Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 119 of 120
Found at i:18728587 original size:16 final size:16
Alignment explanation
Indices: 18728566--18728596 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18728556 TAATTAAGAC
18728566 ATAAATGGAAATTAAG
1 ATAAATGGAAATTAAG
*
18728582 ATAAATGGCAATTAA
1 ATAAATGGAAATTAA
18728597 AATTAAAGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (16 bp):
ATAAATGGAAATTAAG
Found at i:18739201 original size:17 final size:17
Alignment explanation
Indices: 18739178--18739219 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18739168 AAATTTCAAG
18739178 ATTATAATTA-AATAATA
1 ATTATAATTATAAT-ATA
*
18739195 TTTATAATTATAATATA
1 ATTATAATTATAATATA
18739212 ATTATAAT
1 ATTATAAT
18739220 ATTATATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTATAATTATAATATA
Found at i:18739205 original size:6 final size:6
Alignment explanation
Indices: 18739178--18739219 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
18739168 AAATTTCAAG
* *
18739178 ATTATA ATTA-A ATAATA TTTATA ATTATA A-TATA ATTATA AT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA AT
18739220 ATTATATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:18739213 original size:11 final size:11
Alignment explanation
Indices: 18739197--18739221 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18739187 AAATAATATT
18739197 TATAATTATAA
1 TATAATTATAA
18739208 TATAATTATAA
1 TATAATTATAA
18739219 TAT
1 TAT
18739222 TATATGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATAATTATAA
Found at i:18760179 original size:25 final size:26
Alignment explanation
Indices: 18760134--18760199 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
18760124 ATATTTTTAG
*
18760134 ATACAAATATTAATAATAAAA-ATTTT
1 ATACAAATATAAATAATAAAATA-TTT
*
18760160 ATACAAATA-AAATACTAAAATATTT
1 ATACAAATATAAATAATAAAATATTT
*
18760185 ATGCAAATATAAATA
1 ATACAAATATAAATA
18760200 TCATTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (26 bp):
ATACAAATATAAATAATAAAATATTT
Found at i:18764226 original size:39 final size:39
Alignment explanation
Indices: 18764170--18764248 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
18764160 TAAAAGAGTA
*
18764170 AGGCTCTGATTGATTTCGTAGCTTGTTGATTAATGATTT
1 AGGCTCTGATTGATTTCGAAGCTTGTTGATTAATGATTT
* * *
18764209 AGGCTCTGATTGGTTTCGAATCTTGTTGGTTAATGATTT
1 AGGCTCTGATTGATTTCGAAGCTTGTTGATTAATGATTT
18764248 A
1 A
18764249 TTCTTATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.20, C:0.10, G:0.24, T:0.46
Consensus pattern (39 bp):
AGGCTCTGATTGATTTCGAAGCTTGTTGATTAATGATTT
Found at i:18765658 original size:20 final size:20
Alignment explanation
Indices: 18765633--18765675 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18765623 TTTTTGTGAG
18765633 AAAGAAATAATATTAATCGC
1 AAAGAAATAATATTAATCGC
18765653 AAAGAAATAATATTAATCGC
1 AAAGAAATAATATTAATCGC
18765673 AAA
1 AAA
18765676 ACTAACTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (20 bp):
AAAGAAATAATATTAATCGC
Found at i:18767305 original size:18 final size:18
Alignment explanation
Indices: 18767279--18767321 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
18767269 TTATTATATC
* *
18767279 TAAAGATATATATGTATA
1 TAAAGATATAAATGTAGA
*
18767297 TAAATATATAAATGTAGA
1 TAAAGATATAAATGTAGA
18767315 T-AAGATA
1 TAAAGATA
18767322 ACAAAACTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (18 bp):
TAAAGATATAAATGTAGA
Found at i:18768257 original size:24 final size:23
Alignment explanation
Indices: 18768212--18768259 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
18768202 TATATTTTTA
*
18768212 TTTTTTATATTTTATATTTAAAT
1 TTTTTTATATTTTATATATAAAT
18768235 TTTTTTA-ATTTTTATTATATAAAT
1 TTTTTTATA-TTTTA-TATATAAAT
18768259 T
1 T
18768260 AAATTTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 12 0.55
24 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTTTATATTTTATATATAAAT
Found at i:18775651 original size:1 final size:1
Alignment explanation
Indices: 18775645--18775672 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
18775635 GTTAAATAGT
18775645 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
18775673 AACCCAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:18778521 original size:35 final size:35
Alignment explanation
Indices: 18778475--18778541 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
18778465 AATTCATAAC
* *
18778475 TAAGAACAAGCATATCTACAGATTATTATGTTAAA
1 TAAGAACAAGCATATCCACAGAGTATTATGTTAAA
*
18778510 TAAGAACAAGCATATCCAGAGAGTATTATGTT
1 TAAGAACAAGCATATCCACAGAGTATTATGTT
18778542 CAGAGGATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (35 bp):
TAAGAACAAGCATATCCACAGAGTATTATGTTAAA
Found at i:18779640 original size:92 final size:95
Alignment explanation
Indices: 18779463--18779645 Score: 291
Period size: 92 Copynumber: 1.9 Consensus size: 95
18779453 AAATTGACTT
*
18779463 TACTAAAAAAGGAAATTACACCTACAAAATTCAAGTCAGAAAATAAAAAACTTAATTGCAAAAGA
1 TACTAAAAAAAGAAATTACACCTACAAAATTCAAGTCAG-AAATAAAAAACTTAATTGCAAAAGA
*
18779528 AATTATAAATGAAAGATTAAGAATTTAACTG
65 AATTATAAATGAAAAATTAAGAATTTAACTG
* *
18779559 TACTAAAAAAAGAAATTACACCTACAAAATTCAATTTAG-AA-AAAAAA-TTAATTGCAAAAGAA
1 TACTAAAAAAAGAAATTACACCTACAAAATTCAAGTCAGAAATAAAAAACTTAATTGCAAAAGAA
*
18779621 ATTATATATGAAAAATTAAGAATTT
66 ATTATAAATGAAAAATTAAGAATTT
18779646 TGTTTAATCG
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
92 38 0.46
93 6 0.07
94 2 0.02
96 36 0.44
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (95 bp):
TACTAAAAAAAGAAATTACACCTACAAAATTCAAGTCAGAAATAAAAAACTTAATTGCAAAAGAA
ATTATAAATGAAAAATTAAGAATTTAACTG
Found at i:18779798 original size:2 final size:2
Alignment explanation
Indices: 18779791--18779821 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18779781 AGTGAATTAA
18779791 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18779822 CGAACCACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18782372 original size:2 final size:2
Alignment explanation
Indices: 18782365--18782400 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
18782355 TTCAAGTAAT
18782365 AG AG AG AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18782401 ATCTACTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18785568 original size:2 final size:2
Alignment explanation
Indices: 18785561--18785597 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18785551 TTAACCATGA
18785561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18785598 CACGTATCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18786017 original size:5 final size:5
Alignment explanation
Indices: 18786009--18786039 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
18785999 AGAAACAAAC
18786009 AAGGG AAGGG AAGGG AAGGG AAGGG AAGGG A
1 AAGGG AAGGG AAGGG AAGGG AAGGG AAGGG A
18786040 GAAACTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AAGGG
Found at i:18789702 original size:19 final size:19
Alignment explanation
Indices: 18789678--18789717 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
18789668 AGCTAAACCC
*
18789678 TTTTCATTTCTTTTATTTT
1 TTTTCATTTCATTTATTTT
*
18789697 TTTTCATTTCATTTCTTTT
1 TTTTCATTTCATTTATTTT
18789716 TT
1 TT
18789718 ATGCTATCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCATTTCATTTATTTT
Found at i:18791816 original size:2 final size:2
Alignment explanation
Indices: 18791811--18791843 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18791801 CGATGGTGTG
18791811 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18791844 GTTATTGATC
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18792265 original size:18 final size:18
Alignment explanation
Indices: 18792242--18792278 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18792232 GAATTTGAGT
18792242 AATTGGTAAGCTAAAAAC
1 AATTGGTAAGCTAAAAAC
18792260 AATTGGTAAGCTAAAAAC
1 AATTGGTAAGCTAAAAAC
18792278 A
1 A
18792279 TGTCACAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (18 bp):
AATTGGTAAGCTAAAAAC
Found at i:18798106 original size:2 final size:2
Alignment explanation
Indices: 18798099--18798124 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18798089 TTGTACATTG
18798099 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
18798125 GGATCTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18803963 original size:2 final size:2
Alignment explanation
Indices: 18803956--18803985 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18803946 ACATAGGGCA
18803956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18803986 TGCTAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18805712 original size:11 final size:11
Alignment explanation
Indices: 18805696--18805724 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18805686 CGGCATCAGC
18805696 TTGAAAGCTTG
1 TTGAAAGCTTG
18805707 TTGAAAGCTTG
1 TTGAAAGCTTG
18805718 TTGAAAG
1 TTGAAAG
18805725 TAATGGTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (11 bp):
TTGAAAGCTTG
Found at i:18806069 original size:2 final size:2
Alignment explanation
Indices: 18806062--18806087 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18806052 AATGCTAAAC
18806062 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18806088 GAATACGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18807848 original size:2 final size:2
Alignment explanation
Indices: 18807843--18807873 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
18807833 GAGTATCGAC
18807843 TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18807874 GGCAGATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18807863 original size:15 final size:15
Alignment explanation
Indices: 18807843--18807871 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18807833 GAGTATCGAC
18807843 TATATATATATATAA
1 TATATATATATATAA
18807858 TATATATATATATA
1 TATATATATATATA
18807872 TAGGCAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATATATATATAA
Found at i:18809411 original size:2 final size:2
Alignment explanation
Indices: 18809404--18809431 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18809394 GTGGGAAGTA
18809404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18809432 TCACTCCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18811169 original size:16 final size:16
Alignment explanation
Indices: 18811148--18811180 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18811138 CAAAACCAAT
18811148 TAAGAAAATTAACCCA
1 TAAGAAAATTAACCCA
18811164 TAAGAAAATTAACCCA
1 TAAGAAAATTAACCCA
18811180 T
1 T
18811181 TTATAGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.18, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAGAAAATTAACCCA
Found at i:18862459 original size:42 final size:42
Alignment explanation
Indices: 18862395--18862475 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
18862385 GGACTGCAGG
*
18862395 CATACGTTTCCAGAGAGGATGGCTCTGTCTCACTTTAATCTA
1 CATACGTTTCCAGAAAGGATGGCTCTGTCTCACTTTAATCTA
* *
18862437 CATATGTTTCCAGAAAGGATGGCTCTGTTTCACTTTAAT
1 CATACGTTTCCAGAAAGGATGGCTCTGTCTCACTTTAAT
18862476 TCACTTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (42 bp):
CATACGTTTCCAGAAAGGATGGCTCTGTCTCACTTTAATCTA
Found at i:18865310 original size:21 final size:20
Alignment explanation
Indices: 18865286--18865324 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18865276 TATATATATA
18865286 TATATATATG-AAAGATTAATT
1 TATATA-ATGTAAA-ATTAATT
18865307 TATATAATGTAAAATTAA
1 TATATAATGTAAAATTAA
18865325 ACAAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
TATATAATGTAAAATTAATT
Found at i:18865312 original size:2 final size:2
Alignment explanation
Indices: 18865230--18865294 Score: 53
Period size: 2 Copynumber: 33.5 Consensus size: 2
18865220 TACCTAAATC
* * * ** * *
18865230 TA TA -A TA TA TA TA TA TA TA TG TA TA CA CA TA CC TA AA TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18865271 TA -A TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18865295 GAAAGATTAA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:18866570 original size:15 final size:15
Alignment explanation
Indices: 18866546--18866575 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18866536 GTCGAGCCTG
*
18866546 ATCACGTAAAGAAAC
1 ATCACATAAAGAAAC
18866561 ATCACATAAAGAAAC
1 ATCACATAAAGAAAC
18866576 CAAAACCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.20, G:0.10, T:0.13
Consensus pattern (15 bp):
ATCACATAAAGAAAC
Found at i:18866673 original size:2 final size:2
Alignment explanation
Indices: 18866666--18866700 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18866656 CACAATGAGA
*
18866666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18866701 GACGTAGTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:18869695 original size:2 final size:2
Alignment explanation
Indices: 18869688--18869727 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
18869678 ATTTGGTGAG
18869688 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
18869728 CCAAACTCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18871465 original size:17 final size:17
Alignment explanation
Indices: 18871443--18871478 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18871433 GTCCTGCAAA
18871443 AAACATTGTGAAACTAT
1 AAACATTGTGAAACTAT
18871460 AAACATTGTGAAACTAT
1 AAACATTGTGAAACTAT
18871477 AA
1 AA
18871479 GCAAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (17 bp):
AAACATTGTGAAACTAT
Found at i:18876077 original size:21 final size:21
Alignment explanation
Indices: 18876036--18876078 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18876026 AAAAATTTAT
**
18876036 AATAAATATTAATTATGATAA
1 AATAAATATTAATTAAAATAA
18876057 AATAAATAATTAA-TAAAATAA
1 AATAAAT-ATTAATTAAAATAA
18876078 A
1 A
18876079 GTCTAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAAATATTAATTAAAATAA
Found at i:18878240 original size:122 final size:122
Alignment explanation
Indices: 18878023--18878269 Score: 467
Period size: 122 Copynumber: 2.0 Consensus size: 122
18878013 TTATCTCCTG
*
18878023 CTAAATAAAGACAAAGGTTTTGTTGTCATTAACATTTTCATGCTTTATCTTAACAGAAAATCATG
1 CTAAATAAAGACAAAGGGTTTGTTGTCATTAACATTTTCATGCTTTATCTTAACAGAAAATCATG
18878088 TTGGAATAAGGATTGATTTGGTTTCCTTTCTCATTTATTCTGTGAATGGTGGATAAA
66 TTGGAATAAGGATTGATTTGGTTTCCTTTCTCATTTATTCTGTGAATGGTGGATAAA
*
18878145 CTAAATAAAGACAAAGGGTTTGTTGTCATTAACATTTTCATGCTTTATCTTAACAGCAAATCATG
1 CTAAATAAAGACAAAGGGTTTGTTGTCATTAACATTTTCATGCTTTATCTTAACAGAAAATCATG
*
18878210 TTGGAATAAGGATTGATTTGGTTTCCTTTCTCATTTATTCTGTGAATGGTGGGTAAA
66 TTGGAATAAGGATTGATTTGGTTTCCTTTCTCATTTATTCTGTGAATGGTGGATAAA
18878267 CTA
1 CTA
18878270 TACAGGAAAT
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (122 bp):
CTAAATAAAGACAAAGGGTTTGTTGTCATTAACATTTTCATGCTTTATCTTAACAGAAAATCATG
TTGGAATAAGGATTGATTTGGTTTCCTTTCTCATTTATTCTGTGAATGGTGGATAAA
Found at i:18883190 original size:11 final size:11
Alignment explanation
Indices: 18883174--18883198 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18883164 GTTAATGTAC
18883174 AGGAATCTGGT
1 AGGAATCTGGT
18883185 AGGAATCTGGT
1 AGGAATCTGGT
18883196 AGG
1 AGG
18883199 CATGCTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.40, T:0.24
Consensus pattern (11 bp):
AGGAATCTGGT
Found at i:18888267 original size:2 final size:2
Alignment explanation
Indices: 18888260--18888290 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18888250 ATTATGCCTT
18888260 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18888291 TGGTCTTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18889475 original size:2 final size:2
Alignment explanation
Indices: 18889468--18889499 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18889458 TTAGCTTTGA
18889468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18889500 CTCGCTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18889690 original size:4 final size:4
Alignment explanation
Indices: 18889681--18889707 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18889671 CGAGATCTAT
18889681 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
18889708 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:18890612 original size:14 final size:14
Alignment explanation
Indices: 18890595--18890626 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18890585 TTTCCACAAA
18890595 GCAAAGGTACGTAC
1 GCAAAGGTACGTAC
18890609 GCAAAGGTACGTAC
1 GCAAAGGTACGTAC
18890623 GCAA
1 GCAA
18890627 CATGTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.28, T:0.12
Consensus pattern (14 bp):
GCAAAGGTACGTAC
Found at i:18890860 original size:271 final size:273
Alignment explanation
Indices: 18890362--18890883 Score: 1003
Period size: 271 Copynumber: 1.9 Consensus size: 273
18890352 GATTGTATAT
18890362 AGCTTTTTGTCAGACCACCATTCGCATTAAGTGGCGCTGCCATCAACCCACTACTTGTCTTAACT
1 AGCTTTTTGTCAGACCACCATTCGCATTAAGTGGCGCTGCCATCAACCCACTACTTGTCTTAACT
*
18890427 ACGCCTTTCATGGCAGGTACATATCAACCCACCTGTATATATATATACACACACACACACACACG
66 ACGCCTTTCATGGCAGGTACACATCAACCCACCTG-ATATATATATA-ACACACACACACACACG
18890492 TAGGTATACCCTTCTGATATCATATGCCAACTAACAATATTCAAGTGGCCTGGAATGGGAAAAAT
129 TAGGTATACCCTTCTGATATCATATGCCAACTAACAATATTCAAGTGGCCTGGAATGGGAAAAAT
18890557 ATTAGTAGAAACGAAAATGACAATTACTTTTCCACAAAGCAAAGGTACGTACGCAAAGGTACGTA
194 ATTAGTAGAAACGAAAATGACAATTACTTTTCCACAAAGCAAAGGTACGTACGCAAAGGTACGTA
18890622 CGCAACATGTTTTTG
259 CGCAACATGTTTTTG
18890637 AGCTTTTTGTCAGACCACCATTCGCATTAAGTGGCGCTGCCATCAACCCACTACTTGTCTTAACT
1 AGCTTTTTGTCAGACCACCATTCGCATTAAGTGGCGCTGCCATCAACCCACTACTTGTCTTAACT
18890702 ACGCCTTTCATGGCAGGTACACATCAACCCACCTG-TATATATAT-ACACACACACACACACGTA
66 ACGCCTTTCATGGCAGGTACACATCAACCCACCTGATATATATATAACACACACACACACACGTA
18890765 GGTATACCCTTCTGATATCATATGCCAACTAACAATATTCAAGTGGCCTGGAATGGGAAAAATAT
131 GGTATACCCTTCTGATATCATATGCCAACTAACAATATTCAAGTGGCCTGGAATGGGAAAAATAT
18890830 TAGTAGAAACGAAAATGACAATTACTTTTCCACAAAGCAAAGGTACGTACGCAA
196 TAGTAGAAACGAAAATGACAATTACTTTTCCACAAAGCAAAGGTACGTACGCAA
18890884 CATGTTTTTG
Statistics
Matches: 246, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
271 138 0.56
273 9 0.04
275 99 0.40
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (273 bp):
AGCTTTTTGTCAGACCACCATTCGCATTAAGTGGCGCTGCCATCAACCCACTACTTGTCTTAACT
ACGCCTTTCATGGCAGGTACACATCAACCCACCTGATATATATATAACACACACACACACACGTA
GGTATACCCTTCTGATATCATATGCCAACTAACAATATTCAAGTGGCCTGGAATGGGAAAAATAT
TAGTAGAAACGAAAATGACAATTACTTTTCCACAAAGCAAAGGTACGTACGCAAAGGTACGTACG
CAACATGTTTTTG
Found at i:18891006 original size:2 final size:2
Alignment explanation
Indices: 18890999--18891046 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
18890989 GTCATTCTTT
*
18890999 TC TC TC TC TC TC TC TC -C CC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18891040 TC TC TC T
1 TC TC TC T
18891047 ATATATATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:18891051 original size:2 final size:2
Alignment explanation
Indices: 18891046--18891079 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18891036 TCTCTCTCTC
18891046 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18891080 GTGCTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18894616 original size:33 final size:34
Alignment explanation
Indices: 18894573--18894647 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
18894563 ATCAATTAAG
*
18894573 ATTTGATTTTTATGAGAAATATTTTGAAAA-TAAA
1 ATTTGATTTTTATGAAAAATATTTT-AAAAGTAAA
* *
18894607 ATTTGTTTTTTGTGAAAAATATTTTAAAAGTAAA
1 ATTTGATTTTTATGAAAAATATTTTAAAAGTAAA
*
18894641 ATCTGAT
1 ATTTGAT
18894648 ACTAGACCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 4 0.11
34 31 0.89
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.45
Consensus pattern (34 bp):
ATTTGATTTTTATGAAAAATATTTTAAAAGTAAA
Found at i:18902472 original size:19 final size:19
Alignment explanation
Indices: 18902423--18902472 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
18902413 TATTTTGTTT
* *
18902423 ATAAATT-ATTTATTATTA
1 ATAAATTCATTAATTATAA
*
18902441 ATGTAATTC-TTAATTATAA
1 AT-AAATTCATTAATTATAA
18902460 ATAAATTCATTAA
1 ATAAATTCATTAA
18902473 ATGTTCTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAAATTCATTAATTATAA
Found at i:18902542 original size:19 final size:18
Alignment explanation
Indices: 18902479--18902542 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
18902469 TTAAATGTTC
* *
18902479 TAATTATAATTTTTAATT
1 TAATTTTAATTTTTGATT
*
18902497 ATAA-TTTAATTTTTATGAGT
1 -TAATTTTAA-TTTT-TGATT
18902517 TAATTTTAATTTATTGATT
1 TAATTTTAATTT-TTGATT
18902536 TAATTTT
1 TAATTTT
18902543 TCTCAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.11
19 24 0.65
20 9 0.24
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TAATTTTAATTTTTGATT
Found at i:18902633 original size:28 final size:28
Alignment explanation
Indices: 18902602--18902661 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
18902592 AACTTTGATT
*
18902602 TAATAAACG-GATACTTAGCAACTTGAGG
1 TAATAAACGTG-TACTTAACAACTTGAGG
* * *
18902630 TAATTAACGTGTACTTAACTACTTTAGG
1 TAATAAACGTGTACTTAACAACTTGAGG
18902658 TAAT
1 TAAT
18902662 TTATATCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (28 bp):
TAATAAACGTGTACTTAACAACTTGAGG
Found at i:18904123 original size:2 final size:2
Alignment explanation
Indices: 18904116--18904140 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18904106 AGTCCATTGA
18904116 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
18904141 AAGAAAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18904319 original size:2 final size:2
Alignment explanation
Indices: 18904312--18904352 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18904302 TGTGGGCTTT
18904312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18904353 GATACAAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18921254 original size:52 final size:52
Alignment explanation
Indices: 18921197--18921300 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
18921187 ATTCATATTT
18921197 TGTAGGGTAGACATAGATTCCTTGAAAATTTGTAACTTAATTAATTTGATTC
1 TGTAGGGTAGACATAGATTCCTTGAAAATTTGTAACTTAATTAATTTGATTC
*
18921249 TGTAGGGTAGACATAGATTCCTTGAAATTTTGTAACTTAATTAATTTGATTC
1 TGTAGGGTAGACATAGATTCCTTGAAAATTTGTAACTTAATTAATTTGATTC
18921301 ATGGAATTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (52 bp):
TGTAGGGTAGACATAGATTCCTTGAAAATTTGTAACTTAATTAATTTGATTC
Found at i:18923994 original size:2 final size:2
Alignment explanation
Indices: 18923987--18924022 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
18923977 TGTTTAACGA
*
18923987 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18924023 GATTCTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18933873 original size:39 final size:39
Alignment explanation
Indices: 18933830--18933917 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
18933820 TGGTGCGGTT
* * *
18933830 GGTGTGGTGGAAGGTGGAGGTGTTG-TGGTTGAAGGTGGG
1 GGTGTGGTGGAAGGAGGAGGTGTCGAT-GTTGAAGGTGGA
*
18933869 GGTGTTGTGGAAGGAGGAGGTGTCGATGTTGAAGGTGGA
1 GGTGTGGTGGAAGGAGGAGGTGTCGATGTTGAAGGTGGA
18933908 GGTGTGGTGG
1 GGTGTGGTGG
18933918 TGGTTGGGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 42 0.98
40 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.57, T:0.27
Consensus pattern (39 bp):
GGTGTGGTGGAAGGAGGAGGTGTCGATGTTGAAGGTGGA
Found at i:18933908 original size:21 final size:19
Alignment explanation
Indices: 18933830--18933913 Score: 82
Period size: 21 Copynumber: 4.3 Consensus size: 19
18933820 TGGTGCGGTT
*
18933830 GGTGTG-GTGGAAGGTGGA
1 GGTGTGTGTTGAAGGTGGA
*
18933848 GGTGTTGTGGTTGAAGGTGGG
1 GGTG-TGT-GTTGAAGGTGGA
* *
18933869 GGTGT-TGTGGAAGGAGGA
1 GGTGTGTGTTGAAGGTGGA
18933887 GGTGTCGATGTTGAAGGTGGA
1 GGTGT-G-TGTTGAAGGTGGA
18933908 GGTGTG
1 GGTGTG
18933914 GTGGTGGTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
18 18 0.34
19 3 0.06
20 2 0.04
21 30 0.57
ACGTcount: A:0.15, C:0.01, G:0.56, T:0.27
Consensus pattern (19 bp):
GGTGTGTGTTGAAGGTGGA
Found at i:18945925 original size:3 final size:3
Alignment explanation
Indices: 18945911--18945943 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
18945901 GGGTCTCTGC
*
18945911 CTT CTT CCT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
18945944 ATATTTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:18953460 original size:20 final size:21
Alignment explanation
Indices: 18953427--18953465 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
18953417 ATGGATTCGT
18953427 TTTTTCTGTTTAA-TAAATCA
1 TTTTTCTGTTTAATTAAATCA
18953447 TTTTT-TGTTGTAATTAAAT
1 TTTTTCTGTT-TAATTAAAT
18953466 GTGTATCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (21 bp):
TTTTTCTGTTTAATTAAATCA
Found at i:18970417 original size:2 final size:2
Alignment explanation
Indices: 18970410--18970439 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18970400 CCCCACCCAA
18970410 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18970440 TTAGTGACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18976466 original size:2 final size:2
Alignment explanation
Indices: 18976453--18976485 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18976443 ATGATTACCC
*
18976453 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18976486 AAATCTCAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:18982411 original size:28 final size:29
Alignment explanation
Indices: 18982380--18982445 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
18982370 GGAATAAAAT
*
18982380 TATTTTATTTATATTTTAA-TATTATAT-A
1 TATTTTATTTACATTTTAATTATTA-ATGA
*
18982408 TATTTT-TTAACATTTTAATTATTAATGA
1 TATTTTATTTACATTTTAATTATTAATGA
*
18982436 CATTTTATTT
1 TATTTTATTT
18982446 TTACGATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 12 0.39
28 17 0.55
29 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (29 bp):
TATTTTATTTACATTTTAATTATTAATGA
Found at i:18982651 original size:11 final size:11
Alignment explanation
Indices: 18982635--18982666 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
18982625 ATAGAATGAC
18982635 AAAAAAATAAA
1 AAAAAAATAAA
18982646 AAAAAAATAAA
1 AAAAAAATAAA
18982657 AATAAAAATA
1 AA-AAAAATA
18982667 GAGATCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:18982665 original size:6 final size:6
Alignment explanation
Indices: 18982637--18982666 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
18982627 AGAATGACAA
18982637 AAAAAT AAAAA- AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
18982667 GAGATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:18997044 original size:18 final size:18
Alignment explanation
Indices: 18997023--18997057 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18997013 AGGTGTTGGA
18997023 CTTGGAGGAGGTGGAGGC
1 CTTGGAGGAGGTGGAGGC
* *
18997041 CTTGGTGGGGGTGGAGG
1 CTTGGAGGAGGTGGAGG
18997058 TGGTTCAGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.09, G:0.60, T:0.20
Consensus pattern (18 bp):
CTTGGAGGAGGTGGAGGC
Found at i:18997484 original size:112 final size:111
Alignment explanation
Indices: 18997360--18997564 Score: 299
Period size: 112 Copynumber: 1.8 Consensus size: 111
18997350 GGGGTGAAAA
18997360 AGGTAGGGGTGGTGTAGGTGGAGGCTC-CGATCATGGAGGTGGATTTGGAGCAAGT-GAGGGCAT
1 AGGTAGGGGTGGTGTAGGTGGAGGCTCTCGA-CATGGAGGTGGATTTGGAGCAAGTGGA-GGCAT
* *
18997423 AAAGAGGTGGAGCTAATGGTGGTGTTGGTGGCGAGGAAAGAGGAGGAGG
64 AAA-AGGTGGAGCTAATGGTGCTGGTGGTGGCGAGGAAAGAGGAGGAGG
* * * *
18997472 AGGT-GGGAGTGGTGTTGGTTGAGGCTCTGGACATGGAGGTGGATTTGGAGCAGGTGGAGGCATA
1 AGGTAGGG-GTGGTGTAGGTGGAGGCTCTCGACATGGAGGTGGATTTGGAGCAAGTGGAGGCATA
18997536 AAAGGTGGAGCTAATGGTGCTGGTGGTGG
65 AAAGGTGGAGCTAATGGTGCTGGTGGTGG
18997565 AAGTGGTGGC
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
111 28 0.33
112 52 0.62
113 4 0.05
ACGTcount: A:0.22, C:0.07, G:0.49, T:0.22
Consensus pattern (111 bp):
AGGTAGGGGTGGTGTAGGTGGAGGCTCTCGACATGGAGGTGGATTTGGAGCAAGTGGAGGCATAA
AAGGTGGAGCTAATGGTGCTGGTGGTGGCGAGGAAAGAGGAGGAGG
Found at i:18998800 original size:36 final size:37
Alignment explanation
Indices: 18998725--18998802 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
18998715 TTTTACAGAG
*
18998725 TTATGTATGAGAAAAAAATATAAGAGAGTTGTAAGATT
1 TTATGTATGAGAAAAAAATATAAGAGAG-TGTAACATT
* *
18998763 TTATGTATGAGAAAAAAATTATTAGAGA-T-TCACATT
1 TTATGTATGAGAAAAAAA-TATAAGAGAGTGTAACATT
18998799 TTAT
1 TTAT
18998803 AAGTGTGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 9 0.25
37 1 0.03
38 18 0.50
39 8 0.22
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.36
Consensus pattern (37 bp):
TTATGTATGAGAAAAAAATATAAGAGAGTGTAACATT
Found at i:19002527 original size:16 final size:15
Alignment explanation
Indices: 19002506--19002539 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
19002496 TTGTACATTT
19002506 ATATATTTTTTTATAA
1 ATATATTTTTTTA-AA
19002522 ATATATTTTTTTAAA
1 ATATATTTTTTTAAA
19002537 ATA
1 ATA
19002540 AAATATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATATTTTTTTAAA
Found at i:19004140 original size:18 final size:18
Alignment explanation
Indices: 19004117--19004151 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19004107 CTTTGTGCAC
19004117 GAAACAACGAAAAGGTAA
1 GAAACAACGAAAAGGTAA
*
19004135 GAAACAAGGAAAAGGTA
1 GAAACAACGAAAAGGTA
19004152 CGCAATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.09, G:0.26, T:0.06
Consensus pattern (18 bp):
GAAACAACGAAAAGGTAA
Found at i:19008339 original size:3 final size:3
Alignment explanation
Indices: 19008331--19008373 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
19008321 CTATTAAAAT
19008331 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
19008374 TATTTTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19008422 original size:19 final size:18
Alignment explanation
Indices: 19008400--19008447 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
19008390 ATTAATTATT
19008400 AAAAAAAGAAAAAAAAGAG
1 AAAAAAAGAAAAAAAA-AG
* *
19008419 AAAACAGGAAAAAAAAAG
1 AAAAAAAGAAAAAAAAAG
* *
19008437 GAAAACAGAAA
1 AAAAAAAGAAA
19008448 GTAGGGTGGC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAAAG
Found at i:19008447 original size:18 final size:20
Alignment explanation
Indices: 19008408--19008444 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19008398 TTAAAAAAAG
19008408 AAAAAAAAGAGAAAACAGGA
1 AAAAAAAAGAGAAAACAGGA
19008428 AAAAAAAAG-GAAAACAG
1 AAAAAAAAGAGAAAACAG
19008445 AAAGTAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGAGAAAACAGGA
Found at i:19009571 original size:18 final size:17
Alignment explanation
Indices: 19009526--19009572 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
19009516 GAATTTTCTA
19009526 AATTTTTTTA-TATTAT
1 AATTTTTTTATTATTAT
* *
19009542 TATTTTTGTTATTTTTAGT
1 AATTTTT-TTATTATTA-T
19009561 AATTTTTTTATT
1 AATTTTTTTATT
19009573 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 6 0.24
17 3 0.12
18 9 0.36
19 7 0.28
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
AATTTTTTTATTATTAT
Found at i:19010008 original size:15 final size:15
Alignment explanation
Indices: 19009972--19010024 Score: 79
Period size: 15 Copynumber: 3.4 Consensus size: 15
19009962 TCTAAAACCT
19009972 TTAAAATCCAAAATCCC
1 TTAAAATCCAAAAT--C
19009989 TTAAAATCCAAAATC
1 TTAAAATCCAAAATC
*
19010004 TTAAAATCCAAAATT
1 TTAAAATCCAAAATC
19010019 TTAAAA
1 TTAAAA
19010025 CTGAAACCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
15 21 0.60
17 14 0.40
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAAATCCAAAATC
Found at i:19013292 original size:22 final size:22
Alignment explanation
Indices: 19013267--19013309 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19013257 GTCGATTCTG
*
19013267 TAAGACCTCCGAGCATGATTTT
1 TAAGACCTCCGAGCATAATTTT
*
19013289 TAAGACCTTCGAGCATAATTT
1 TAAGACCTCCGAGCATAATTT
19013310 CGATTCGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTT
Found at i:19013372 original size:110 final size:110
Alignment explanation
Indices: 19013172--19013515 Score: 465
Period size: 110 Copynumber: 3.1 Consensus size: 110
19013162 AAGATTTTAT
* * * * * *
19013172 TGATTTCTAAGACCTCCGGGCATAATTTTGATTCGCGGTGCTATCTTGATCGA-TTCTTTATCTT
1 TGATTTTTAAGACCTTCGAGCATAATTTTGATTCGCGATGTTATCTCGATCGATTTC-TTATCTT
19013236 TCGACTTGTGATGTTATCCTAGTCGATTCTGTAAGACCTCCGAGCA
65 TCGACTTGTGATGTTATCCTAGTCGATTCTGTAAGACCTCCGAGCA
* * *
19013282 TGATTTTTAAGACCTTCGAGCATAATTTCGATTCGCGATGTTATCCCGATTGATTTCTTATCTTT
1 TGATTTTTAAGACCTTCGAGCATAATTTTGATTCGCGATGTTATCTCGATCGATTTCTTATCTTT
* * * *
19013347 CGACTTGCGATGTTATCCCAATCGATTCTGTAAGACCTACGAGCA
66 CGACTTGTGATGTTATCCTAGTCGATTCTGTAAGACCTCCGAGCA
* * * *
19013392 TGATTTTTAAGACTTTCGATCATAATTTTAATTCGCGATGTTATCTCGATCAATTTCTTATCTTT
1 TGATTTTTAAGACCTTCGAGCATAATTTTGATTCGCGATGTTATCTCGATCGATTTCTTATCTTT
** * *
19013457 CGACTCATGATGTTATCCTAGTTGATTCTGTAAGACCTCCGGGCA
66 CGACTTGTGATGTTATCCTAGTCGATTCTGTAAGACCTCCGAGCA
*
19013502 TGATTCTATAAGAC
1 TGATT-TTTAAGAC
19013516 GTCCGGACAT
Statistics
Matches: 203, Mismatches: 29, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
110 193 0.95
111 10 0.05
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (110 bp):
TGATTTTTAAGACCTTCGAGCATAATTTTGATTCGCGATGTTATCTCGATCGATTTCTTATCTTT
CGACTTGTGATGTTATCCTAGTCGATTCTGTAAGACCTCCGAGCA
Found at i:19013513 original size:23 final size:23
Alignment explanation
Indices: 19013479--19013547 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
19013469 TTATCCTAGT
* *
19013479 TGATTCTGTAAGACCTCCGGGCA
1 TGATTCTATAAGACCTCCGGACA
*
19013502 TGATTCTATAAGACGTCCGGACA
1 TGATTCTATAAGACCTCCGGACA
* * *
19013525 TGATT-TCTAAGACTTCCAGACA
1 TGATTCTATAAGACCTCCGGACA
19013547 T
1 T
19013548 AATTTTGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 15 0.38
23 25 0.62
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (23 bp):
TGATTCTATAAGACCTCCGGACA
Found at i:19013546 original size:22 final size:22
Alignment explanation
Indices: 19013500--19013552 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
19013490 GACCTCCGGG
*
19013500 CATGATTCTATAAGACGTCCGGA
1 CATGATT-TATAAGACGTCCAGA
* *
19013523 CATGATTTCTAAGACTTCCAGA
1 CATGATTTATAAGACGTCCAGA
*
19013545 CATAATTT
1 CATGATTT
19013553 TGATTCGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (22 bp):
CATGATTTATAAGACGTCCAGA
Found at i:19013612 original size:133 final size:133
Alignment explanation
Indices: 19013390--19013639 Score: 317
Period size: 133 Copynumber: 1.9 Consensus size: 133
19013380 GACCTACGAG
* * **
19013390 CATGATTTTTAAGACTTTCGATCATAATTTTAATTCGCGATGTTATCTCGATCAATTTCTTATCT
1 CATGATTTCTAAGACTTCCGATCATAATTTTAATTCGAAATGTTATCTCGATCAATTTCTTATCT
*
19013455 TTCGACTCATGATGTTATCCTAGTTGATTCTGTAAGACCTCCGGGCATGATTCTATAAGACGTCC
66 TTCGACTCATGATGTTATCCTAGTTGATTATGTAAGACCTCCGGGCATGATTCTATAAGACGTCC
19013520 GGA
131 GGA
* * *
19013523 CATGATTTCTAAGACTTCCAGA-CATAATTTTGATTCGAAATGTTATC-CTGATCGATTTTTTAT
1 CATGATTTCTAAGACTTCC-GATCATAATTTTAATTCGAAATGTTATCTC-GATCAATTTCTTAT
** * * ** *
19013586 CTTTC-AGCTTGTGGTGTTATCTTAGTTGATTATGTAAGATTTTCGGGCATGATT
64 CTTTCGA-CTCATGATGTTATCCTAGTTGATTATGTAAGACCTCCGGGCATGATT
19013640 TCTAAGATCT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
132 2 0.02
133 95 0.96
134 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (133 bp):
CATGATTTCTAAGACTTCCGATCATAATTTTAATTCGAAATGTTATCTCGATCAATTTCTTATCT
TTCGACTCATGATGTTATCCTAGTTGATTATGTAAGACCTCCGGGCATGATTCTATAAGACGTCC
GGA
Found at i:19013767 original size:22 final size:23
Alignment explanation
Indices: 19013723--19013774 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
19013713 TGTTTCAGTC
19013723 GATTTTATAAGACCTCCGAGCAT
1 GATTTTATAAGACCTCCGAGCAT
*
19013746 GATTTT-TTAGACCTCC-AGGCAT
1 GATTTTATAAGACCTCCGA-GCAT
*
19013768 AATTTTA
1 GATTTTA
19013775 ATTTACGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (23 bp):
GATTTTATAAGACCTCCGAGCAT
Found at i:19013824 original size:353 final size:353
Alignment explanation
Indices: 19013172--19014189 Score: 845
Period size: 353 Copynumber: 2.9 Consensus size: 353
19013162 AAGATTTTAT
* * *** *
19013172 TGATTTCTAAGACCTCCGGGCATAATTTTGATTCGCGGTGCTATCTTGATCGATTCTTTATCTTT
1 TGATTTCTAAGACCTCCAGACATAATTTTGATTCGAAATGCTATCCTGATCGATTCTTTATCTTT
* * *
19013237 CGACTTGTGATGTTATCCTAGTCGATTCTGTAAGACCTCCGAGCATGATTTTTAAGACCTTCGAG
66 CGACTTGTGATGTTATCCTAGTCGATTATGTAAGACCTCCGAGCATGATTTCTAAGACCTGCGAG
** * * *
19013302 CATAATTTCGATTCGCGATGTTATCCCGATTGATTTCTTATCTTTCGACTTGCGATGTTATCCCA
131 CATAATTTCGATTCGCGACATTATCCCGATTAATTTCTTATCTTTCGACTTACGATATTATCCCA
* * * * *
19013367 ATCGATTCTGTAAGACCTACGAGCATGATTTTTAAGACTTTCGATCATAATTTTAATTCGCGATG
196 ATCGATTCTATAAGACCTACGAGCATGATTTTTAAGACCTCCGAGCATAATTTTAATTCACGATG
* * * *
19013432 TTATCTCGATCAATTTCTTATCTTTCGACTCATGATGTTATC-CTAGTTGATTCTGTAAGACCTC
261 TTATCTCGATCAATTCCTTATCTTTCAACTCACGATGTTATCTC-AGTCGATTCTGTAAGACCTC
19013496 CGGGCATGATTCTATAAGACGTCCGGACA
325 CGGGCATGATTCTATAAGACGTCCGGACA
* * *
19013525 TGATTTCTAAGACTTCCAGACATAATTTTGATTCGAAATGTTATCCTGATCGATTTTTTATCTTT
1 TGATTTCTAAGACCTCCAGACATAATTTTGATTCGAAATGCTATCCTGATCGATTCTTTATCTTT
* * * ** * * * *
19013590 C-AGCTTGTGGTGTTATCTTAGTTGATTATGTAAGATTTTCGGGCATGATTTCTAAGATCTGCGG
66 CGA-CTTGTGATGTTATCCTAGTCGATTATGTAAGACCTCCGAGCATGATTTCTAAGACCTGCGA
* * * * * * * **
19013654 GCATAAATTT-GATTCGTGACATTATCTCGATTAATTTTTTATTTTTTGACTTACGGTATTGTTT
130 GCAT-AATTTCGATTCGCGACATTATCCCGATTAATTTCTTATCTTTCGACTTACGATATTATCC
* * * * *
19013718 CAGTCGATTTTATAAGACCTCCGAGCATGATTTTTTAGACCTCC-AGGCATAATTTTAATTTACG
194 CAATCGATTCTATAAGACCTACGAGCATGATTTTTAAGACCTCCGA-GCATAATTTTAATTCACG
* * * *
19013782 GTGTTATCTCGATCGATTCCTTATCTTTCAATTTACGATGTTATCTCAGTCGATTCTGTAAGACC
258 ATGTTATCTCGATCAATTCCTTATCTTTCAACTCACGATGTTATCTCAGTCGATTCTGTAAGACC
** * *
19013847 T-CTAGCATGATT-TTTAAGACCTCCAGG-CA
323 TCCGGGCATGATTCTATAAGACGTCC-GGACA
* * * *
19013876 TAATTTC--A-A--TTC--AC--------GA-T----AT--TATTCTGATCGATTCATTATCTTT
1 TGATTTCTAAGACCTCCAGACATAATTTTGATTCGAAATGCTATCCTGATCGATTCTTTATCTTT
* * * * * * *
19013919 CGACTCGCGATGTTATCCTAGTCGATTCTGTAAGACCTTCGAACATGATTTTTAAGACCT-CCAG
66 CGACTTGTGATGTTATCCTAGTCGATTATGTAAGACCTCCGAGCATGATTTCTAAGACCTGCGA-
* ** ** ** * * ** *
19013983 GCATAATTTCAATTCATGATGTTATCCCGATCGATTTTTTATCTTTCTACTTGTGATGTTATCCC
130 GCATAATTTCGATTCGCGACATTATCCCGATTAATTTCTTATCTTTCGACTTACGATATTATCCC
* * * * * * * * * *
19014048 AATCGATTCTGTAAGACCTCCGAGTATGATTTCTAAGATCTTCGAGTATAATTTTGATTCGCGGT
195 AATCGATTCTATAAGACCTACGAGCATGATTTTTAAGACCTCCGAGCATAATTTTAATTCACGAT
* * * ** * *** *
19014113 ATTATCCCGATCGATTTTTTTATCTTTCGACTCGTAATGTTATCTCAATCGATTCTGTAAGACCT
260 GTTATCTCGATC-AATTCCTTATCTTTCAACTCACGATGTTATCTCAGTCGATTCTGTAAGACCT
* *
19014178 TCGAGCATGATT
324 CCGGGCATGATT
19014190 TCTAAGATCT
Statistics
Matches: 535, Mismatches: 119, Indels: 44
0.77 0.17 0.06
Matches are distributed among these distances:
328 6 0.01
329 170 0.32
330 43 0.08
331 12 0.02
335 1 0.00
336 2 0.00
344 2 0.00
346 2 0.00
348 1 0.00
349 1 0.00
351 18 0.03
352 13 0.02
353 258 0.48
354 6 0.01
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (353 bp):
TGATTTCTAAGACCTCCAGACATAATTTTGATTCGAAATGCTATCCTGATCGATTCTTTATCTTT
CGACTTGTGATGTTATCCTAGTCGATTATGTAAGACCTCCGAGCATGATTTCTAAGACCTGCGAG
CATAATTTCGATTCGCGACATTATCCCGATTAATTTCTTATCTTTCGACTTACGATATTATCCCA
ATCGATTCTATAAGACCTACGAGCATGATTTTTAAGACCTCCGAGCATAATTTTAATTCACGATG
TTATCTCGATCAATTCCTTATCTTTCAACTCACGATGTTATCTCAGTCGATTCTGTAAGACCTCC
GGGCATGATTCTATAAGACGTCCGGACA
Found at i:19013876 original size:22 final size:21
Alignment explanation
Indices: 19013840--19013881 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19013830 GTCGATTCTG
* *
19013840 TAAGACCTCTAGCATGATTTT
1 TAAGACCTCCAGCATAATTTT
19013861 TAAGACCTCCAGGCATAATTT
1 TAAGACCTCCA-GCATAATTT
19013882 CAATTCACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (21 bp):
TAAGACCTCCAGCATAATTTT
Found at i:19013979 original size:219 final size:221
Alignment explanation
Indices: 19013523--19014284 Score: 703
Period size: 219 Copynumber: 3.5 Consensus size: 221
19013513 GACGTCCGGA
* * * * ** * *
19013523 CATGATTTCTAAGACTTCCAGACATAATTTTGATTCGA-AATGTTATCCTGATCGATTTTTTATC
1 CATGATTTTTAAGACCTCCAGGCATAATTTTAATTC-ATGGTGTTATCCCGATCGATTCTTTATC
* * ** * * ** * * * *
19013587 TTTCAGCTTGTGGTGTTATCTTAGTTGATTATGTAAGATTTTCGGGCATGATTTCTAAGATCTGC
65 TTTCAACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCC
* * ** * * ** * * * ** ** * *
19013652 GGGCATAAATTT-GATTCGTGACATTATCTCGATTAATTT-TTTATTTTTTGACTTACGGTATTG
130 GAGCAT-AATTTCAATTCACGATATTATCCCGATCGATTTCATTATCTTTCGACTCGCAATGTTA
* * * *
19013715 TTTCAGTCGATTTTATAAGACCTCCGAG
194 TCTCAGTCGATTCTGTAAGACCTTCGAG
* * * * *
19013743 CATGATTTTTTAGACCTCCAGGCATAATTTTAATTTACGGTGTTATCTCGATCGATTCCTTATCT
1 CATGATTTTTAAGACCTCCAGGCATAATTTTAATTCATGGTGTTATCCCGATCGATTCTTTATCT
* ** * * *
19013808 TTCAATTTACGATGTTATCTCAGTCGATTCTGTAAGACCT-CTAGCATGATTTTTAAGACCTCC-
66 TTCAACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCCG
* * *
19013871 AGGCATAATTTCAATTCACGATATTATTCTGATCGA-TTCATTATCTTTCGACTCGCGATGTTAT
131 A-GCATAATTTCAATTCACGATATTATCCCGATCGATTTCATTATCTTTCGACTCGCAATGTTAT
*
19013935 C-CTAGTCGATTCTGTAAGACCTTCGAA
195 CTC-AGTCGATTCTGTAAGACCTTCGAG
* * *
19013962 CATGATTTTTAAGACCTCCAGGCATAATTTCAATTCATGATGTTATCCCGATCGATTTTTTATCT
1 CATGATTTTTAAGACCTCCAGGCATAATTTTAATTCATGGTGTTATCCCGATCGATTCTTTATCT
* * * * *
19014027 TTCTACTTGTGATGTTATCCCAATCGATTCTGTAAGACCTCCGAGTATGATTTCTAAGATCTTCG
66 TTCAACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCCG
* ** * * ** *
19014092 AGTATAATTTTGATTCGCGGTATTATCCCGATCGATTTTTTTATCTTTCGACTCGTAATGTTATC
131 AGCATAATTTCAATTCACGATATTATCCCGATCGATTTCATTATCTTTCGACTCGCAATGTTATC
*
19014157 TCAATCGATTCTGTAAGACCTTCGAG
196 TCAGTCGATTCTGTAAGACCTTCGAG
* * * * * *
19014183 CATGATTTCTAAGATCTCCGGGCATAATTTTGATTCGTGGTGTTATCCCGATTGATTCTTTATCT
1 CATGATTTTTAAGACCTCCAGGCATAATTTTAATTCATGGTGTTATCCCGATCGATTCTTTATCT
*
19014248 TT-AGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGA
66 TTCA-ACTTGTGATGTTATCCCAGTCGATTCTGTAAGA
19014285 TTTTCAAGTA
Statistics
Matches: 438, Mismatches: 94, Indels: 19
0.79 0.17 0.03
Matches are distributed among these distances:
218 8 0.02
219 166 0.38
220 126 0.29
221 137 0.31
222 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (221 bp):
CATGATTTTTAAGACCTCCAGGCATAATTTTAATTCATGGTGTTATCCCGATCGATTCTTTATCT
TTCAACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCCG
AGCATAATTTCAATTCACGATATTATCCCGATCGATTTCATTATCTTTCGACTCGCAATGTTATC
TCAGTCGATTCTGTAAGACCTTCGAG
Found at i:19014084 original size:22 final size:22
Alignment explanation
Indices: 19014059--19014101 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19014049 ATCGATTCTG
*
19014059 TAAGACCTCCGAGTATGATTTC
1 TAAGACCTCCGAGTATAATTTC
* *
19014081 TAAGATCTTCGAGTATAATTT
1 TAAGACCTCCGAGTATAATTT
19014102 TGATTCGCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (22 bp):
TAAGACCTCCGAGTATAATTTC
Found at i:19014176 original size:111 final size:110
Alignment explanation
Indices: 19013523--19014284 Score: 597
Period size: 110 Copynumber: 6.9 Consensus size: 110
19013513 GACGTCCGGA
* * ** * * * *
19013523 CATGATTTCTAAGACTTCCAGACATAATTTTGATTCGA-AATGTTATCCTGATCGATTTTTTATC
1 CATGATTTCTAAGACCTCCAGGCATAATTTCAATTC-ACGATATTATCCCGATCGATTCTTTATC
* * ** * * ** *
19013587 TTTC-AGCTTGTGGTGTTATCTTAGTTGATTATGTAAGATTTTCGGG
65 TTTCGA-CTCGTGATGTTATCCCAGTCGATTCTGTAAGACCTTCGAG
* * * * ** * * ** * *
19013633 CATGATTTCTAAGATCTGCGGGCATAAATTT-GATTCGTGACATTATCTCGATTAATTTTTTATT
1 CATGATTTCTAAGACCTCCAGGCAT-AATTTCAATTCACGATATTATCCCGATCGATTCTTTATC
* * * *
19013697 TTTTGACTTACG-GTATTGTT-T--CAGTCGATTTTATAAGACCTCCGAG
65 TTTCGAC-T-CGTG-A-TGTTATCCCAGTCGATTCTGTAAGACCTTCGAG
* * * * * * * *
19013743 CATGATTTTTTAGACCTCCAGGCATAATTTTAATTTACGGTGTTATCTCGATCGATTCCTTATCT
1 CATGATTTCTAAGACCTCCAGGCATAATTTCAATTCACGATATTATCCCGATCGATTCTTTATCT
* * *** * *
19013808 TTCAATTTACGATGTTATCTCAGTCGATTCTGTAAGACC-TCTAG
66 TTCGACTCGTGATGTTATCCCAGTCGATTCTGTAAGACCTTCGAG
* * * *
19013852 CATGATTTTTAAGACCTCCAGGCATAATTTCAATTCACGATATTATTCTGATCGATTCATTATCT
1 CATGATTTCTAAGACCTCCAGGCATAATTTCAATTCACGATATTATCCCGATCGATTCTTTATCT
* * *
19013917 TTCGACTCGCGATGTTATCCTAGTCGATTCTGTAAGACCTTCGAA
66 TTCGACTCGTGATGTTATCCCAGTCGATTCTGTAAGACCTTCGAG
* * * *
19013962 CATGATTTTTAAGACCTCCAGGCATAATTTCAATTCATGATGTTATCCCGATCGATTTTTTATCT
1 CATGATTTCTAAGACCTCCAGGCATAATTTCAATTCACGATATTATCCCGATCGATTCTTTATCT
* * * *
19014027 TTCTACTTGTGATGTTATCCCAATCGATTCTGTAAGACCTCCGAG
66 TTCGACTCGTGATGTTATCCCAGTCGATTCTGTAAGACCTTCGAG
* * * * ** * * *
19014072 TATGATTTCTAAGATCTTC-GAGTATAATTTTGATTCGCGGTATTATCCCGATCGATTTTTTTAT
1 CATGATTTCTAAGACCTCCAG-GCATAATTTCAATTCACGATATTATCCCGATCGA-TTCTTTAT
* * *
19014136 CTTTCGACTCGTAATGTTATCTCAATCGATTCTGTAAGACCTTCGAG
64 CTTTCGACTCGTGATGTTATCCCAGTCGATTCTGTAAGACCTTCGAG
* * ** ** * * *
19014183 CATGATTTCTAAGATCTCCGGGCATAATTTTGATTCGTGGTGTTATCCCGATTGATTCTTTATCT
1 CATGATTTCTAAGACCTCCAGGCATAATTTCAATTCACGATATTATCCCGATCGATTCTTTATCT
* * *
19014248 TTAGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGA
66 TTCGACTCGTGATGTTATCCCAGTCGATTCTGTAAGA
19014285 TTTTCAAGTA
Statistics
Matches: 526, Mismatches: 110, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
107 4 0.01
108 2 0.00
109 100 0.19
110 308 0.59
111 105 0.20
112 3 0.01
113 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (110 bp):
CATGATTTCTAAGACCTCCAGGCATAATTTCAATTCACGATATTATCCCGATCGATTCTTTATCT
TTCGACTCGTGATGTTATCCCAGTCGATTCTGTAAGACCTTCGAG
Found at i:19014702 original size:102 final size:102
Alignment explanation
Indices: 19014576--19014915 Score: 432
Period size: 102 Copynumber: 3.3 Consensus size: 102
19014566 TTCAATGTTG
* * *
19014576 ATCTCTTTAA-TTCAAATCGCAGTTTAATCTCGATTGTTATTATTTTTTGACTCATGGTTTAATC
1 ATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTATTATTTTTTGACTCGTGGTTTAATC
* *
19014640 CTGATCTCTTTATTCTTCGATTCACGGTTCAATCCCA
66 CTGATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
* **
19014677 ATATCTTTAATTTAAAATCGTAGTTTAATCTCGATTGTTATTATTTTTTGACTCGTGGTTTAATC
1 ATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTATTATTTTTTGACTCGTGGTTTAATC
* * ** * *
19014742 CCGATCTTTTTATTCTTTGATTCGTGGTTCAATTTCG
66 CTGATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
* ** * * * * *
19014779 ATCTCTTTAATTTAAAATCATAGTTTAATCTTTATTGTTGTTGTTATCATCTGACTTGTGATTTA
1 ATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTATTATT-T--TTTGACTCGTGGTTTA
19014844 AT-CTCGATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
63 ATCCT-GATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
19014884 ATCTCTTTAATTTAAAATCACAGTTTAATCTC
1 ATCTCTTTAATTTAAAATCACAGTTTAATCTC
19014916 AATTATTGTT
Statistics
Matches: 205, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
101 9 0.04
102 119 0.58
103 1 0.00
104 1 0.00
105 75 0.37
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (102 bp):
ATCTCTTTAATTTAAAATCACAGTTTAATCTCGATTGTTATTATTTTTTGACTCGTGGTTTAATC
CTGATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
Found at i:19014761 original size:34 final size:33
Alignment explanation
Indices: 19014597--19014770 Score: 98
Period size: 34 Copynumber: 5.1 Consensus size: 33
19014587 TCAAATCGCA
* * *
19014597 GTTTAATCTCGATTGTTATTATTTTTTGACTCATG
1 GTTTAATCCCGATT-TT-TTATTCTTTGACTCGTG
* * * * **
19014632 GTTTAATCCTGATCTCTTTATTCTTCGATTCACG
1 GTTTAATCCCGAT-TTTTTATTCTTTGACTCGTG
* * * * ** * *
19014666 GTTCAATCCCAATATCTTTAAT-TTAAAATCGTA
1 GTTTAATCCCGAT-TTTTTATTCTTTGACTCGTG
* *
19014699 GTTTAATCTCGATTGTTATTATTTTTTGACTCGTG
1 GTTTAATCCCGATT-TT-TTATTCTTTGACTCGTG
*
19014734 GTTTAATCCCGATCTTTTTATTCTTTGATTCGTG
1 GTTTAATCCCGAT-TTTTTATTCTTTGACTCGTG
19014768 GTT
1 GTT
19014771 CAATTTCGAT
Statistics
Matches: 104, Mismatches: 30, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
32 1 0.01
33 16 0.15
34 52 0.50
35 33 0.32
36 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (33 bp):
GTTTAATCCCGATTTTTTATTCTTTGACTCGTG
Found at i:19014876 original size:105 final size:105
Alignment explanation
Indices: 19014576--19014965 Score: 420
Period size: 102 Copynumber: 3.8 Consensus size: 105
19014566 TTCAATGTTG
* ** * * * * *
19014576 ATCTCTTTAA-TTCAAATCGCAGTTTAATCTCGATTGTTATTATT-T--TTTGACTCATGGTTTA
1 ATCTCTTTAATTTAAAATCATAGTTTAATCTCAATTGTTGTTATTATCATCTGACTCGTGATTTA
* *
19014637 ATC-CTGATCTCTTTATTCTTCGATTCACGGTTCAATCCCA
66 ATCTC-GATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
* * * * * *
19014677 ATATCTTTAATTTAAAATCGTAGTTTAATCTCGATTGTTATTATT-T--TTTGACTCGTGGTTTA
1 ATCTCTTTAATTTAAAATCATAGTTTAATCTCAATTGTTGTTATTATCATCTGACTCGTGATTTA
* * ** * *
19014739 ATCCCGATCTTTTTATTCTTTGATTCGTGGTTCAATTTCG
66 ATCTCGATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
** * *
19014779 ATCTCTTTAATTTAAAATCATAGTTTAATCTTTATTGTTGTTGTTATCATCTGACTTGTGATTTA
1 ATCTCTTTAATTTAAAATCATAGTTTAATCTCAATTGTTGTTATTATCATCTGACTCGTGATTTA
19014844 ATCTCGATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
66 ATCTCGATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
* * *
19014884 ATCTCTTTAATTTAAAATCACAGTTTAATCTCAATTATTGTTATTAACCA-CTGACTCGTGATTT
1 ATCTCTTTAATTTAAAATCATAGTTTAATCTCAATTGTTGTTATT-ATCATCTGACTCGTGATTT
* *
19014948 ATTCTCGGTCTTTTTATT
65 AATCTCGATCTTTTTATT
19014966 TTTTGACTTG
Statistics
Matches: 248, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
101 9 0.04
102 118 0.48
103 2 0.01
105 116 0.47
106 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (105 bp):
ATCTCTTTAATTTAAAATCATAGTTTAATCTCAATTGTTGTTATTATCATCTGACTCGTGATTTA
ATCTCGATCTTTTTATTCTTCGATTCACGGTTCAATCTCA
Found at i:19014983 original size:105 final size:104
Alignment explanation
Indices: 19014560--19014985 Score: 373
Period size: 105 Copynumber: 4.1 Consensus size: 104
19014550 AATATCTAAC
* ** * ** * * **
19014560 TCGTGGTTCAATGTTGATCTCTTTAA-TTCAAATCGCAGTTTAATCTC--GATTGTTATTATTTT
1 TCGTGGTTCAATCTCAATCTCTTTAATTTAAAATCATAGTTTAATCTCATTATTGTTATTAATCA
* * * * *
19014622 TTGACTCATGGTTTAATC-CTGATCTCTTTATTCTTCGAT
66 CTGACTCGTGATTTAATCTC-GATCTTTTTATTCTTTGAT
** * * * * * **
19014661 TCACGGTTCAATCCCAATATCTTTAATTTAAAATCGTAGTTTAATCTC--GATTGTTATTATTTT
1 TCGTGGTTCAATCTCAATCTCTTTAATTTAAAATCATAGTTTAATCTCATTATTGTTATTAATCA
* * *
19014724 TTGACTCGTGGTTTAATCCCGATCTTTTTATTCTTTGAT
66 CTGACTCGTGATTTAATCTCGATCTTTTTATTCTTTGAT
* * * * *
19014763 TCGTGGTTCAATTTCGATCTCTTTAATTTAAAATCATAGTTTAATCTTTATTGTTGTTGTT-ATC
1 TCGTGGTTCAATCTCAATCTCTTTAATTTAAAATCATAGTTTAATC-TCATTATTGTTATTAATC
* *
19014827 ATCTGACTTGTGATTTAATCTCGATCTTTTTATTCTTCGAT
65 A-CTGACTCGTGATTTAATCTCGATCTTTTTATTCTTTGAT
** * *
19014868 TCACGGTTCAATCTCAATCTCTTTAATTTAAAATCACAGTTTAATCTCAATTATTGTTATTAACC
1 TCGTGGTTCAATCTCAATCTCTTTAATTTAAAATCATAGTTTAATCTC-ATTATTGTTATTAATC
* * *
19014933 ACTGACTCGTGATTTATTCTCGGTCTTTTTATTTTTTGACT
65 ACTGACTCGTGATTTAATCTCGATCTTTTTATTCTTTGA-T
*
19014974 T-GTGATTCAATC
1 TCGTGGTTCAATC
19014986 CAAGTTAACA
Statistics
Matches: 268, Mismatches: 48, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
101 19 0.07
102 107 0.40
103 2 0.01
104 2 0.01
105 133 0.50
106 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (104 bp):
TCGTGGTTCAATCTCAATCTCTTTAATTTAAAATCATAGTTTAATCTCATTATTGTTATTAATCA
CTGACTCGTGATTTAATCTCGATCTTTTTATTCTTTGAT
Found at i:19015423 original size:25 final size:24
Alignment explanation
Indices: 19015395--19015450 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
19015385 ACTATTAAAA
*
19015395 TTAATAATAATAATAAATATATTTT
1 TTAAAAATAATAATAAAT-TATTTT
* *
19015420 TTAAAAATAATTATTAATTATTTT
1 TTAAAAATAATAATAAATTATTTT
*
19015444 TAAAAAA
1 TTAAAAA
19015451 AAAAGAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAAAAATAATAATAAATTATTTT
Found at i:19015451 original size:25 final size:25
Alignment explanation
Indices: 19015400--19015450 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
19015390 TAAAATTAAT
*
19015400 AATAATAATAAATATATTTTTTAAA
1 AATAATAATAAATATATTTTTAAAA
* *
19015425 AATAATTATTAAT-TATTTTTAAAA
1 AATAATAATAAATATATTTTTAAAA
19015449 AA
1 AA
19015451 AAAAGAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AATAATAATAAATATATTTTTAAAA
Found at i:19017003 original size:15 final size:15
Alignment explanation
Indices: 19016965--19017016 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
19016955 CTAAAACCCC
*
19016965 TAAAATTCAAAATCCCT
1 TAAAATCCAAAAT--CT
*
19016982 TAGAATCCAAAATCT
1 TAAAATCCAAAATCT
* *
19016997 TAAAATCTAAAATTT
1 TAAAATCCAAAATCT
19017012 TAAAA
1 TAAAA
19017017 CCGAAACCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 19 0.63
17 11 0.37
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.31
Consensus pattern (15 bp):
TAAAATCCAAAATCT
Found at i:19017054 original size:30 final size:31
Alignment explanation
Indices: 19017020--19017119 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 31
19017010 TTTAAAACCG
*
19017020 AAACCCTAAAATCTTC-AAACTCTAAAATCA
1 AAACCCTAAAACCTTCAAAACTCTAAAATCA
* * *
19017050 AAACCCT-AAACCTTCTATAC-CTTAAAA-CC
1 AAACCCTAAAACCTTCAAAACTC-TAAAATCA
*
19017079 AAACCCTAAAACCCTCAAAACT-T-AAATCCA
1 AAACCCTAAAACCTTCAAAACTCTAAAAT-CA
*
19017109 AAACCTTAAAA
1 AAACCCTAAAA
19017120 TCTGAATCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
28 3 0.05
29 17 0.30
30 36 0.64
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (31 bp):
AAACCCTAAAACCTTCAAAACTCTAAAATCA
Found at i:19017083 original size:29 final size:27
Alignment explanation
Indices: 19017011--19017110 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 27
19017001 ATCTAAAATT
*
19017011 TTAAAACCGAAACCCTAAAATCTTCAAAC
1 TTAAAACC-AAACCCT-AAACCTTCAAAC
* *
19017040 TCTAAAATCAAAACCCTAAACCTTCTATACC
1 T-TAAAA-CCAAACCCTAAACCTTC-A-AAC
*
19017071 TTAAAACCAAACCCTAAAACCCTCAAAAC
1 TTAAAACCAAACCCT-AAACCTTC-AAAC
*
19017100 TTAAATCCAAA
1 TTAAAACCAAA
19017111 ACCTTAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
29 28 0.48
30 26 0.45
31 4 0.07
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (27 bp):
TTAAAACCAAACCCTAAACCTTCAAAC
Found at i:19017715 original size:20 final size:22
Alignment explanation
Indices: 19017690--19017735 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
19017680 CAATTTTCTA
19017690 TAAGGAGTGTTAT-TT-AATTT
1 TAAGGAGTGTTATGTTAAATTT
* *
19017710 TAAGGATTGTTGTGTTAAATTT
1 TAAGGAGTGTTATGTTAAATTT
19017732 TAAG
1 TAAG
19017736 CGAAAAGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 2 0.09
22 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (22 bp):
TAAGGAGTGTTATGTTAAATTT
Found at i:19018986 original size:20 final size:20
Alignment explanation
Indices: 19018942--19018986 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
19018932 ATCTAATTCT
*
19018942 AATCTCTCTATCTCTTTCTA
1 AATCTCTCTATCTCTCTCTA
* * *
19018962 CATCTGTCTTTCTCTCTCTA
1 AATCTCTCTATCTCTCTCTA
19018982 AATCT
1 AATCT
19018987 ATACTTTCTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.31, G:0.02, T:0.49
Consensus pattern (20 bp):
AATCTCTCTATCTCTCTCTA
Found at i:19019305 original size:2 final size:2
Alignment explanation
Indices: 19019298--19019328 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19019288 TTTAGGCAGT
19019298 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19019329 GTAAGCATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19025027 original size:2 final size:2
Alignment explanation
Indices: 19025020--19025046 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19025010 GCAGGGGTGC
19025020 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
19025047 AAAGGGCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19025071 original size:7 final size:7
Alignment explanation
Indices: 19025059--19025083 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19025049 AGGGCTGGCT
19025059 ATGGCAA
1 ATGGCAA
19025066 ATGGCAA
1 ATGGCAA
19025073 ATGGCAA
1 ATGGCAA
19025080 ATGG
1 ATGG
19025084 TGTCAGGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.32, T:0.16
Consensus pattern (7 bp):
ATGGCAA
Found at i:19026329 original size:2 final size:2
Alignment explanation
Indices: 19026322--19026348 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19026312 ACCCAACTTT
19026322 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19026349 GCTAGTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19032555 original size:3 final size:3
Alignment explanation
Indices: 19032547--19032577 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19032537 ACGCAAAGTG
19032547 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19032578 TTGTATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19041144 original size:22 final size:21
Alignment explanation
Indices: 19041110--19041150 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
19041100 ATTATGATTT
*
19041110 AAAATTATGTGAAATTTATTA
1 AAAATTATATGAAATTTATTA
19041131 AAAATTTATATGAAATTTAT
1 AAAA-TTATATGAAATTTAT
19041151 ATTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
AAAATTATATGAAATTTATTA
Found at i:19041978 original size:3 final size:3
Alignment explanation
Indices: 19041970--19041997 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19041960 AAGAACCATG
19041970 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19041998 ATAAACTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:19045483 original size:2 final size:2
Alignment explanation
Indices: 19045476--19045517 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
19045466 GCTGTAATAG
19045476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19045517 A
1 A
19045518 GAGTACTAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19046412 original size:2 final size:2
Alignment explanation
Indices: 19046405--19046450 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
19046395 AGAGTTGGAG
*
19046405 CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19046447 CT CT
1 CT CT
19046451 ATATATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:19056069 original size:58 final size:59
Alignment explanation
Indices: 19055963--19056075 Score: 165
Period size: 58 Copynumber: 1.9 Consensus size: 59
19055953 AGAGACGATG
* * * *
19055963 CGATTAAATATCTTTTGTGTGCAATTACACCATGATTGTTTGTGCAATAATTCGACTGC
1 CGATTAAATAACTTTTGTGTGCAATTACACCACGATTATTTGTACAATAATTCGACTGC
* *
19056022 CGATTAAATAACTTTT-TGTGTAATTACACCGCGATTATTTGTACAATAATTCGA
1 CGATTAAATAACTTTTGTGTGCAATTACACCACGATTATTTGTACAATAATTCGA
19056076 TTGAGCCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 33 0.69
59 15 0.31
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (59 bp):
CGATTAAATAACTTTTGTGTGCAATTACACCACGATTATTTGTACAATAATTCGACTGC
Found at i:19062833 original size:21 final size:20
Alignment explanation
Indices: 19062737--19062845 Score: 76
Period size: 21 Copynumber: 5.2 Consensus size: 20
19062727 TTAGTTATCA
* *
19062737 AAATTTTATAAAAGATTATT
1 AAATTATATTAAAGATTATT
* * * *
19062757 AAAATTGTTTTAATGATTATAA
1 -AAATTATATTAAAGATTAT-T
*
19062779 AAATTATATCTTAAG-TTATT
1 AAATTATAT-TAAAGATTATT
*
19062799 AAATTAATAATAAAGATTATAT
1 AAATT-ATATTAAAGATTAT-T
* *
19062821 AAATTGTATTAAAAATTATT
1 AAATTATATTAAAGATTATT
19062841 AAATT
1 AAATT
19062846 TTACTTATAT
Statistics
Matches: 68, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
20 15 0.22
21 44 0.65
22 9 0.13
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.44
Consensus pattern (20 bp):
AAATTATATTAAAGATTATT
Found at i:19062933 original size:15 final size:15
Alignment explanation
Indices: 19062906--19062949 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
19062896 AATCATAATA
19062906 TAAAA-AAATATTTAT
1 TAAAATAAA-ATTTAT
19062921 TAAAATAAAATTT-T
1 TAAAATAAAATTTAT
*
19062935 AAAAATAAAATTTAT
1 TAAAATAAAATTTAT
19062950 ACGTAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 13 0.50
15 10 0.38
16 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAATAAAATTTAT
Found at i:19062984 original size:2 final size:2
Alignment explanation
Indices: 19062979--19063006 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19062969 CCTAAAACTA
19062979 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19063007 CTAGGTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19063134 original size:2 final size:2
Alignment explanation
Indices: 19063127--19063153 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19063117 ACATATCTTT
19063127 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19063154 GCCGTCTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19064424 original size:16 final size:16
Alignment explanation
Indices: 19064399--19064431 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19064389 ACACACACAC
*
19064399 ACATATATATATATAT
1 ACATACATATATATAT
19064415 ACATACATATATATAT
1 ACATACATATATATAT
19064431 A
1 A
19064432 TGAGAGATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
ACATACATATATATAT
Found at i:19067395 original size:7 final size:7
Alignment explanation
Indices: 19067383--19067409 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19067373 AGGTGTTGCC
19067383 TTCTGAG
1 TTCTGAG
19067390 TTCTGAG
1 TTCTGAG
19067397 TTCTGAG
1 TTCTGAG
19067404 TTCTGA
1 TTCTGA
19067410 CTGGCCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (7 bp):
TTCTGAG
Found at i:19071143 original size:21 final size:23
Alignment explanation
Indices: 19071103--19071144 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19071093 TCTCCTTTTT
*
19071103 TTTTTTTATATGTTTCAAAATTG
1 TTTTTTTATATATTTCAAAATTG
19071126 TTTTTTTA-ATATTT-AAAAT
1 TTTTTTTATATATTTCAAAAT
19071145 ATTTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 5 0.28
23 8 0.44
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (23 bp):
TTTTTTTATATATTTCAAAATTG
Found at i:19071176 original size:19 final size:21
Alignment explanation
Indices: 19071139--19071177 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
19071129 TTTTAATATT
*
19071139 TAAAATATTTATATTTTAAAA
1 TAAAATATTTATATATTAAAA
19071160 TAAAAT-TTTA-ATATTAAA
1 TAAAATATTTATATATTAAA
19071178 TACATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAAATATTTATATATTAAAA
Found at i:19073082 original size:2 final size:2
Alignment explanation
Indices: 19073075--19073104 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19073065 ACCGAGCAAA
19073075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19073105 CGGCTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19076070 original size:5 final size:5
Alignment explanation
Indices: 19076039--19076099 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
19076029 GAAAGGAAAG
* * *
19076039 AAAAA AAAAT AAAAGA AAAAT GAAAAT GAAAT AAAAT AAAAT AAAATAT
1 AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT AAAAT -AAA-AT
19076088 AAAAT AAAAT AA
1 AAAAT AAAAT AA
19076100 TTTTTTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
5 30 0.64
6 15 0.32
7 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:19076078 original size:27 final size:27
Alignment explanation
Indices: 19076039--19076099 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
19076029 GAAAGGAAAG
*
19076039 AAAAAAAAATAAAAGAAAA-ATGAAAAT
1 AAAATAAAATAAAAGAAAATAT-AAAAT
* *
19076066 GAAATAAAATAAAATAAAATATAAAAT
1 AAAATAAAATAAAAGAAAATATAAAAT
19076093 AAAATAA
1 AAAATAA
19076100 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (27 bp):
AAAATAAAATAAAAGAAAATATAAAAT
Found at i:19076097 original size:22 final size:21
Alignment explanation
Indices: 19076039--19076099 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
19076029 GAAAGGAAAG
*
19076039 AAAAA-AAAATAAAAGAAAAAT
1 AAAAATAAAATAAAA-TAAAAT
* *
19076060 GAAAATGAAATAAAATAAAAT
1 AAAAATAAAATAAAATAAAAT
19076081 AAAATATAAAATAAAATAA
1 AAAA-ATAAAATAAAATAA
19076100 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 12 0.36
22 21 0.64
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (21 bp):
AAAAATAAAATAAAATAAAAT
Found at i:19076436 original size:94 final size:95
Alignment explanation
Indices: 19076226--19076457 Score: 276
Period size: 96 Copynumber: 2.4 Consensus size: 95
19076216 TTTAACATAG
* * * * *
19076226 TTAT-AAATATTATAATTT-AAATAAATAAAATTTTAAATTTTCTATTTTTAAAGAAGTCTTTTT
1 TTATCAAATATTATAATTTAAAATAAAT-AAATTTAAAAATTTGTA--TTTGAATAAGTCTTTTT
* *
19076289 AATTTTCAAATATAATATATATTTTAATATGTT
63 AATTTTCAAATATAATACATATTTTAATATATT
19076322 TTATCAAATATTATAATTTAAAATAAATAAATTTCAAAAATTTGTATTTGAATAAGT-TTTTCTA
1 TTATCAAATATTATAATTTAAAATAAATAAATTT-AAAAATTTGTATTTGAATAAGTCTTTT-TA
* *
19076386 ATTTTTAAATATAATACA-GTTTTAATATATT
64 ATTTTCAAATATAATACATATTTTAATATATT
** *
19076417 TTATTTAA-ATTATAGTTTAAAATAAATAAATTTAAAAATTT
1 TTATCAAATATTATAATTTAAAATAAATAAATTTAAAAATTT
19076458 TCTATTTTTA
Statistics
Matches: 120, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
93 8 0.07
94 24 0.20
95 21 0.17
96 31 0.26
97 20 0.17
98 16 0.13
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (95 bp):
TTATCAAATATTATAATTTAAAATAAATAAATTTAAAAATTTGTATTTGAATAAGTCTTTTTAAT
TTTCAAATATAATACATATTTTAATATATT
Found at i:19076464 original size:94 final size:96
Alignment explanation
Indices: 19076226--19076464 Score: 285
Period size: 94 Copynumber: 2.5 Consensus size: 96
19076216 TTTAACATAG
*
19076226 TTAT-AAATATTATAATTT-AAATAAATAAAATTT-TAAATTTTCTATTTTTAAAGAAGTCTTTT
1 TTATCAAATATTATAATTTAAAATAAAT-AAATTTAAAAATTTTCTA--TTTAAAGAAGTCTTTT
* *
19076288 TAATTTTCAAATATAATATATATTTTAATATGTT
63 TAATTTTCAAATATAATACATATTTTAATATATT
* * *
19076322 TTATCAAATATTATAATTTAAAATAAATAAATTTCAAAAA-TTTGTATTTGAATAAGT-TTTTCT
1 TTATCAAATATTATAATTTAAAATAAATAAATTT-AAAAATTTTCTATTTAAAGAAGTCTTTT-T
* *
19076385 AATTTTTAAATATAATACA-GTTTTAATATATT
64 AATTTTCAAATATAATACATATTTTAATATATT
** *
19076417 TTATTTAA-ATTATAGTTTAAAATAAATAAATTTAAAAATTTTCTATTT
1 TTATCAAATATTATAATTTAAAATAAATAAATTTAAAAATTTTCTATTT
19076465 TTAAGAAAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
93 5 0.04
94 32 0.26
95 21 0.17
96 31 0.25
97 20 0.16
98 13 0.10
99 3 0.02
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (96 bp):
TTATCAAATATTATAATTTAAAATAAATAAATTTAAAAATTTTCTATTTAAAGAAGTCTTTTTAA
TTTTCAAATATAATACATATTTTAATATATT
Found at i:19080306 original size:1 final size:1
Alignment explanation
Indices: 19080300--19080333 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
19080290 CATATAACTG
19080300 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19080334 CAAAGACTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19083155 original size:2 final size:2
Alignment explanation
Indices: 19083148--19083178 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19083138 TGGTGAGTAT
19083148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19083179 CAATTTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19084834 original size:34 final size:31
Alignment explanation
Indices: 19084769--19084834 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
19084759 AATTGTTATA
* *
19084769 TTATTAAATAATTACTTAATAAAATATAATT
1 TTATTAAATAATTACTCAATAAAATAAAATT
*
19084800 TTATTAAATAATTAAACTCATATACAATAAAATT
1 TTATTAAATAATT--ACTCA-ATAAAATAAAATT
19084834 T
1 T
19084835 AAACTTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (31 bp):
TTATTAAATAATTACTCAATAAAATAAAATT
Done.