GATTCTGTAAGACTTCCGGGCATGATTTCTAAGACCTCAGGACATAAATTCGATTCGCAGTATTA
* **
2882555 TCCCGATCGATTCTTTATC-TTTTGACTTTTGGTGTTATCCCAGTC
66 TCCCAATCGATT-TTT-TCTTTTTGACTTGCGGTGTTATCCCAGTC
* *
2882600 GATTCTGTAAGACTTTCGGGCATGATTCTGTAAGACCTC
1 GATTCTGTAAGACTTCCGGGCATGATT-TCTAAGACCTC
2882639 CATGCATGAT
Statistics
Matches: 120, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
108 3 0.03
109 57 0.47
110 48 0.40
111 12 0.10
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (109 bp):
GATTCTGTAAGACTTCCGGGCATGATTTCTAAGACCTCAGGACATAAATTCGATTCGCAGTATTA
TCCCAATCGATTTTTTCTTTTTGACTTGCGGTGTTATCCCAGTC
Found at i:2882667 original size:22 final size:23
Alignment explanation
Indices: 2882600--2882667 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
2882590 TATCCCAGTC
* *
2882600 GATTCTGTAAGACTTTCGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
**
2882623 GATTCTGTAAGACCTCCATGCAT
1 GATTCTGTAAGACCTCCGGGCAT
2882646 GATT-TCG-AAGACCTCCGGGCAT
1 GATTCT-GTAAGACCTCCGGGCAT
2882668 AAATTCGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 14 0.37
23 24 0.63
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCGGGCAT
Found at i:2882674 original size:22 final size:22
Alignment explanation
Indices: 2882631--2882675 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2882621 ATGATTCTGT
* * *
2882631 AAGACCTCCATGCATGATTTCG
1 AAGACCTCCAGGCATAAATTCG
*
2882653 AAGACCTCCGGGCATAAATTCG
1 AAGACCTCCAGGCATAAATTCG
2882675 A
1 A
2882676 TTCGCGATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (22 bp):
AAGACCTCCAGGCATAAATTCG
Found at i:2882729 original size:133 final size:133
Alignment explanation
Indices: 2882491--2883030 Score: 650
Period size: 131 Copynumber: 4.1 Consensus size: 133
2882481 ATCTCAGTCA
* * * * * * *
2882491 ATTCTATAAGACCACCGGGCATGATTTCTAAGACCTCTGGACATAAATTCGATTCGTGGTGTTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGATGTTAT
** *
2882556 CCCGATCGATTCTTTATCTTTTGACTTTTGGTGTTATCCCAGTCGATTCTGTAAGACTTTCGGGC
66 CCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGC
2882621 ATG
131 ATG
**
2882624 ATTCTGTAAGACCTCCATGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGATGTTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGATGTTAT
* * * *
2882689 CTCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAATCGATTC--TAAAACTTTCGGGC
66 CCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGC
2882752 ATG
131 ATG
* * * * * ** * *
2882755 ATTCTGTAAGACCTCCGGGCATGATTTCTAAAACCTTCGGGTATAATTTCGATTTACGATGCTGT
1 ATTCTGTAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGATGTTAT
* * *
2882820 CCCGATCGATTTTTTAT-TTTTGACTTACGGTGTTATCCCAGTC-ATTTCTGTAAGACCTTCGGA
66 CCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCGA-TTCTGTAAGACCTTCGGG
2882883 CATG
130 CATG
* * *
2882887 ATT-TCTAAGACCTCCGGGCA--A-TTCTGTAAGACCTCCGGGCATAATTTTGATTCGCGATGTT
1 ATTCTGTAAGACCTCCGGGCATGATTTC-G-AAGACCTCCGGGCATAAATTCGATTCGCGATGTT
* * * *
2882948 ATCCCGATCAATT-TCTTATCTTTTGACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCCG
64 ATCCCGATCGATTCT-TTATCTTTTGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTTCG
2883012 GGCATG
128 GGCATG
*
2883018 ATT-TTTAAGACCT
1 ATTCTGTAAGACCT
2883031 TTAGGCATAA
Statistics
Matches: 350, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
128 3 0.01
129 3 0.01
130 69 0.20
131 156 0.45
132 18 0.05
133 101 0.29
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (133 bp):
ATTCTGTAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGATGTTAT
CCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGC
ATG
Found at i:2882795 original size:22 final size:22
Alignment explanation
Indices: 2882735--2882804 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
2882725 TCCCAATCGA
*
2882735 TTCTAAAACTTTCGGGCATGAT
1 TTCTAAAACCTTCGGGCATGAT
* * *
2882757 TCTGTAAGACCTCCGGGCATGAT
1 T-TCTAAAACCTTCGGGCATGAT
* *
2882780 TTCTAAAACCTTCGGGTATAAT
1 TTCTAAAACCTTCGGGCATGAT
2882802 TTC
1 TTC
2882805 GATTTACGAT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (22 bp):
TTCTAAAACCTTCGGGCATGAT
Found at i:2882918 original size:21 final size:22
Alignment explanation
Indices: 2882865--2882927 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
2882855 TCCCAGTCAT
* *
2882865 TTCTGTAAGACCTTCGGACATGA
1 TTCTGTAAGACCTCCGGGCA-GA
*
2882888 TT-TCTAAGACCTCCGGGCA-A
1 TTCTGTAAGACCTCCGGGCAGA
2882908 TTCTGTAAGACCTCCGGGCA
1 TTCTGTAAGACCTCCGGGCA
2882928 TAATTTTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 3 0.09
21 16 0.46
22 14 0.40
23 2 0.06
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (22 bp):
TTCTGTAAGACCTCCGGGCAGA
Found at i:2884721 original size:16 final size:16
Alignment explanation
Indices: 2884702--2884815 Score: 106
Period size: 16 Copynumber: 7.2 Consensus size: 16
2884692 CTAGGTTTCT
2884702 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
2884718 AAAACCTACTAAAATCC
1 AAAACC-CCTAAAATCC
*
2884735 -AAACCCCTAAAATCT
1 AAAACCCCTAAAATCC
* * *
2884750 AAAATCTCTTAAATCC
1 AAAACCCCTAAAATCC
* *
2884766 -GAACCCCTAAAATTC
1 AAAACCCCTAAAATCC
* *
2884781 GAAACACCTAAAATCC
1 AAAACCCCTAAAATCC
**
2884797 AAAGTCCCTAAAATCC
1 AAAACCCCTAAAATCC
2884813 AAA
1 AAA
2884816 CCCTTAAATC
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
15 18 0.24
16 49 0.64
17 9 0.12
ACGTcount: A:0.48, C:0.31, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:2884771 original size:31 final size:32
Alignment explanation
Indices: 2884703--2884855 Score: 125
Period size: 31 Copynumber: 4.7 Consensus size: 32
2884693 TAGGTTTCTA
2884703 AAACCCCTAAAATCCAAAACCTACTAAAATCC
1 AAACCCCTAAAATCCAAAACCTACTAAAATCC
* * *
2884735 AAACCCCTAAAATCTAAAATCT-CTTAAATCC
1 AAACCCCTAAAATCCAAAACCTACTAAAATCC
* * *
2884766 GAACCCCTAAAATTCGAAA-C-ACCTAAAATCC
1 AAACCCCTAAAATCCAAAACCTA-CTAAAATCC
* * *
2884797 AAAGTCCCTAAAATCCAAACCCTTAAATCAAAACTCC
1 AAA-CCCCTAAAATCCAAAACC-T-ACT-AAAA-TCC
* *
2884834 AAA-CCCTAAAACCCAAATCCTA
1 AAACCCCTAAAATCCAAAACCTA
2884856 AAATCTCCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 17
0.74 0.12 0.13
Matches are distributed among these distances:
30 1 0.01
31 33 0.34
32 32 0.33
33 2 0.02
34 1 0.01
35 16 0.17
36 5 0.05
37 6 0.06
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (32 bp):
AAACCCCTAAAATCCAAAACCTACTAAAATCC
Found at i:2884811 original size:47 final size:46
Alignment explanation
Indices: 2884702--2884823 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 46
2884692 CTAGGTTTCT
* * * *
2884702 AAAACCCCTAAAATCCAAAACCTACTAAAATCCAAACCCCTAAAATCT
1 AAAATCCCTAAAATCC-AAACC-CCTAAAATCCAAACACCTAAAATCC
* * * *
2884750 AAAATCTCTTAAATCCGAACCCCTAAAATTCGAAACACCTAAAATCC
1 AAAATCCCTAAAATCCAAACCCCTAAAA-TCCAAACACCTAAAATCC
* *
2884797 AAAGTCCCTAAAATCCAAACCCTTAAA
1 AAAATCCCTAAAATCCAAACCCCTAAA
2884824 TCAAAACTCC
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
46 6 0.10
47 41 0.68
48 13 0.22
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (46 bp):
AAAATCCCTAAAATCCAAACCCCTAAAATCCAAACACCTAAAATCC
Found at i:2884849 original size:14 final size:15
Alignment explanation
Indices: 2884826--2884887 Score: 74
Period size: 14 Copynumber: 4.2 Consensus size: 15
2884816 CCCTTAAATC
2884826 AAAACTCCAAACCCT
1 AAAACTCCAAACCCT
*
2884841 AAAAC-CCAAATCCT
1 AAAACTCCAAACCCT
*
2884855 AAAATCTCCAAACTCT
1 AAAA-CTCCAAACCCT
*
2884871 AAAA-TCAAAACCCT
1 AAAACTCCAAACCCT
2884885 AAA
1 AAA
2884888 CCTTCTATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 23 0.57
15 6 0.15
16 11 0.28
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAACTCCAAACCCT
Found at i:2884850 original size:51 final size:50
Alignment explanation
Indices: 2884782--2884889 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 50
2884772 CTAAAATTCG
* *
2884782 AAACACCTAAAATCCAAAGTCCCTAAAA-TCCAAACCCTTAAATCAAAACTCC-
1 AAAC-CCTAAAACCCAAA-T-CCTAAAACTCCAAACCCTAAAATCAAAAC-CCT
*
2884834 AAACCCTAAAACCCAAATCCTAAAATCTCCAAACTCTAAAATCAAAACCCT
1 AAACCCTAAAACCCAAATCCTAAAA-CTCCAAACCCTAAAATCAAAACCCT
2884885 AAACC
1 AAACC
2884890 TTCTATATCC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
49 7 0.14
50 3 0.06
51 36 0.72
52 4 0.08
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (50 bp):
AAACCCTAAAACCCAAATCCTAAAACTCCAAACCCTAAAATCAAAACCCT
Found at i:2884886 original size:30 final size:29
Alignment explanation
Indices: 2884826--2884887 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
2884816 CCCTTAAATC
* *
2884826 AAAACTCCAAACCCTAAAACCCAAATCCT
1 AAAACTCCAAACCCTAAAACCAAAACCCT
* *
2884855 AAAATCTCCAAACTCTAAAATCAAAACCCT
1 AAAA-CTCCAAACCCTAAAACCAAAACCCT
2884885 AAA
1 AAA
2884888 CCTTCTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (29 bp):
AAAACTCCAAACCCTAAAACCAAAACCCT
Found at i:2888492 original size:46 final size:46
Alignment explanation
Indices: 2888439--2888536 Score: 196
Period size: 46 Copynumber: 2.1 Consensus size: 46
2888429 ATATTAGTAA
2888439 TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
1 TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
2888485 TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
1 TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
2888531 TATAAA
1 TATAAA
2888537 ATTATAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (46 bp):
TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
Found at i:2890265 original size:4 final size:4
Alignment explanation
Indices: 2890258--2890287 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2890248 AAATATATAT
2890258 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
2890288 GTTCTCTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:2893354 original size:2 final size:2
Alignment explanation
Indices: 2893347--2893375 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2893337 TAGAAGATTG
2893347 AT 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 A
2893376 GAAAGAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2894562 original size:3 final size:3
Alignment explanation
Indices: 2894554--2894587 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2894544 AATAACTTTT
2894554 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2894588 TGTCTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2896565 original size:32 final size:30
Alignment explanation
Indices: 2896529--2896671 Score: 121
Period size: 30 Copynumber: 4.7 Consensus size: 30
2896519 TAGGTTTCTA
*
2896529 AAACCCCTAAAGTCCAAAACCTGCTAAAATCC
1 AAACCCCTAAAATCCAAAACC--CTAAAATCC
* * *
2896561 AAACCCCTAAAAATCTAAAATCTCTTAAATCC
1 AAACCCCT-AAAATCCAAAA-CCCTAAAATCC
* * * *
2896593 GAACCCCTAAAATTCTAAACGCCTAAAATCT
1 AAACCCCTAAAATCCAAAAC-CCTAAAATCC
*
2896624 AAACCCC-AAAATTCAAAATCCCTAAAATCC
1 AAACCCCTAAAATCCAAAA-CCCTAAAATCC
*
2896654 AAA-CCCTTAAAT-CAAAAC
1 AAACCCCTAAAATCCAAAAC
2896672 TCCAAACCCC
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
28 1 0.01
29 8 0.09
30 27 0.30
31 22 0.24
32 23 0.25
33 9 0.10
34 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.20
Consensus pattern (30 bp):
AAACCCCTAAAATCCAAAACCCTAAAATCC
Found at i:2896572 original size:15 final size:15
Alignment explanation
Indices: 2896529--2896664 Score: 94
Period size: 15 Copynumber: 8.7 Consensus size: 15
2896519 TAGGTTTCTA
*
2896529 AAACCCCTAAAGTCC
1 AAACCCCTAAAATCC
*
2896544 AAAACCTGCTAAAATCC
1 -AAACC-CCTAAAATCC
*
2896561 AAACCCCTAAAAATCTA
1 AAACCCCT-AAAATC-C
* * *
2896578 AAATCTCTTAAATCC
1 AAACCCCTAAAATCC
* *
2896593 GAACCCCTAAAATTCT
1 AAACCCCTAAAA-TCC
* *
2896609 AAACGCCTAAAATCT
1 AAACCCCTAAAATCC
*
2896624 AAACCCC-AAAATTCA
1 AAACCCCTAAAA-TCC
*
2896639 AAATCCCTAAAATCC
1 AAACCCCTAAAATCC
*
2896654 AAACCCTTAAA
1 AAACCCCTAAA
2896665 TCAAAACTCC
Statistics
Matches: 93, Mismatches: 21, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
14 4 0.04
15 38 0.41
16 37 0.40
17 14 0.15
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:2896637 original size:30 final size:30
Alignment explanation
Indices: 2896529--2896664 Score: 121
Period size: 32 Copynumber: 4.4 Consensus size: 30
2896519 TAGGTTTCTA
* * *
2896529 AAACCCCTAAAGTCCAAAACCTGCTAAAATCC
1 AAACCCCTAAAATTCTAAACC--CTAAAATCC
* * *
2896561 AAACCCCTAAAAATCTAAAATCTCTTAAATCC
1 AAACCCCTAAAATTCT-AAA-CCCTAAAATCC
* *
2896593 GAACCCCTAAAATTCTAAACGCCTAAAATCT
1 AAACCCCTAAAATTCTAAAC-CCTAAAATCC
*
2896624 AAACCCC-AAAATTCAAAATCCCTAAAATCC
1 AAACCCCTAAAATTCTAAA-CCCTAAAATCC
*
2896654 AAACCCTTAAA
1 AAACCCCTAAA
2896665 TCAAAACTCC
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
30 26 0.31
31 20 0.24
32 34 0.40
33 3 0.04
34 1 0.01
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (30 bp):
AAACCCCTAAAATTCTAAACCCTAAAATCC
Found at i:2896665 original size:14 final size:14
Alignment explanation
Indices: 2896528--2896671 Score: 72
Period size: 16 Copynumber: 9.4 Consensus size: 14
2896518 TTAGGTTTCT
*
2896528 AAAACCCCTAAAGTCC
1 AAAA-CCCTAAAAT-C
2896544 AAAACCTGCTAAAATCC
1 AAAACC--CTAAAAT-C
*
2896561 AAACCCCTAAAAATC
1 AAAACCCT-AAAATC
* *
2896576 TAAAATCTCTTAAATCC
1 -AAAA-CCCTAAAAT-C
* *
2896593 GAACCCCTAAAATTC
1 AAAACCCTAAAA-TC
*
2896608 TAAACGCCTAAAATC
1 AAAAC-CCTAAAATC
* *
2896623 TAAACCCCAAAATTC
1 AAAACCCTAAAA-TC
2896638 AAAATCCCTAAAATC
1 AAAA-CCCTAAAATC
* *
2896653 CAAACCCTTAAATC
1 AAAACCCTAAAATC
2896667 AAAAC
1 AAAAC
2896672 TCCAAACCCC
Statistics
Matches: 101, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
14 19 0.19
15 32 0.32
16 33 0.33
17 17 0.17
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAACCCTAAAATC
Found at i:2896683 original size:51 final size:50
Alignment explanation
Indices: 2896622--2896730 Score: 132
Period size: 51 Copynumber: 2.1 Consensus size: 50
2896612 CGCCTAAAAT
* *
2896622 CTAAACCCCAAAATTCAAAATCCCTAAAA-TCCAAACCCTTAAATCAAAACTC
1 CTAAACCCCAAAA-CCAAAAT-CCTAAAACTCCAAACCCTAAAATCAAAAC-C
* *
2896674 C-AAACCCCAAAACCCAAATCCTAAAATCTCCAAACTCTAAAATCAAAACC
1 CTAAACCCCAAAACCAAAATCCTAAAA-CTCCAAACCCTAAAATCAAAACC
2896724 CTAAACC
1 CTAAACC
2896731 TTCCATATCC
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
49 7 0.14
50 7 0.14
51 35 0.70
52 1 0.02
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.17
Consensus pattern (50 bp):
CTAAACCCCAAAACCAAAATCCTAAAACTCCAAACCCTAAAATCAAAACC
Found at i:2896699 original size:14 final size:15
Alignment explanation
Indices: 2896666--2896708 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2896656 ACCCTTAAAT
2896666 CAAAACTCCAAACCC
1 CAAAACTCCAAACCC
*
2896681 CAAAAC-CCAAATCC
1 CAAAACTCCAAACCC
*
2896695 TAAAATCTCCAAAC
1 CAAAA-CTCCAAAC
2896709 TCTAAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 11 0.48
15 7 0.30
16 5 0.22
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (15 bp):
CAAAACTCCAAACCC
Found at i:2896727 original size:30 final size:30
Alignment explanation
Indices: 2896528--2896728 Score: 86
Period size: 30 Copynumber: 6.4 Consensus size: 30
2896518 TTAGGTTTCT
*
2896528 AAAACCCCTAAAGTC-CAAAACCTGCTAAAATCC
1 AAAA-CCCTAAAATCTCAAAACC--CTAAAAT-C
* * *
2896561 AAACCCCTAAAAATCT-AAAATCTCTTAAATCC
1 AAAACCCT-AAAATCTCAAAA-CCCTAAAAT-C
* * *
2896593 GAACCCCTAAAAT-TCTAAACGCCTAAAATC
1 AAAACCCTAAAATCTCAAAAC-CCTAAAATC
* *
2896623 TAAACCCCAAAAT-TCAAAATCCCTAAAATC
1 AAAACCCTAAAATCTCAAAA-CCCTAAAATC
* * * * *
2896653 CAAACCCTTAAATCAAAACTCCAAACCCCAAAACC
1 AAAACCC-T--A--AAATCTCAAAACCCTAAAATC
* * * *
2896688 CAAATCCTAAAATCTCCAAACTCTAAAATC
1 AAAACCCTAAAATCTCAAAACCCTAAAATC
2896718 AAAACCCTAAA
1 AAAACCCTAAA
2896729 CCTTCCATAT
Statistics
Matches: 131, Mismatches: 25, Indels: 27
0.72 0.14 0.15
Matches are distributed among these distances:
30 59 0.45
31 15 0.11
32 20 0.15
33 13 0.10
34 2 0.02
35 17 0.13
36 5 0.04
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (30 bp):
AAAACCCTAAAATCTCAAAACCCTAAAATC
Found at i:2897164 original size:24 final size:23
Alignment explanation
Indices: 2897137--2897211 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 23
2897127 TTGATGATAA
2897137 AATATTTTATAATAAAAAAAGAAT
1 AATATTTTATAATAAAAAAA-AAT
* **
2897161 AATACTTT-TAA-AAAAAATTAT
1 AATATTTTATAATAAAAAAAAAT
* * *
2897182 GATATTATAAAATAAAATAAAAAT
1 AATATTTTATAATAAAA-AAAAAT
2897206 AATATT
1 AATATT
2897212 CCGAAAGAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
21 7 0.18
22 8 0.21
23 7 0.18
24 16 0.42
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (23 bp):
AATATTTTATAATAAAAAAAAAT
Found at i:2903090 original size:9 final size:9
Alignment explanation
Indices: 2903071--2903116 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
2903061 TGGGGCATCA
2903071 AAAATAAAAT
1 AAAA-AAAAT
2903081 AAAAAAAAT
1 AAAAAAAAT
*
2903090 AAAAAAAAG
1 AAAAAAAAT
2903099 AGAAAAAAAT
1 A-AAAAAAAT
2903109 AAACAAAA
1 AAA-AAAA
2903117 GGGACATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:2904856 original size:41 final size:41
Alignment explanation
Indices: 2904803--2904898 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
2904793 TTAAAGTTTT
* ** * *
2904803 AAAGTCTCTGTTTAAAAAGAACCGTTTTTAATCAAGATTTG
1 AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTC
* * * *
2904844 AAAGCCTTTGTTTAAGAGGAATCAATTTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTC
2904885 AAAGCCTCTGTTTA
1 AAAGCCTCTGTTTA
2904899 GAGGGAACCT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (41 bp):
AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTC
Found at i:2905438 original size:22 final size:23
Alignment explanation
Indices: 2905377--2905438 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
2905367 AGTCGATTCT
* * *
2905377 GTAAGACTTTCGGGCATGATTTT
1 GTAAGACCTCCGGGCATGATTTC
**
2905400 GTAAGACCTCCATGCATGATTTC
1 GTAAGACCTCCGGGCATGATTTC
2905423 G-AAGACCTCCGGGCAT
1 GTAAGACCTCCGGGCAT
2905439 AAATTCGATT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (23 bp):
GTAAGACCTCCGGGCATGATTTC
Found at i:2905445 original size:22 final size:22
Alignment explanation
Indices: 2905402--2905446 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2905392 ATGATTTTGT
* * *
2905402 AAGACCTCCATGCATGATTTCG
1 AAGACCTCCAGGCATAAATTCG
*
2905424 AAGACCTCCGGGCATAAATTCG
1 AAGACCTCCAGGCATAAATTCG
2905446 A
1 A
2905447 TTCGCGGTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (22 bp):
AAGACCTCCAGGCATAAATTCG
Found at i:2905506 original size:133 final size:133
Alignment explanation
Indices: 2905268--2905798 Score: 602
Period size: 133 Copynumber: 4.1 Consensus size: 133
2905258 GTCAATTCTA
* * * * *
2905268 TAAGACCTTCGGGCATGATTTCTAAGACCTCTGGACATAAATTCGATTCGTGGTGTTATCCCGAT
1 TAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGAT
** *
2905333 CGATTCTTTATCTTTTGACTTTTGGTGTTATCCCAGTCGATTCTGTAAGACTTTCGGGCATGATT
66 CGATTCTTTATCTTTTGACTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGCATGATT
2905398 TTG
131 TTG
** *
2905401 TAAGACCTCCATGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCTCGAT
1 TAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGAT
* * *
2905466 CGATTCTTTATCTTTTGACTTACGGTGTTATCCCAATCGATTC--TAAAACTTTC-GGCATGATT
66 CGATTCTTTATCTTTTGACTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGCATGATT
*
2905528 CTG
131 TTG
* * * * * ** * * *
2905531 T-AGA-CTCCGGGCATGATTTCTAAAACCTTCGGGTATAATTTCGATTTACGATGCTGTCCCGAT
1 TAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGAT
* * *
2905594 CGATTTTTTAT-TTTTAACTTACGGTGTTATCCCAGTC-ATTTCTGTAAGACCTTCGGACATGA-
66 CGATTCTTTATCTTTTGACTTACGGTGTTATCCCAGTCGA-TTCTGTAAGACCTTCGGGCATGAT
*
2905656 TTTC
130 TTTG
* *
2905660 TAAGACCTCCGGGCA--A-TTCTGTAAGACCTCCGGGCATAATTTTGATTCGCGGTGTTATCCCG
1 TAAGACCTCCGGGCATGATTTC-G-AAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCG
* ** * * *
2905722 ATCAATT-TCTTATCTTTTGACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGGGTATG
64 ATCGATTCT-TTATCTTTTGACTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGCATG
2905786 ATTTT-
128 ATTTTG
2905791 TAAGACCT
1 TAAGACCT
2905799 TTAGGCATAA
Statistics
Matches: 334, Mismatches: 52, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
126 1 0.00
127 27 0.08
128 59 0.18
129 16 0.05
130 62 0.19
131 68 0.20
132 4 0.01
133 97 0.29
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (133 bp):
TAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGAT
CGATTCTTTATCTTTTGACTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGCATGATT
TTG
Found at i:2905686 original size:21 final size:22
Alignment explanation
Indices: 2905633--2905695 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
2905623 TCCCAGTCAT
* *
2905633 TTCTGTAAGACCTTCGGACATGA
1 TTCTGTAAGACCTCCGGGCA-GA
*
2905656 TT-TCTAAGACCTCCGGGCA-A
1 TTCTGTAAGACCTCCGGGCAGA
2905676 TTCTGTAAGACCTCCGGGCA
1 TTCTGTAAGACCTCCGGGCA
2905696 TAATTTTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 3 0.09
21 16 0.46
22 14 0.40
23 2 0.06
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (22 bp):
TTCTGTAAGACCTCCGGGCAGA
Found at i:2906137 original size:16 final size:16
Alignment explanation
Indices: 2906116--2906146 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2906106 CCCACCACCC
2906116 ATCCCATACCCTGTTT
1 ATCCCATACCCTGTTT
2906132 ATCCCATACCCTGTT
1 ATCCCATACCCTGTT
2906147 CATCTTACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.39, G:0.06, T:0.35
Consensus pattern (16 bp):
ATCCCATACCCTGTTT
Found at i:2907493 original size:16 final size:16
Alignment explanation
Indices: 2907474--2907588 Score: 90
Period size: 16 Copynumber: 7.2 Consensus size: 16
2907464 CTAGGTTTCT
2907474 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
2907490 AAAACCTACTAAAATCC
1 AAAACC-CCTAAAATCC
*
2907507 -AAACCCCTAAAAATCT
1 AAAACCCCT-AAAATCC
* * *
2907523 AAAATCTCTTAAAT-C
1 AAAACCCCTAAAATCC
** *
2907538 TGAACCCCTAAAATTC
1 AAAACCCCTAAAATCC
* *
2907554 GAAACGCCTAAAATCC
1 AAAACCCCTAAAATCC
**
2907570 AAAGTCCCTAAAATCC
1 AAAACCCCTAAAATCC
2907586 AAA
1 AAA
2907589 CCCTTAAATC
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
15 11 0.15
16 49 0.65
17 15 0.20
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:2907516 original size:32 final size:32
Alignment explanation
Indices: 2907475--2907628 Score: 109
Period size: 32 Copynumber: 4.7 Consensus size: 32
2907465 TAGGTTTCTA
2907475 AAACCCCTAAAATCCAAAACCTACTAAAATCC
1 AAACCCCTAAAATCCAAAACCTACTAAAATCC
* * * *
2907507 AAACCCCTAAAAATCTAAAATCT-CTTAAATCT
1 AAACCCCT-AAAATCCAAAACCTACTAAAATCC
* * *
2907539 GAACCCCTAAAATTCGAAACGC--CTAAAATCC
1 AAACCCCTAAAATCCAAAAC-CTACTAAAATCC
* * *
2907570 AAAGTCCCTAAAATCCAAACCCTTAAATCAAAACTCC
1 AAA-CCCCTAAAATCCAAAACC-T-ACT-AAAA-TCC
* *
2907607 AAA-CCCTAAAACCCAAATCCTA
1 AAACCCCTAAAATCCAAAACCTA
2907629 AAATCTCCAA
Statistics
Matches: 94, Mismatches: 19, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
31 18 0.19
32 36 0.38
33 13 0.14
34 1 0.01
35 16 0.17
36 4 0.04
37 6 0.06
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.19
Consensus pattern (32 bp):
AAACCCCTAAAATCCAAAACCTACTAAAATCC
Found at i:2907591 original size:47 final size:47
Alignment explanation
Indices: 2907474--2907596 Score: 113
Period size: 47 Copynumber: 2.6 Consensus size: 47
2907464 CTAGGTTTCT
* * *
2907474 AAAACCCCTAAAATCCAAAACCTACTAAAATCCAAACCCCTAAAAATCT
1 AAAATCCCTAAAATCC-AAACC-CCTAAAATCCAAACCCCTAAAAATCC
* * ** * *
2907523 AAAATCTCTTAAATCTGAACCCCTAAAATTCGAAACGCCT-AAAATCC
1 AAAATCCCTAAAATCCAAACCCCTAAAA-TCCAAACCCCTAAAAATCC
* *
2907570 AAAGTCCCTAAAATCCAAACCCTTAAA
1 AAAATCCCTAAAATCCAAACCCCTAAA
2907597 TCAAAACTCC
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
47 33 0.57
48 13 0.22
49 12 0.21
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (47 bp):
AAAATCCCTAAAATCCAAACCCCTAAAATCCAAACCCCTAAAAATCC
Found at i:2907597 original size:14 final size:14
Alignment explanation
Indices: 2907479--2907660 Score: 76
Period size: 16 Copynumber: 11.5 Consensus size: 14
2907469 TTTCTAAAAC
2907479 CCCTAAAATCCAAAA
1 CCCTAAAATCC-AAA
2907494 CCTACTAAAATCCAAA
1 CC--CTAAAATCCAAA
*
2907510 CCCCTAAAAATCTAAAA
1 -CCCT-AAAATC-CAAA
* * * *
2907527 TCTCTTAAATCTGAAC
1 -CCCTAAAATC-CAAA
*
2907543 CCCTAAAATTCGAAA
1 CCCTAAAA-TCCAAA
2907558 CGCCTAAAATCCAAA
1 C-CCTAAAATCCAAA
2907573 GTCCCTAAAATCCAAA
1 --CCCTAAAATCCAAA
2907589 CCCTTAAATCAAAACTCCAAA
1 CCC-----T-AAAA-TCCAAA
*
2907610 CCCTAAAACCCAAA
1 CCCTAAAATCCAAA
*
2907624 TCCTAAAATCTCCAAA
1 CCCTAAAA--TCCAAA
** *
2907640 CTTTAAAATCAAAA
1 CCCTAAAATCCAAA
2907654 CCCTAAA
1 CCCTAAA
2907661 CCTTCCATAT
Statistics
Matches: 130, Mismatches: 19, Indels: 37
0.70 0.10 0.20
Matches are distributed among these distances:
14 25 0.19
15 23 0.18
16 50 0.38
17 18 0.14
19 1 0.01
20 4 0.03
21 9 0.07
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
CCCTAAAATCCAAA
Found at i:2907638 original size:51 final size:51
Alignment explanation
Indices: 2907555--2907662 Score: 125
Period size: 51 Copynumber: 2.1 Consensus size: 51
2907545 CTAAAATTCG
*
2907555 AAACGCCTAAAATCCAAAGTCCCTAAAATCCAAACCCTT-AAATCAAAACTCC-
1 AAAC-CCTAAAACCCAAAGTCCCTAAAATCCAAA-CCTTAAAATCAAAAC-CCT
*
2907607 AAACCCTAAAACCCAAA-T-CCTAAAATCTCCAAACTTTAAAATCAAAACCCT
1 AAACCCTAAAACCCAAAGTCCCTAAAA--TCCAAACCTTAAAATCAAAACCCT
2907658 AAACC
1 AAACC
2907663 TTCCATATCC
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
49 7 0.14
50 6 0.12
51 33 0.66
52 4 0.08
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (51 bp):
AAACCCTAAAACCCAAAGTCCCTAAAATCCAAACCTTAAAATCAAAACCCT
Found at i:2907659 original size:30 final size:29
Alignment explanation
Indices: 2907599--2907660 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
2907589 CCCTTAAATC
* *
2907599 AAAACTCCAAACCCTAAAACCCAAATCCT
1 AAAACTCCAAACCCTAAAACCAAAACCCT
** *
2907628 AAAATCTCCAAACTTTAAAATCAAAACCCT
1 AAAA-CTCCAAACCCTAAAACCAAAACCCT
2907658 AAA
1 AAA
2907661 CCTTCCATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.18
Consensus pattern (29 bp):
AAAACTCCAAACCCTAAAACCAAAACCCT
Found at i:2907690 original size:44 final size:44
Alignment explanation
Indices: 2907607--2907691 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
2907597 TCAAAACTCC
*
2907607 AAACCCTAAAACCCAAATCCTAAAATCTCCAAACTTTAAAATCA
1 AAACCCTAAAACCCAAATCCTAAAATCTCCAAACCTTAAAATCA
* * *
2907651 AAACCCTAAACCTTCCATATCCTAAAAT-T-CAAGCCTTAAAA
1 AAACCCTAAAAC--CCAAATCCTAAAATCTCCAAACCTTAAAA
2907692 CCCTCTAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 21 0.60
45 1 0.03
46 13 0.37
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (44 bp):
AAACCCTAAAACCCAAATCCTAAAATCTCCAAACCTTAAAATCA
Found at i:2911267 original size:46 final size:46
Alignment explanation
Indices: 2911214--2911311 Score: 196
Period size: 46 Copynumber: 2.1 Consensus size: 46
2911204 ATATTAGTAA
2911214 TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
1 TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
2911260 TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
1 TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
2911306 TATAAA
1 TATAAA
2911312 ATTATAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (46 bp):
TATAAATATATATTTATATGTATACAAGACATGTACTAATAAAACT
Found at i:2914633 original size:14 final size:14
Alignment explanation
Indices: 2914614--2914644 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2914604 TAGCAAATAC
2914614 ATACATATATACAT
1 ATACATATATACAT
*
2914628 ATACATATATATAT
1 ATACATATATACAT
2914642 ATA
1 ATA
2914645 TGTATATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATACATATATACAT
Found at i:2914650 original size:14 final size:14
Alignment explanation
Indices: 2914619--2914661 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
2914609 AATACATACA
* **
2914619 TATATACATATACA
1 TATATATATATATG
2914633 TATATATATATATG
1 TATATATATATATG
*
2914647 TATATGTATATATG
1 TATATATATATATG
2914661 T
1 T
2914662 TGTAAGACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (14 bp):
TATATATATATATG
Found at i:2914813 original size:3 final size:3
Alignment explanation
Indices: 2914805--2914830 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2914795 AAACTTTGAC
2914805 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2914831 TTATTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2915892 original size:12 final size:12
Alignment explanation
Indices: 2915877--2915922 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
2915867 TTTTTTTTTA
2915877 ATTTTTAATATT
1 ATTTTTAATATT
2915889 ATTTTTAATATT
1 ATTTTTAATATT
* *
2915901 ATTATTATTTATGT
1 ATTTTTA-ATAT-T
2915915 ATTTTTAA
1 ATTTTTAA
2915923 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 18 0.64
13 3 0.11
14 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
ATTTTTAATATT
Found at i:2915906 original size:18 final size:19
Alignment explanation
Indices: 2915871--2915910 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2915861 GTTTAATTTT
*
2915871 TTTTTAATTTTTAATATTA
1 TTTTTAATTATTAATATTA
*
2915890 TTTTTAA-TATTATTATTA
1 TTTTTAATTATTAATATTA
2915908 TTT
1 TTT
2915911 ATGTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTAATTATTAATATTA
Found at i:2916348 original size:20 final size:21
Alignment explanation
Indices: 2916306--2916351 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
2916296 AAATATTTAT
*
2916306 AAAAT-TTTTTTAATATAATA
1 AAAATATTTTTTAATATAACA
*
2916326 AAAATATTTTTTATTA-AACA
1 AAAATATTTTTTAATATAACA
2916346 AAAATA
1 AAAATA
2916352 AAAATTAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAATATTTTTTAATATAACA
Found at i:2916396 original size:22 final size:23
Alignment explanation
Indices: 2916366--2916409 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2916356 TTAACTAAAC
2916366 AATTATTAAATAA-AATAAAAATT
1 AATTATTAAA-AATAATAAAAATT
2916389 AATT-TTAAAAATAATAAAAAT
1 AATTATTAAAAATAATAAAAAT
2916410 GATGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 14 0.70
23 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AATTATTAAAAATAATAAAAATT
Found at i:2918768 original size:17 final size:16
Alignment explanation
Indices: 2918739--2918784 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
2918729 TATCATGCAT
*
2918739 AAATATAAAATAACAA
1 AAATATAAAATAAAAA
*
2918755 AAATAATAATATAAAAA
1 AAAT-ATAAAATAAAAA
2918772 AAAT-TAAAA-AAAA
1 AAATATAAAATAAAA
2918785 TTTTTTTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 4 0.15
16 4 0.15
17 14 0.54
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATATAAAATAAAAA
Found at i:2920853 original size:19 final size:19
Alignment explanation
Indices: 2920811--2920853 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
2920801 CTCATTTCTC
* * *
2920811 TTTTTTTAATTCTTTTTTA
1 TTTTTTTAATTATTATATA
*
2920830 ATTTTTTAATTATTATATA
1 TTTTTTTAATTATTATATA
2920849 TTTTT
1 TTTTT
2920854 AAATATTTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTAATTATTATATA
Found at i:2920863 original size:18 final size:16
Alignment explanation
Indices: 2920832--2920882 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
2920822 CTTTTTTAAT
*
2920832 TTTTTAATTATTATATA
1 TTTTTAAATATTAT-TA
2920849 TTTTTAAATATTTATTA
1 TTTTTAAATA-TTATTA
* *
2920866 TTATT-ATTATTATTA
1 TTTTTAAATATTATTA
2920881 TT
1 TT
2920883 ATTAGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 8 0.27
16 3 0.10
17 15 0.50
18 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTAAATATTATTA
Found at i:2920868 original size:3 final size:3
Alignment explanation
Indices: 2920860--2920892 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
2920850 TTTTAAATAT
*
2920860 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2920893 ATATACTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2921205 original size:74 final size:70
Alignment explanation
Indices: 2921109--2921925 Score: 878
Period size: 74 Copynumber: 11.8 Consensus size: 70
2921099 GCAACACCTA
* * ** * *
2921109 AAGTC-GAATAAAAGAAAGTGATCGGGACGACACCGCGAGTCAAAGATTAAAGATGACTGAGACT
1 AAGTCAGAATTAATGAAA-TGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTG-GACT
*
2921173 GAACTGC
64 GAACCGC
* *
2921180 AAGTCGAGGGAATTAATGAAATGATCGGGATTAAACCATGAGTCAAAAATTAAAGATGACTGGGA
1 AAGTC-A--GAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACT-GGA
*
2921245 TTGAACCGC
62 CTGAACCGC
* * **
2921254 AAGTCGAGGGAATTAATGAAATGATCAGGATTAAATCGTGAGTCAAAGATTAAAGATGACTAGGA
1 AAGTC-A--GAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACT-GGA
*
2921319 CTGAATCGC
62 CTGAACCGC
2921328 AAGTCAGAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGAC
1 AAGTC--AGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACT-GGAC
*
2921393 TGAACCAC
63 TGAACCGC
* * * *
2921401 AAGTCAG-A-GAATGAAATGATTGGGATTAAACCATGAGTCAAAGATTAAAAATGACTGAGACTG
1 AAGTCAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTG-GACTG
2921464 AACCGC
65 AACCGC
*
2921470 AAGTTGAAGAATTAATGAAATGATC-GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGAC
1 AAG-T-CAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACT-GGAC
* * *
2921534 TAAATCAC
63 TGAACCGC
* * **
2921542 AAGTAAAAATTAATGAAATGATCGGGATTAAACCATAAGT-AAAGATTAAAGATGACTGGACTGA
1 AAGTCAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGACTGA
*
2921606 ACCAC
66 ACCGC
*
2921611 AAGT-AG-A--AATGAAATGATCGGGATTAAA-CATGAGTCAAAGATTAAAGATGACTGGAACTG
1 AAGTCAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGG-ACTG
2921671 AA-C-C
65 AACCGC
* * * *
2921675 AAGTCAAAATTAATGAAATGATCGAGATTAAA--TCGAGCCAAAGATTAAAGATGACTGGACTGA
1 AAGTCAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGACTGA
2921738 ACCGC
66 ACCGC
* * *
2921743 AAGTC-GAAATTAATGAAATGACCGGGATTAAACCACGAGCCAAAGATTAAAGATGACT-GACTA
1 AAGTCAG-AATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGACTG
2921806 AACC-C
65 AACCGC
* * *
2921811 AAGTCAAAAATTAATGAAATGATC-GGATTAAA-C-CGAGCCAAAGAATAAAGATGACTGGGACT
1 AAGTC-AGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACT-GGACT
2921873 GAA----
64 GAACCGC
* *
2921876 AAGTCAG-A-GAATGAAATGA-CCGGATTAAACCACGAGTCAAAGATTAAAGA
1 AAGTCAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGA
2921926 CGATGACTGA
Statistics
Matches: 653, Mismatches: 62, Indels: 69
0.83 0.08 0.09
Matches are distributed among these distances:
61 1 0.00
62 18 0.03
63 2 0.00
64 28 0.04
65 47 0.07
66 35 0.05
67 26 0.04
68 71 0.11
69 94 0.14
70 60 0.09
71 24 0.04
72 44 0.07
73 75 0.11
74 115 0.18
75 13 0.02
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.20
Consensus pattern (70 bp):
AAGTCAGAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGACTGA
ACCGC
Found at i:2921473 original size:142 final size:142
Alignment explanation
Indices: 2921145--2921925 Score: 942
Period size: 142 Copynumber: 5.6 Consensus size: 142
2921135 ACGACACCGC
* *
2921145 GAGTCAAAGATTAAAGATGACTGAGACTGAACTGCAAGTCGAGGGAATTAATGAAATGATCGGGA
1 GAGTCAAAGATTAAAGATGACTGAGACTGAACCGCAAGTC-AGAGAATTAATGAAATGATCGGGA
* * * *
2921210 TTAAACCATGAGTCAAAAATTAAAGATGACTGGGATTGAACCGCAAGTCGAGGGAATTAATGAAA
65 TTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACC-CAAGTC-A--AAATTAATGAAA
* *
2921275 TGATCAGGATTAAATCGT
126 TGATCGGGATTAAA-CCT
*
2921293 GAGTCAAAGATTAAAGATGACT-AGGACTGAATCGCAAGTCAGAGAATTAATGAAATGATCGGGA
1 GAGTCAAAGATTAAAGATGACTGA-GACTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGA
* *
2921357 TTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACCACAAGTC-AGA-GAATGAAATGA
65 TTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACC-CAAGTCAAAATTAATGAAATGA
*
2921420 TTGGGATTAAACCAT
129 TCGGGATTAAACC-T
* *
2921435 GAGTCAAAGATTAAAAATGACTGAGACTGAACCGCAAGT-TGAAGAATTAATGAAATGATC-GGA
1 GAGTCAAAGATTAAAGATGACTGAGACTGAACCGCAAGTCAG-AGAATTAATGAAATGATCGGGA
* * *
2921498 TTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAATCACAAGTAAAAATTAATGAAATGA
65 TTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAA-CCCAAGTCAAAATTAATGAAATGA
2921563 TCGGGATTAAACCAT
129 TCGGGATTAAACC-T
* *
2921578 AAGT-AAAGATTAAAGATGACTG-GACTGAACCACAAGT---AG-A--AATGAAATGATCGGGAT
1 GAGTCAAAGATTAAAGATGACTGAGACTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGAT
* *
2921635 TAAA-CATGAGTCAAAGATTAAAGATGACTGGAACTGAA-CCAAGTCAAAATTAATGAAATGATC
66 TAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACCCAAGTCAAAATTAATGAAATGATC
* *
2921698 GAGATTAAATC-
131 GGGATTAAACCT
* *
2921709 GAGCCAAAGATTAAAGATGACTG-GACTGAACCGCAAGTC-GA-AATTAATGAAATGACCGGGAT
1 GAGTCAAAGATTAAAGATGACTGAGACTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGAT
* *
2921771 TAAACCACGAGCCAAAGATTAAAGATGACT--GACTAAACCCAAGTCAAAAATTAATGAAATGAT
66 TAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACCCAAGTC-AAAATTAATGAAATGAT
2921834 C-GGATTAAACC-
130 CGGGATTAAACCT
* * * *
2921845 GAGCCAAAGAATAAAGATGACTGGGACTGAA----AAGTCAGAG----AATGAAATGA-CCGGAT
1 GAGTCAAAGATTAAAGATGACTGAGACTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGAT
2921901 TAAACCACGAGTCAAAGATTAAAGA
66 TAAACCACGAGTCAAAGATTAAAGA
2921926 CGATGACTGA
Statistics
Matches: 568, Mismatches: 45, Indels: 58
0.85 0.07 0.09
Matches are distributed among these distances:
130 29 0.05
131 12 0.02
132 32 0.06
133 37 0.07
134 4 0.01
135 48 0.08
136 65 0.11
137 49 0.09
138 2 0.00
141 63 0.11
142 93 0.16
143 29 0.05
147 69 0.12
148 36 0.06
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.20
Consensus pattern (142 bp):
GAGTCAAAGATTAAAGATGACTGAGACTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGAT
TAAACCACGAGTCAAAGATTAAAGATGACTGGGACTGAACCCAAGTCAAAATTAATGAAATGATC
GGGATTAAACCT
Found at i:2923000 original size:10 final size:10
Alignment explanation
Indices: 2922985--2923023 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
2922975 ATTTTTTTCA
2922985 TTTTATTTTT
1 TTTTATTTTT
2922995 TTTTATTTTT
1 TTTTATTTTT
* *
2923005 TTGTATATTT
1 TTTTATTTTT
*
2923015 TTTTCTTTT
1 TTTTATTTT
2923024 GTTATAGGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:2934188 original size:23 final size:23
Alignment explanation
Indices: 2934162--2934209 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2934152 ATGGGGTGTT
2934162 AGGGGGCTGATCAGGAGGCTGAC
1 AGGGGGCTGATCAGGAGGCTGAC
* * *
2934185 AGGGGGCTGGTCGGGATGCTGAC
1 AGGGGGCTGATCAGGAGGCTGAC
2934208 AG
1 AG
2934210 AGGCGACAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.17, G:0.50, T:0.15
Consensus pattern (23 bp):
AGGGGGCTGATCAGGAGGCTGAC
Found at i:2934316 original size:3 final size:3
Alignment explanation
Indices: 2934308--2934340 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2934298 TTAAAAATAT
2934308 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2934341 ATATACTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2934645 original size:33 final size:33
Alignment explanation
Indices: 2934606--2934671 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2934596 GAGGAAGTAA
*
2934606 TGGGTTTAAGTGGGCTTATATCATGGGTTGGGG
1 TGGGTTTAAGTGAGCTTATATCATGGGTTGGGG
* *
2934639 TGGGTTTAAGTGAGCTTTTATCGTGGGTTGGGG
1 TGGGTTTAAGTGAGCTTATATCATGGGTTGGGG
2934672 GTAGGGTGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.14, C:0.06, G:0.42, T:0.38
Consensus pattern (33 bp):
TGGGTTTAAGTGAGCTTATATCATGGGTTGGGG
Found at i:2935065 original size:12 final size:12
Alignment explanation
Indices: 2935048--2935083 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2935038 TATTCAATTG
2935048 CATACATATATA
1 CATACATATATA
* *
2935060 CATACAAACATA
1 CATACATATATA
2935072 CATACATATATA
1 CATACATATATA
2935084 TATTATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (12 bp):
CATACATATATA
Found at i:2935751 original size:3 final size:3
Alignment explanation
Indices: 2935743--2935770 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2935733 AATAACTTTT
2935743 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2935771 TGTCTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2937687 original size:16 final size:17
Alignment explanation
Indices: 2937668--2937699 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2937658 TTAGGTTTCT
2937668 AAAACCT-CTAAAATCC
1 AAAACCTGCTAAAATCC
2937684 AAAACCTGCTAAAATC
1 AAAACCTGCTAAAATC
2937700 TCTTAAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAACCTGCTAAAATCC
Found at i:2937754 original size:30 final size:31
Alignment explanation
Indices: 2937694--2937781 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 31
2937684 AAAACCTGCT
* * *
2937694 AAAATCTCTTAAATCCGAACCCCTAAAATTC
1 AAAATCCCTAAAATCCAAACCCCTAAAATTC
*
2937725 TAAA-CGCCTAAAATCCAAACCCC-AAAATTC
1 AAAATC-CCTAAAATCCAAACCCCTAAAATTC
*
2937755 AAAATCCCTAAAATCCAAACCCTTAAA
1 AAAATCCCTAAAATCCAAACCCCTAAA
2937782 TCAAAACTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 27 0.56
31 21 0.44
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (31 bp):
AAAATCCCTAAAATCCAAACCCCTAAAATTC
Found at i:2937782 original size:14 final size:14
Alignment explanation
Indices: 2937704--2937845 Score: 77
Period size: 14 Copynumber: 9.1 Consensus size: 14
2937694 AAAATCTCTT
*
2937704 AAATCCGAACCCCTA
1 AAATCC-AAACCCTA
*
2937719 AAATTCTAAACGCCTA
1 AAA-TCCAAAC-CCTA
*
2937735 AAATCCAAACCCCA
1 AAATCCAAACCCTA
*
2937749 AAATTCAAAATCCCTA
1 AAA-TCCAAA-CCCTA
2937765 AAATCCAAACCCTTAAATCA
1 AAATCCAAACCC-----T-A
*
2937785 AAACTCCAAACCCCA
1 AAA-TCCAAACCCTA
* *
2937800 AAACCCAAATCCTA
1 AAATCCAAACCCTA
*
2937814 AAATCTCCAAACTCTA
1 AAA--TCCAAACCCTA
*
2937830 AAATCAAAACCCTA
1 AAATCCAAACCCTA
2937844 AA
1 AA
2937846 CCTTCCATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
14 31 0.32
15 26 0.27
16 27 0.28
19 1 0.01
20 4 0.04
21 9 0.09
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:2937797 original size:51 final size:50
Alignment explanation
Indices: 2937734--2937847 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 50
2937724 CTAAACGCCT
* *
2937734 AAAA-TCCAAACCCCAAAATTCAAAATCCCTAAAA-TCCAAACCCTTAAATC
1 AAAACTCCAAACCCCAAAA-CCAAAAT-CCTAAAACTCCAAACCCTAAAATC
* *
2937784 AAAACTCCAAACCCCAAAACCCAAATCCTAAAATCTCCAAACTCTAAAATC
1 AAAACTCCAAACCCCAAAACCAAAATCCTAAAA-CTCCAAACCCTAAAATC
2937835 AAAAC-CCTAAACC
1 AAAACTCC-AAACC
2937848 TTCCATATCC
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
49 7 0.12
50 11 0.20
51 38 0.68
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (50 bp):
AAAACTCCAAACCCCAAAACCAAAATCCTAAAACTCCAAACCCTAAAATC
Found at i:2937844 original size:30 final size:29
Alignment explanation
Indices: 2937784--2937845 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
2937774 CCCTTAAATC
* *
2937784 AAAACTCCAAACCCCAAAACCCAAATCCT
1 AAAACTCCAAACCCCAAAACCAAAACCCT
* * *
2937813 AAAATCTCCAAACTCTAAAATCAAAACCCT
1 AAAA-CTCCAAACCCCAAAACCAAAACCCT
2937843 AAA
1 AAA
2937846 CCTTCCATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.15
Consensus pattern (29 bp):
AAAACTCCAAACCCCAAAACCAAAACCCT
Done.