Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 68 of 189
Found at i:18904200 original size:17 final size:18
Alignment explanation
Indices: 18904178--18904216 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18904168 ATGATTGTTT
18904178 ATTA-TTTAAAAAAATTA
1 ATTATTTTAAAAAAATTA
* *
18904195 ATTATTTTAAATAATTTA
1 ATTATTTTAAAAAAATTA
18904213 ATTA
1 ATTA
18904217 AAGTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTTTAAAAAAATTA
Found at i:18908409 original size:39 final size:40
Alignment explanation
Indices: 18908366--18908476 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
18908356 CGGATAGTTA
*
18908366 GAAGTAATAGTTGACACCCAGTGTCTCATCG-GCCTAGCC
1 GAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCC
** ** * *
18908405 GAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATCC
1 GAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCC
*
18908444 GAAGAAATA-TAGTGACACCCAGTGTCTCATCGA
1 GAAGTAATAGT--TGACACCCAGTGTCTCATCGA
18908477 CTCGAGGTCG
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 17 0.30
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (40 bp):
GAAGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCC
Found at i:18910055 original size:12 final size:12
Alignment explanation
Indices: 18910035--18910064 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
18910025 TTTCTTTTAT
18910035 ATATAATAATATA
1 ATAT-ATAATATA
18910048 ATATATAATATA
1 ATATATAATATA
18910060 ATATA
1 ATATA
18910065 ATATACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATAATATA
Found at i:18915242 original size:24 final size:24
Alignment explanation
Indices: 18915212--18915259 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18915202 AGGTATTATC
18915212 ATGTGGAATTCACTAAATAAGTTT
1 ATGTGGAATTCACTAAATAAGTTT
18915236 ATGTGGAATTCACTAAATAAGTTT
1 ATGTGGAATTCACTAAATAAGTTT
18915260 TCTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (24 bp):
ATGTGGAATTCACTAAATAAGTTT
Found at i:18921515 original size:29 final size:29
Alignment explanation
Indices: 18921483--18921651 Score: 168
Period size: 29 Copynumber: 6.0 Consensus size: 29
18921473 TCAAAGACAC
* * *
18921483 CCTTTTAACAGAGATCGCCACAAGGGCTT
1 CCTTTTAATAGAGATTGCCACAAAGGCTT
* * **
18921512 CC-TTTAACAAAGATAACCACAAAGGCTT
1 CCTTTTAATAGAGATTGCCACAAAGGCTT
*
18921540 CCTTTTAATAG-GATTTCCACAAAAGGCTT
1 CCTTTTAATAGAGATTGCCAC-AAAGGCTT
18921569 CCTTTTAATAGAGATTGCCACAAAGGCTT
1 CCTTTTAATAGAGATTGCCACAAAGGCTT
** * *
18921598 CCTTTTAATAGAGATTATCATAAAGGCGT
1 CCTTTTAATAGAGATTGCCACAAAGGCTT
* *
18921627 CC-TTT--CAGAGATAGCCACAAAGGCT
1 CCTTTTAATAGAGATTGCCACAAAGGCT
18921652 CATTTTTACG
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
26 14 0.12
28 34 0.29
29 62 0.53
30 8 0.07
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (29 bp):
CCTTTTAATAGAGATTGCCACAAAGGCTT
Found at i:18923471 original size:9 final size:9
Alignment explanation
Indices: 18923442--18923486 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
18923432 GTTTTTTTTA
18923442 TTTTAGGG-
1 TTTTAGGGT
18923450 -TTTAGGG-
1 TTTTAGGGT
18923457 TTTTAGGGT
1 TTTTAGGGT
*
18923466 TTTTAGGAT
1 TTTTAGGGT
18923475 TTTTAGGGT
1 TTTTAGGGT
18923484 TTT
1 TTT
18923487 GGAGAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 7 0.21
8 7 0.21
9 19 0.58
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:18929509 original size:25 final size:25
Alignment explanation
Indices: 18929478--18929558 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
18929468 TAGATAACCC
18929478 AATAAGATAATTGCATGTGAAAAAT
1 AATAAGATAATTGCATGTGAAAAAT
* ***
18929503 AATAAGATACTT--A---GATAACCC
1 AATAAGATAATTGCATGTGA-AAAAT
18929524 AATAAGATAATTGCATGTGAAAAAT
1 AATAAGATAATTGCATGTGAAAAAT
18929549 AATAAGATAA
1 AATAAGATAA
18929559 ATAAATAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
20 2 0.05
21 13 0.31
23 2 0.05
25 23 0.55
26 2 0.05
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (25 bp):
AATAAGATAATTGCATGTGAAAAAT
Found at i:18929517 original size:46 final size:46
Alignment explanation
Indices: 18929464--18929557 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
18929454 TTTAATTTAT
18929464 TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
1 TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
18929510 TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
1 TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
18929556 TA
1 TA
18929558 AATAAATAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.27
Consensus pattern (46 bp):
TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
Found at i:18931105 original size:32 final size:34
Alignment explanation
Indices: 18931042--18931105 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
18931032 TCTAATAATT
* *
18931042 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
18931076 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
18931106 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:18931902 original size:22 final size:21
Alignment explanation
Indices: 18931888--18931944 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
18931878 TTGTATTGAT
18931888 ATTGTTCTTGATTTGTTCTGAA
1 ATTGTT-TTGATTTGTTCTGAA
18931910 ATTGTTTTGA-TTGTCTGCTGGAA
1 ATTGTTTTGATTTGT-T-CT-GAA
18931933 ATTGTTTTGATT
1 ATTGTTTTGATT
18931945 GTCTGCTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.13
21 5 0.16
22 8 0.26
23 13 0.42
24 1 0.03
ACGTcount: A:0.18, C:0.07, G:0.21, T:0.54
Consensus pattern (21 bp):
ATTGTTTTGATTTGTTCTGAA
Found at i:18931935 original size:23 final size:23
Alignment explanation
Indices: 18931907--18931959 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
18931897 GATTTGTTCT
18931907 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
18931930 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
18931953 GAAATTG
1 GAAATTG
18931960 AATTTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:18933198 original size:48 final size:48
Alignment explanation
Indices: 18933143--18933373 Score: 435
Period size: 48 Copynumber: 4.8 Consensus size: 48
18933133 AAATAATTAC
* *
18933143 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
18933191 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
18933239 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
18933287 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
18933335 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
18933374 ATCAAGAAAT
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 181 1.00
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:18933408 original size:144 final size:142
Alignment explanation
Indices: 18933143--18933412 Score: 402
Period size: 144 Copynumber: 1.9 Consensus size: 142
18933133 AAATAATTAC
18933143 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAA
* *
18933208 GGACTTTAATATTTTATTAAAATAAGGACTAATCAATATTTAAAATAAGGACTTTAATATTTTAT
66 GGACTTTAATATTTTATTAAAATAAGGAC-AATCAATATTTAAAATAAGAAATTTAA-ATTTTAT
18933273 TAAAATAAGGACTA
129 TAAAATAAGGACTA
* * *
18933287 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTAATCAATATTTAAAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAA
* *
18933352 GGACTTTAATATTTTATTAAAAATCAA-GA-AATTTAATATTT-TAATAAAGAAATTTAAATTT
66 GGACTTTAATATTTTATT-AAAAT-AAGGACAA-TCAATATTTAAAAT-AAGAAATTTAAATTT
18933413 GGAATGTTAT
Statistics
Matches: 115, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
143 9 0.08
144 97 0.84
145 7 0.06
146 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.37
Consensus pattern (142 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAATAA
GGACTTTAATATTTTATTAAAATAAGGACAATCAATATTTAAAATAAGAAATTTAAATTTTATTA
AAATAAGGACTA
Found at i:18936987 original size:92 final size:91
Alignment explanation
Indices: 18936830--18937038 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
18936820 TTGATTTTAG
* * * *
18936830 TAAATTGATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
18936895 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
18936922 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
18936986 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
18937014 GAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
18937039 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:18937001 original size:24 final size:25
Alignment explanation
Indices: 18936966--18937013 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
18936956 TTATGAAATT
18936966 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
18936990 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
18937014 GAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:18937213 original size:15 final size:15
Alignment explanation
Indices: 18937178--18937339 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
18937168 TTAAGAATTT
*
18937178 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18937192 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18937206 TATTTAATAATAAT-
1 TATTTAATTATAATA
18937220 TATGTTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
18937234 T-TTTACTGTATCATA
1 TATTTAAT-TATAATA
*
18937249 TATTATGATT-TGAATA
1 TATT-TAATTAT-AATA
* * *
18937265 -AATTCA-TATAAGA
1 TATTTAATTATAATA
*
18937278 -ATATTAATTATTAAGA
1 TAT-TTAATTA-TAATA
* *
18937294 -ATTTTATTAAATTATA
1 TATTTAATT--ATAATA
18937310 TATTTTAATTATAATA
1 TA-TTTAATTATAATA
*
18937326 TATTTAATAATAAT
1 TATTTAATTATAAT
18937340 TATGTTTAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 35
0.68 0.11 0.21
Matches are distributed among these distances:
12 4 0.04
13 17 0.15
14 17 0.15
15 41 0.37
16 23 0.21
17 4 0.04
18 6 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:18937328 original size:16 final size:16
Alignment explanation
Indices: 18937307--18937348 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18937297 TTATTAAATT
*
18937307 ATATATTTTAATTATA
1 ATATATTTTAATAATA
18937323 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
18937338 AT-TATGTTTAA
1 ATATAT-TTTAA
18937349 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:18937330 original size:120 final size:119
Alignment explanation
Indices: 18937054--18937350 Score: 476
Period size: 119 Copynumber: 2.5 Consensus size: 119
18937044 AATTATTTTA
* * *
18937054 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCATT
*
18937118 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAATAAATTCATATAAAATATTAATTATTAAG
18937173 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTAT-ATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCATT
18937236 T-TACTGTATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATTATTAAG
65 TATA--GTATCATATATTATGATTTGAATAAATTCATATAA-AATATTAATTATTAAG
18937293 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
18937351 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
117 2 0.01
118 9 0.05
119 82 0.49
120 69 0.41
121 2 0.01
122 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCATTT
ATAGTATCATATATTATGATTTGAATAAATTCATATAAAATATTAATTATTAAG
Found at i:18937441 original size:154 final size:155
Alignment explanation
Indices: 18937282--18937595 Score: 558
Period size: 154 Copynumber: 2.0 Consensus size: 155
18937272 ATAAGAATAT
*
18937282 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
18937347 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAAT-AATA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAATA
*
18937411 ATAATTTACCAAAACAAATTTCTGC
131 ATAATTTACCAAAACAAATTTATGC
18937436 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
18937501 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAAT-A-AA
*
18937566 TAATCATTTACCAAAACAAATTTATGC
129 TAATAATTTACCAAAACAAATTTATGC
18937593 TAA
1 TAA
18937596 GGGATTCTAG
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 122 0.80
157 30 0.20
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (155 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAATA
ATAATTTACCAAAACAAATTTATGC
Found at i:18937476 original size:18 final size:17
Alignment explanation
Indices: 18937448--18937482 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18937438 ATTATTAAGA
*
18937448 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18937465 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18937483 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18937738 original size:16 final size:16
Alignment explanation
Indices: 18937717--18937752 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
18937707 GATTTGCTAT
18937717 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18937733 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18937749 TACA
1 TACA
18937753 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18942614 original size:33 final size:32
Alignment explanation
Indices: 18942570--18942636 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
18942560 GGATGTTCTG
*
18942570 TCACCGACTGTACATTTGTCTCCTTTCCCAAAT
1 TCACCGACTGTACATCTGTCTCC-TTCCCAAAT
* *
18942603 TCACCGGCTGTACATCTGTCTCCTTCTCAAAT
1 TCACCGACTGTACATCTGTCTCCTTCCCAAAT
18942635 TC
1 TC
18942637 TGATCGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 10 0.32
33 21 0.68
ACGTcount: A:0.19, C:0.34, G:0.10, T:0.36
Consensus pattern (32 bp):
TCACCGACTGTACATCTGTCTCCTTCCCAAAT
Found at i:18951829 original size:21 final size:21
Alignment explanation
Indices: 18951803--18951846 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
18951793 CAAACCTAAG
*
18951803 CCACACTTGAGACAATGAATA
1 CCACACTTGAGACAATAAATA
18951824 CCACACTTGAGACAATAAATA
1 CCACACTTGAGACAATAAATA
18951845 CC
1 CC
18951847 CTGACCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.27, G:0.11, T:0.18
Consensus pattern (21 bp):
CCACACTTGAGACAATAAATA
Found at i:18961039 original size:16 final size:15
Alignment explanation
Indices: 18961018--18961086 Score: 56
Period size: 16 Copynumber: 4.7 Consensus size: 15
18961008 TGACATACAA
18961018 GTGAATTAATCACTTT
1 GTGAATTAATCAC-TT
18961034 GTGAATTAATCA-TT
1 GTGAATTAATCACTT
* **
18961048 GAT-AAAT-AT-ACAA
1 G-TGAATTAATCACTT
18961061 GTGAATTAATCACTTT
1 GTGAATTAATCAC-TT
18961077 GTGAATTAAT
1 GTGAATTAAT
18961087 TATTTCTTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
12 2 0.05
13 6 0.15
14 8 0.20
15 3 0.07
16 22 0.54
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (15 bp):
GTGAATTAATCACTT
Found at i:18962075 original size:20 final size:19
Alignment explanation
Indices: 18962050--18962132 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 19
18962040 ATTCCAAAAA
*
18962050 TAATATTATTTTAATAGCTT
1 TAATATTAATTTAATAG-TT
18962070 TAATATTAAATTT-A-A-TT
1 TAATATT-AATTTAATAGTT
*
18962087 TAATACTT-ATCTTCATAGTTT
1 TAATA-TTAAT-TTAATAG-TT
18962108 TAATATTAATTTAATAGATT
1 TAATATTAATTTAATAG-TT
18962128 TAATA
1 TAATA
18962133 GTAAAGTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
16 2 0.04
17 9 0.17
18 3 0.06
19 2 0.04
20 23 0.44
21 13 0.25
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.52
Consensus pattern (19 bp):
TAATATTAATTTAATAGTT
Found at i:18962110 original size:38 final size:36
Alignment explanation
Indices: 18962050--18962122 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 36
18962040 ATTCCAAAAA
*
18962050 TAATATTATTTTAATAGCTTTAATATTAAATTTAATT
1 TAATATTATCTTAATAGCTTTAATATT-AATTTAATT
* *
18962087 TAATACTTATCTTCATAGTTTTAATATTAATTTAAT
1 TAATA-TTATCTTAATAGCTTTAATATTAATTTAAT
18962123 AGATTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 13 0.41
38 19 0.59
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGCTTTAATATTAATTTAATT
Found at i:18962172 original size:58 final size:58
Alignment explanation
Indices: 18962050--18962181 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
18962040 ATTCCAAAAA
* * * * * *
18962050 TAATATTATTTTAATAGCTTTAATATTAAATTTAATTTAATACTTATCTTCATAGTTT
1 TAATATTAATTTAATAGATTTAATAGTAAAGTTAATCTAATACTTATCTTCATAGTAT
* *
18962108 TAATATTAATTTAATAGATTTAATAGTAAAGTTAATCTAATATTTATCTTGATAAGTAT
1 TAATATTAATTTAATAGATTTAATAGTAAAGTTAATCTAATACTTATCTTCAT-AGTAT
*
18962167 T-ATATTAATTCAATA
1 TAATATTAATTTAATA
18962182 TTAAAGTGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 59 0.92
59 5 0.08
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (58 bp):
TAATATTAATTTAATAGATTTAATAGTAAAGTTAATCTAATACTTATCTTCATAGTAT
Found at i:18966490 original size:19 final size:19
Alignment explanation
Indices: 18966466--18966503 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18966456 GTAATTGAAC
18966466 TTGAAAATTGGACCTGAGA
1 TTGAAAATTGGACCTGAGA
18966485 TTGAAAATTGGACCTGAGA
1 TTGAAAATTGGACCTGAGA
18966504 ACCCAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (19 bp):
TTGAAAATTGGACCTGAGA
Found at i:18966970 original size:58 final size:58
Alignment explanation
Indices: 18966836--18966977 Score: 132
Period size: 58 Copynumber: 2.4 Consensus size: 58
18966826 TTTTAATAGT
* * * *
18966836 TTTAAT-ATTTAAT-TT-AATTTAATTTAATATTTATCTTATAGATAAATATTCTGTTAA
1 TTTAATAATTAAATATTAAATTTAATCTAATATTTATC-T-TAGATAAATATTATATTAA
* * *
18966893 TTTAATAGATTTAATATTAAATTTAATCTAATATTTATC-TCGATAAGTATTATATTAA
1 TTTAATA-ATTAAATATTAAATTTAATCTAATATTTATCTTAGATAAATATTATATTAA
*
18966951 TTTAAT-ATTAAATTGATTAAGTTTAAT
1 TTTAATAATTAAA-T-ATTAAATTTAAT
18966978 AATAGTTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
56 5 0.07
57 7 0.10
58 32 0.44
59 7 0.10
60 2 0.03
61 19 0.26
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (58 bp):
TTTAATAATTAAATATTAAATTTAATCTAATATTTATCTTAGATAAATATTATATTAA
Found at i:18968530 original size:19 final size:18
Alignment explanation
Indices: 18968498--18968543 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
18968488 TAGATAGTTT
*
18968498 ATTAATTAAGTAATCCTA
1 ATTAATTAAGTAATCATA
*
18968516 ATTAACTTAATTAATCATA
1 ATTAA-TTAAGTAATCATA
*
18968535 ATTTATTAA
1 ATTAATTAA
18968544 CAATGGATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAATTAAGTAATCATA
Found at i:18977163 original size:25 final size:25
Alignment explanation
Indices: 18977118--18977167 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18977108 TCTGTATTTT
*
18977118 TTTTTTGAAAATTTATTATTTTTAA
1 TTTTTTGAAAATTTATAATTTTTAA
*
18977143 TTTTTT-ATAATTTATAAATTTTTAA
1 TTTTTTGAAAATTTAT-AATTTTTAA
18977168 AACTGTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTTTGAAAATTTATAATTTTTAA
Found at i:18990394 original size:45 final size:44
Alignment explanation
Indices: 18990328--18990432 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 44
18990318 ATGACAAAGA
18990328 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACA-AAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAAA-AG-GAAGG
* * *
18990374 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAAAAGGAAGG
18990418 AAGGAAAGAAAGAAA
1 AA-GAAAGAAAGAAA
18990433 GAAAAGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
44 6 0.11
45 39 0.74
46 8 0.15
ACGTcount: A:0.65, C:0.09, G:0.27, T:0.00
Consensus pattern (44 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAAAAGGAAGG
Found at i:18991183 original size:29 final size:30
Alignment explanation
Indices: 18991124--18991181 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
18991114 TCCGAGCCTT
*
18991124 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
18991154 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
18991182 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:18991411 original size:13 final size:13
Alignment explanation
Indices: 18991393--18991424 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18991383 TTTCCAGCAA
18991393 TTATGAATTTATT
1 TTATGAATTTATT
18991406 TTATGAATTTATT
1 TTATGAATTTATT
*
18991419 TGATGA
1 TTATGA
18991425 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:18991632 original size:50 final size:50
Alignment explanation
Indices: 18991519--18991760 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
18991509 ATTTGGGTAA
* * *
18991519 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
18991575 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18991625 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18991675 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
18991725 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
18991761 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:18991708 original size:100 final size:103
Alignment explanation
Indices: 18991519--18991768 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
18991509 ATTTGGGTAA
18991519 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
18991584 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
18991625 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
18991687 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
18991725 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18991769 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:18993663 original size:12 final size:12
Alignment explanation
Indices: 18993646--18993670 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18993636 CATGTTATGT
18993646 GTATATATATAA
1 GTATATATATAA
18993658 GTATATATATAA
1 GTATATATATAA
18993670 G
1 G
18993671 AGTCAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (12 bp):
GTATATATATAA
Found at i:18994115 original size:13 final size:13
Alignment explanation
Indices: 18994097--18994124 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18994087 TGATCTCTTC
18994097 TGGGTATTCTATA
1 TGGGTATTCTATA
18994110 TGGGTATTCTATA
1 TGGGTATTCTATA
18994123 TG
1 TG
18994125 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:18996035 original size:9 final size:9
Alignment explanation
Indices: 18996021--18996092 Score: 62
Period size: 9 Copynumber: 8.0 Consensus size: 9
18996011 TTCTAGTTAA
18996021 TATATATAT
1 TATATATAT
18996030 TATATATAT
1 TATATATAT
18996039 GTA-AGTA-AT
1 -TATA-TATAT
*
18996048 GAT-TATTAT
1 TATATA-TAT
*
18996057 TA-ATATTT
1 TATATATAT
18996065 TATATTATAT
1 TATA-TATAT
18996075 TATATATAT
1 TATATATAT
18996084 TATATATAT
1 TATATATAT
18996093 GACAAAGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
7 2 0.04
8 5 0.10
9 32 0.63
10 12 0.24
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (9 bp):
TATATATAT
Found at i:18996077 original size:21 final size:21
Alignment explanation
Indices: 18996020--18996090 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 21
18996010 ATTCTAGTTA
18996020 ATATA-TATATTATATATATGT
1 ATATATTATATTATATATAT-T
18996041 AAGTAATGATTATTATTA-ATAT-TT
1 -A-T-AT-ATTA-TATTATATATATT
18996065 -TATATTATATTATATATATT
1 ATATATTATATTATATATATT
18996085 ATATAT
1 ATATAT
18996091 ATGACAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
18 5 0.12
19 8 0.20
20 4 0.10
21 6 0.15
22 1 0.02
23 1 0.02
24 3 0.07
25 2 0.05
26 6 0.15
27 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
ATATATTATATTATATATATT
Found at i:18996202 original size:45 final size:45
Alignment explanation
Indices: 18996101--18996205 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
18996091 ATGACAAAGA
18996101 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAAAACAGAGAAGG
* * *
18996147 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGA-AG-GAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACA-AAACAGAGAAGG
*
18996191 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
18996206 GAAAGAAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 6 0.12
45 38 0.73
46 8 0.15
ACGTcount: A:0.64, C:0.09, G:0.28, T:0.00
Consensus pattern (45 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAAAACAGAGAAGG
Found at i:18996973 original size:29 final size:30
Alignment explanation
Indices: 18996914--18996971 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
18996904 TCCGAGCCTT
*
18996914 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
18996944 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
18996972 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:18997201 original size:13 final size:13
Alignment explanation
Indices: 18997183--18997214 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
18997173 TTTCCAGCAA
18997183 TTATGAATTTATT
1 TTATGAATTTATT
18997196 TTATGAATTTATT
1 TTATGAATTTATT
*
18997209 TGATGA
1 TTATGA
18997215 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:18997422 original size:50 final size:50
Alignment explanation
Indices: 18997309--18997550 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
18997299 ATTTGGGTAA
* * *
18997309 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
18997365 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18997415 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
18997465 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
18997515 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
18997551 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:18997498 original size:100 final size:103
Alignment explanation
Indices: 18997309--18997558 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
18997299 ATTTGGGTAA
18997309 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
18997374 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
18997415 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
18997477 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
18997515 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18997559 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:19008285 original size:27 final size:28
Alignment explanation
Indices: 19008255--19008331 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
19008245 GTTTAGGGTT
*
19008255 TTAGAAATT-TAGAGGATTTTAAAAGAA
1 TTAGAAATTAAAGAGGATTTTAAAAGAA
** * *
19008282 TTAGAGGTTAAAGAGGTTTTTGAAAGAA
1 TTAGAAATTAAAGAGGATTTTAAAAGAA
** *
19008310 TTAGAGGTTAAAAAGG-TTTTAA
1 TTAGAAATTAAAGAGGATTTTAA
19008332 GTAATGGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 12 0.29
28 30 0.71
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (28 bp):
TTAGAAATTAAAGAGGATTTTAAAAGAA
Found at i:19008297 original size:28 final size:27
Alignment explanation
Indices: 19008265--19008331 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 27
19008255 TTAGAAATTT
19008265 AGAGGATTTTAAAAGAATTAGAGGTTAA
1 AGAGG-TTTTAAAAGAATTAGAGGTTAA
*
19008293 AGAGGTTTTTGAAAGAATTAGAGGTTAA
1 AGAGG-TTTTAAAAGAATTAGAGGTTAA
*
19008321 AAAGGTTTTAA
1 AGAGGTTTTAA
19008332 GTAATGGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.31
Consensus pattern (27 bp):
AGAGGTTTTAAAAGAATTAGAGGTTAA
Found at i:19010797 original size:16 final size:16
Alignment explanation
Indices: 19010776--19010806 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19010766 ACCATGAACG
19010776 TCACAAGTGAATTAAT
1 TCACAAGTGAATTAAT
*
19010792 TCACAAGTGGATTAA
1 TCACAAGTGAATTAA
19010807 GAATTAATTC
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:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (16 bp):
TCACAAGTGAATTAAT
Found at i:19012005 original size:16 final size:16
Alignment explanation
Indices: 19011984--19012017 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
19011974 CTCAAGTTAA
19011984 TTTAAA-TAAATTAATT
1 TTTAAATTAAA-TAATT
19012000 TTTAAATTAAATAATT
1 TTTAAATTAAATAATT
19012016 TT
1 TT
19012018 CTCAACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAATTAAATAATT
Found at i:19028174 original size:17 final size:16
Alignment explanation
Indices: 19028145--19028178 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19028135 GCACTAAGAT
*
19028145 TAACATGCGATGACAA
1 TAACATGCAATGACAA
19028161 TAACAATGCAATGACAA
1 TAAC-ATGCAATGACAA
19028178 T
1 T
19028179 GTTCAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (16 bp):
TAACATGCAATGACAA
Found at i:19039201 original size:10 final size:10
Alignment explanation
Indices: 19039186--19039210 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19039176 TTTCTTTTTT
19039186 CTTTTCTTTC
1 CTTTTCTTTC
19039196 CTTTTCTTTC
1 CTTTTCTTTC
19039206 CTTTT
1 CTTTT
19039211 ATCTCTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (10 bp):
CTTTTCTTTC
Found at i:19045048 original size:34 final size:34
Alignment explanation
Indices: 19045006--19045085 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
19044996 AATAAAACGT
19045006 TTTTGTGGTTGGAGTCGAGAGTTGGGGTTGAAGG
1 TTTTGTGGTTGGAGTCGAGAGTTGGGGTTGAAGG
19045040 TTTTGTGGTTGGAGTCGAGAGTTGGGGTTGAAGG
1 TTTTGTGGTTGGAGTCGAGAGTTGGGGTTGAAGG
19045074 TTTTGTGGTTGG
1 TTTTGTGGTTGG
19045086 TGGGAGTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.12, C:0.03, G:0.46, T:0.39
Consensus pattern (34 bp):
TTTTGTGGTTGGAGTCGAGAGTTGGGGTTGAAGG
Found at i:19046516 original size:25 final size:25
Alignment explanation
Indices: 19046464--19046516 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
19046454 ATAAAATAAC
* * * *
19046464 TTAAATACTAAAATGGATAGAAAAA
1 TTAAATACCAAAATGAAAACAAAAA
*
19046489 TTAAATACCAAAATGAAAACAAATA
1 TTAAATACCAAAATGAAAACAAAAA
19046514 TTA
1 TTA
19046517 TTCAATGGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (25 bp):
TTAAATACCAAAATGAAAACAAAAA
Found at i:19050344 original size:210 final size:209
Alignment explanation
Indices: 19049759--19050385 Score: 968
Period size: 211 Copynumber: 3.0 Consensus size: 209
19049749 TATATGAAAA
* *
19049759 ACTTAGAAAGGTTTAGCATATCAGGGTTGGACAAATGTCAGCATCCAAGATTGACTTGAGCCTGG
1 ACTTAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGG
* * * *
19049824 GTAACATACCTCATACTGAATGAAGTAAAGAAAAAAAATTGAAAAACCACATTCAATGGGAAATA
65 GTAACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAACCACATTCAATGGGAAATA
*
19049889 AAGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACCTTGGATTCAACCCAAGCAGTGAAGCA
130 AAGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCA
19049954 AACAAATAAAAGATTC
195 AACAAAT-AAAGATTC
* * * *
19049970 ACCTAGAAAGGTTTAGCATACCAGTGTTGGACAAAAGTCAGCATCCAAGAGTCACTTGAGCGTGG
1 ACTTAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGG
* *
19050035 CTAACATAGCTCATACCAAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAAT
65 GTAACATAGCTCATACCGAATGAAGTAATGAAAACAAATTG-AAAAACCACATTCAATGGGAAAT
* * *
19050100 AAAGTACATGAGAGAACTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGACGC
129 AAAGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGC
19050165 AAACAAATAAAGATTC
194 AAACAAATAAAGATTC
* * * *
19050181 ACTTCGAAAGGTTTACCATATCAGTGTTAGACAAATGTCAGCAACCAAGATCCAC-TGAGCCTGG
1 ACTTAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGAT-CACTTGAGCCTGG
* *
19050245 GTAACATAGCTCATACCGAATGATGCAATGAAAACAAATTGAAAAAGCCACATTCAATGGGAAAT
65 GTAACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAA-CCACATTCAATGGGAAAT
* * *
19050310 AAAGTACATGAAAGGATTGAATATCATCCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGC
129 AAAGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGC
19050375 AAACAAATAAA
194 AAACAAATAAA
19050386 AGCTTCTCAT
Statistics
Matches: 378, Mismatches: 35, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
209 5 0.01
210 134 0.35
211 147 0.39
212 92 0.24
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (209 bp):
ACTTAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGATCACTTGAGCCTGGG
TAACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAACCACATTCAATGGGAAATAA
AGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAA
ACAAATAAAGATTC
Found at i:19053074 original size:22 final size:22
Alignment explanation
Indices: 19053049--19053092 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19053039 ATTTTAAATT
19053049 TTAAAAATTTAAAAATAAAGTA
1 TTAAAAATTTAAAAATAAAGTA
** *
19053071 TTAAATCTTTGAAAATAAAGTA
1 TTAAAAATTTAAAAATAAAGTA
19053093 AGGACTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
TTAAAAATTTAAAAATAAAGTA
Found at i:19054526 original size:77 final size:77
Alignment explanation
Indices: 19054289--19054505 Score: 391
Period size: 77 Copynumber: 2.8 Consensus size: 77
19054279 AATTCATCTC
19054289 TTATCCTTCTTC-AAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
1 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
19054353 TGAAATCATATA
66 TGAAATCATATA
19054365 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
1 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
19054430 TGAAATCATATA
66 TGAAATCATATA
* * *
19054442 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAAATCCATATCTTCTTTATCATCTTATCCTAA
1 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTT-TTTATCTTCTTATCCTAA
19054506 CTAGAATTCA
Statistics
Matches: 136, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
76 12 0.09
77 107 0.79
78 17 0.12
ACGTcount: A:0.36, C:0.17, G:0.04, T:0.43
Consensus pattern (77 bp):
TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
TGAAATCATATA
Found at i:19056164 original size:3 final size:3
Alignment explanation
Indices: 19056156--19056210 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
19056146 TTTACTTAAG
* *
19056156 ATT ATT ATT ATT AATT -CT ATT ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19056201 ATT ATT ATT A
1 ATT ATT ATT A
19056211 CTGTTTACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 42 0.91
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19057358 original size:76 final size:76
Alignment explanation
Indices: 19057206--19057350 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 76
19057196 CACTCTCCCC
*
19057206 TATCTTACATTATATACAATATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
1 TATCTTACATTACATACAATATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
19057271 CAAACAACTAA
66 CAAACAACTAA
* * * * * *
19057282 TATCTTGCATTACATATAATATCTTTACATAAAAATCCCTAAATAATGAGTGTTTAAATGCACCC
1 TATCTTACATTACATACAATATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
19057347 CAAA
66 CAAA
19057351 TGGCTAATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (76 bp):
TATCTTACATTACATACAATATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
CAAACAACTAA
Found at i:19059777 original size:15 final size:14
Alignment explanation
Indices: 19059756--19059791 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19059746 ATAATCCTTA
*
19059756 ATAATTATCTTAAT
1 ATAATTATCCTAAT
19059770 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
19059785 ATAATTA
1 ATAATTA
19059792 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:19060615 original size:91 final size:90
Alignment explanation
Indices: 19060399--19060615 Score: 240
Period size: 89 Copynumber: 2.4 Consensus size: 90
19060389 ACATATCGGA
* * * *
19060399 TTGCTCATAAGAGCTTTCCAA-TCGATAACATGCCAAATGCACATAGGGAAAAACTCATATGCTA
1 TTGCTCATAAGAGCTTTCCAACT-GATAACATGCCAGATGCACATAGGGAAAAACCCATAGGCCA
* * *
19060463 AACATTTTCCCTGATAACATGCTAGT
65 AACATTCTCCCCGATAACACGCTAGT
* * ** * * * *
19060489 TT-CTCATAAGAGCTTTCCAACCGATAATAAACCAGATGCACATAGTGCAAAGCCCGTAGGCCAA
1 TTGCTCATAAGAGCTTTCCAACTGATAACATGCCAGATGCACATAGGGAAAAACCCATAGGCCAA
* *
19060553 ACATTCTCCCACGGTAACACGTTAGT
66 ACATTCTCCC-CGATAACACGCTAGT
*
19060579 TTGCTCATAAAAGCTTTCCAACTGATAACATGCCAGA
1 TTGCTCATAAGAGCTTTCCAACTGATAACATGCCAGA
19060616 ATCTTCAAAG
Statistics
Matches: 102, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
89 58 0.57
90 15 0.15
91 29 0.28
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (90 bp):
TTGCTCATAAGAGCTTTCCAACTGATAACATGCCAGATGCACATAGGGAAAAACCCATAGGCCAA
ACATTCTCCCCGATAACACGCTAGT
Found at i:19061963 original size:62 final size:60
Alignment explanation
Indices: 19061868--19061987 Score: 213
Period size: 62 Copynumber: 2.0 Consensus size: 60
19061858 CACAGGGGCG
19061868 TGTGACTAGCCTGTGTCTCACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGCCA
1 TGTGACTAGCCTGTGTCTCACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGCCA
*
19061928 TGTGACTAGCCTGTGTGTCTTACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
1 TGTGACTAGCC--TGTGTCTCACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
19061988 TGTGTGGATC
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 11 0.19
62 46 0.81
ACGTcount: A:0.16, C:0.23, G:0.33, T:0.28
Consensus pattern (60 bp):
TGTGACTAGCCTGTGTCTCACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGCCA
Found at i:19061992 original size:32 final size:32
Alignment explanation
Indices: 19061894--19061993 Score: 77
Period size: 32 Copynumber: 3.2 Consensus size: 32
19061884 CTCACACGGG
19061894 TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
1 TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
** * * *
19061926 CATGTGACTAGC-C-TGT-G---TGTCTTACACGGG
1 TGTGTGCCCAGCTCGTGTGGAAATG-CTT--A-GGC
19061956 TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
1 TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
19061988 TGTGTG
1 TGTGTG
19061994 GATCCTGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 20
0.62 0.13 0.26
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
29 2 0.04
30 13 0.27
31 2 0.04
32 19 0.40
33 2 0.04
35 3 0.06
36 2 0.04
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (32 bp):
TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
Found at i:19072154 original size:24 final size:24
Alignment explanation
Indices: 19072122--19072173 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
19072112 TCTTTGGAAT
19072122 TGCCCCTGATGCCGTTACTTATAA
1 TGCCCCTGATGCCGTTACTTATAA
19072146 TGCCCCTGATGCCGTTACTTATAA
1 TGCCCCTGATGCCGTTACTTATAA
19072170 TGCC
1 TGCC
19072174 TTCATGAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (24 bp):
TGCCCCTGATGCCGTTACTTATAA
Found at i:19086401 original size:27 final size:27
Alignment explanation
Indices: 19086371--19086783 Score: 436
Period size: 27 Copynumber: 15.4 Consensus size: 27
19086361 GGGTATAATA
19086371 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
19086398 GTCATTCTACCTTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
19086424 GTCATTCTACCTTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
19086450 GTCATTCTACCTTAT-GAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
19086476 ATCATTCTACCATATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
19086503 GCCAGTTTACCATATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
19086530 GTCATTCTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
19086557 GTCATTTTATCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * **
19086584 ATCATTGTACCCTATAGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
19086611 GTTATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
19086638 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
19086665 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
19086692 ATCATTCTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
19086719 ATCATTTTATCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
19086746 GTCATTCTATCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
19086773 GTCATTTTACC
1 GTCATTTTACC
19086784 TATTTTAGGG
Statistics
Matches: 338, Mismatches: 47, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 75 0.22
27 263 0.78
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:19105154 original size:19 final size:19
Alignment explanation
Indices: 19105130--19105170 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
19105120 ACCACCATAT
19105130 GTTATGATTCAAACTCTTC
1 GTTATGATTCAAACTCTTC
19105149 GTTATGATTCAAACTCTTC
1 GTTATGATTCAAACTCTTC
19105168 GTT
1 GTT
19105171 GGATGGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (19 bp):
GTTATGATTCAAACTCTTC
Found at i:19107534 original size:13 final size:13
Alignment explanation
Indices: 19107516--19107542 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19107506 ATCGACGATA
19107516 CTCCCTCTCTTGC
1 CTCCCTCTCTTGC
19107529 CTCCCTCTCTTGC
1 CTCCCTCTCTTGC
19107542 C
1 C
19107543 ACCAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.56, G:0.07, T:0.37
Consensus pattern (13 bp):
CTCCCTCTCTTGC
Found at i:19108753 original size:22 final size:22
Alignment explanation
Indices: 19108724--19108765 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19108714 AAAAAAGTTC
*
19108724 TAATGTTGTACGT-AATTTTCA
1 TAATGTTGCACGTAAATTTTCA
19108745 TAATAGTTGCACGTAAATTTT
1 TAAT-GTTGCACGTAAATTTT
19108766 TATTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (22 bp):
TAATGTTGCACGTAAATTTTCA
Found at i:19112784 original size:4 final size:4
Alignment explanation
Indices: 19112777--19112826 Score: 52
Period size: 4 Copynumber: 13.0 Consensus size: 4
19112767 ATTAGAAATT
**
19112777 AGAA AGAA AG-A A-AA AGAA AGAA A-AA TAGAA AGAA AGAA AGGG AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA
19112823 AGAA
1 AGAA
19112827 GAGACGCACG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.16
4 30 0.79
5 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:19113263 original size:7 final size:7
Alignment explanation
Indices: 19113253--19113278 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19113243 TAAAATTTTA
19113253 AATATTC
1 AATATTC
19113260 AATATTC
1 AATATTC
19113267 AATATTC
1 AATATTC
19113274 AATAT
1 AATAT
19113279 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:19114855 original size:21 final size:21
Alignment explanation
Indices: 19114831--19114870 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19114821 CTAGGATGAT
*
19114831 TGTTTTAGCATGTTTTGAATA
1 TGTTTGAGCATGTTTTGAATA
* *
19114852 TGTTTGATCGTGTTTTGAA
1 TGTTTGAGCATGTTTTGAA
19114871 CAGATTAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.53
Consensus pattern (21 bp):
TGTTTGAGCATGTTTTGAATA
Found at i:19116239 original size:29 final size:27
Alignment explanation
Indices: 19116176--19116228 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
19116166 ATATGTGCCC
* *
19116176 ATCAAGTTCATGCAAATATACGTGAAA
1 ATCAAGTTCATGCAAATATACATAAAA
*
19116203 ATCAAGTTCATGCAAATATATATAAA
1 ATCAAGTTCATGCAAATATACATAAA
19116229 TAATTGAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (27 bp):
ATCAAGTTCATGCAAATATACATAAAA
Found at i:19132311 original size:27 final size:27
Alignment explanation
Indices: 19132267--19132321 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
19132257 CTCTTTTGAG
19132267 TCAATAAATTTTCTTTGAGTTTTTCTTT
1 TCAATAAATTTTCTTTGAG-TTTTCTTT
19132295 TCAATAAATTTTC-TTGAGTTTTCTTT
1 TCAATAAATTTTCTTTGAGTTTTCTTT
19132321 T
1 T
19132322 AGAAGAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 9 0.33
27 5 0.19
28 13 0.48
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.60
Consensus pattern (27 bp):
TCAATAAATTTTCTTTGAGTTTTCTTT
Found at i:19144510 original size:31 final size:31
Alignment explanation
Indices: 19144472--19144531 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
19144462 AGTTACTAAT
* *
19144472 GTTTTAGATTATTTTTATTTTGGTCACTCAC
1 GTTTTAGATCATTTATATTTTGGTCACTCAC
19144503 GTTTTAGATCATTTATATTTTGGTCACTC
1 GTTTTAGATCATTTATATTTTGGTCACTC
19144532 TCCATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (31 bp):
GTTTTAGATCATTTATATTTTGGTCACTCAC
Found at i:19145690 original size:2 final size:2
Alignment explanation
Indices: 19145683--19145709 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19145673 TATAATCTTT
19145683 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
19145710 GGCATCTATA
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:19147327 original size:20 final size:18
Alignment explanation
Indices: 19147304--19147348 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
19147294 TGTATTTTTG
19147304 TTTTTTTTTTCAACTCAAAT
1 TTTTTTTTTTCAA-T-AAAT
*
19147324 TTTTTATTTTTCTATAAAT
1 TTTTT-TTTTTCAATAAAT
19147343 TTTTTT
1 TTTTTT
19147349 GAAGTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 6 0.26
21 7 0.30
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTTTTCAATAAAT
Found at i:19147926 original size:20 final size:19
Alignment explanation
Indices: 19147872--19147934 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
19147862 CGTTGAAAAA
*
19147872 TTATTAAAAAATATATTAT
1 TTATTAAAAAATAAATTAT
* *
19147891 TT-TTACAAAGTAAATTAT
1 TTATTAAAAAATAAATTAT
*
19147909 GTTATTATAAAATAAATT-T
1 -TTATTAAAAAATAAATTAT
19147928 TT-TTAAA
1 TTATTAAA
19147935 TGTTTTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 4 0.11
18 15 0.42
19 5 0.14
20 12 0.33
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (19 bp):
TTATTAAAAAATAAATTAT
Found at i:19151227 original size:23 final size:22
Alignment explanation
Indices: 19150887--19151248 Score: 267
Period size: 23 Copynumber: 15.5 Consensus size: 22
19150877 ACACCAAATT
* *
19150887 TTGGACAGCATATACACAACAAT
1 TTGG-CAGCATATATACAACAAA
*
19150910 TTAGGCAGCATATATACAACATA
1 TT-GGCAGCATATATACAACAAA
* * * *
19150933 TTGAGCAGCATTTTTGCACCAAAA
1 TTG-GCAGCATATATACAAC-AAA
* *
19150957 TTGGACAGCTTATACACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
19150980 TTGGACAGCA-ATTACACAACAAA
1 TTGG-CAGCATA-TATACAACAAA
* * *
19151003 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
* *
19151028 TTGGACAGCTTATATAAAACAAA
1 TTGG-CAGCATATATACAACAAA
*
19151051 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
* * *
19151073 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
*
19151098 TTGGACAGCTTATATACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
19151121 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
* * *
19151143 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
*
19151168 TTGGACAGCTTATATACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
19151191 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
*
19151213 TTGAGCAGCATATATATACAAGAAA
1 TTG-GCAGC--ATATATACAACAAA
19151238 TTGTGCAGCAT
1 TTG-GCAGCAT
19151249 TTAAGCATAA
Statistics
Matches: 268, Mismatches: 50, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
22 58 0.22
23 120 0.45
24 20 0.07
25 70 0.26
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (22 bp):
TTGGCAGCATATATACAACAAA
Found at i:19151240 original size:70 final size:70
Alignment explanation
Indices: 19150867--19151223 Score: 563
Period size: 70 Copynumber: 5.1 Consensus size: 70
19150857 CCAAACTAAA
* * ** * * * * *
19150867 CAGCAATTTCACACCAAATTTTGGACAGCATATACACAACAATTTAGGCAGCATATATACAACAT
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATT-GGCAGCAAATATACAACAA
19150932 ATTGAG
65 ATTGAG
* * * *
19150938 CAGCATTTTTGCACC-AAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACACAACAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGG-CAGCAAATATACAACAA
19151002 ATTGAG
65 ATTGAG
*
19151008 CAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
19151073 TTGAG
66 TTGAG
19151078 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
19151143 TTGAG
66 TTGAG
19151148 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
19151213 TTGAG
66 TTGAG
19151218 CAGCAT
1 CAGCAT
19151224 ATATATACAA
Statistics
Matches: 267, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
69 2 0.01
70 224 0.84
71 41 0.15
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (70 bp):
CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
TTGAG
Found at i:19152019 original size:28 final size:28
Alignment explanation
Indices: 19151964--19152061 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 28
19151954 TTTAATAAGT
* ** * *
19151964 TCGCACACTTAGTTCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
19151992 TCGCACACTTAGTGCTTTTCCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
19152020 TCGCACAGTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
19152048 TCGCACACTTAGTG
1 TCGCACACTTAGTG
19152062 TCGAAAGTCA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:19154059 original size:71 final size:71
Alignment explanation
Indices: 19153974--19154126 Score: 299
Period size: 71 Copynumber: 2.2 Consensus size: 71
19153964 ACCAAATCCC
19153974 ACCATATTATATATATAACTGTTGATGATGATAATGATGATATGATATCAAATTGACAAATCCAA
1 ACCATATTATATATATAACTGTTGATGATGATAATGATGATATGATATCAAATTGACAAATCCAA
19154039 CCCCGT
66 CCCCGT
19154045 ACCATATTATATATATAACTGTTGATGATGATAATGATGATATGATATCAAATTGACAAATCCAA
1 ACCATATTATATATATAACTGTTGATGATGATAATGATGATATGATATCAAATTGACAAATCCAA
19154110 CCCCGT
66 CCCCGT
19154116 ACCATA-TATAT
1 ACCATATTATAT
19154127 CAAACATGAA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 5 0.06
71 77 0.94
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (71 bp):
ACCATATTATATATATAACTGTTGATGATGATAATGATGATATGATATCAAATTGACAAATCCAA
CCCCGT
Found at i:19154646 original size:13 final size:13
Alignment explanation
Indices: 19154628--19154652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19154618 ATTGAAAACA
19154628 CTTTTATTTTCTG
1 CTTTTATTTTCTG
19154641 CTTTTATTTTCT
1 CTTTTATTTTCT
19154653 TGCCTATTAT
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:0.08, C:0.16, G:0.04, T:0.72
Consensus pattern (13 bp):
CTTTTATTTTCTG
Found at i:19157528 original size:50 final size:49
Alignment explanation
Indices: 19157470--19157655 Score: 184
Period size: 50 Copynumber: 3.7 Consensus size: 49
19157460 AATGGTCACG
* *
19157470 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTTGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGATAGGTTGCA
* *
19157520 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCG---GATAGCTTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAGGTT-G--CA
* **
19157569 CGTGTGTAGTACTATGTGCA-GCTACTATGTGTATCGGATAGTGAT-GGTCACA
1 --TGTGTAGTACTATGTGCAGGCTACTATGTGTA-CCGA-A-TGATAGGTTGCA
*
19157621 TGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
19157656 GTATCATTAA
Statistics
Matches: 113, Mismatches: 11, Indels: 24
0.76 0.07 0.16
Matches are distributed among these distances:
46 7 0.06
47 1 0.01
49 3 0.03
50 63 0.56
51 32 0.28
52 2 0.02
55 2 0.02
56 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAGGTTGCA
Found at i:19157580 original size:101 final size:101
Alignment explanation
Indices: 19157465--19157648 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
19157455 AAAGTAATGG
* **
19157465 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTTGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCA-GCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
19157528 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
64 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
19157566 TCACGTGTGTAGTACTATGTGCAGCTACTATGTGTATCGGATAGTGATGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTAC
19157631 TATGTGCAGGCTACTATG
66 TATGTGCAGGCTACTATG
19157649 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 15 0.20
101 56 0.75
102 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:19157599 original size:25 final size:26
Alignment explanation
Indices: 19157571--19157650 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 26
19157561 TTCGATCACG
19157571 TGTGTAGTACTATGTGCA-GCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
*
19157596 TGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
19157621 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
19157647 TGTG
1 TGTG
19157651 AACCGGTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 19
0.67 0.03 0.30
Matches are distributed among these distances:
23 1 0.02
24 4 0.09
25 24 0.56
26 13 0.30
27 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:19157733 original size:46 final size:43
Alignment explanation
Indices: 19157652--19157750 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
19157642 TACTATGTGA
* *
19157652 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTACTATGTGCTGAAT-CC
* *
19157695 ACCGGATATCATTGATTACAAAGTGTGGTTACTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAAG-GTGGTTACTATGTGCTGAATCC
19157741 ACCGTGTATC
1 ACCG-GTATC
19157751 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 3 0.06
46 25 0.53
47 3 0.06
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTACTATGTGCTGAATCC
Found at i:19157895 original size:16 final size:16
Alignment explanation
Indices: 19157874--19157905 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19157864 TGATTGAAAG
*
19157874 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
19157890 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
19157906 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:19167363 original size:27 final size:28
Alignment explanation
Indices: 19167304--19167364 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
19167294 AGCGAGTATG
19167304 GAATTACGAAATAAAAATATTGATAATT
1 GAATTACGAAATAAAAATATTGATAATT
* * *
19167332 AAATTA-GAAATAAAATTATTTAGTAA-T
1 GAATTACGAAATAAAAATATTGA-TAATT
19167359 GAATTA
1 GAATTA
19167365 AATAGAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (28 bp):
GAATTACGAAATAAAAATATTGATAATT
Found at i:19170318 original size:18 final size:17
Alignment explanation
Indices: 19170295--19170329 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19170285 CGTGGGCCAA
19170295 AATGGGCCGTGTGGGCTC
1 AATGGG-CGTGTGGGCTC
*
19170313 AATGGGCTTGTGGGCTC
1 AATGGGCGTGTGGGCTC
19170330 CACACAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.20, G:0.43, T:0.26
Consensus pattern (17 bp):
AATGGGCGTGTGGGCTC
Found at i:19170579 original size:27 final size:27
Alignment explanation
Indices: 19170556--19170622 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
19170546 ATACCCTAAA
* * *
19170556 AGGGTAAAATGACCTTAACTCCCTTGT
1 AGGGTAAAATGACCGTAACTCCCCTAT
* *
19170583 AGGGTAAAATGATCGTAATTCCCCTAT
1 AGGGTAAAATGACCGTAACTCCCCTAT
19170610 AGGGTAAAATGAC
1 AGGGTAAAATGAC
19170623 TATTTTACCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAACTCCCCTAT
Found at i:19170671 original size:24 final size:24
Alignment explanation
Indices: 19170641--19170773 Score: 149
Period size: 24 Copynumber: 5.5 Consensus size: 24
19170631 CCCTCAGGGT
* *
19170641 TAAATGATTGATTTGCCTGTGATG
1 TAAATGACTGATTTGTCTGTGATG
* * *
19170665 TAAATGAATGATTTGTTTGAGATG
1 TAAATGACTGATTTGTCTGTGATG
* *
19170689 TAAATGACTGATTTGTCTATGATT
1 TAAATGACTGATTTGTCTGTGATG
*
19170713 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATG
* * *
19170737 TAAATGATTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCTGTGATG
**
19170761 TGTATGACTGATT
1 TAAATGACTGATT
19170774 CCGTGCATAG
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 94 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATG
Found at i:19170719 original size:72 final size:72
Alignment explanation
Indices: 19170640--19170773 Score: 196
Period size: 72 Copynumber: 1.9 Consensus size: 72
19170630 CCCCTCAGGG
*
19170640 TTAAATGATTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGATGTAAATGACTGATTTGT
1 TTAAATGACTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGATGTAAATGACTGATTTGT
19170705 CTATGAT
66 CTATGAT
* * * * * **
19170712 TTAAATGACTGATTTGTCTGTGATTTAAATGATTGATTTGTTTGTGATTTGTATGACTGATT
1 TTAAATGACTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGATGTAAATGACTGATT
19170774 CCGTGCATAG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (72 bp):
TTAAATGACTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGATGTAAATGACTGATTTGT
CTATGAT
Found at i:19170752 original size:48 final size:48
Alignment explanation
Indices: 19170640--19170773 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 48
19170630 CCCCTCAGGG
* * * *
19170640 TTAAATGATTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGAT
1 TTAAATGATTGATTTGTCTGTGATTTAAATGACTGATTTGTCTGAGAT
* * * *
19170688 GTAAATGACTGATTTGTCTATGATTTAAATGACTGATTTGTCTGTGAT
1 TTAAATGATTGATTTGTCTGTGATTTAAATGACTGATTTGTCTGAGAT
* **
19170736 TTAAATGATTGATTTGTTTGTGATTTGTATGACTGATT
1 TTAAATGATTGATTTGTCTGTGATTTAAATGACTGATT
19170774 CCGTGCATAG
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (48 bp):
TTAAATGATTGATTTGTCTGTGATTTAAATGACTGATTTGTCTGAGAT
Found at i:19170893 original size:26 final size:26
Alignment explanation
Indices: 19170864--19170915 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
19170854 TGCCACAATC
*
19170864 ACTGTTACTGGTAGCTTTGCTGCGAT
1 ACTGTTACTGGTAACTTTGCTGCGAT
*
19170890 ACTGTTGCTGGTAACTTTGCTGCGAT
1 ACTGTTACTGGTAACTTTGCTGCGAT
19170916 GCTACTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.38
Consensus pattern (26 bp):
ACTGTTACTGGTAACTTTGCTGCGAT
Found at i:19170964 original size:32 final size:32
Alignment explanation
Indices: 19170918--19171164 Score: 232
Period size: 32 Copynumber: 7.7 Consensus size: 32
19170908 GCTGCGATGC
*
19170918 TACTAATGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* *
19170950 TACTGATGGCTTTGTGTCGATCATAGTATCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * *
19170982 TACTGATGGTTTTGTACCGATCATATTACAGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * **
19171014 TACTGATGACTGTGTGCCGATCAT-TTCACTAT
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
* * * *
19171046 TACTGATGGCTGTGTGCCAATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
*
19171078 TACTGATGGCTTTGTACCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACCGT
** * *
19171110 TACTGATGG-TTGTGTGCCGATCATAACACTGC
1 TACTGATGGCTT-TGTGCCGATCATAGTACCGT
*
19171142 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
19171165 CATTATTGTA
Statistics
Matches: 178, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
31 4 0.02
32 171 0.96
33 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:19171094 original size:96 final size:96
Alignment explanation
Indices: 19170982--19171164 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 96
19170972 ATAGTATCGT
* ** *
19170982 TACTGATGGTTTTGTACCGATCATATTACAGTTACTGATGACTGTGTGCCGATCATTTCACTATT
1 TACTGATGGCTTTGTACCGATCATATTACAGTTACTGATGACTGTGTGCCGATCATAACACTACT
19171047 ACTGATGGCTGTGTGCCAATCATATCACTGC
66 ACTGATGGCTGTGTGCCAATCATATCACTGC
* * ** *
19171078 TACTGATGGCTTTGTACCGATCATGTTACCGTTACTGATGGTTGTGTGCCGATCATAACACTGCT
1 TACTGATGGCTTTGTACCGATCATATTACAGTTACTGATGACTGTGTGCCGATCATAACACTACT
*
19171143 ACTGATGGCTTTGTGCCAATCA
66 ACTGATGGCTGTGTGCCAATCA
19171165 CATTATTGTA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (96 bp):
TACTGATGGCTTTGTACCGATCATATTACAGTTACTGATGACTGTGTGCCGATCATAACACTACT
ACTGATGGCTGTGTGCCAATCATATCACTGC
Found at i:19171485 original size:56 final size:54
Alignment explanation
Indices: 19171395--19171501 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 54
19171385 ATATTGATAT
* * *
19171395 TGTATCGGGCTTAGGCCCACACTGTTTCTGTATTGGTTTAAGGCCCACACTATTTC
1 TGTATCGGGCTAAGGCCCACACTGTTTCTATATTGG--GAAGGCCCACACTATTTC
* *
19171451 TGTATTGGGCTAAGGCCCACTCTGTTTCTATATTGGGAAGGCCCACACTAT
1 TGTATCGGGCTAAGGCCCACACTGTTTCTATATTGGGAAGGCCCACACTAT
19171502 ACTGTTACTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 14 0.30
56 32 0.70
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (54 bp):
TGTATCGGGCTAAGGCCCACACTGTTTCTATATTGGGAAGGCCCACACTATTTC
Found at i:19171491 original size:26 final size:26
Alignment explanation
Indices: 19171407--19171499 Score: 114
Period size: 28 Copynumber: 3.4 Consensus size: 26
19171397 TATCGGGCTT
*
19171407 AGGCCCACACTGTTTCTGTATTGGTTTA
1 AGGCCCACACTGTTTCTGTATTGG--GA
*
19171435 AGGCCCACACTATTTCTGTATTGGGCTA
1 AGGCCCACACTGTTTCTGTATTGGG--A
* *
19171463 AGGCCCACTCTGTTTCTATATTGGGA
1 AGGCCCACACTGTTTCTGTATTGGGA
19171489 AGGCCCACACT
1 AGGCCCACACT
19171500 ATACTGTTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
26 11 0.19
28 46 0.81
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (26 bp):
AGGCCCACACTGTTTCTGTATTGGGA
Found at i:19172312 original size:21 final size:21
Alignment explanation
Indices: 19172286--19172326 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19172276 TTCTACCTTA
19172286 ATGTCTCAAAACAACAAGAAC
1 ATGTCTCAAAACAACAAGAAC
* *
19172307 ATGTCTCGATACAACAAGAA
1 ATGTCTCAAAACAACAAGAA
19172327 AAATTTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.12, T:0.17
Consensus pattern (21 bp):
ATGTCTCAAAACAACAAGAAC
Found at i:19175309 original size:19 final size:18
Alignment explanation
Indices: 19175282--19175323 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
19175272 TTTATTCATC
*
19175282 CAAAT-AAATTTATTTTTT
1 CAAATGAAATTT-TTCTTT
19175300 CAAATGAAATTTTTCTTT
1 CAAATGAAATTTTTCTTT
19175318 CAAATG
1 CAAATG
19175324 TCTCGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (18 bp):
CAAATGAAATTTTTCTTT
Found at i:19180241 original size:13 final size:13
Alignment explanation
Indices: 19180223--19180250 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19180213 TTGTCTGATC
19180223 TTATAGACTTCAA
1 TTATAGACTTCAA
19180236 TTATAGACTTCAA
1 TTATAGACTTCAA
19180249 TT
1 TT
19180251 TGCATCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (13 bp):
TTATAGACTTCAA
Found at i:19191696 original size:18 final size:17
Alignment explanation
Indices: 19191669--19191703 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19191659 TATTATAATT
*
19191669 AAATAAAAATTCATTCA
1 AAATAAAAATTAATTCA
19191686 AAATGAAAAATTAATTCA
1 AAAT-AAAAATTAATTCA
19191704 GGTGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATTAATTCA
Found at i:19192158 original size:15 final size:15
Alignment explanation
Indices: 19192125--19192175 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
19192115 TAATATAATA
*
19192125 TATAAATTTA-GATT
1 TATAAATTTATTATT
19192139 ATATAAATTTATTATT
1 -TATAAATTTATTATT
* *
19192155 TATAAAATT-TTATA
1 TATAAATTTATTATT
19192169 TATAAAT
1 TATAAAT
19192176 ATAAAATTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 10 0.32
15 18 0.58
16 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATAAATTTATTATT
Found at i:19192843 original size:11 final size:11
Alignment explanation
Indices: 19192827--19192876 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
19192817 TCAATTATTT
19192827 TCTCAATTTCC
1 TCTCAATTTCC
* *
19192838 TCTCAAATTGC
1 TCTCAATTTCC
19192849 TCTCAATTTCC
1 TCTCAATTTCC
*
19192860 TTCTAAATTT-C
1 -TCTCAATTTCC
19192871 TCTCAA
1 TCTCAA
19192877 ACCCATATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
10 5 0.16
11 19 0.59
12 8 0.25
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:19192854 original size:22 final size:22
Alignment explanation
Indices: 19192827--19192876 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
19192817 TCAATTATTT
19192827 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTCT-AAATTGC
*
19192849 TCTCAATTTCCTTCTAAATTTC
1 TCTCAATTTCCTTCTAAATTGC
19192871 TCTCAA
1 TCTCAA
19192877 ACCCATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCAATTTCCTTCTAAATTGC
Found at i:19193909 original size:13 final size:13
Alignment explanation
Indices: 19193893--19193920 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19193883 ATATTATAAA
19193893 AATTAACTATATT
1 AATTAACTATATT
19193906 AATTAACTATATT
1 AATTAACTATATT
19193919 AA
1 AA
19193921 ATAATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTAACTATATT
Found at i:19194924 original size:27 final size:25
Alignment explanation
Indices: 19194882--19194931 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
19194872 ATTAATATAT
19194882 TTAAAAAAATTTAATTCAATTAAAG
1 TTAAAAAAATTTAATTCAATTAAAG
19194907 TTAAAAAAATATTCAATTCAATTAA
1 TTAAAAAAAT-TT-AATTCAATTAA
19194932 TAACCAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.43
26 2 0.09
27 11 0.48
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (25 bp):
TTAAAAAAATTTAATTCAATTAAAG
Found at i:19197235 original size:18 final size:18
Alignment explanation
Indices: 19197212--19197247 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19197202 TTCCCTTCTA
19197212 ATTTCTCACTCAAATTTT
1 ATTTCTCACTCAAATTTT
* *
19197230 ATTTCTCTCTCAACTTTT
1 ATTTCTCACTCAAATTTT
19197248 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTCTCACTCAAATTTT
Found at i:19201329 original size:51 final size:51
Alignment explanation
Indices: 19201204--19201330 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 51
19201194 AAAGAGGTCC
* * **
19201204 CATGTAAGA-CATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGACATCCT
* * * *
19201254 C-CGTAGGACCATGTCTGGGACATGGCATGGGCTCCGATATGAGAACAT-CT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAG-ACATCCT
19201304 CATGTAAGACCATGTCTGGGACATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
19201331 TTTGGCATGT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
49 5 0.08
50 34 0.53
51 25 0.39
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (51 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGACATCCT
Found at i:19210887 original size:25 final size:26
Alignment explanation
Indices: 19210856--19210904 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
19210846 AGAGAAAAAG
*
19210856 AAAGAAATAGATAAAA-CTCTAGAGA
1 AAAGAAAGAGATAAAATCTCTAGAGA
19210881 AAAGAAAGAGATAAAATCTCTAGA
1 AAAGAAAGAGATAAAATCTCTAGA
19210905 AAGCTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.16
Consensus pattern (26 bp):
AAAGAAAGAGATAAAATCTCTAGAGA
Found at i:19212549 original size:15 final size:15
Alignment explanation
Indices: 19212529--19212580 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
19212519 ACTACAAAAC
19212529 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
19212544 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
19212563 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
19212578 ATT
1 ATT
19212581 AATTTTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:19212645 original size:16 final size:16
Alignment explanation
Indices: 19212614--19212650 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19212604 ATATGAAGAA
19212614 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
19212630 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
19212646 TATTA
1 TATTA
19212651 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:19212674 original size:18 final size:18
Alignment explanation
Indices: 19212636--19212671 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19212626 TTATTATTTT
*
19212636 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
19212654 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
19212672 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:19212690 original size:34 final size:29
Alignment explanation
Indices: 19212635--19212712 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
19212625 ATTATTATTT
*
19212635 TTAA-AATTTATTATTAAAATAAAATTTAAATA
1 TTAATAATTTATTATAAAAAT-AAA-TT--ATA
19212667 TTAAATAATTTATTA-AAATAATAAATTATA
1 TT-AATAATTTATTATAAA-AATAAATTATA
19212697 TTAATAATTTATTATA
1 TTAATAATTTATTATA
19212713 TGATTAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
29 12 0.29
30 6 0.15
32 4 0.10
33 7 0.17
34 12 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATAATTTATTATAAAAATAAATTATA
Found at i:19212710 original size:16 final size:16
Alignment explanation
Indices: 19212664--19212713 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
19212654 TAAAATTTAA
19212664 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
19212681 A-A--AATAATAAATT
1 ATATTAATAATTTATT
19212694 ATATTAATAATTTATT
1 ATATTAATAATTTATT
19212710 ATAT
1 ATAT
19212714 GATTAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:19212721 original size:29 final size:30
Alignment explanation
Indices: 19212645--19212710 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
19212635 TTAAAATTTA
*
19212645 TTATTAAAATAA-AATTTAAATATTAAATAAT
1 TTATTAAAATAATAAATT--ATATTAAATAAT
19212676 TTATTAAAATAATAAATTATATT-AATAAT
1 TTATTAAAATAATAAATTATATTAAATAAT
19212705 TTATTA
1 TTATTA
19212711 TATGATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 5 0.15
31 12 0.36
32 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTAAAATAATAAATTATATTAAATAAT
Found at i:19216706 original size:22 final size:22
Alignment explanation
Indices: 19216679--19216729 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
19216669 CTCATATTTC
19216679 CTCTCAATTT-CTTTCCAAAATT
1 CTCTCAATTTCCTTT-CAAAATT
19216701 CTCTCAATTTCCTTTCAAAATT
1 CTCTCAATTTCCTTTCAAAATT
19216723 CTCTCAA
1 CTCTCAA
19216730 ATCCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.43
Consensus pattern (22 bp):
CTCTCAATTTCCTTTCAAAATT
Found at i:19218603 original size:18 final size:18
Alignment explanation
Indices: 19218577--19218611 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19218567 AGGTGCGTTT
*
19218577 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
19218595 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
19218612 TCCTTTTCCG
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:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:19219126 original size:25 final size:25
Alignment explanation
Indices: 19219088--19219225 Score: 155
Period size: 25 Copynumber: 5.7 Consensus size: 25
19219078 TATTTTGATA
19219088 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
19219113 TTATTTGATATAATAATATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
19219138 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
** *
19219163 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
19219182 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
19219208 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
19219226 ACCCTAACCT
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.01
20 5 0.05
21 8 0.09
22 1 0.01
23 1 0.01
24 8 0.09
25 68 0.73
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:19219186 original size:95 final size:94
Alignment explanation
Indices: 19219044--19219223 Score: 324
Period size: 95 Copynumber: 1.9 Consensus size: 94
19219034 TATTTTGATA
*
19219044 TTATTTTATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
19219109 AAGTTTATTTGATATAATAATATAGAAGT
66 AAGTTTATTTGATATAATAATATAGAAGT
*
19219138 TTATTTGATGTAATAAAATAGAAATTTTTTCGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAAAAAAATAGAAATTTTTT-GAGTTATTTTGATATTATTTGATGTAATAAAATA
*
19219203 GAAGTTTATTTGATGTAATAA
65 GAAGTTTATTTGATATAATAA
19219224 AAACCCTAAC
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
94 28 0.34
95 54 0.66
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (94 bp):
TTATTTGATGTAAAAAAATAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
AAGTTTATTTGATATAATAATATAGAAGT
Found at i:19219202 original size:45 final size:44
Alignment explanation
Indices: 19219034--19219215 Score: 215
Period size: 44 Copynumber: 4.0 Consensus size: 44
19219024 ATATTTTGAA
* *
19219034 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTGAGT
*
19219078 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA-T
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTT-TTTGAGT
*
19219122 ATAATAATATAGA-AGTTTATTTGATGTAATAAAATAGAAATTTTTTCGAGT
1 -T-AT--T-TTGATA--TTATTTGATGTAATAAAATAGAAATTTTTT-GAGT
*
19219173 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTT-TTTGA
19219216 TGTAATAAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 23
0.80 0.05 0.15
Matches are distributed among these distances:
44 35 0.29
45 34 0.29
46 8 0.07
47 2 0.02
48 2 0.02
49 8 0.07
50 29 0.24
51 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (44 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTTGAGT
Done.