Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 114 of 147
Found at i:20535805 original size:20 final size:20
Alignment explanation
Indices: 20535768--20535962 Score: 92
Period size: 20 Copynumber: 9.9 Consensus size: 20
20535758 ATTACATTAT
*
20535768 TTATATATTATTATTTGCATGA
1 TTATATA-T-TTAATTGCATGA
20535790 TTATATATTTAATTGCATG-
1 TTATATATTTAATTGCATGA
20535809 -T-T-TATTT-A---CATGA
1 TTATATATTTAATTGCATGA
* *
20535822 TTTATGTATTACTAGTTGCATGA
1 -TTATATATT--TAATTGCATGA
*
20535845 TTATATATTTAACTGCAT-A
1 TTATATATTTAATTGCATGA
** ** *
20535864 TT-TAT-TTGCA-TGGTTTA
1 TTATATATTTAATTGCATGA
* * *
20535881 -TATATTTTTATTTGCATAA
1 TTATATATTTAATTGCATGA
20535900 TTATATATTTAATTGCATGA
1 TTATATATTTAATTGCATGA
*
20535920 TTATTAATATTATTATTTGCATGA
1 TTA-T-ATA-T-TTAATTGCATGA
*
20535944 TTATATATTTGATTGCATG
1 TTATATATTTAATTGCATG
20535963 TCTGATTGCA
Statistics
Matches: 132, Mismatches: 21, Indels: 42
0.68 0.11 0.22
Matches are distributed among these distances:
12 4 0.03
15 2 0.02
16 10 0.08
17 12 0.09
18 6 0.05
19 8 0.06
20 45 0.34
21 3 0.02
22 21 0.16
23 7 0.05
24 14 0.11
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (20 bp):
TTATATATTTAATTGCATGA
Found at i:20535818 original size:55 final size:55
Alignment explanation
Indices: 20535759--20535963 Score: 234
Period size: 55 Copynumber: 3.9 Consensus size: 55
20535749 ATTTACATGA
*
20535759 TTACATTATTTATATATTATTATTTGCATGATTATATATTTAATTGCATGTTTAT
1 TTACATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATGTTTAT
* * * * *
20535814 TTACATGATTTATGTATTACTAGTTGCATGATTATATATTTAACTGCATATTTAT
1 TTACATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATGTTTAT
* * * *
20535869 TTGCATGGTTTATATATTTTTATTTGCATAATTATATATTTAATTGCATG---A-
1 TTACATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATGTTTAT
*
20535920 -T---T-A-TTA-ATATTATTATTTGCATGATTATATATTTGATTGCATGT
1 TTACATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATGT
20535964 CTGATTGCAT
Statistics
Matches: 130, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
44 34 0.26
45 3 0.02
47 1 0.01
50 1 0.01
52 1 0.01
55 90 0.69
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.53
Consensus pattern (55 bp):
TTACATGATTTATATATTATTATTTGCATGATTATATATTTAATTGCATGTTTAT
Found at i:20536041 original size:20 final size:20
Alignment explanation
Indices: 20536013--20536054 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
20536003 ATGATTATTA
* *
20536013 ATATTTTTATTTGCATGATT
1 ATATATTTAATTGCATGATT
*
20536033 ATATATTTAATTGCATGTTT
1 ATATATTTAATTGCATGATT
20536053 AT
1 AT
20536055 TTACATGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (20 bp):
ATATATTTAATTGCATGATT
Found at i:20536055 original size:44 final size:44
Alignment explanation
Indices: 20535861--20536055 Score: 188
Period size: 44 Copynumber: 4.5 Consensus size: 44
20535851 ATTTAACTGC
* *
20535861 ATATTTATTTGCATGGTTTA-T-ATATTTTTATTTGCATAATTAT
1 ATATTTAATTGCAT-GTTTATTAATATTTTTATTTGCATGATTAT
* *
20535904 ATATTTAATTGCATGATTATTAATATTATTATTTGCATGATTAT
1 ATATTTAATTGCATGTTTATTAATATTTTTATTTGCATGATTAT
* * * *
20535948 ATATTTGATTGCATGTCTGATTGCATAATTATTAATTT--AT--TTAT
1 ATATTTAATTGCATGT-TTATT-AAT-ATT-TTTATTTGCATGATTAT
* * * *
20535992 TTATGTGA-TGCATGATTATTAATATTTTTATTTGCATGATTAT
1 ATATTTAATTGCATGTTTATTAATATTTTTATTTGCATGATTAT
20536035 ATATTTAATTGCATGTTTATT
1 ATATTTAATTGCATGTTTATT
20536056 TACATGATTT
Statistics
Matches: 121, Mismatches: 20, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
39 6 0.05
40 3 0.02
41 4 0.03
42 8 0.07
43 29 0.24
44 55 0.45
45 4 0.03
46 4 0.03
47 3 0.02
48 5 0.04
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (44 bp):
ATATTTAATTGCATGTTTATTAATATTTTTATTTGCATGATTAT
Found at i:20536081 original size:33 final size:32
Alignment explanation
Indices: 20536018--20536088 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
20536008 TATTAATATT
* *
20536018 TTTATTTGCATGATTATATATTTAATTGCATG
1 TTTATTTACATGATTACATATTTAATTGCATG
20536050 TTTATTTACATGATTTACAT-TATTAATTGCATG
1 TTTATTTACATGA-TTACATAT-TTAATTGCATG
*
20536083 ATTATT
1 TTTATT
20536089 AATTTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.54
Consensus pattern (32 bp):
TTTATTTACATGATTACATATTTAATTGCATG
Found at i:20536294 original size:16 final size:16
Alignment explanation
Indices: 20536273--20536321 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
20536263 ATAATTACTA
**
20536273 ATATATTTTTGTGATT
1 ATATATTTTCATGATT
20536289 ATATATGATTTCATGATT
1 ATATAT--TTTCATGATT
*
20536307 ATATATTTGCATGAT
1 ATATATTTTCATGAT
20536322 ATTTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 14 0.50
18 14 0.50
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (16 bp):
ATATATTTTCATGATT
Found at i:20536328 original size:20 final size:20
Alignment explanation
Indices: 20536316--20536362 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
20536306 TATATATTTG
20536316 CATGATATTTTATATTATTA
1 CATGATATTTTATATTATTA
** *
20536336 CATGGCATCTTATATTATTA
1 CATGATATTTTATATTATTA
20536356 CATGATA
1 CATGATA
20536363 ATTAATATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (20 bp):
CATGATATTTTATATTATTA
Found at i:20536528 original size:12 final size:11
Alignment explanation
Indices: 20536504--20536539 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
20536494 GACTTATAAT
20536504 ATATTTGCATG
1 ATATTTGCATG
20536515 ATATTTGACATG
1 ATATTTG-CATG
20536527 ATATTTGCATG
1 ATATTTGCATG
20536538 AT
1 AT
20536540 TGCATGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (11 bp):
ATATTTGCATG
Found at i:20538273 original size:24 final size:24
Alignment explanation
Indices: 20538225--20538274 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
20538215 AAATTATCCT
*
20538225 AATATTTTTTGTCATAATTATAAA
1 AATATTTTTTGTCAAAATTATAAA
*
20538249 AATATTTTTT-T-AAAATTTATCAA
1 AATATTTTTTGTCAAAA-TTATAAA
20538272 AAT
1 AAT
20538275 TATTATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 10 0.43
24 10 0.43
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
AATATTTTTTGTCAAAATTATAAA
Found at i:20538335 original size:33 final size:33
Alignment explanation
Indices: 20538298--20538368 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
20538288 CTTTTTATAT
* *
20538298 AATTAAAAAAATAC-TCTTAATTATAATTAATAA
1 AATTAAAAAAACACATCTT-ATCATAATTAATAA
** *
20538331 AATTATTAAAACGCATCTTATCATAATTAATAA
1 AATTAAAAAAACACATCTTATCATAATTAATAA
20538364 AATTA
1 AATTA
20538369 TTATAACATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (33 bp):
AATTAAAAAAACACATCTTATCATAATTAATAA
Found at i:20539104 original size:20 final size:21
Alignment explanation
Indices: 20539057--20539104 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
20539047 TTTAATTAAT
*
20539057 CTAAAATAATAATTTATATTA
1 CTAAAATAAAAATTTATATTA
**
20539078 -TTTAATAAAAATTTATA-TA
1 CTAAAATAAAAATTTATATTA
20539097 CTAAAATA
1 CTAAAATA
20539105 TATAAATATA
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
CTAAAATAAAAATTTATATTA
Found at i:20539328 original size:21 final size:22
Alignment explanation
Indices: 20539299--20539355 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 22
20539289 TTAATTCTAA
*
20539299 ATAAGTATAATA-TTTTTTATT
1 ATAATTATAATATTTTTTTATT
20539320 ATAATTATAAAAATATTTTTTTATT
1 ATAATTAT---AATATTTTTTTATT
20539345 ATAATTA-AATA
1 ATAATTATAATA
20539356 AAATTATGCG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 11 0.35
24 4 0.13
25 16 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATAATTATAATATTTTTTTATT
Found at i:20557988 original size:30 final size:29
Alignment explanation
Indices: 20557940--20557998 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
20557930 TTTTATTTCT
** * *
20557940 AATAATAACTTTGTTAATAAATATTTAAAA
1 AATAATAAAATTGATAAT-AATATATAAAA
20557970 AATAATAAAATTGATAATAATATATAAAA
1 AATAATAAAATTGATAATAATATATAAAA
20557999 TAATTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (29 bp):
AATAATAAAATTGATAATAATATATAAAA
Found at i:20558166 original size:16 final size:15
Alignment explanation
Indices: 20558145--20558180 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
20558135 CAAGAAATGG
*
20558145 AAAAAAATTTAAAATA
1 AAAAAAAATT-AAATA
20558161 AAAAAAAATTAAATA
1 AAAAAAAATTAAATA
20558176 AAAAA
1 AAAAA
20558181 TCAAAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAAAAATTAAATA
Found at i:20559126 original size:2 final size:2
Alignment explanation
Indices: 20559119--20559151 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
20559109 ATAGGCGAAG
20559119 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
20559152 CACGTGATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20563974 original size:15 final size:15
Alignment explanation
Indices: 20563954--20563985 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
20563944 AAAGTCTGTT
20563954 TTCTAGTACTTTAAG
1 TTCTAGTACTTTAAG
20563969 TTCTAGTACTTTAAG
1 TTCTAGTACTTTAAG
20563984 TT
1 TT
20563986 GCCATGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (15 bp):
TTCTAGTACTTTAAG
Found at i:20570225 original size:29 final size:29
Alignment explanation
Indices: 20570171--20570251 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 29
20570161 AAGAGAAGAA
*
20570171 ATTTTAT-TTT-TATTTCATTCTT-TTATC
1 ATTTTATATTTATATTT-ATTATTATTATC
*
20570198 ATTTTATATTTATATTTATTATTATTATT
1 ATTTTATATTTATATTTATTATTATTATC
*
20570227 ATATTTTTA-TTAT-TTTATTTATTAT
1 AT-TTTATATTTATATTTA-TTATTAT
20570252 AGATAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 7 0.15
28 12 0.26
29 22 0.48
30 5 0.11
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (29 bp):
ATTTTATATTTATATTTATTATTATTATC
Found at i:20571118 original size:4 final size:4
Alignment explanation
Indices: 20571101--20571146 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
20571091 TGTAAACAAA
* *
20571101 AAAT AAAC AAAT AAAT AAGA- AAAT CAAT AAAT AAA- AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
20571147 ACCAAGATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 4 0.11
4 30 0.86
5 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:20571131 original size:16 final size:15
Alignment explanation
Indices: 20571109--20571146 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
20571099 AAAAATAAAC
20571109 AAATAAATAAGAAAAT
1 AAATAAATAA-AAAAT
*
20571125 CAATAAATAAAAAAT
1 AAATAAATAAAAAAT
20571140 AAATAAA
1 AAATAAA
20571147 ACCAAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (15 bp):
AAATAAATAAAAAAT
Found at i:20571176 original size:13 final size:14
Alignment explanation
Indices: 20571158--20571196 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
20571148 CCAAGATAAT
20571158 ATTAAAA-ACAAAA
1 ATTAAAATACAAAA
*
20571171 ATTAAAATACCAAA
1 ATTAAAATACAAAA
20571185 A-TAAAATACAAA
1 ATTAAAATACAAA
20571197 GATAAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (14 bp):
ATTAAAATACAAAA
Found at i:20575323 original size:28 final size:29
Alignment explanation
Indices: 20575274--20575331 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
20575264 ATTAATTAAA
**
20575274 ATTAATATATTTTATTTTAAAAA-TATAT
1 ATTAATATATTTTATTAAAAAAATTATAT
20575302 ATTAATATATATTTA-TAAAAAAATTATAT
1 ATTAATATAT-TTTATTAAAAAAATTATAT
20575331 A
1 A
20575332 AATGTGTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTAATATATTTTATTAAAAAAATTATAT
Found at i:20575612 original size:14 final size:14
Alignment explanation
Indices: 20575593--20575622 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20575583 CCAAATGGAT
20575593 TAAGAGAAAAGAGA
1 TAAGAGAAAAGAGA
*
20575607 TAAGAGGAAAGAGA
1 TAAGAGAAAAGAGA
20575621 TA
1 TA
20575623 GAGTTGGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (14 bp):
TAAGAGAAAAGAGA
Found at i:20576668 original size:38 final size:36
Alignment explanation
Indices: 20576585--20576660 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
20576575 GTCTCCAAAA
* *
20576585 TAAATTTTATAAATAATAATATTAGTAAATATATTT
1 TAAATTTTATAAATAATAATATTAATAAAAATATTT
* *
20576621 TAAAATTTATATATAATAATATTAAATAAAAAATATTT
1 TAAATTTTATAAATAATAATATT-AAT-AAAAATATTT
20576659 TA
1 TA
20576661 TGTTTTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 21 0.62
37 2 0.06
38 11 0.32
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (36 bp):
TAAATTTTATAAATAATAATATTAATAAAAATATTT
Found at i:20576810 original size:72 final size:71
Alignment explanation
Indices: 20576705--20577050 Score: 326
Period size: 71 Copynumber: 4.8 Consensus size: 71
20576695 TCACCGTGTC
* * * * *
20576705 TTTTTATATTAAAAA-GCAATCTTTATTAAAATTTCAAATTTTCAAAAATAAAGTTTTAATATTA
1 TTTTTATTTTAAAAATGCGATCTTTATTAAAATTTTAAATTTTCAAAAATAAAGTTTCAATATTC
20576769 ATTACA
66 ATTACA
* * * * * *
20576775 TTTTTTATTTTAAAAATGCGGTCTTTGTTAAAATTTTAAAATTTCAAAAATAAAATTTCAACATC
1 -TTTTTATTTTAAAAATGCGATCTTTATTAAAATTTTAAATTTTCAAAAATAAAGTTTCAATATT
20576840 CATTACA
65 CATTACA
* * * * * *
20576847 ATTTTATCTTTAAAAAT-AGATTTTTGTTAAAATTCTAAAATTTT-GAAAATAAAGTTTCAATAT
1 TTTTTAT-TTTAAAAATGCGATCTTTATTAAAATT-TTAAATTTTCAAAAATAAAGTTTCAATAT
*
20576910 TCACTACA
64 TCATTACA
* * *
20576918 TTTTTATTTTAAAAATGTGATCTTTATTAAAATTTTAGAA-TTTCAAAAATATTA-TTTCAACAT
1 TTTTTATTTTAAAAATGCGATCTTTATTAAAATTTTA-AATTTTCAAAAATA-AAGTTTCAATAT
* *
20576981 CCATTATA
64 TCATTACA
* ** * *
20576989 TTTCTTATATTAAAAATATGATTTTTGATTAAAATTTTAGAATTTT-AGAAATAAAGTTTCAA
1 TTT-TTATTTTAAAAATGCGATCTTT-ATTAAAATTTTA-AATTTTCAAAAATAAAGTTTCAA
20577051 CATCCACTAT
Statistics
Matches: 226, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
70 14 0.06
71 100 0.44
72 82 0.36
73 27 0.12
74 3 0.01
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (71 bp):
TTTTTATTTTAAAAATGCGATCTTTATTAAAATTTTAAATTTTCAAAAATAAAGTTTCAATATTC
ATTACA
Found at i:20576952 original size:142 final size:140
Alignment explanation
Indices: 20576730--20577436 Score: 564
Period size: 142 Copynumber: 4.9 Consensus size: 140
20576720 GCAATCTTTA
* * * * * * *
20576730 TTAAAATTTCAAATTTTCAAAAATAAAGTTTTAATATTAATTACATTTTTTATTTTAAAAATGCG
1 TTAAAATTTAAAATTTT-AAAAATAAAGTTTCAACATTCATTATA-TTTTTATCTTAAAAATGTG
* * *
20576795 GTCTTTGTTAAAATTTTAAAATTTCAAAAATAAAATTTCAACATCCATTACAATT-TTATCTTTA
64 ATCTTTGTTAAAATTTTAAAATTTCAAAAATATAATTTCAACATCCATTACATTTCTTATC-TTA
*
20576859 AAAATAGATTTTTG
128 AAAAT-GATATTTG
* * * * *
20576873 TTAAAATTCTAAAATTTTGAAAATAAAGTTTCAATATTCACTACATTTTTATTTTAAAAATGTGA
1 TTAAAATT-TAAAATTTTAAAAATAAAGTTTCAACATTCATTATATTTTTATCTTAAAAATGTGA
* * * * *
20576938 TCTTTATTAAAATTTTAGAATTTCAAAAATATTATTTCAACATCCATTATATTTCTTATATTAAA
65 TCTTTGTTAAAATTTTAAAATTTCAAAAATATAATTTCAACATCCATTACATTTCTTATCTT-AA
*
20577003 AATATGATTTTTG
129 AA-ATGATATTTG
* * * * * *
20577016 ATTAAAATTTTAGAATTTTAGAAATAAAGTTTCAACATCCACTATGTTTCTTAACTTAAAAGGAT
1 -TTAAAA-TTTAAAATTTTAAAAATAAAGTTTCAACATTCATTATATTT-TTATCTTAAAA--AT
** * * * *
20577081 GGTCCTTATTAATGTTAAAA-TTTCAAATTTCAAAAATATAATTTCAACATCTACTACATTTCTT
61 -GT-GATCTT--TGTTAAAATTTTAAAATTTCAAAAATATAATTTCAACATCCATTACATTTCTT
20577145 ATCTTAAAAATGATATTTG
122 ATCTTAAAAATGATATTTG
* * * ** * ** *
20577164 TTAAAATTTTATAATTTAAAAAATATAGTTTCAACATTTGTTATGTTTCTTATCTTAAAAACATA
1 TTAAAA-TTTAAAATTTTAAAAATAAAGTTTCAACATTCATTATATTT-TTATCTTAAAAATGTG
* * * * * * * * * *
20577229 ATTTTTGTTTAAATTCTAAAATTT--TAAATAAAATCTCAATATCTATCACATTTTTTTATCTTA
64 ATCTTTGTTAAAATTTTAAAATTTCAAAAATATAATTTCAACATCCATTACA-TTTCTTATCTTA
*
20577292 AAAGTGATATTTG
128 AAAATGATATTTG
* * * *
20577305 TTAAAATTTCAGAATTTTGAAAATATAGTTT-AACATTCATTATATTTTTTTATCTTAAAACT-T
1 TTAAAATTT-AAAATTTTAAAAATAAAGTTTCAACATTCATTATA--TTTTTATCTTAAAAATGT
* * * * ** * *
20577368 GGTATTTGTTAAAATTCTAAAATTTTAAAAATATAATTTCAATGTCTATTATATTT-TTCATCTT
63 GATCTTTGTTAAAATTTTAAAATTTCAAAAATATAATTTCAACATCCATTACATTTCTT-ATCTT
20577432 AAAAA
127 AAAAA
20577437 CTTGTTAAAA
Statistics
Matches: 464, Mismatches: 79, Indels: 44
0.79 0.13 0.07
Matches are distributed among these distances:
140 57 0.12
141 77 0.17
142 99 0.21
143 50 0.11
144 49 0.11
145 12 0.03
147 53 0.11
148 11 0.02
149 7 0.02
150 42 0.09
151 7 0.02
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (140 bp):
TTAAAATTTAAAATTTTAAAAATAAAGTTTCAACATTCATTATATTTTTATCTTAAAAATGTGAT
CTTTGTTAAAATTTTAAAATTTCAAAAATATAATTTCAACATCCATTACATTTCTTATCTTAAAA
ATGATATTTG
Found at i:20577129 original size:77 final size:73
Alignment explanation
Indices: 20576802--20577200 Score: 293
Period size: 71 Copynumber: 5.5 Consensus size: 73
20576792 GCGGTCTTTG
* * * * * * *
20576802 TTAAAATTTTAAAATTTCAAAAATAAAATTTCAACATCCATTACAATT-TTATCTTTAAAA-ATA
1 TTAAAATTTTAGAATTTCAAAAATATAATTTCAACATCCACTATATTTCTTAACTTAAAAAGAT-
*
20576865 GATTTTT-G
65 GATTTTTAA
* * ** * * * **
20576873 TTAAAATTCTAAAATTTTGAAAATA-AAGTTTCAATATTCACTACATTT-TTATTTTAAAAATG-
1 TTAAAATTTTAGAATTTCAAAAATATAA-TTTCAACATCCACTATATTTCTTAACTTAAAAA-GA
*
20576935 TGATCTTT-A
64 TGATTTTTAA
* * *
20576944 TTAAAATTTTAGAATTTCAAAAATATTATTTCAACATCCATTATATTTCTTATA-TTAAAAATAT
1 TTAAAATTTTAGAATTTCAAAAATATAATTTCAACATCCACTATATTTCTTA-ACTTAAAAAGAT
*
20577008 GATTTTTGA
65 GATTTTTAA
* * * *
20577017 TTAAAATTTTAGAATTTTAGAAATA-AAGTTTCAACATCCACTATGTTTCTTAACTTAAAAGGAT
1 TTAAAATTTTAGAATTTCAAAAATATAA-TTTCAACATCCACTATATTTCTTAACTTAAAAAGAT
*
20577081 GGTCCTTATTAA
65 GAT--TT-TTAA
* * * *
20577093 TGTTAAAATTTCA-AATTTCAAAAATATAATTTCAACATCTACTACATTTCTTATCTT-AAAA-A
1 --TTAAAATTTTAGAATTTCAAAAATATAATTTCAACATCCACTATATTTCTTAACTTAAAAAGA
* *
20577155 TGATATTT-G
64 TGATTTTTAA
* * *
20577164 TTAAAATTTTATAATTTAAAAAATATAGTTTCAACAT
1 TTAAAATTTTAGAATTTCAAAAATATAATTTCAACAT
20577201 TTGTTATGTT
Statistics
Matches: 265, Mismatches: 46, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
69 10 0.04
70 25 0.09
71 91 0.34
72 23 0.09
73 57 0.22
75 6 0.02
76 6 0.02
77 35 0.13
78 12 0.05
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (73 bp):
TTAAAATTTTAGAATTTCAAAAATATAATTTCAACATCCACTATATTTCTTAACTTAAAAAGATG
ATTTTTAA
Found at i:20577213 original size:70 final size:70
Alignment explanation
Indices: 20577093--20577435 Score: 250
Period size: 70 Copynumber: 4.9 Consensus size: 70
20577083 TCCTTATTAA
* * * * *
20577093 TGTTAAAA-TTTCAAATTTCAAAAATATAATTTCAACATCTACTACATTTCTTATCTTAAAA-AT
1 TGTTAAAATTTTAAAATTTAAAAAATATAATTTCAACATTTATTA-TTTTCTTATCTTAAAACAT
20577156 GATATT
65 GATATT
* * *
20577162 TGTTAAAATTTTATAATTTAAAAAATATAGTTTCAACATTTGTTATGTTTCTTATCTTAAAAACA
1 TGTTAAAATTTTAAAATTTAAAAAATATAATTTCAACATTTATTAT-TTTCTTATCTT-AAAACA
* *
20577227 TAATTTT
64 TGATATT
* * * * * * * * * *
20577234 TGTTTAAATTCTAAAATTT--TAAATAAAATCTCAATATCTATCACATTTTTTTATCTTAAAA-G
1 TGTTAAAATTTTAAAATTTAAAAAATATAATTTCAACATTTAT--TATTTTCTTATCTTAAAACA
20577296 TGATATT
64 TGATATT
* * ** * * * *
20577303 TGTTAAAATTTCAGAATTTTGAAAATATAGTTT-AACATTCATTATATTTTTTTATCTTAAAACT
1 TGTTAAAATTTTAAAATTTAAAAAATATAATTTCAACATTTA-T-TATTTTCTTATCTTAAAACA
*
20577367 TGGTATT
64 TGATATT
* * ** *
20577374 TGTTAAAATTCTAAAATTTTAAAAATATAATTTCAATGTCTATTATATTT-TTCATCTTAAAA
1 TGTTAAAATTTTAAAATTTAAAAAATATAATTTCAACATTTATTAT-TTTCTT-ATCTTAAAA
20577436 ACTTGTTAAA
Statistics
Matches: 213, Mismatches: 48, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
69 28 0.13
70 87 0.41
71 70 0.33
72 28 0.13
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (70 bp):
TGTTAAAATTTTAAAATTTAAAAAATATAATTTCAACATTTATTATTTTCTTATCTTAAAACATG
ATATT
Found at i:20577321 original size:141 final size:140
Alignment explanation
Indices: 20577143--20577436 Score: 358
Period size: 141 Copynumber: 2.1 Consensus size: 140
20577133 ACTACATTTC
* * **
20577143 TTATCTTAAAAATGATATTTGTTAAAATTTTATAATTTAAAAAATATAGTTTCAACATTTGTTAT
1 TTATCTTAAAAATGATATTTGTTAAAATTTCAGAATTTAAAAAATATAGTTT-AACATTCATTAT
* *
20577208 -GTTTCTTATCTTAAAAACATAATTTTTGTTTAAATTCTAAAATTTTAAATAAAATCTCAATATC
65 AGTTTCTTATCTT-AAAACATAATATTTGTTAAAATTCTAAAATTTTAAATAAAATCTCAATATC
20577272 TATCACATTTTT
129 TATCACATTTTT
* **
20577284 TTATCTTAAAAGTGATATTTGTTAAAATTTCAGAATTTTGAAAATATAGTTTAACATTCATTATA
1 TTATCTTAAAAATGATATTTGTTAAAATTTCAGAATTTAAAAAATATAGTTTAACATTCATTATA
* * * ** * * *
20577349 TTTTTTTATCTTAAAACTTGGTATTTGTTAAAATTCTAAAATTTTAAAAATATAATTTCAATGTC
66 GTTTCTTATCTTAAAACATAATATTTGTTAAAATTCTAAAATTTT--AAATAAAATCTCAATATC
* *
20577414 TATTATA-TTTT
129 TATCACATTTTT
*
20577425 TCATCTTAAAAA
1 TTATCTTAAAAA
20577437 CTTGTTAAAA
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
140 38 0.29
141 71 0.55
142 20 0.16
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (140 bp):
TTATCTTAAAAATGATATTTGTTAAAATTTCAGAATTTAAAAAATATAGTTTAACATTCATTATA
GTTTCTTATCTTAAAACATAATATTTGTTAAAATTCTAAAATTTTAAATAAAATCTCAATATCTA
TCACATTTTT
Found at i:20577375 original size:71 final size:72
Alignment explanation
Indices: 20577093--20577440 Score: 254
Period size: 71 Copynumber: 4.9 Consensus size: 72
20577083 TCCTTATTAA
* * * ** * * * *
20577093 TGTTAAAATT-TCAAATTTCAAAAATATAATTTCAACATCTACTACA-TTTCTTATCTTAAAA-A
1 TGTTAAAATTCTAAAATTTTAAAAATATAATTTAAATGTCTATTATATTTTTTTATCTTAAAACT
20577155 TGATATT
66 TGATATT
* * * * * * *
20577162 TGTTAAAATTTTATAATTTAAAAAATATAGTTTCAACAT-T-TGTTAT-GTTTCTTATCTTAAAA
1 TGTTAAAATTCTAAAATTTTAAAAATATAATTT-AA-ATGTCTATTATATTTTTTTATCTT-AAA
* * *
20577224 ACATAATTTT
63 ACTTGATATT
* * * * * * * *
20577234 TGTTTAAATTCTAAAATTTT--AAATAAAATCTCAATATCTATCACATTTTTTTATCTTAAAA-G
1 TGTTAAAATTCTAAAATTTTAAAAATATAATTTAAATGTCTATTATATTTTTTTATCTTAAAACT
20577296 TGATATT
66 TGATATT
* * *
20577303 TGTTAAAATT-TCAGAATTTTGAAAATATAGTTTAACAT-TC-ATTATATTTTTTTATCTTAAAA
1 TGTTAAAATTCT-AAAATTTTAAAAATATAATTTAA-ATGTCTATTATATTTTTTTATCTTAAAA
*
20577365 CTTGGTATT
64 CTTGATATT
* *
20577374 TGTTAAAATTCTAAAATTTTAAAAATATAATTTCAATGTCTATTATA-TTTTTCATCTTAAAAAC
1 TGTTAAAATTCTAAAATTTTAAAAATATAATTTAAATGTCTATTATATTTTTTTATCTT-AAAAC
20577438 TTG
65 TTG
20577441 TTAAAATTAT
Statistics
Matches: 219, Mismatches: 42, Indels: 33
0.74 0.14 0.11
Matches are distributed among these distances:
68 3 0.01
69 33 0.15
70 69 0.32
71 74 0.34
72 40 0.18
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (72 bp):
TGTTAAAATTCTAAAATTTTAAAAATATAATTTAAATGTCTATTATATTTTTTTATCTTAAAACT
TGATATT
Found at i:20583592 original size:21 final size:21
Alignment explanation
Indices: 20583550--20583600 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
20583540 GATAGTACTC
* * *
20583550 TTAATTATTATAATAGTGAGA
1 TTAAATATTATAACAGTAAGA
*
20583571 TTAAATATTATAACATTAAGA
1 TTAAATATTATAACAGTAAGA
20583592 TTAAA-ATTA
1 TTAAATATTA
20583601 ATAGTGAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (21 bp):
TTAAATATTATAACAGTAAGA
Found at i:20583814 original size:23 final size:22
Alignment explanation
Indices: 20583788--20583841 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
20583778 ATTTATTATA
20583788 ATATAAAAGATAAT-TGTATTTTT
1 ATATAAAA-ATAATAT-TATTTTT
*
20583811 ATATTAAAATAATAATTATTTTT
1 ATATAAAAATAAT-ATTATTTTT
*
20583834 ATTTAAAA
1 ATATAAAA
20583842 TAAAGTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 20 0.77
24 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
ATATAAAAATAATATTATTTTT
Found at i:20585677 original size:17 final size:17
Alignment explanation
Indices: 20585657--20585689 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20585647 TTGAGCTTCT
20585657 TCTATTGTTTATGTTTC
1 TCTATTGTTTATGTTTC
20585674 TCTATTGTTTATGTTT
1 TCTATTGTTTATGTTT
20585690 GTGCGTACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.67
Consensus pattern (17 bp):
TCTATTGTTTATGTTTC
Found at i:20590405 original size:6 final size:6
Alignment explanation
Indices: 20590394--20590419 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
20590384 AGTTCTATTT
20590394 GGTGGA GGTGGA GGTGGA GGTGGA GG
1 GGTGGA GGTGGA GGTGGA GGTGGA GG
20590420 CGAAGGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (6 bp):
GGTGGA
Found at i:20593536 original size:22 final size:23
Alignment explanation
Indices: 20593495--20593537 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20593485 TAATATTTTA
* *
20593495 AAAATTTTAAAAATTGAATATTG
1 AAAATTTTAAAAAATAAATATTG
20593518 AAAA-TTTAAAAAATAAATAT
1 AAAATTTTAAAAAATAAATAT
20593538 GATTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (23 bp):
AAAATTTTAAAAAATAAATATTG
Found at i:20593659 original size:15 final size:17
Alignment explanation
Indices: 20593629--20593660 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
20593619 GGAAAAATTG
20593629 TAAAGAATTCTTAAAAT
1 TAAAGAATTCTTAAAAT
20593646 TAAA-AATT-TTAAAAT
1 TAAAGAATTCTTAAAAT
20593661 AATTTAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAGAATTCTTAAAAT
Found at i:20594782 original size:22 final size:21
Alignment explanation
Indices: 20594757--20594806 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
20594747 TACTCGTATG
*
20594757 TATTAAAAGAAATTATTTGATA
1 TATTAAAA-AAATTATTTAATA
*
20594779 TATTGATAAAAATTATTTAATA
1 TATT-AAAAAAATTATTTAATA
20594801 TATTAA
1 TATTAA
20594807 CAGTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (21 bp):
TATTAAAAAAATTATTTAATA
Found at i:20594814 original size:24 final size:23
Alignment explanation
Indices: 20594757--20594823 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 23
20594747 TACTCGTATG
* *
20594757 TATTAA-AAGAAATTATTTGATA
1 TATTAACAAAAAATTATTTAATA
* *
20594779 TATTGA-TAAAAATTATTTAATA
1 TATTAACAAAAAATTATTTAATA
20594801 TATTAACAGTAAAAATT-TTTAAT
1 TATTAACA--AAAAATTATTTAAT
20594824 TTTATAAGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 23 0.64
24 6 0.17
25 7 0.19
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (23 bp):
TATTAACAAAAAATTATTTAATA
Found at i:20596027 original size:23 final size:22
Alignment explanation
Indices: 20595983--20596025 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
20595973 ACGAAATATA
20595983 TATTTTTATTAAATTTATAAAT
1 TATTTTTATTAAATTTATAAAT
20596005 TATTTTTATTCAAATTT-TAAA
1 TATTTTTATT-AAATTTATAAA
20596026 ATATATCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTTATTAAATTTATAAAT
Found at i:20597763 original size:3 final size:3
Alignment explanation
Indices: 20597757--20597799 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
20597747 TAATAATAAA
20597757 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
20597800 TTGCCTTGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20598608 original size:3 final size:3
Alignment explanation
Indices: 20598570--20598595 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20598560 GGGTGATGGA
20598570 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
20598596 CACTGGTGAT
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:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:20600774 original size:40 final size:38
Alignment explanation
Indices: 20600696--20600781 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 38
20600686 ATTTTTTTAT
* *
20600696 ATTTTTTTAAAAAATTATATTTTTATCTTAGAAGCATC
1 ATTTTTTTAAAAAATTATATTTTTATCTTAAAAACATC
20600734 ATTTTTTTAAAAAAAATT-TAATTTTTA-CTTTAAAAACATC
1 ATTTTTTT--AAAAAATTAT-ATTTTTATC-TTAAAAACATC
*
20600774 ATATTTTT
1 ATTTTTTT
20600782 GAAATTCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 8 0.20
39 2 0.05
40 31 0.76
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (38 bp):
ATTTTTTTAAAAAATTATATTTTTATCTTAAAAACATC
Found at i:20601226 original size:72 final size:73
Alignment explanation
Indices: 20601072--20601250 Score: 200
Period size: 73 Copynumber: 2.5 Consensus size: 73
20601062 AAATGTCAAC
*** * *
20601072 TTTTCAACAAAAAATATGTTTTTATCTTAAAAACATTATTTTTATTGAATTATAAAAAATATATT
1 TTTTCAACAAAAAATACAATTTTATCTTAAAAACATCATTTTTATCGAATTATAAAAAATATATT
20601137 TTTACATA
66 TTTACATA
* * * * *
20601145 TTTAT-AACAAAAACTACAATTTTGTCTTAAAAATATCATTTTTGTCGAATTTTAAAAAATAT-T
1 TTT-TCAACAAAAAATACAATTTTATCTTAAAAACATCATTTTTATCGAATTATAAAAAATATAT
*
20601208 TTTTTCATA
65 TTTTACATA
* * * *
20601217 TTTTCAACAAAGATTGCATTTTTATCTTAAAAAC
1 TTTTCAACAAAAAATACAATTTTATCTTAAAAAC
20601251 GTCGTCTTTT
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
71 1 0.01
72 35 0.40
73 50 0.57
74 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.45
Consensus pattern (73 bp):
TTTTCAACAAAAAATACAATTTTATCTTAAAAACATCATTTTTATCGAATTATAAAAAATATATT
TTTACATA
Found at i:20602306 original size:13 final size:12
Alignment explanation
Indices: 20602253--20602298 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
20602243 AGGTATTCCC
*
20602253 TTTTCTTTTTTCA
1 TTTTATTTTTT-A
20602266 -TTTATTTTTTA
1 TTTTATTTTTTA
20602277 TTTTGATTTTTTA
1 TTTT-ATTTTTTA
20602290 TTTTATTTT
1 TTTTATTTT
20602299 ATTGTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 1 0.03
12 17 0.57
13 12 0.40
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:20602306 original size:18 final size:18
Alignment explanation
Indices: 20602272--20602351 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
20602262 TTCATTTATT
20602272 TTTTATTTTGATTTTTTA
1 TTTTATTTTGATTTTTTA
20602290 TTTTATTTT-ATTGTTTT-
1 TTTTATTTTGATT-TTTTA
* *
20602307 TATATATATTG-TTTTTATA
1 T-TTTATTTTGATTTTT-TA
*
20602326 TTTATATTTTAATGTTTATTA
1 TTT-TATTTTGAT-TTT-TTA
20602347 TTTTA
1 TTTTA
20602352 AATGGTTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
17 7 0.15
18 23 0.48
19 6 0.12
20 3 0.06
21 8 0.17
22 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTATTTTGATTTTTTA
Found at i:20602335 original size:14 final size:15
Alignment explanation
Indices: 20602268--20602350 Score: 68
Period size: 15 Copynumber: 5.9 Consensus size: 15
20602258 TTTTTTCATT
* *
20602268 TATTTTTTATTTTGA
1 TATTTATTATTTTTA
20602283 T-TTT-TTA-TTTTA
1 TATTTATTATTTTTA
*
20602295 T-TTTATTGTTTTTA
1 TATTTATTATTTTTA
* *
20602309 TATATATTGTTTTTA
1 TATTTATTATTTTTA
*
20602324 TATTTA-TATTTTAA
1 TATTTATTATTTTTA
*
20602338 TGTTTATTATTTT
1 TATTTATTATTTT
20602351 AAATGGTTGA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
12 8 0.14
13 5 0.09
14 20 0.35
15 24 0.42
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (15 bp):
TATTTATTATTTTTA
Found at i:20602466 original size:18 final size:19
Alignment explanation
Indices: 20602434--20602489 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 19
20602424 TTATTTTGGT
20602434 ATAATTTAATATATTTGCATG
1 ATAATTT-ATATA-TTGCATG
*
20602455 ATATTTTATATTAATTGCATG
1 ATAATTTATA-T-ATTGCATG
20602476 ATAATTTATATATT
1 ATAATTTATATATT
20602490 ATATTATTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 3 0.10
20 4 0.13
21 23 0.74
22 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.52
Consensus pattern (19 bp):
ATAATTTATATATTGCATG
Found at i:20602472 original size:21 final size:22
Alignment explanation
Indices: 20602443--20602545 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 22
20602433 TATAATTTAA
20602443 TATATTTGCATGATATTTTATAT
1 TATA-TTGCATGATATTTTATAT
20602466 TA-ATTGCATGATAATTTATATATT
1 TATATTGCATGAT-ATTT-TATA-T
* ** *
20602490 ATATTATTGCAAGATAACTTATGT
1 -TA-TATTGCATGATATTTTATAT
*
20602514 T-TATTGCATGATATATTATAT
1 TATATTGCATGATATTTTATAT
20602535 TATTATTGCAT
1 TA-TATTGCAT
20602546 AGTATTATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
21 26 0.41
22 5 0.08
23 15 0.23
24 2 0.03
25 5 0.08
26 2 0.03
27 9 0.14
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (22 bp):
TATATTGCATGATATTTTATAT
Found at i:20602506 original size:27 final size:28
Alignment explanation
Indices: 20602455--20602511 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
20602445 TATTTGCATG
* * *
20602455 ATATTTTATATTAATTGCATGATAATTT
1 ATATATTATATTAATTGCAAGATAACTT
20602483 ATATATTATATT-ATTGCAAGATAACTT
1 ATATATTATATTAATTGCAAGATAACTT
20602510 AT
1 AT
20602512 GTTTATTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (28 bp):
ATATATTATATTAATTGCAAGATAACTT
Found at i:20603882 original size:15 final size:15
Alignment explanation
Indices: 20603862--20603895 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
20603852 ATGGTTTTTT
20603862 TTATAAATTTATAGG
1 TTATAAATTTATAGG
*
20603877 TTATAAATTTATGGG
1 TTATAAATTTATAGG
20603892 TTAT
1 TTAT
20603896 TTTTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (15 bp):
TTATAAATTTATAGG
Found at i:20608113 original size:45 final size:45
Alignment explanation
Indices: 20608051--20608139 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
20608041 ATCTAAGAAG
*
20608051 GAATATATGAGATGGTAGAGTATTGAGAAATACCATAATTAAAAA
1 GAATATATGAGATGGTAGAGTATTGAGAAATACCACAATTAAAAA
20608096 GAATATATGAGATGGTAGAGTATTGAGAAATACCACAATTAAAA
1 GAATATATGAGATGGTAGAGTATTGAGAAATACCACAATTAAAA
20608140 TTTCATGTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.26
Consensus pattern (45 bp):
GAATATATGAGATGGTAGAGTATTGAGAAATACCACAATTAAAAA
Found at i:20608656 original size:22 final size:22
Alignment explanation
Indices: 20608630--20608757 Score: 85
Period size: 22 Copynumber: 5.6 Consensus size: 22
20608620 ATCTCTAATT
20608630 TTTTAAATGTGAATTTTTGAAA
1 TTTTAAATGTGAATTTTTGAAA
* * * * *
20608652 CTTTAGATGTGAATCTCTAAAA
1 TTTTAAATGTGAATTTTTGAAA
* *
20608674 CTTTTTAAATATGAGTTTTTGAAA
1 --TTTTAAATGTGAATTTTTGAAA
* * ** *
20608698 TTTTAGATGGGAATTCCTAAAA
1 TTTTAAATGTGAATTTTTGAAA
*
20608720 TTTTTCAAATGTGAATCTTTGAAA
1 -TTTT-AAATGTGAATTTTTGAAA
**
20608744 TTTTGGATGTGAAT
1 TTTTAAATGTGAAT
20608758 CCCTAAGTTT
Statistics
Matches: 75, Mismatches: 27, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
22 40 0.53
23 8 0.11
24 27 0.36
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.45
Consensus pattern (22 bp):
TTTTAAATGTGAATTTTTGAAA
Found at i:20608770 original size:46 final size:46
Alignment explanation
Indices: 20608501--20608834 Score: 226
Period size: 46 Copynumber: 7.3 Consensus size: 46
20608491 TTTTCGAATG
* * * *
20608501 AGAATCTTTGAAATTTTGGATGCGAAACCCTAAAATTTTTTTTGAACA
1 AGAATCTTTGAAATTTTGGATGTGAATCCCTAAAA--TTTTTTAAATA
* ** * * * *
20608549 AGAATCTTTAAAATTTTTAATGTGAAGCCATAAAGTTTTTTAAAAA
1 AGAATCTTTGAAATTTTGGATGTGAATCCCTAAAATTTTTTAAATA
* * * *
20608595 AGAATCTTTGAAACTTTGGATGTCAATCTCT--AATTTTTTAAATG
1 AGAATCTTTGAAATTTTGGATGTGAATCCCTAAAATTTTTTAAATA
* * * * * *
20608639 TGAATTTTTGAAACTTTAGATGTGAATCTCTAAAACTTTTTAAATA
1 AGAATCTTTGAAATTTTGGATGTGAATCCCTAAAATTTTTTAAATA
* * * * * * * *
20608685 TGAGTTTTTGAAATTTTAGATGGGAATTCCTAAAATTTTTCAAATG
1 AGAATCTTTGAAATTTTGGATGTGAATCCCTAAAATTTTTTAAATA
* ** *
20608731 TGAATCTTTGAAATTTTGGATGTGAATCCCTAAGTTTTTTTTCATATA
1 AGAATCTTTGAAATTTTGGATGTGAATCCCTAA-AATTTTTT-AAATA
* ** * ** * * *
20608779 AAAATCTTT-AGCTCTTATATGTGAATCTCTAAAA-TTTTCAAATG
1 AGAATCTTTGAAATTTTGGATGTGAATCCCTAAAATTTTTTAAATA
20608823 AGAATCTTTGAA
1 AGAATCTTTGAA
20608835 TTATGGTAGT
Statistics
Matches: 222, Mismatches: 59, Indels: 13
0.76 0.20 0.04
Matches are distributed among these distances:
44 48 0.22
45 5 0.02
46 109 0.49
47 22 0.10
48 38 0.17
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (46 bp):
AGAATCTTTGAAATTTTGGATGTGAATCCCTAAAATTTTTTAAATA
Found at i:20609067 original size:16 final size:16
Alignment explanation
Indices: 20609027--20609067 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
20609017 ACGAATCTGA
*
20609027 AATTTTTGCAAATATT
1 AATTTTTGCAAATATG
*
20609043 AATTCTTGCAAATATG
1 AATTTTTGCAAATATG
*
20609059 AGTTTTTGC
1 AATTTTTGC
20609068 GAATCTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (16 bp):
AATTTTTGCAAATATG
Found at i:20609116 original size:18 final size:18
Alignment explanation
Indices: 20609093--20609150 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
20609083 TGAATATTCC
20609093 ATTCTTAT-AAATCTAAAA
1 ATTCTTATAAAATCT-AAA
* *
20609111 ATTCTTGTAAAAT-TGAA
1 ATTCTTATAAAATCTAAA
*
20609128 ATTCTTATGAAA-CTAAA
1 ATTCTTATAAAATCTAAA
20609145 ATTCTT
1 ATTCTT
20609151 GCGAATCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 21 0.64
18 8 0.24
19 4 0.12
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTCTTATAAAATCTAAA
Found at i:20609257 original size:17 final size:17
Alignment explanation
Indices: 20609237--20609275 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
20609227 GAAATCCTTT
20609237 TGAAAATGAAACTTTTA
1 TGAAAATGAAACTTTTA
**
20609254 TGAATTTGAAACTTTTA
1 TGAAAATGAAACTTTTA
*
20609271 CGAAA
1 TGAAA
20609276 CTTGAAATCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (17 bp):
TGAAAATGAAACTTTTA
Found at i:20609282 original size:18 final size:17
Alignment explanation
Indices: 20609243--20609282 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
20609233 CTTTTGAAAA
* *
20609243 TGAAACTTTTATGAATT
1 TGAAACTTTTACGAACT
20609260 TGAAACTTTTACGAAACT
1 TGAAACTTTTACG-AACT
20609278 TGAAA
1 TGAAA
20609283 TCTTGCGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (17 bp):
TGAAACTTTTACGAACT
Found at i:20609310 original size:34 final size:35
Alignment explanation
Indices: 20609262--20609351 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 35
20609252 TATGAATTTG
* *
20609262 AAACTTTTACGAAACTTGAAATCTTGCGAATCT-A
1 AAACCTTTGCGAAACTTGAAATCTTGCGAATCTAA
* * * *
20609296 AGACCTTTGTGAAACTTGGAATCTTGTGAATCTAA
1 AAACCTTTGCGAAACTTGAAATCTTGCGAATCTAA
*
20609331 AAACCTTTGCGAATCTTGAAA
1 AAACCTTTGCGAAACTTGAAA
20609352 CTTTGCAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 27 0.60
35 18 0.40
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (35 bp):
AAACCTTTGCGAAACTTGAAATCTTGCGAATCTAA
Found at i:20611029 original size:29 final size:30
Alignment explanation
Indices: 20610987--20611044 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
20610977 ATGGTATTTT
* *
20610987 TATTAATTGCATGATAATTTATATATATTA
1 TATTAATTACATGATAACTTATATATATTA
*
20611017 TATT-ATTACATGATAACTTATATTTATT
1 TATTAATTACATGATAACTTATATATATT
20611045 GTATGATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (30 bp):
TATTAATTACATGATAACTTATATATATTA
Found at i:20613151 original size:16 final size:15
Alignment explanation
Indices: 20613107--20613154 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
20613097 TTTCTTATAA
*
20613107 TAATTTAATATGTAGT
1 TAATTT-ATATGTAAT
20613123 TAAGTTT-TATGTAAT
1 TAA-TTTATATGTAAT
20613138 TAATTTACTATGTAAT
1 TAATTTA-TATGTAAT
20613154 T
1 T
20613155 TAATAAAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.11
15 10 0.36
16 12 0.43
17 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.52
Consensus pattern (15 bp):
TAATTTATATGTAAT
Found at i:20613337 original size:128 final size:128
Alignment explanation
Indices: 20613107--20613698 Score: 532
Period size: 128 Copynumber: 4.7 Consensus size: 128
20613097 TTTCTTATAA
* * * * * *
20613107 TAATTTAATATGTAGTTAAGTTTTATGTAAT-T---AATTTACTATGTAATTTAATAAAGG-CAT
1 TAATTTAATATGTAGTTAA-TTTTATATTATGTCAAAATTTAATAAGTAATTTAAT-AGGGATAT
* * * * **
20613167 TATAATAATTTTC--ATAAAATACCACATGTCAAATTTCCATGAAATAATGGCAAGGGTATTTTA
64 TATAGTAATTTTCAAATAAAATGCCACATGTCAAATTTCTATGAAACAAT-GCAAGAATATTTTA
*
20613230 A
128 G
* * *
20613231 TAATTTAATAAGTAGTTAATTTTAT-TTCATGTCAAAATTTAATAAGCAATTTAATAGGGGTATT
1 TAATTTAATATGTAGTTAATTTTATATT-ATGTCAAAATTTAATAAGTAATTTAATAGGGATATT
*
20613295 ATAGTAAATTTT-AAA-CAAATGCCACATGTCAAATTTCTATGAAACAATGCAATGAA-ATTTTA
65 ATAGT-AATTTTCAAATAAAATGCCACATGTCAAATTTCTATGAAACAATGCAA-GAATATTTTA
20613357 G
128 G
** ** * * * * *
20613358 TAATTTAATATGTAAATAATTTTATATTACATTAAAATTTAACATGTAATTTACTATGGATGA-T
1 TAATTTAATATGTAGTTAATTTTATATTATGTCAAAATTTAATAAGTAATTTAATAGGGAT-ATT
* * ** ** * * *
20613422 ATAATAATTTTCAAATAAAATGTCACACATCTTATTTCTATCAAACAATGCAACAATATTTTGG
65 ATAGTAATTTTCAAATAAAATGCCACATGTCAAATTTCTATGAAACAATGCAAGAATATTTTAG
* * *
20613486 TAATCTAATATGTAGTTAATTTTATATTATGTTCAAAATTT-TTATGTAATTTAATAGGGATATT
1 TAATTTAATATGTAGTTAATTTTATATTATG-TCAAAATTTAATAAGTAATTTAATAGGGATATT
* * * * *
20613550 GTAGTAATTTTCAAATAAAATGTCACATGTCAAATTTTTATGAAACAATGGTAAGAGTATTTTAG
65 ATAGTAATTTTCAAATAAAATGCCACATGTCAAATTTCTATGAAACAAT-GCAAGAATATTTTAG
* * * * *
20613615 TAATTT-A-ATGTGGTTAGTTTTATATTATGTTAAAATTTAATACA-TAATTTAATAAGGATATC
1 TAATTTAATATGTAGTTAATTTTATATTATGTCAAAATTTAATA-AGTAATTTAATAGGGATATT
* *
20613677 ATAGTATTTTTTAAATAAAATG
65 ATAGTAATTTTCAAATAAAATG
20613699 TCATATGACA
Statistics
Matches: 378, Mismatches: 70, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
122 1 0.00
123 8 0.02
124 19 0.05
126 17 0.04
127 148 0.39
128 160 0.42
129 25 0.07
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (128 bp):
TAATTTAATATGTAGTTAATTTTATATTATGTCAAAATTTAATAAGTAATTTAATAGGGATATTA
TAGTAATTTTCAAATAAAATGCCACATGTCAAATTTCTATGAAACAATGCAAGAATATTTTAG
Found at i:20613650 original size:255 final size:253
Alignment explanation
Indices: 20613231--20613701 Score: 594
Period size: 255 Copynumber: 1.8 Consensus size: 253
20613221 GGTATTTTAA
* *
20613231 TAATTTAATAAGTAGTTAATTTTATTTCATGTCAAAATTTAATAAGCAATTTAATAGGGGTATTA
1 TAATCTAATAAGTAGTTAATTTTATTTCATGTCAAAATTTAATAAGCAATTTAATAGGGATATTA
*
20613296 TAGTAAATTTTAAACAAATGCCACATGTCAAATTTCTATGAAACAATGCAATGAAATTTTAGTAA
66 TAGTAAATTTTAAAAAAATGCCACATGTCAAATTTCTATGAAACAATGCAATGAAATTTTAGTAA
** * *
20613361 TTTAATATGTAAATAATTTTATATTACATTAAAATTTAACATGTAATTTACTATGGATGAT-ATA
131 TTTAATATGT--ATAATTTTATATTACATTAAAATTTAACACATAATTTAATAAGGAT-ATCATA
20613425 ATAATTTTCAAATAAAATGTCACACATCTTATTTCTATCAAACAATGCAACAATATTTTGG
193 ATAATTTTCAAATAAAATGTCACACATCTTATTTCTATCAAACAATGCAACAATATTTTGG
* * * *
20613486 TAATCTAATATGTAGTTAATTTTATATT-ATGTTCAAAATTT-TTATGTAATTTAATAGGGATAT
1 TAATCTAATAAGTAGTTAATTTTAT-TTCATG-TCAAAATTTAATAAGCAATTTAATAGGGATAT
* * * * *
20613549 TGTAGT-AATTTTCAAATAAAATGTCACATGTCAAATTTTTATGAAACAATGGTAA-GAGTATTT
64 TATAGTAAATTTT-AAA-AAAATGCCACATGTCAAATTTCTATGAAACAAT-GCAATGA-AATTT
* * ** *
20613612 TAGTAATTTAATGTGGT-TAGTTTTATATTATGTTAAAATTTAATACATAATTTAATAAGGATAT
125 TAGTAATTTAATAT-GTATAATTTTATATTACATTAAAATTTAACACATAATTTAATAAGGATAT
* * *
20613676 CATAGTATTTTTTAAATAAAATGTCA
189 CATAATAATTTTCAAATAAAATGTCA
20613702 TATGACAACT
Statistics
Matches: 184, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
254 8 0.04
255 111 0.60
256 43 0.23
257 20 0.11
258 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.42
Consensus pattern (253 bp):
TAATCTAATAAGTAGTTAATTTTATTTCATGTCAAAATTTAATAAGCAATTTAATAGGGATATTA
TAGTAAATTTTAAAAAAATGCCACATGTCAAATTTCTATGAAACAATGCAATGAAATTTTAGTAA
TTTAATATGTATAATTTTATATTACATTAAAATTTAACACATAATTTAATAAGGATATCATAATA
ATTTTCAAATAAAATGTCACACATCTTATTTCTATCAAACAATGCAACAATATTTTGG
Found at i:20613896 original size:61 final size:62
Alignment explanation
Indices: 20613816--20614012 Score: 215
Period size: 61 Copynumber: 3.2 Consensus size: 62
20613806 TAAGGTGGGC
* * * * *
20613816 ATTATAGTAATTTTAATCAATTATGGTATGATGGA-TATTTCCATAATTATGATAAGAGAGGT
1 ATTATAATAA-TTTGATCAATTATGGTAAGATAGAGTATTTCCATAATTATGATAAGAAAGGT
* * * * *
20613878 ATTATAATGATTTGATCAATTATGATAAGA-AGAGTATTTTCATAATTATGA-GAGAAAAGT
1 ATTATAATAATTTGATCAATTATGGTAAGATAGAGTATTTCCATAATTATGATAAGAAAGGT
* * *
20613938 ATTATAATAATTTTGATCAATTATAAG-AAGATAAAGTATTTCCTTAATTATGATAA-AAAGGT
1 ATTATAATAA-TTTGATCAATTAT-GGTAAGATAGAGTATTTCCATAATTATGATAAGAAAGGT
20614000 ATTATAATAATTT
1 ATTATAATAATTT
20614013 TGGAGGGTGT
Statistics
Matches: 112, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
60 17 0.15
61 53 0.47
62 41 0.37
63 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (62 bp):
ATTATAATAATTTGATCAATTATGGTAAGATAGAGTATTTCCATAATTATGATAAGAAAGGT
Found at i:20613939 original size:25 final size:26
Alignment explanation
Indices: 20613895--20613954 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
20613885 TGATTTGATC
* * *
20613895 AATTATGATAAGAAGAGTATTTTCAT
1 AATTATGATAAGAAAAGTATTATAAT
*
20613921 AATTATGA-GAGAAAAGTATTATAAT
1 AATTATGATAAGAAAAGTATTATAAT
*
20613946 AATTTTGAT
1 AATTATGAT
20613955 CAATTATAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (26 bp):
AATTATGATAAGAAAAGTATTATAAT
Found at i:20613989 original size:62 final size:61
Alignment explanation
Indices: 20613851--20614014 Score: 197
Period size: 62 Copynumber: 2.7 Consensus size: 61
20613841 GTATGATGGA
* * * * * *
20613851 TATTTCCATAATTATGATAAGAGAGGTATTATAATGA-TTTGATCAATTATGATAAGAAGAG
1 TATTTCCATAATTATGA-AAGAAAAGTATTATAATAATTTTGATCAATTATAAGAAGAAAAG
* *
20613912 TATTTTCATAATTATGAGAGAAAAGTATTATAATAATTTTGATCAATTATAAGAAGATAAAG
1 TATTTCCATAATTATGAAAGAAAAGTATTATAATAATTTTGATCAATTATAAGAAGA-AAAG
* *
20613974 TATTTCCTTAATTATGATAA-AAAGGTATTATAATAATTTTG
1 TATTTCCATAATTATGA-AAGAAAAGTATTATAATAATTTTG
20614015 GAGGGTGTCA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
60 15 0.17
61 34 0.39
62 38 0.43
63 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (61 bp):
TATTTCCATAATTATGAAAGAAAAGTATTATAATAATTTTGATCAATTATAAGAAGAAAAG
Found at i:20614690 original size:3 final size:3
Alignment explanation
Indices: 20614675--20614732 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
20614665 ATATCTTTTG
*
20614675 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
20614723 ATA AAA ATA A
1 ATA ATA ATA A
20614733 ACAACCATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:20616140 original size:27 final size:26
Alignment explanation
Indices: 20616099--20616150 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
20616089 TTTTTATTTT
*
20616099 ATAAAAATTTAAATAT-ATATTAATTA
1 ATAAAAATATAAATATAAT-TTAATTA
20616125 ATAAAAATATATAATATAATTTAATT
1 ATAAAAATATA-AATATAATTTAATT
20616151 CAATTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 11 0.48
28 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAAAAATATAAATATAATTTAATTA
Found at i:20617303 original size:32 final size:33
Alignment explanation
Indices: 20617232--20617303 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 33
20617222 ATAAATCCCA
* * *
20617232 ATAAAATTTTATTTCAAAATTAGAAATGTAATG
1 ATAAAATTTGATTTCAAAATTAAAAATATAATG
*
20617265 AT-AAATTTGGTTT-AAAATTAAAAATATAATG
1 ATAAAATTTGATTTCAAAATTAAAAATATAATG
20617296 ATAAAATT
1 ATAAAATT
20617304 ACATTAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.53
32 14 0.41
33 2 0.06
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.39
Consensus pattern (33 bp):
ATAAAATTTGATTTCAAAATTAAAAATATAATG
Found at i:20617962 original size:30 final size:30
Alignment explanation
Indices: 20617905--20617964 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20617895 CAGTTTAATC
* ***
20617905 TTTAAATATTTATTTTTATTTTGTTAAATT
1 TTTAAATATTCATTTTTATTCAATTAAATT
20617935 TTTAAATATTCATTTTTATTCAATTAAATT
1 TTTAAATATTCATTTTTATTCAATTAAATT
20617965 ATTGATTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTAAATATTCATTTTTATTCAATTAAATT
Found at i:20619815 original size:20 final size:20
Alignment explanation
Indices: 20619778--20619815 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20619768 TTTATCAATA
*
20619778 AATTATAAAAACATAAACCT
1 AATTATAAAAACACAAACCT
20619798 AATTATAAACAA-ACAAAC
1 AATTATAAA-AACACAAAC
20619816 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (20 bp):
AATTATAAAAACACAAACCT
Found at i:20622116 original size:21 final size:17
Alignment explanation
Indices: 20622076--20622120 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 17
20622066 TAGGTAAGGT
20622076 CTTAAAAAATATTTTTA
1 CTTAAAAAATATTTTTA
20622093 CTTAAAAATATTATTTTTTAA
1 CTTAAAAA-A-TA-TTTTT-A
20622114 CTTAAAA
1 CTTAAAA
20622121 CAATTCTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.33
18 1 0.04
19 2 0.08
20 5 0.21
21 8 0.33
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
CTTAAAAAATATTTTTA
Found at i:20622719 original size:33 final size:34
Alignment explanation
Indices: 20622648--20622742 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 34
20622638 AGAAACACTA
* * * *
20622648 CTAATTTAATGGCATTTGTGTCAAAAAAATGCCT
1 CTAATTTAGTGACATTTGTATCAAAAAAATGCCG
*
20622682 CTAATTTAGTGACATTTGTAT-AAAAAAATGTCG
1 CTAATTTAGTGACATTTGTATCAAAAAAATGCCG
* * * *
20622715 CTAATTTAGTAATATTTTTATCATAAAA
1 CTAATTTAGTGACATTTGTATCAAAAAA
20622743 CGTCGCTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 28 0.55
34 23 0.45
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (34 bp):
CTAATTTAGTGACATTTGTATCAAAAAAATGCCG
Found at i:20622748 original size:33 final size:33
Alignment explanation
Indices: 20622682--20622768 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
20622672 AAAAATGCCT
* *
20622682 CTAATTTAGTGACATTTGTATAAAAAAATGTCG
1 CTAATTTAGTAACATTTGTATAAAAAAACGTCG
* * * *
20622715 CTAATTTAGTAATATTTTTATCATAAAACGTCG
1 CTAATTTAGTAACATTTGTATAAAAAAACGTCG
* *
20622748 CTTTATTTAGCAACATTTGTA
1 C-TAATTTAGTAACATTTGTA
20622769 AAGACAATCA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
33 28 0.65
34 15 0.35
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (33 bp):
CTAATTTAGTAACATTTGTATAAAAAAACGTCG
Found at i:20622952 original size:27 final size:27
Alignment explanation
Indices: 20622913--20622964 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
20622903 TTTTTAATTT
*
20622913 AAATGTCGCGAAATTAATAAATTTAAC
1 AAATGTCGCGAAATTAAGAAATTTAAC
20622940 AAATGTCAG-GAAATTAAGAAATTTA
1 AAATGTC-GCGAAATTAAGAAATTTA
20622965 CTTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (27 bp):
AAATGTCGCGAAATTAAGAAATTTAAC
Found at i:20624385 original size:161 final size:161
Alignment explanation
Indices: 20624189--20625250 Score: 1106
Period size: 161 Copynumber: 6.6 Consensus size: 161
20624179 CATTTTGGCC
* ** *
20624189 TTTCACACATATCAA-TCATGAAAATGAAATTCAATCATTTGGACAAGTTTAATATCATGTATTG
1 TTTCATACATATCAACT-ATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTG
* * *
20624253 AAGCTATCCAAACTGTTTAAATAGAATAATAACAGCAACTTTGTATTTTTGCCTTTTAACGACAA
65 AAGCTATCCAAACTGTTAAAATAGAACAATAACAGCAAATTTGTATTTTTGCCTTTTAACGACAA
*
20624318 AAAAAGTCCTAAATAGA-GATAAA-GAACAACTT
130 AAAAAGTCCTAAATAGATG-TAAACG-ATAACTT
* * * * * *** *
20624350 TTTCACATATATCAATTGTGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATTGA
1 TTTCATACATATCAACTATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGA
* * * ** * **
20624415 AGTTATCCAAACTGTTAAAACAGAACAATAACAACAAATTTGTATTTTTATCTTTTAATGACCTG
66 AGCTATCCAAACTGTTAAAATAGAACAATAACAGCAAATTTGTATTTTTGCCTTTTAACGA-CAA
* * * * *
20624480 AAAAA-TCCTAAACAAAGGTAAA-TAGCAACTT
130 AAAAAGTCCTAAATAGATGTAAACGA-TAACTT
* * *** *
20624511 TTTCATATATATCAACTATGGAAACCAAGTTCAATCATTCCAAAAAGTTTAATATCATGTATTGA
1 TTTCATACATATCAACTATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGA
* * * * *
20624576 AGCCATCCAAA-TGGTTAAAATAGAATAATAATAGCAAATTTGTATTTTTGCCTTTTAAAAGGCA
66 AGCTATCCAAACT-GTTAAAATAGAACAATAACAGCAAATTTGTATTTTTGCCTTTT-AACGACA
*
20624640 AAAATAGTCCTAAATAGATGTAAACGATAACTT
129 AAAAAAGTCCTAAATAGATGTAAACGATAACTT
*
20624673 TTTCATACATATCAACCGT-TG-AAACCAAGTTCAATCATTTTGACAAGTTTAATATCATGTATT
1 TTTCATACATATCAA-C-TATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATT
* * ** ** *
20624736 GATA-CTATCCAAACTGTTAAAATAGAATAATAATATTAAATTTCCATTTTAT--CTTTTAACAA
64 GA-AGCTATCCAAACTGTTAAAATAGAACAATAACAGCAAATTTGTATTTT-TGCCTTTTAACGA
* * * *
20624798 CAAAAAAAGTCCTACATAGACGTAAACGTTAGCTT
127 CAAAAAAAGTCCTAAATAGATGTAAACGATAACTT
* * *
20624833 TTTCATACATATCAACTATGAAAATCAAGTTCAATTATTCT-GACAAGTTTAATATCATGTATTA
1 TTTCATACATATCAACTATGAAAACCAAGTTCAATCATT-TGGACAAGTTTAATATCATGTATTG
* * * * * * * *
20624897 AAGCTATGCAAATTGTTAAGATAGAACAATGACAACAAATTTGCATGTTTGCCTCTTAAC-AGCA
65 AAGCTATCCAAACTGTTAAAATAGAACAATAACAGCAAATTTGTATTTTTGCCTTTTAACGA-CA
* * *
20624961 CAAAAAGTCTTAAACAGATGTAAACGATAACTT
129 AAAAAAGTCCTAAATAGATGTAAACGATAACTT
* * * *
20624994 TTTCACACATATCAACTGTGGAAACCAAGTTCAATCATTCGGACAAGTTTAATATCATGTATTGA
1 TTTCATACATATCAACTATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGA
* * * *
20625059 AGCTATCCAAACTGTTAAAATAGAACAATAACAGCAAATTTGTATTTTTACCTATTAACGGCATA
66 AGCTATCCAAACTGTTAAAATAGAACAATAACAGCAAATTTGTATTTTTGCCTTTTAACGACAAA
* ** **
20625124 AAAAGTCCTAAATATACATAAATAATAACTT
131 AAAAGTCCTAAATAGATGTAAACGATAACTT
* * * * * *
20625155 TTTCATACATATCACCCATGAAAACTAAGTTCAATAATTTGGATAACTTTAATATCATGTATTGA
1 TTTCATACATATCAACTATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGA
* * *
20625220 AACTATCAAAACTATTAAAATAGAACAATAA
66 AGCTATCCAAACTGTTAAAATAGAACAATAA
20625251 TTGTAATTTG
Statistics
Matches: 756, Mismatches: 123, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
158 1 0.00
159 5 0.01
160 125 0.17
161 494 0.65
162 123 0.16
163 7 0.01
164 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (161 bp):
TTTCATACATATCAACTATGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGA
AGCTATCCAAACTGTTAAAATAGAACAATAACAGCAAATTTGTATTTTTGCCTTTTAACGACAAA
AAAAGTCCTAAATAGATGTAAACGATAACTT
Found at i:20625348 original size:161 final size:161
Alignment explanation
Indices: 20624192--20625370 Score: 643
Period size: 161 Copynumber: 7.3 Consensus size: 161
20624182 TTTGGCCTTT
* ** * * * *
20624192 CACACATATCAATC-ATGAAAATGAAATTCAATCATTTGGACAAGTTTAATATCATGTATTGAAG
1 CACACATATCAA-CAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATTGAAA
* * * * * * * * * *
20624256 CTATCCAAACTGTTTAAATAGAATAATAACAGCAACTTTGTATTTTTGCCTTTTAACGACAAAAA
65 CTATCAAAACTATTAAAATAGAACAATAACAGCAAATTTGCATTTTTACCTATTAACGGCACAAA
* * * * ***
20624321 AAGTCCTAAATAGAGATAAAGAACAACTTTTT
130 AAGTCCTAAAAAGACATAAATAACAAATTCGA
* *** * * ** * **
20624353 CACATATATCAATTGTGAAAATCAAGTTCAATCATTCAAAAAAGTTTAATATCATGTATTGAAGT
1 CACACATATCAACAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATTGAAAC
* * * * * * * * *
20624418 TATCCAAACTGTTAAAACAGAACAATAACAACAAATTTGTATTTTTATCTTTTAATGAC-CTGAA
66 TATCAAAACTATTAAAATAGAACAATAACAGCAAATTTGCATTTTTACCTATTAACGGCAC--AA
** * * ***
20624482 AAA-TCCTAAACAA-AGGTAAATAGCAACTTTTT
129 AAAGTCCTAAA-AAGACATAAATAACAAATTCGA
* * * ** * *
20624514 CATATATATCAACTATGGAAACCAAGTTCAATCATTCCAAAAAGTTTAATATCATGTATTGAAGC
1 CACACATATCAACAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATTGAAAC
* * * * * * * * *
20624579 CATCCAAA-TGGTTAAAATAGAATAATAATAGCAAATTTGTATTTTTGCCTTTTAAAAGGCA-AA
66 TATCAAAACT-ATTAAAATAGAACAATAACAGCAAATTTGCATTTTTACCTATT-AACGGCACAA
* ** ** * * ***
20624642 AATAGTCCTAAATAGATGTAAACGATAACTTTTT
129 AA-AGTCCTAAAAAGACATAAATAACAAATTCGA
* ** * ** * *
20624676 CATACATATCAACCGTTGAAACCAAGTTCAATCATTTTGACAAGTTTAATATCATGTATTGATAC
1 CACACATATCAACAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATTGAAAC
* * * * ** * * * ** *
20624741 TATCCAAACTGTTAAAATAGAATAATAATATTAAATTTCCA-TTTTATCTTTTAACAACAAAAAA
66 TATCAAAACTATTAAAATAGAACAATAACAGCAAATTTGCATTTTTACCTATTAACGGCACAAAA
* * * **** ** ***
20624805 AGTCCTACATAGACGTAAACGTTAGCTTTTT
131 AGTCCTAAAAAGACATAAATAACAAATTCGA
* * * * * * *
20624836 CATACATATCAACTATGAAAATCAAGTTCAATTATTCTGACAAGTTTAATATCATGTATT-AAAG
1 CACACATATCAACAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATTGAAA-
* * * * * * * * *
20624900 CTATGC-AAATTGTTAAGATAGAACAATGACAACAAATTTGCATGTTTGCCTCTTAACAGCACAA
65 CTAT-CAAAACTATTAAAATAGAACAATAACAGCAAATTTGCATTTTTACCTATTAACGGCACAA
* * ** ** * * ***
20624964 AAAGTCTTAAACAGATGTAAACGATAACTTTTT
129 AAAGTCCTAAAAAGACATAAATAACAAATTCGA
** * *
20624997 CACACATATCAACTGTGGAAACCAAGTTCAATCATTCGGACAAGTTTAATATCATGTATTGAAGC
1 CACACATATCAACAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATTGAAAC
* * * *
20625062 TATCCAAACTGTTAAAATAGAACAATAACAGCAAATTTGTATTTTTACCTATTAACGGCATAAAA
66 TATCAAAACTATTAAAATAGAACAATAACAGCAAATTTGCATTTTTACCTATTAACGGCACAAAA
* * * * ***
20625127 AGTCCTAAATATACATAAATAATAACTTTTT
131 AGTCCTAAAAAGACATAAATAACAAATTCGA
* * * * * * * *
20625158 CATACATATCACCCATGAAAACTAAGTTCAATAATTTGGATAACTTTAATATCATGTATTGAAAC
1 CACACATATCAACAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATTGAAAC
** * *
20625223 TATCAAAACTATTAAAATAGAACAATAATTG-TAATTTGCATTTTTACCT-TGTAATGGCACAAA
66 TATCAAAACTATTAAAATAGAACAATAACAGCAAATTTGCATTTTTACCTAT-TAACGGCACAAA
** **
20625286 AAGTTGTAAAAAGACATAAATTGCAAATTACGA
130 AAGTCCTAAAAAGACATAAATAACAAATT-CGA
* * * *
20625319 CACATATATCAATAATGGAAACGAAGTTCAATCATTCGAATAAGTTTAATAT
1 CACACATATCAACAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATAT
20625371 TATAAACTTA
Statistics
Matches: 837, Mismatches: 162, Indels: 38
0.81 0.16 0.04
Matches are distributed among these distances:
159 3 0.00
160 169 0.20
161 542 0.65
162 122 0.15
163 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (161 bp):
CACACATATCAACAATGGAAACCAAGTTCAATCATTCGGATAAGTTTAATATCATGTATTGAAAC
TATCAAAACTATTAAAATAGAACAATAACAGCAAATTTGCATTTTTACCTATTAACGGCACAAAA
AGTCCTAAAAAGACATAAATAACAAATTCGA
Found at i:20625348 original size:322 final size:320
Alignment explanation
Indices: 20624189--20625370 Score: 1175
Period size: 322 Copynumber: 3.7 Consensus size: 320
20624179 CATTTTGGCC
* * * *
20624189 TTTCACACATATCAATCATGAAAATGAAATTCAATCATTTGGACAAGTTTAATATCATGTATTGA
1 TTTCATACATATCAACCATGAAAATCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGA
* * * * * * * *
20624254 AGCTATCCAAACTGTTTAAATAGAATAATAACAGCAACTTTGTATTTTTGCCTTTTAACGACAAA
66 AACTATCCAAACTGTTAAAATAGAACAATAATAG-AAATTTGCATTTTTGCCTTTTAACGGCACA
* * * * *
20624319 AAAAGTCCTAAATAGAGATAAA-GAACAACTTTTTCACATATATCAATTGTGAAAATCAAGTTCA
130 AAAAGTCCTAAATAGATATAAACG-ATAACTTTTTCACACATATCAA-TGTGGAAACCAAGTTCA
* * * *
20624383 ATCATTCAAAAAAGTTTAATATCATGTATTGAAGTTATCCAAACTGTTAAAACAGAACAATAACA
193 ATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAACA
* * * * **
20624448 ACAAATTTGTATTTTTATCTTTTAATGACCTGAAAAA-TCCTAAACAAAGGTAAATAGCAACTT
258 ACAAATTTGTATTTTTATCTTTTAACGACAT-AAAAAGTCCTAAATAAACGTAAATAATAACTT
* * * * *** *
20624511 TTTCATATATATCAACTATGGAAACCAAGTTCAATCATTCCAAAAAGTTTAATATCATGTATTGA
1 TTTCATACATATCAACCATGAAAATCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGA
* * * * *
20624576 AGCCATCCAAA-TGGTTAAAATAGAATAATAATAGCAAATTTGTATTTTTGCCTTTTAAAAGGCA
66 AACTATCCAAACT-GTTAAAATAGAACAATAATAG-AAATTTGCATTTTTGCCTTTT-AACGGCA
* * * *
20624640 -AAAATAGTCCTAAATAGATGTAAACGATAACTTTTTCATACATATCAACCGTTGAAACCAAGTT
128 CAAAA-AGTCCTAAATAGATATAAACGATAACTTTTTCACACATATCAA-TGTGGAAACCAAGTT
* *
20624704 CAATCATTTTG-ACAAGTTTAATATCATGTATTGATA-CTATCCAAACTGTTAAAATAGAATAAT
191 CAATCA-TTCGAACAAGTTTAATATCATGTATTGA-AGCTATCCAAACTGTTAAAATAGAACAAT
* ** ** * * * * *** *
20624767 AATATTAAATTTCCA-TTTTATCTTTTAACAACAAAAAAAGTCCTACATAGACGTAAACGTTAGC
254 AACAACAAATTTGTATTTTTATCTTTTAACGACATAAAAAGTCCTAAATAAACGTAAATAATAAC
20624831 TT
319 TT
* *
20624833 TTTCATACATATCAACTATGAAAATCAAGTTCAATTATTCT-GACAAGTTTAATATCATGTATT-
1 TTTCATACATATCAACCATGAAAATCAAGTTCAATCATT-TGGACAAGTTTAATATCATGTATTG
* * * * * * *
20624896 AAAGCTATGCAAATTGTTAAGATAGAACAATGACA-ACAAATTTGCATGTTTGCCTCTTAACAGC
65 AAA-CTATCCAAACTGTTAAAATAGAACAAT-A-ATAGAAATTTGCATTTTTGCCTTTTAACGGC
* * *
20624960 ACAAAAAGTCTTAAACAGATGTAAACGATAACTTTTTCACACATATCAACTGTGGAAACCAAGTT
127 ACAAAAAGTCCTAAATAGATATAAACGATAACTTTTTCACACATATCAA-TGTGGAAACCAAGTT
*
20625025 CAATCATTCGGACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAA
191 CAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAA
* * * * * *
20625090 CAGCAAATTTGTATTTTTACCTATTAACGGCATAAAAAGTCCTAAATATACATAAATAATAACTT
256 CAACAAATTTGTATTTTTATCTTTTAACGACATAAAAAGTCCTAAATAAACGTAAATAATAACTT
* * * *
20625155 TTTCATACATATCACCCATGAAAA-CTAAGTTCAATAATTTGGATAACTTTAATATCATGTATTG
1 TTTCATACATATCAACCATGAAAATC-AAGTTCAATCATTTGGACAAGTTTAATATCATGTATTG
* * * * * * *
20625219 AAACTATCAAAACTATTAAAATAGAACAATAATTGTAATTTGCATTTTTACCTTGTAATGGCACA
65 AAACTATCCAAACTGTTAAAATAGAACAATAATAGAAATTTGCATTTTTGCCTTTTAACGGCACA
** * * * *** * * *
20625284 AAAAGTTGTAAAAAGACATAAATTGCA-AA-TTACGACACATATATCAATAATGGAAACGAAGTT
130 AAAAGTCCTAAATAGATATAAA-CG-ATAACTT-TTTCACACATATCAAT-GTGGAAACCAAGTT
*
20625347 CAATCATTCGAATAAGTTTAATAT
191 CAATCATTCGAACAAGTTTAATAT
20625371 TATAAACTTA
Statistics
Matches: 709, Mismatches: 127, Indels: 48
0.80 0.14 0.05
Matches are distributed among these distances:
320 5 0.01
321 178 0.25
322 400 0.56
323 121 0.17
324 5 0.01
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (320 bp):
TTTCATACATATCAACCATGAAAATCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGA
AACTATCCAAACTGTTAAAATAGAACAATAATAGAAATTTGCATTTTTGCCTTTTAACGGCACAA
AAAGTCCTAAATAGATATAAACGATAACTTTTTCACACATATCAATGTGGAAACCAAGTTCAATC
ATTCGAACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAACAACA
AATTTGTATTTTTATCTTTTAACGACATAAAAAGTCCTAAATAAACGTAAATAATAACTT
Found at i:20631632 original size:61 final size:59
Alignment explanation
Indices: 20631485--20631789 Score: 200
Period size: 62 Copynumber: 5.0 Consensus size: 59
20631475 TAAAGGTGTT
* * * * *
20631485 TTTTTACTAAAAATACGTTCAATAAT-CCTGTCCAATTTTGTA-AAGGAAATTATTGAAGGCA
1 TTTTTACAAAAAATACCTTCAATAATCCCT-TTC-ATTTT-TATTAGG-GATTATTGAAGGCA
* * * * * **
20631546 TTTCTTATAGAAAATGCCTTTAATAATCCCTTTCATTTTTATTATGGGATTATTCAAGGTG
1 TTT-TTACAAAAAATACCTTCAATAATCCCTTTCATTTTTATTA-GGGATTATTGAAGGCA
** * *
20631607 TTTTCTACAAAAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGCA
1 TTTT-TACAAAAAATACCTTCAATAAT-CCCTTTCATTTTTATTAGG-GATTATTGAAGGCA
* * * * * ***
20631669 TTTTTGACTAAAAATACTTTTAATAATCTCTTTCAATTTTTTTTAAAAAATTATTGAAGGCA
1 TTTTT-ACAAAAAATACCTTCAATAATCCCTTTC-ATTTTTATT-AGGGATTATTGAAGGCA
* * * * * *
20631731 TTTTTTATAGAAAATATCTTCAATAATCCCTTCCCTTTTTATCAGGGGATTATTGAAGG
1 -TTTTTACAAAAAATACCTTCAATAATCCCTTTCATTTTTATTA-GGGATTATTGAAGG
20631790 GGATTATTTA
Statistics
Matches: 183, Mismatches: 49, Indels: 24
0.71 0.19 0.09
Matches are distributed among these distances:
60 4 0.02
61 64 0.35
62 106 0.58
63 9 0.05
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (59 bp):
TTTTTACAAAAAATACCTTCAATAATCCCTTTCATTTTTATTAGGGATTATTGAAGGCA
Found at i:20631635 original size:123 final size:125
Alignment explanation
Indices: 20631431--20631709 Score: 307
Period size: 123 Copynumber: 2.2 Consensus size: 125
20631421 TTTTAAGCAG
** * * ** * * * *
20631431 AAAATACCTTTAATAATCTGTTTAAATTTTGACGAAGAGATTATTAAAGGTGTTTTTTTACTAAA
1 AAAATACCTTTAATAATCCCTTTCAATTTTTATTATGGGATTATTAAAGGTGTTTTTCTACAAAA
* ** *
20631496 AATACGTTCAATAATCCTGTCCAATTTTG-TAAAGGAAATTATTGAAGGCATTTCTT-A-TA
66 AATACCTTCAATAATCCCCTCAAATTTTGAT-AAGGAAATTATTGAAGGCATTT-TTGACTA
* *
20631555 GAAAATGCCTTTAATAATCCCTTTC-ATTTTTATTATGGGATTATTCAAGGTG-TTTTCTACAAA
1 -AAAATACCTTTAATAATCCCTTTCAATTTTTATTATGGGATTATTAAAGGTGTTTTTCTACAAA
* * *
20631618 AAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGCATTTTTGACTA
65 AAATACCTTCAATAATCCCCTCAAATTTTGATAAGGAAATTATTGAAGGCATTTTTGACTA
* *
20631679 AAAATACTTTTAATAATCTCTTTCAATTTTT
1 AAAATACCTTTAATAATCCCTTTCAATTTTT
20631710 TTTAAAAAAT
Statistics
Matches: 128, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
122 2 0.02
123 76 0.59
124 30 0.23
125 20 0.16
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (125 bp):
AAAATACCTTTAATAATCCCTTTCAATTTTTATTATGGGATTATTAAAGGTGTTTTTCTACAAAA
AATACCTTCAATAATCCCCTCAAATTTTGATAAGGAAATTATTGAAGGCATTTTTGACTA
Found at i:20631682 original size:62 final size:61
Alignment explanation
Indices: 20631431--20631760 Score: 193
Period size: 62 Copynumber: 5.3 Consensus size: 61
20631421 TTTTAAGCAG
* *** * * * **
20631431 AAAATACCTTTAATAATCTGTTTAAATTTTGACGAAGAGATTATTAAAGGTGTTTTTTTACTA
1 AAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAA-G-GCATTTTTACTA
* ** ** * *
20631494 AAAATACGTTCAATAATCCTGTCCAATTTTG-TAAAGGAAATTATTGAAGGCATTTCTTA-TA
1 AAAATACCTTCAATAATCCCCTTAAATTTTGAT-GAGGAGATTATTGAAGGCATTT-TTACTA
* * ** * * * ** *
20631555 GAAAATGCCTTTAATAAT-CCCTTTCATTTTTATTATGG-GATTATTCAAGGTGTTTTCTACAA
1 -AAAATACCTTCAATAATCCCCTTAAATTTTGATGA-GGAGATTATTGAAGGCATTTT-TACTA
20631617 AAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGCATTTTTGACTA
1 AAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGCATTTTT-ACTA
* * * * * ** * ** *
20631679 AAAATACTTTTAATAATCTCTTTCAATTTTTTTTAAAAAATTATTGAAGGCATTTTTTA-TA
1 AAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGCA-TTTTTACTA
*
20631740 GAAAATATCTTCAATAATCCC
1 -AAAATACCTTCAATAATCCC
20631761 TTCCCTTTTT
Statistics
Matches: 201, Mismatches: 54, Indels: 25
0.72 0.19 0.09
Matches are distributed among these distances:
60 1 0.00
61 49 0.24
62 111 0.55
63 40 0.20
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (61 bp):
AAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGCATTTTTACTA
Found at i:20631745 original size:185 final size:185
Alignment explanation
Indices: 20631431--20631789 Score: 454
Period size: 185 Copynumber: 1.9 Consensus size: 185
20631421 TTTTAAGCAG
* *** ** *
20631431 AAAATACCTTTAATAATCTGTTTAAATTTTGACGAAGAGATTATTAAAGGTGTTTTTTTACTAAA
1 AAAATACCTTCAATAATCCCCTTAAATTTTGACGAAGAGATTATTAAAGGTCATTTTTGACTAAA
20631496 AATACGTTCAATAATCCTGTCCAATTTTGTAAAGGAAATTATTGAAGGCATTTCTTATAGAAAAT
66 AATACGTTCAATAATCCTGTCCAATTTTGTAAA-GAAATTATTGAAGGCATTTCTTATAGAAAAT
* * * * *
20631561 GCCTTTAATAATCCCTTTCATTTTTATTATGGGATTATTCAAGGTGTTTTCTACAA
130 ACCTTCAATAATCCCTTCCATTTTTATCAGGGGATTATTCAAGGTGTTTTCTACAA
* * *
20631617 AAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGG-CATTTTTGACTAAA
1 AAAATACCTTCAATAATCCCCTTAAATTTTGACGAAGAGATTATTAAAGGTCATTTTTGACTAAA
* * * * *
20631681 AATACTTTTAATAATCTCT-TTCAATTTTTTTTAAA-AAATTATTGAAGGCATTTTTTATAGAAA
66 AATACGTTCAATAATC-CTGTCCAA--TTTTGTAAAGAAATTATTGAAGGCATTTCTTATAGAAA
* * *
20631744 ATATCTTCAATAATCCCTTCCCTTTTTATCAGGGGATTATTGAAGG
128 ATACCTTCAATAATCCCTTCCATTTTTATCAGGGGATTATTCAAGG
20631790 GGATTATTTA
Statistics
Matches: 147, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
185 94 0.64
186 45 0.31
187 8 0.05
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (185 bp):
AAAATACCTTCAATAATCCCCTTAAATTTTGACGAAGAGATTATTAAAGGTCATTTTTGACTAAA
AATACGTTCAATAATCCTGTCCAATTTTGTAAAGAAATTATTGAAGGCATTTCTTATAGAAAATA
CCTTCAATAATCCCTTCCATTTTTATCAGGGGATTATTCAAGGTGTTTTCTACAA
Found at i:20631762 original size:123 final size:123
Alignment explanation
Indices: 20631484--20631789 Score: 278
Period size: 123 Copynumber: 2.5 Consensus size: 123
20631474 TTAAAGGTGT
* * * ** ** * *
20631484 TTTTTTACTAAAAATACGTTCAATAATCCTGTCCAATTTTG-TAAAGGAAATTATTGAAGGCATT
1 TTTTCTACAAAAAATACCTTCAATAATCCCCTTAAATTTTGAT-CAGGAGATTATTGAAGGCATT
* **** **
20631548 TCTTATAGAAAATGCCTTTAATAATCCCTTTCATTTTTATTATGGGATTATTCAAGGTG
65 TCTTATAGAAAATACCTTTAATAATCCCTTTCATTTTTATTAAAAAATTATTCAAGGCA
*
20631607 TTTTCTACAAAAAATACCTTCAATAATCCCCTTAAATTTTGATGAGGAGATTATTGAAGGCATTT
1 TTTTCTACAAAAAATACCTTCAATAATCCCCTTAAATTTTGATCAGGAGATTATTGAAGGCATTT
* * * *
20631672 -TTGACTA-AAAATACTTTTAATAATCTCTTTCAATTTTTTTTAAAAAATTATTGAAGGCA
66 CTT-A-TAGAAAATACCTTTAATAATCCCTTTC-ATTTTTATTAAAAAATTATTCAAGGCA
* * * * *** * *
20631731 TTTTTTATAGAAAATATCTTCAATAAT-CCCTTCCCTTTTTATCAGGGGATTATTGAAGG
1 TTTTCTACAAAAAATACCTTCAATAATCCCCTTAAATTTTGATCAGGAGATTATTGAAGG
20631790 GGATTATTTA
Statistics
Matches: 149, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
122 2 0.01
123 102 0.68
124 45 0.30
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (123 bp):
TTTTCTACAAAAAATACCTTCAATAATCCCCTTAAATTTTGATCAGGAGATTATTGAAGGCATTT
CTTATAGAAAATACCTTTAATAATCCCTTTCATTTTTATTAAAAAATTATTCAAGGCA
Found at i:20635868 original size:35 final size:35
Alignment explanation
Indices: 20635818--20635889 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
20635808 ATATATAAAC
* *
20635818 CAAATGTTTTTTGGGCATAAGCCTACAACTGACTT
1 CAAATGTTTTCTGGGCATAAACCTACAACTGACTT
*
20635853 CAAATGTTTTCTGGGCATAAACCTACAAGTGACTT
1 CAAATGTTTTCTGGGCATAAACCTACAACTGACTT
20635888 CA
1 CA
20635890 TATATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (35 bp):
CAAATGTTTTCTGGGCATAAACCTACAACTGACTT
Found at i:20636025 original size:62 final size:63
Alignment explanation
Indices: 20635928--20636160 Score: 170
Period size: 63 Copynumber: 3.7 Consensus size: 63
20635918 ACAGGATTAC
* * * * *
20635928 TGAAGGCGTTTTTAGCTAGAAAACACCTTGAATAATCCTTTACAAAATGTTGA-ATGGGGTCAT
1 TGAAGGCGTTTTTGGCTA-AAAACGCCTTCAATAATCCTTTACAAAATGTTGATAAGGGATCAT
* * * * *
20635991 TGAAGGCGTTTCTGGCTAAAAACGCCTTCAATAATCCACTTA-ATAAATTTTTATAAGGGATTAT
1 TGAAGGCGTTTTTGGCTAAAAACGCCTTCAATAATCC-TTTACA-AAATGTTGATAAGGGATCAT
* * * * ** * *
20636055 TGAACGCATTTTTGG-TAAAAACGCCTTTAATAATCCTTT-CCAAAT-TTTTTCAAAGGATTAT
1 TGAAGGCGTTTTTGGCTAAAAACGCCTTCAATAATCCTTTACAAAATGTTGAT-AAGGGATCAT
* ** * * * *
20636116 CGAACACGTTTTTGGCCAAAAATGCCTTCAACAATCCTTTCCAAA
1 TGAAGGCGTTTTTGGCTAAAAACGCCTTCAATAATCCTTTACAAA
20636161 TTTTGTTGAT
Statistics
Matches: 137, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
60 4 0.03
61 25 0.18
62 40 0.29
63 49 0.36
64 19 0.14
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (63 bp):
TGAAGGCGTTTTTGGCTAAAAACGCCTTCAATAATCCTTTACAAAATGTTGATAAGGGATCAT
Found at i:20636128 original size:61 final size:62
Alignment explanation
Indices: 20635997--20636164 Score: 187
Period size: 61 Copynumber: 2.7 Consensus size: 62
20635987 TCATTGAAGG
* *** * * *
20635997 CGTTTCTGGCTAAAAACGCCTTCAATAATCCACTTAATAAATTTTTATAAGGGATTATTGAACG
1 CGTTTTTGGCTAAAAACGCCTTCAATAAT-C-CTTTCCAAATTTTTATAAAGGATTATCGAACA
* *
20636061 CATTTTTGG-TAAAAACGCCTTTAATAATCCTTTCCAAATTTTT-TCAAAGGATTATCGAACA
1 CGTTTTTGGCTAAAAACGCCTTCAATAATCCTTTCCAAATTTTTAT-AAAGGATTATCGAACA
* * *
20636122 CGTTTTTGGCCAAAAATGCCTTCAACAATCCTTTCCAAATTTT
1 CGTTTTTGGCTAAAAACGCCTTCAATAATCCTTTCCAAATTTT
20636165 GTTGATGAGA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
60 1 0.01
61 32 0.36
62 30 0.34
63 18 0.20
64 7 0.08
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (62 bp):
CGTTTTTGGCTAAAAACGCCTTCAATAATCCTTTCCAAATTTTTATAAAGGATTATCGAACA
Found at i:20636853 original size:65 final size:63
Alignment explanation
Indices: 20636740--20636919 Score: 185
Period size: 65 Copynumber: 2.9 Consensus size: 63
20636730 TTTTTGGTAG
* **
20636740 AAAACGCCTTCAATAATCACC-TTC-ATTTTTTATGA-AGGGATTAGTCAATGTGTTGTCTACT-
1 AAAACGCCTTCAATAATC-CCATTCTATTTTTTATGAGA-GGATTATTCAATGCATTGTCT-CTC
20636801 A
63 A
* * *
20636802 AAAATGCCTTCAATAATCCCATATCTATTTTTTTATGAGAGAATTATTCAATGCATTGTCTGTCA
1 AAAACGCCTTCAATAATCCCAT-TCTA-TTTTTTATGAGAGGATTATTCAATGCATTGTCTCTCA
* *
20636867 AAAACGCCTTCAATAAT--CATTCTAATTTTTTA-GAGAGGATTATTTAAGGCATT
1 AAAACGCCTTCAATAATCCCATTCT-ATTTTTTATGAGAGGATTATTCAATGCATT
20636920 TTAGTTGATA
Statistics
Matches: 101, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
61 20 0.20
62 28 0.28
63 6 0.06
64 2 0.02
65 44 0.44
66 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (63 bp):
AAAACGCCTTCAATAATCCCATTCTATTTTTTATGAGAGGATTATTCAATGCATTGTCTCTCA
Found at i:20637586 original size:27 final size:27
Alignment explanation
Indices: 20637555--20637607 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
20637545 CATGATAATA
* *
20637555 TTTTTATTTACAGAAATTCTCATACTT
1 TTTTTATTCAAAGAAATTCTCATACTT
20637582 TTTTTATTCAAAGAAATTCTCATACT
1 TTTTTATTCAAAGAAATTCTCATACT
20637608 AATTTGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.15, G:0.04, T:0.49
Consensus pattern (27 bp):
TTTTTATTCAAAGAAATTCTCATACTT
Found at i:20638162 original size:16 final size:15
Alignment explanation
Indices: 20638115--20638162 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
20638105 CTTTTTTTGA
20638115 CTTTTTTT-TTTCTT
1 CTTTTTTTCTTTCTT
* *
20638129 CTTTTTCTCTTTATTT
1 CTTTTTTTCTTT-CTT
20638145 CTTTTTTATCTTTCTT
1 CTTTTTT-TCTTTCTT
20638161 CT
1 CT
20638163 CTCCTATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 7 0.26
15 3 0.11
16 12 0.44
17 5 0.19
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTTTTCTTTCTT
Found at i:20651098 original size:11 final size:12
Alignment explanation
Indices: 20651059--20651113 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
20651049 TATTTTTTCC
* *
20651059 TTTTTATTTCTT
1 TTTTTCTTTATT
*
20651071 TCTTTCTTTATT
1 TTTTTCTTTATT
20651083 TTTTTCTTTA-T
1 TTTTTCTTTATT
*
20651094 TTTTTC-TCATT
1 TTTTTCTTTATT
20651105 TTTTTCTTT
1 TTTTTCTTT
20651114 TAGGCATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 2 0.06
11 14 0.40
12 19 0.54
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTATT
Found at i:20662035 original size:18 final size:19
Alignment explanation
Indices: 20662014--20662055 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
20662004 TTCCTCCTCC
20662014 TTTCTC-TTTTCTCCTTT-T
1 TTTCTCATTTT-TCCTTTAT
*
20662032 TTTCTCATTTTTTCTTTAT
1 TTTCTCATTTTTCCTTTAT
20662051 TTTCT
1 TTTCT
20662056 TGCCACCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTCATTTTTCCTTTAT
Found at i:20662635 original size:20 final size:21
Alignment explanation
Indices: 20662606--20662649 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
20662596 CTGCAATTAT
*
20662606 ATTCT-TTTTTTTTTAGTTTA
1 ATTCTCTTTTATTTTAGTTTA
*
20662626 ATTCTCTTTTATTTTATTTTA
1 ATTCTCTTTTATTTTAGTTTA
20662647 ATT
1 ATT
20662650 AATTCAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTCTCTTTTATTTTAGTTTA
Found at i:20671213 original size:8 final size:8
Alignment explanation
Indices: 20671202--20671229 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20671192 AAAATTAAAA
20671202 TTATATTT
1 TTATATTT
20671210 TTATATTT
1 TTATATTT
20671218 TTATATTT
1 TTATATTT
20671226 TTAT
1 TTAT
20671230 TGTAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATATTT
Found at i:20671736 original size:31 final size:30
Alignment explanation
Indices: 20671703--20671808 Score: 124
Period size: 31 Copynumber: 3.5 Consensus size: 30
20671693 AAAAAATGCT
* *
20671703 ATATCTTTTTAAAAATTAAATAAAATTTTC
1 ATATCATTTTAAAAATTAAATAAAAATTTC
* *
20671733 TATATCGATTTAAAAAATTAAATAAAAAATTC
1 -ATATC-ATTTTAAAAATTAAATAAAAATTTC
* *
20671765 AAATCATTTTAAATAATTAAGTAAAAATTTC
1 ATATCATTTTAAA-AATTAAATAAAAATTTC
20671796 ATATCA-TTTAAAA
1 ATATCATTTTAAAA
20671809 GATATAGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.02
30 13 0.20
31 29 0.45
32 21 0.33
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (30 bp):
ATATCATTTTAAAAATTAAATAAAAATTTC
Found at i:20672106 original size:31 final size:31
Alignment explanation
Indices: 20672071--20672138 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
20672061 AAATCAATTG
* * *
20672071 TTTAAAATGATTTGAAATTTTTACTTAATAT
1 TTTAAAAAGATATGAAACTTTTACTTAATAT
* * *
20672102 TTTAAAAAGATATGAAGCTTTTATTTAATTT
1 TTTAAAAAGATATGAAACTTTTACTTAATAT
20672133 TTTAAA
1 TTTAAA
20672139 CCCTTAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (31 bp):
TTTAAAAAGATATGAAACTTTTACTTAATAT
Found at i:20681839 original size:14 final size:15
Alignment explanation
Indices: 20681814--20681848 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
20681804 TAGAGTTTTC
20681814 TTTTTATCTTTTATT
1 TTTTTATCTTTTATT
20681829 TTTTTAT-TTTTATT
1 TTTTTATCTTTTATT
20681843 TATTTT
1 T-TTTT
20681849 TATGTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATCTTTTATT
Found at i:20685619 original size:10 final size:10
Alignment explanation
Indices: 20685604--20685630 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20685594 CTAAGCTTAC
20685604 TTTTGATTTG
1 TTTTGATTTG
20685614 TTTTGATTTG
1 TTTTGATTTG
20685624 TTTTGAT
1 TTTTGAT
20685631 GCTTGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.19, T:0.70
Consensus pattern (10 bp):
TTTTGATTTG
Found at i:20690609 original size:19 final size:19
Alignment explanation
Indices: 20690575--20690613 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20690565 AACCATTGTA
20690575 AGCTTATTCCTGGTTGGAAT
1 AGCTTATTCCTGGTT-GAAT
*
20690595 AGCTTA-TCCTTGTTGAAT
1 AGCTTATTCCTGGTTGAAT
20690613 A
1 A
20690614 TTATCTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (19 bp):
AGCTTATTCCTGGTTGAAT
Found at i:20693926 original size:22 final size:20
Alignment explanation
Indices: 20693891--20693939 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
20693881 GAAGAATATC
20693891 AAAAAA-ATTCAAAAATTCAA
1 AAAAAATATTC-AAAATTCAA
* *
20693911 AAGAAAATATTTAAAATTTAA
1 AA-AAAATATTCAAAATTCAA
20693932 AAAAAATA
1 AAAAAATA
20693940 AAAAAAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 14 0.56
22 3 0.12
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATATTCAAAATTCAA
Found at i:20694164 original size:19 final size:19
Alignment explanation
Indices: 20694140--20694198 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 19
20694130 ACTTTTTAAT
20694140 AATATTTCATTTTTAAAAA
1 AATATTTCATTTTTAAAAA
20694159 AATATTTCTTTTATTTTTAAAAA
1 AATATTTC----ATTTTTAAAAA
* *
20694182 AA-ATTTAAATTTTAAAA
1 AATATTTCATTTTTAAAA
20694199 TTTTTCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 9 0.26
19 8 0.24
22 4 0.12
23 13 0.38
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTTCATTTTTAAAAA
Found at i:20694195 original size:24 final size:23
Alignment explanation
Indices: 20694142--20694188 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
20694132 TTTTTAATAA
*
20694142 TATTTCATTTTTAAAAAAATATT
1 TATTTTATTTTTAAAAAAATATT
*
20694165 TCTTTTATTTTTAAAAAAA-ATT
1 TATTTTATTTTTAAAAAAATATT
20694187 TA
1 TA
20694189 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTTTATTTTTAAAAAAATATT
Found at i:20695343 original size:23 final size:22
Alignment explanation
Indices: 20695301--20695344 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20695291 AATAGAGCAT
20695301 TACATATAAAACATTAAAAAAA
1 TACATATAAAACATTAAAAAAA
*
20695323 TACATATTAAA-ATTAAGAAAAA
1 TACATATAAAACATTAA-AAAAA
20695345 CCTATCGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (22 bp):
TACATATAAAACATTAAAAAAA
Found at i:20700317 original size:22 final size:22
Alignment explanation
Indices: 20700279--20700324 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
20700269 ATCAAATATG
*
20700279 AAAATATATTTAGATTTTTATT
1 AAAATATATATAGATTTTTATT
20700301 AAAATCATATATA-ATTTTTATT
1 AAAAT-ATATATAGATTTTTATT
20700323 AA
1 AA
20700325 TTTTAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
AAAATATATATAGATTTTTATT
Found at i:20702085 original size:17 final size:17
Alignment explanation
Indices: 20702063--20702096 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20702053 TTTTTCACAT
20702063 TTATTCACAAA-TATAAA
1 TTATTC-CAAATTATAAA
20702080 TTATTCCAAATTATAAA
1 TTATTCCAAATTATAAA
20702097 GATAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
TTATTCCAAATTATAAA
Found at i:20702218 original size:94 final size:95
Alignment explanation
Indices: 20702105--20702283 Score: 297
Period size: 94 Copynumber: 1.9 Consensus size: 95
20702095 AAGATAAAAG
20702105 AAAAAAATAAAAAAAGTGTGAATAAGTTCACCATATTTGTAAAATTTTTCATCATATTCAGA-TT
1 AAAAAAATAAAAAAAGTGTGAATAAGTTCACCATATTTGTAAAATTTTTCATCATATTCAGATTT
*
20702169 TTTTTAATCTTAATTTAAAATTACAATGAT
66 TTTTTAATCGTAATTTAAAATTACAATGAT
* * **
20702199 AAAAAAATTAAAAAAGTGTGAATAAGTTCACCGTATTTGTAAAATTTTTCATCATATTTGGATTT
1 AAAAAAATAAAAAAAGTGTGAATAAGTTCACCATATTTGTAAAATTTTTCATCATATTCAGATTT
*
20702264 TTTTTCATCGTAATTTAAAA
66 TTTTTAATCGTAATTTAAAA
20702284 AACTATAACG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
94 58 0.74
95 20 0.26
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.40
Consensus pattern (95 bp):
AAAAAAATAAAAAAAGTGTGAATAAGTTCACCATATTTGTAAAATTTTTCATCATATTCAGATTT
TTTTTAATCGTAATTTAAAATTACAATGAT
Found at i:20710618 original size:143 final size:143
Alignment explanation
Indices: 20710362--20710648 Score: 565
Period size: 143 Copynumber: 2.0 Consensus size: 143
20710352 TAGCAATGTT
20710362 TGTATAATAAAATATTGTAAAACGATTATCAAAATTTATTATTTTGAAAATATGATTTTATAAAA
1 TGTATAATAAAATATTGTAAAACGATTATCAAAATTTATTATTTTGAAAATATGATTTTATAAAA
20710427 TTATCTTAAAATTAAAATGCATTGTATTTTATTATTTAATGGTATTTTTTTTAATAAGTGCCTCT
66 TTATCTTAAAATTAAAATGCATTGTATTTTATTATTTAATGGTATTTTTTTTAATAAGTGCCTCT
20710492 AATTTACAAAATA
131 AATTTACAAAATA
*
20710505 TGTATAATAAAATATTGTAAAATGATTATCAAAATTTATTATTTTGAAAATATGATTTTATAAAA
1 TGTATAATAAAATATTGTAAAACGATTATCAAAATTTATTATTTTGAAAATATGATTTTATAAAA
20710570 TTATCTTAAAATTAAAATGCATTGTATTTTATTATTTAATGGTATTTTTTTTAATAAGTGCCTCT
66 TTATCTTAAAATTAAAATGCATTGTATTTTATTATTTAATGGTATTTTTTTTAATAAGTGCCTCT
20710635 AATTTACAAAATA
131 AATTTACAAAATA
20710648 T
1 T
20710649 AATGGTACTT
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (143 bp):
TGTATAATAAAATATTGTAAAACGATTATCAAAATTTATTATTTTGAAAATATGATTTTATAAAA
TTATCTTAAAATTAAAATGCATTGTATTTTATTATTTAATGGTATTTTTTTTAATAAGTGCCTCT
AATTTACAAAATA
Found at i:20715285 original size:28 final size:28
Alignment explanation
Indices: 20715253--20715313 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
20715243 CCCTATTAAG
20715253 AATCTCGACTTCTAACTAACTTACAAAA
1 AATCTCGACTTCTAACTAACTTACAAAA
*
20715281 AATCTCGACTTCTAACTAACTTACAAAG
1 AATCTCGACTTCTAACTAACTTACAAAA
20715309 AATCT
1 AATCT
20715314 TTTTTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (28 bp):
AATCTCGACTTCTAACTAACTTACAAAA
Found at i:20716699 original size:72 final size:72
Alignment explanation
Indices: 20716616--20716766 Score: 207
Period size: 72 Copynumber: 2.1 Consensus size: 72
20716606 CAAACTGAGC
* * **
20716616 CAACTCACTACTCATGTAAACACA-AGCC-TTGGTGACAGCCATGCAAGAAGCCAAAGCCAAATC
1 CAACTCACTACTCATGCAAACA-AGAGCCAATGCAGACAGCCATGCAAGAAGCCAAAGCCAAATC
20716679 CAACTAAGT
65 C-ACTAAGT
* * *
20716688 CAACTCACTACTCATGCAAACAAGAGCCAATGCAGATAGCCATGCAAGATGCCAAAGCCAAATTC
1 CAACTCACTACTCATGCAAACAAGAGCCAATGCAGACAGCCATGCAAGAAGCCAAAGCCAAATCC
20716753 ACTAAGT
66 ACTAAGT
20716760 CAACTCA
1 CAACTCA
20716767 ATTGACATGT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
71 1 0.01
72 39 0.56
73 30 0.43
ACGTcount: A:0.40, C:0.29, G:0.15, T:0.17
Consensus pattern (72 bp):
CAACTCACTACTCATGCAAACAAGAGCCAATGCAGACAGCCATGCAAGAAGCCAAAGCCAAATCC
ACTAAGT
Found at i:20717976 original size:18 final size:19
Alignment explanation
Indices: 20717953--20717990 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
20717943 TCATTACTAA
20717953 TTTTTTCTTATTT-TCATT
1 TTTTTTCTTATTTATCATT
*
20717971 TTTTTTGTTATTTATCATT
1 TTTTTTCTTATTTATCATT
20717990 T
1 T
20717991 AATTGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTTCTTATTTATCATT
Found at i:20718171 original size:34 final size:34
Alignment explanation
Indices: 20718085--20718177 Score: 132
Period size: 34 Copynumber: 2.7 Consensus size: 34
20718075 CATGATTATT
* *
20718085 AATATATTAATTATTATTACTTGATTATATTACC
1 AATATATTAATTATTATTGCCTGATTATATTACC
* **
20718119 AATATATTAATTATTATTGCCTGTTTATATTGTC
1 AATATATTAATTATTATTGCCTGATTATATTACC
*
20718153 AATATATTAATTATTATTGCATGAT
1 AATATATTAATTATTATTGCCTGAT
20718178 ATGTTATGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (34 bp):
AATATATTAATTATTATTGCCTGATTATATTACC
Found at i:20718179 original size:20 final size:19
Alignment explanation
Indices: 20718156--20718201 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
20718146 TATTGTCAAT
20718156 ATATTAATTATTATTGCATG
1 ATATTAA-TATTATTGCATG
* *
20718176 ATATGTTATGTTATTGCATG
1 ATAT-TAATATTATTGCATG
20718196 ATATTA
1 ATATTA
20718202 TTAGCATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 19 0.86
21 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (19 bp):
ATATTAATATTATTGCATG
Found at i:20721604 original size:16 final size:16
Alignment explanation
Indices: 20721580--20721614 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20721570 TTAAAATCCC
* *
20721580 TTTATTTTTATTTTTA
1 TTTAATTTTATTATTA
20721596 TTTAATTTTATTATTA
1 TTTAATTTTATTATTA
20721612 TTT
1 TTT
20721615 TTAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTAATTTTATTATTA
Found at i:20721845 original size:37 final size:37
Alignment explanation
Indices: 20721804--20721917 Score: 150
Period size: 37 Copynumber: 3.2 Consensus size: 37
20721794 AGGGTTTTGT
*
20721804 TTAGGGTTTAGGGTTTACCTAAAATTTAAGGTTTCAA
1 TTAGGGTTTAGGGTTTACCTAAGATTTAAGGTTTCAA
* *
20721841 TTAGGG--T----TTTACCTAAGGTTTAAGGTTTCAC
1 TTAGGGTTTAGGGTTTACCTAAGATTTAAGGTTTCAA
*
20721872 TTAGGGTTTAGGGCTTACCTAAGATTTAAGGTTTCAA
1 TTAGGGTTTAGGGTTTACCTAAGATTTAAGGTTTCAA
20721909 TTAGGGTTT
1 TTAGGGTTT
20721918 TACCTAAGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
31 27 0.42
33 1 0.02
35 1 0.02
37 36 0.55
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (37 bp):
TTAGGGTTTAGGGTTTACCTAAGATTTAAGGTTTCAA
Found at i:20721855 original size:31 final size:31
Alignment explanation
Indices: 20721811--20721948 Score: 161
Period size: 31 Copynumber: 4.3 Consensus size: 31
20721801 TGTTTAGGGT
*
20721811 TTAGGG-TTTACCTAAAATTTAAGGTTTCAA
1 TTAGGGTTTTACCTAAGATTTAAGGTTTCAA
* *
20721841 TTAGGGTTTTACCTAAGGTTTAAGGTTTCAC
1 TTAGGGTTTTACCTAAGATTTAAGGTTTCAA
20721872 TTAGGGTTTAGGGCTTACCTAAGATTTAAGGTTTCAA
1 TTAGGG-TT-----TTACCTAAGATTTAAGGTTTCAA
* *
20721909 TTAGGGTTTTACCTAAGGTTTAAGGTTTCAC
1 TTAGGGTTTTACCTAAGATTTAAGGTTTCAA
*
20721940 TTAAGGTTT
1 TTAGGGTTT
20721949 CATTTTGGAG
Statistics
Matches: 93, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
30 6 0.06
31 56 0.60
32 2 0.02
36 2 0.02
37 27 0.29
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (31 bp):
TTAGGGTTTTACCTAAGATTTAAGGTTTCAA
Found at i:20721876 original size:68 final size:68
Alignment explanation
Indices: 20721804--20721948 Score: 263
Period size: 68 Copynumber: 2.1 Consensus size: 68
20721794 AGGGTTTTGT
*
20721804 TTAGGGTTTAGGGTTTACCTAAAATTTAAGGTTTCAATTAGGGTTTTACCTAAGGTTTAAGGTTT
1 TTAGGGTTTAGGGCTTACCTAAAATTTAAGGTTTCAATTAGGGTTTTACCTAAGGTTTAAGGTTT
20721869 CAC
66 CAC
*
20721872 TTAGGGTTTAGGGCTTACCTAAGATTTAAGGTTTCAATTAGGGTTTTACCTAAGGTTTAAGGTTT
1 TTAGGGTTTAGGGCTTACCTAAAATTTAAGGTTTCAATTAGGGTTTTACCTAAGGTTTAAGGTTT
20721937 CAC
66 CAC
*
20721940 TTAAGGTTT
1 TTAGGGTTT
20721949 CATTTTGGAG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (68 bp):
TTAGGGTTTAGGGCTTACCTAAAATTTAAGGTTTCAATTAGGGTTTTACCTAAGGTTTAAGGTTT
CAC
Found at i:20721944 original size:19 final size:18
Alignment explanation
Indices: 20721848--20721948 Score: 70
Period size: 19 Copynumber: 5.8 Consensus size: 18
20721838 CAATTAGGGT
20721848 TTTACCTAAGGTTTAAGG
1 TTTACCTAAGGTTTAAGG
* * *
20721866 TTTCACTTAGGGTTTAGGG
1 TTT-ACCTAAGGTTTAAGG
* *
20721885 CTTACCTAAGATTTAAGG
1 TTTACCTAAGGTTTAAGG
*
20721903 TTT--C-AA---TTAGGG
1 TTTACCTAAGGTTTAAGG
20721915 TTTTACCTAAGGTTTAAGG
1 -TTTACCTAAGGTTTAAGG
*
20721934 TTTCACTTAAGGTTT
1 TTT-ACCTAAGGTTT
20721949 CATTTTGGAG
Statistics
Matches: 62, Mismatches: 12, Indels: 17
0.68 0.13 0.19
Matches are distributed among these distances:
12 5 0.08
13 3 0.05
15 3 0.05
16 3 0.05
18 19 0.31
19 29 0.47
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (18 bp):
TTTACCTAAGGTTTAAGG
Found at i:20721963 original size:13 final size:13
Alignment explanation
Indices: 20721945--20721974 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
20721935 TTCACTTAAG
*
20721945 GTTTCATTTTGGA
1 GTTTCATTTTAGA
20721958 GTTTCATTTTAGA
1 GTTTCATTTTAGA
20721971 GTTT
1 GTTT
20721975 TGCTAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.57
Consensus pattern (13 bp):
GTTTCATTTTAGA
Found at i:20722191 original size:15 final size:17
Alignment explanation
Indices: 20722166--20722197 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20722156 ACATTTAAAC
20722166 AAAATTATTATT-TTTT
1 AAAATTATTATTATTTT
20722182 AAAA-TATTATTATTTT
1 AAAATTATTATTATTTT
20722198 TTATTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AAAATTATTATTATTTT
Found at i:20722428 original size:3 final size:3
Alignment explanation
Indices: 20722422--20722475 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
20722412 GGATAACAAC
* * *
20722422 AAT AAT AAT AAAT AAT AAC AAG AAT AAT AAT AAAT AAT AAT AAC AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
*
20722469 GAT AAT A
1 AAT AAT A
20722476 CCAAAAGCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
3 36 0.86
4 6 0.14
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:20722437 original size:10 final size:10
Alignment explanation
Indices: 20722422--20722464 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
20722412 GGATAACAAC
20722422 AATAATAATA
1 AATAATAATA
*
20722432 AATAATAACAA
1 AATAATAA-TA
20722443 GAATAATAATA
1 -AATAATAATA
20722454 AATAATAATA
1 AATAATAATA
20722464 A
1 A
20722465 CAATGATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
AATAATAATA
Found at i:20722442 original size:22 final size:22
Alignment explanation
Indices: 20722414--20722475 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
20722404 TCATTTATGG
20722414 ATAACAACAATAATAATAAATA
1 ATAACAACAATAATAATAAATA
*
20722436 ATAACAAGAATAATAATAAATA
1 ATAACAACAATAATAATAAATA
* *
20722458 ATAATAACAATGATAATA
1 ATAACAACAATAATAATA
20722476 CCAAAAGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.24
Consensus pattern (22 bp):
ATAACAACAATAATAATAAATA
Found at i:20724159 original size:13 final size:13
Alignment explanation
Indices: 20724143--20724167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20724133 TCATTTGAGT
20724143 TTTTTATTTATTA
1 TTTTTATTTATTA
20724156 TTTTTATTTATT
1 TTTTTATTTATT
20724168 CGGCTTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTATTA
Done.