Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020760.1 Corchorus olitorius cultivar O-4 contig20793, 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: 91032
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:729 original size:2 final size:2
Alignment explanation
Indices: 722--754 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
712 TTACTTTAAT
722 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
755 GTGTGTAATT
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:2479 original size:30 final size:29
Alignment explanation
Indices: 2423--2487 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
2413 ATTTGTGCTT
2423 TAAACTTTTAATTTTAAATTTGATTTTTAAA
1 TAAA-TTTTAATTTTAAATTTGA-TTTTAAA
* *
2454 TAAATTTTAATTATT-ATTTTTATTTTAAA
1 TAAATTTTAATT-TTAAATTTGATTTTAAA
2483 -AAATT
1 TAAATT
2488 AAATATGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 5 0.16
29 7 0.23
30 13 0.42
31 6 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
TAAATTTTAATTTTAAATTTGATTTTAAA
Found at i:4355 original size:21 final size:21
Alignment explanation
Indices: 4315--4355 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4305 ATTTGCGATG
**
4315 GACAAAAACTAATCTGCGACA
1 GACAAAAACTAATCAACGACA
*
4336 GACAAACACTAATCAACGAC
1 GACAAAAACTAATCAACGAC
4356 GGCTAAACAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.27, G:0.12, T:0.12
Consensus pattern (21 bp):
GACAAAAACTAATCAACGACA
Found at i:14175 original size:19 final size:20
Alignment explanation
Indices: 14138--14185 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
14128 CCACATCAAG
14138 AATTACATTATCAAGCAAA-A
1 AATTA-ATTATCAAGCAAATA
14158 AATTAATTAT-AAGTCAAATA
1 AATTAATTATCAAG-CAAATA
*
14178 AAATAATT
1 AATTAATT
14186 GCACGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 9 0.36
20 13 0.52
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (20 bp):
AATTAATTATCAAGCAAATA
Found at i:15266 original size:20 final size:21
Alignment explanation
Indices: 15229--15268 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15219 TTAAAACCCA
*
15229 AAAATAAAAACTAACAATTTG
1 AAAATAAAAACCAACAATTTG
*
15250 AAAA-AAAAACCACCAATTT
1 AAAATAAAAACCAACAATTT
15269 AAGGCCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.15, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAATAAAAACCAACAATTTG
Found at i:17087 original size:31 final size:31
Alignment explanation
Indices: 17049--17125 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
17039 CCAAGTTGAC
* *
17049 CAATTTGAGACTAAATCTTTCAAAATTTACT
1 CAATTTGAGCCTAAACCTTTCAAAATTTACT
* *
17080 CAATTTGAGCCTATACCTTTCAAAATTTGCT
1 CAATTTGAGCCTAAACCTTTCAAAATTTACT
17111 CAATTTGAGCCTAAA
1 CAATTTGAGCCTAAA
17126 AAATAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (31 bp):
CAATTTGAGCCTAAACCTTTCAAAATTTACT
Found at i:26359 original size:31 final size:30
Alignment explanation
Indices: 26320--26414 Score: 118
Period size: 31 Copynumber: 3.1 Consensus size: 30
26310 TTGACTTTAT
* * *
26320 GGACTGATTTGAGCCAATTTTGCAACGTTA
1 GGACTGATTTGAACCGATTTTACAACGTTA
*
26350 GAGACTGATTTGACCCGATTTTACAACGTTA
1 G-GACTGATTTGAACCGATTTTACAACGTTA
* *
26381 GGAACTGAATTGAACCGATTTTACAATGTTA
1 GG-ACTGATTTGAACCGATTTTACAACGTTA
26412 GGA
1 GGA
26415 ACTTAATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.05
31 54 0.95
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (30 bp):
GGACTGATTTGAACCGATTTTACAACGTTA
Found at i:27636 original size:236 final size:236
Alignment explanation
Indices: 27218--27921 Score: 1306
Period size: 236 Copynumber: 3.0 Consensus size: 236
27208 AATAATTATA
* * * * *
27218 GGAAA-TGAAAGTACTAAAAAATCATTCGAAAGATTTAATCTTATTAATTTGATTACTATTTAGA
1 GGAAAGTGAAAGTACTAAAGAACCAGTCGAGAGATTTAACCTTATTAATTTGATTACTATTTAGA
*
27282 TTGGTTTTTTCGTCATTTCAATATTGGTTTTTTCGTTATTATCACAAACTTCTAAAGGCATTTTT
66 TTGGTTTTTTCGTCATTTCAATATTGGTTTTTTCGTTATTATCACAAACTTCTAAGGGCATTTTT
*
27347 GACTTTCTAGTAATTTAATATAATATAACATATTTATAAGTGGTTTGACTAAACGATCTATTTAA
131 GACTTTCTAGCAATTTAATATAATATAACATATTTATAAGTGGTTTGACTAAACGATCTATTTAA
27412 CATTATATAATTTTCTCTCCGGTTATCCGATTAAGGTGATC
196 CATTATATAATTTTCTCTCCGGTTATCCGATTAAGGTGATC
27453 GGAAAGTGAAAGTACTAAAGAACCAGTCGAGAGATTTAACCTTATTAATTTGATTACTATTTAGA
1 GGAAAGTGAAAGTACTAAAGAACCAGTCGAGAGATTTAACCTTATTAATTTGATTACTATTTAGA
27518 TTGGTTTTTTCGTCATTTCAATATTGGTTTTTTCGTTATTATCACAAACTTCTAAGGGCATTTTT
66 TTGGTTTTTTCGTCATTTCAATATTGGTTTTTTCGTTATTATCACAAACTTCTAAGGGCATTTTT
27583 GACTTTCTAGCAATTTAATATAATATAACATATTTATAAGTGGTTTGACTAAACGATCTATTTAA
131 GACTTTCTAGCAATTTAATATAATATAACATATTTATAAGTGGTTTGACTAAACGATCTATTTAA
27648 CATTATATAATTTTCTCTCCGGTTATCCGATTAAGGTGATC
196 CATTATATAATTTTCTCTCCGGTTATCCGATTAAGGTGATC
27689 GG-AAGTGAAAGTACTAAAGAACCAGTCGAGAGATTTAACCTTATTAATTTGATTACTATTTAGA
1 GGAAAGTGAAAGTACTAAAGAACCAGTCGAGAGATTTAACCTTATTAATTTGATTACTATTTAGA
*
27753 TTGG-TTTTTCATCATTTCAATATTGGTTTTTTCGTTATTATCACAAACTTCTAAGGGCATTTTT
66 TTGGTTTTTTCGTCATTTCAATATTGGTTTTTTCGTTATTATCACAAACTTCTAAGGGCATTTTT
*
27817 TACTTTCTAGCAATTTAATATAATATAACATATTTATAAGTGGTTTGACTAAACGATCTATTTAA
131 GACTTTCTAGCAATTTAATATAATATAACATATTTATAAGTGGTTTGACTAAACGATCTATTTAA
27882 CATTATATAATTTTCTCTCCGGTTATCCGATTAAGGTGAT
196 CATTATATAATTTTCTCTCCGGTTATCCGATTAAGGTGAT
27922 TTAAGTGTCT
Statistics
Matches: 459, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
234 163 0.36
235 71 0.15
236 225 0.49
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (236 bp):
GGAAAGTGAAAGTACTAAAGAACCAGTCGAGAGATTTAACCTTATTAATTTGATTACTATTTAGA
TTGGTTTTTTCGTCATTTCAATATTGGTTTTTTCGTTATTATCACAAACTTCTAAGGGCATTTTT
GACTTTCTAGCAATTTAATATAATATAACATATTTATAAGTGGTTTGACTAAACGATCTATTTAA
CATTATATAATTTTCTCTCCGGTTATCCGATTAAGGTGATC
Found at i:30440 original size:22 final size:22
Alignment explanation
Indices: 30415--30456 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30405 GACAAACCCG
* *
30415 TAACCTAAATGACCCGAGAAGT
1 TAACCTAAATAACCCAAGAAGT
*
30437 TAACCTGAATAACCCAAGAA
1 TAACCTAAATAACCCAAGAA
30457 TATTATAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.17
Consensus pattern (22 bp):
TAACCTAAATAACCCAAGAAGT
Found at i:40176 original size:34 final size:33
Alignment explanation
Indices: 40138--40219 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 33
40128 TTTTTCCAGC
* *
40138 AAAGATTTTCTTTTTTGCAAATTATTATTGGAGT
1 AAAGATTTT-TTTTTTGCAAATTATTAATGGAGA
*
40172 AAAGATTGTTTTTTCTGCAAATTATTAATGGAGA
1 AAAGATT-TTTTTTTTGCAAATTATTAATGGAGA
*
40206 AAAGATGTTTTTTT
1 AAAGATTTTTTTTT
40220 ATGGACATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 6 0.14
34 34 0.81
35 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.48
Consensus pattern (33 bp):
AAAGATTTTTTTTTTGCAAATTATTAATGGAGA
Found at i:41825 original size:22 final size:22
Alignment explanation
Indices: 41800--41846 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
41790 TTTTTAATTG
*
41800 AGTAAAACT-ATAAAAGTAAAAT
1 AGTAAAA-TGATAAAAATAAAAT
*
41822 AGTAAAATGGTAAAAATAAAAT
1 AGTAAAATGATAAAAATAAAAT
41844 AGT
1 AGT
41847 TATAAGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.23
Consensus pattern (22 bp):
AGTAAAATGATAAAAATAAAAT
Found at i:41825 original size:93 final size:93
Alignment explanation
Indices: 41723--41907 Score: 298
Period size: 93 Copynumber: 2.0 Consensus size: 93
41713 GCTTTTTAAT
* * *
41723 TAAATTAGTAATATCGTAAAAATAAAATAGGTATAAGGATATTAGATTTAATTAAATAAAAATAG
1 TAAAATAGTAAAATCGTAAAAATAAAATAGGTATAAGGATATGAGATTTAATTAAATAAAAATAG
*
41788 AGTTTTTAATTGAGTAAAACTATAAAAG
66 AGTTTTTAATTGACTAAAACTATAAAAG
* *
41816 TAAAATAGTAAAATGGTAAAAATAAAATAGTTATAAGGATATGAGATTTAATTAAATAAAAATAG
1 TAAAATAGTAAAATCGTAAAAATAAAATAGGTATAAGGATATGAGATTTAATTAAATAAAAATAG
* *
41881 AGTTTTTAGTTGACTAAAAGTATAAAA
66 AGTTTTTAATTGACTAAAACTATAAAA
41908 ATTTAAACAA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 84 1.00
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (93 bp):
TAAAATAGTAAAATCGTAAAAATAAAATAGGTATAAGGATATGAGATTTAATTAAATAAAAATAG
AGTTTTTAATTGACTAAAACTATAAAAG
Found at i:41981 original size:31 final size:31
Alignment explanation
Indices: 41943--42004 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
41933 ATATTTGAAA
41943 AATAAGGGTATAATAGATGATTCAAAAGTTT
1 AATAAGGGTATAATAGATGATTCAAAAGTTT
*
41974 AATAAGGGTATAATAGGTGATTCAAAAGTTT
1 AATAAGGGTATAATAGATGATTCAAAAGTTT
42005 TACAAAACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (31 bp):
AATAAGGGTATAATAGATGATTCAAAAGTTT
Found at i:43294 original size:27 final size:29
Alignment explanation
Indices: 43239--43300 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
43229 TTCTAAATTG
* *
43239 ATATTATTAAAATATATTTTAATTATGTCA
1 ATATTATTAAAATATA-TTAAAATATGTCA
*
43269 TTATTATTAAAATATA-TAAAAT-TGTCA
1 ATATTATTAAAATATATTAAAATATGTCA
43296 ATATT
1 ATATT
43301 TATTGATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.32
28 4 0.14
30 15 0.54
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (29 bp):
ATATTATTAAAATATATTAAAATATGTCA
Found at i:44249 original size:23 final size:22
Alignment explanation
Indices: 44223--44280 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
44213 TAATAAAAGT
44223 TCATAGAGAGGTTATCAACAAAA
1 TCATAGAGAGGTTATCAA-AAAA
**
44246 TCATATG-GAGGTTATCAAAATT
1 TCATA-GAGAGGTTATCAAAAAA
*
44268 TCATAGAAAGGTT
1 TCATAGAGAGGTT
44281 TATTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 12 0.40
23 16 0.53
24 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.29
Consensus pattern (22 bp):
TCATAGAGAGGTTATCAAAAAA
Found at i:44279 original size:22 final size:21
Alignment explanation
Indices: 44154--44379 Score: 118
Period size: 22 Copynumber: 10.2 Consensus size: 21
44144 GATGATATAT
* *
44154 AATTTCATAGAGAGATTATCGA
1 AATTTCATAG-GAGGTTATCAA
** * *
44176 AATTTCATACTATGTTATAAAA
1 AATTTCATAGGAGGTTAT-CAA
*
44198 AATTT-ATAGGGAGATTAAT-AA
1 AATTTCATA-GGAGGTT-ATCAA
*
44219 AAGTTCATAGAGAGGTTATCAA
1 AATTTCATAG-GAGGTTATCAA
**
44241 CAAAATCATATGGAGGTTATCAA
1 -AATTTCATA-GGAGGTTATCAA
* *
44264 AATTTCATAGAAAGGTTTATTAA
1 AATTTCATAG-GAGG-TTATCAA
* * *
44287 AATTTTATAGTTAGGTTATCAG
1 AATTTCATAG-GAGGTTATCAA
* * *
44309 TATTTCATCAGGAGTTTATCAC
1 AATTTCAT-AGGAGGTTATCAA
44331 AATTTCATA--AGGTAATCATCAA
1 AATTTCATAGGAGGT--T-ATCAA
*
44353 AATTTCATAGTGTGGTTATCAA
1 AATTTCATAG-GAGGTTATCAA
44375 AATTT
1 AATTT
44380 GGTGGTAATT
Statistics
Matches: 155, Mismatches: 32, Indels: 34
0.70 0.14 0.15
Matches are distributed among these distances:
19 3 0.02
21 20 0.13
22 87 0.56
23 41 0.26
24 1 0.01
25 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (21 bp):
AATTTCATAGGAGGTTATCAA
Found at i:44439 original size:2 final size:2
Alignment explanation
Indices: 44432--44491 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
44422 AAGCTAAAAC
* * * *
44432 TA TA TA TA -A TA TA TA TA TA TA CA TA TA TA TG TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
44473 TG TA TC TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
44492 TAACAACAAT
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45661 original size:12 final size:13
Alignment explanation
Indices: 45643--45675 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45633 GTGGGTTTAA
45643 TAGTTTGTTTATT
1 TAGTTTGTTTATT
*
45656 TA-TTTGTTTGTT
1 TAGTTTGTTTATT
45668 TAGTTTGT
1 TAGTTTGT
45676 AATTAGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.18, T:0.70
Consensus pattern (13 bp):
TAGTTTGTTTATT
Found at i:45818 original size:2 final size:2
Alignment explanation
Indices: 45811--45854 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
45801 TTAATATCTC
*
45811 AT AT AT AT AT AT AT AC 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 AT AT AT AT AT
45853 AT
1 AT
45855 TATTTTTAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46840 original size:45 final size:45
Alignment explanation
Indices: 46790--46888 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
46780 AGCAACAATT
** *
46790 AATATTAGGTTTATTTTAATGAATTATGTAGAGATGGAGGAGTAG
1 AATATTAGGTTTATTTTAATGAATTACCTAGAGATGGAGGACTAG
* * * *
46835 AATATTAGCTTTATTTTGATGAATTACCTATAGATGGAGTACTAG
1 AATATTAGGTTTATTTTAATGAATTACCTAGAGATGGAGGACTAG
46880 AAT-TTAGGT
1 AATATTAGGT
46889 AATGAACTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
44 5 0.11
45 41 0.89
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.39
Consensus pattern (45 bp):
AATATTAGGTTTATTTTAATGAATTACCTAGAGATGGAGGACTAG
Found at i:49498 original size:11 final size:11
Alignment explanation
Indices: 49482--49507 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49472 AGATAATTTA
49482 TTTTCTTCTAG
1 TTTTCTTCTAG
49493 TTTTCTTCTAG
1 TTTTCTTCTAG
49504 TTTT
1 TTTT
49508 TTAGGCAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTCTTCTAG
Found at i:51607 original size:2 final size:2
Alignment explanation
Indices: 51595--51633 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
51585 GGTCTTGCAT
51595 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51634 CAATGTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:53542 original size:2 final size:2
Alignment explanation
Indices: 53535--53560 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
53525 TTCTTTGTAT
53535 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
53561 AATTAATCAT
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:55318 original size:336 final size:332
Alignment explanation
Indices: 54635--55756 Score: 1156
Period size: 336 Copynumber: 3.3 Consensus size: 332
54625 CAACACTCAT
* * * *
54635 AAAATATATATAATTCAACGCAAAAAAGATT-AGATGACTTTTCACGCTTTTAATATTGTTTTTC
1 AAAAAATATATAATTCAACGCCAAAAAGATTGA-AGGACTTTTCACGCTTTTAATATCGTTTTTC
* *
54699 ATA-TTTTCTGAATAAATTTCAAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
65 ATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
* *
54763 TTAAAT-TCAATGTGGCTGAGATTATGTTAGATGAATATA-ATTATTTTAAGGAGTCTCGGCGTC
130 TTAAATCT-AATGTGGCTGAGATT-TGTTAGATGAATATAGA-TATTTCAAGGAGTCTCGGCGCC
* * * * *
54826 AAAAATTATGCAAAACTAGGTCGGGGCCCCGAAACGCGTTTTTAGCCCAAAA-ATCGTGATGGTT
192 AAAAATCATGCAAAACTA-GCCGGGGCCCCGAAACGCGTTTTTAG-CCAAAACCT-GTTATGATT
* * * * *
54890 AGTT-CACGATTTCGGCTAAAATTTTGCAAAAAAAAAATGACCCAAAAAATT-TTTCCTCAATTA
254 ACTTACACGATTTCGGCTAAAATTTTGC--AAAAAAATTGACCC-GAAAGTTATTTCCTCAATTT
* * * * * *
54953 CTGGCTAAAATACTCAT
316 TTAGCCAAAATAGTAAA
* * * * * * *
54970 AGAGAATATATAATTTAACGTCAAAAATATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCT
1 AAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTCA
* **
55035 TATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTAT
66 TATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
* * * * *
55100 TAAATCTAATGTAGCTGAGATTTGATTAGATGAATATAGATATCTCAAAGAGTCTTGGTAG-CAA
131 TAAATCTAATGTGGCTGAGATTTG-TTAGATGAATATAGATATTTCAAGGAGTCTCGG-CGCCAA
*
55164 AAATCATGCAAAACTTAGCCGGGGCCCCAAAACGCGTTTTTAGCCAAAACCTGTTATGATTA-TT
194 AAATCATGCAAAAC-TAGCCGGGGCCCCGAAACGCGTTTTTAGCCAAAACCTGTTATGATTACTT
*
55228 ACACGATTTCGTCTAAAATTTTGCAAAATAAATTTGACCCGAAAGTTATTTCCTCAATTTTTAGC
258 ACACGATTTCGGCTAAAATTTTGCAAAA-AAA-TTGACCCGAAAGTTATTTCCTCAATTTTTAGC
*
55293 CACAATAGTAAA
321 CAAAATAGTAAA
* * * * * *
55305 AAAAAATTATATAATTCAACGCCGAGAAGATTGAAGGGCTTTTCATGCTTCTAATATTGTTTTTC
1 AAAAAA-TATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTC
* * * * * * *** **
55370 CTATTATTTTCCGAATTAATTACTAATTAAATCGAAACATGATTTAGATGCTTGT-TTTACGGAT
65 ATA-T-TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAAT
* * *
55434 CCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTATCAGCGCC
128 CCTTAAATCTAATGTGGCTGAGATTT-GTTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCC
* * * * * * * *
55499 AAAAATCTTGCAACACCGAACCGGGGCCCCGGAACGCGTTGTTAGCCAAAAACCGAGATTTTGAC
192 AAAAATCATGCAA-AACTAGCCGGGGCCCCGAAACGCGTTTTTAGCC-AAAACC-TG-TTATGA-
* * * * * * *
55564 TAACGTACACGATTTTGGCAAAAAATTTGC--AAAAATTGACCCGAAAGATATTACCTCAATTTT
252 TTACTTACACGATTTCGGCTAAAATTTTGCAAAAAAATTGACCCGAAAGTTATTTCCTCAATTTT
* **
55627 TAGCCATAAT-GCTCAGG
317 TAGCCAAAATAG-T-AAA
* *
55644 AAAAAATATATAATTCAAAGCCAAAAAGATTGAAGGGCTTTTCACGCTTTTAATATCGTTTTTCA
1 AAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTCA
* *
55709 TATTTTT-TTAATTAATTTTTAATTAAATCGAAACAAGATTCAGATGCT
66 TATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
55757 TGATCGGTTG
Statistics
Matches: 655, Mismatches: 107, Indels: 50
0.81 0.13 0.06
Matches are distributed among these distances:
333 4 0.01
334 10 0.02
335 159 0.24
336 199 0.30
337 100 0.15
338 142 0.22
339 11 0.02
340 7 0.01
341 2 0.00
342 21 0.03
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (332 bp):
AAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCGTTTTTCA
TATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCT
TAAATCTAATGTGGCTGAGATTTGTTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCCAAAA
ATCATGCAAAACTAGCCGGGGCCCCGAAACGCGTTTTTAGCCAAAACCTGTTATGATTACTTACA
CGATTTCGGCTAAAATTTTGCAAAAAAATTGACCCGAAAGTTATTTCCTCAATTTTTAGCCAAAA
TAGTAAA
Found at i:55957 original size:15 final size:16
Alignment explanation
Indices: 55939--55971 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55929 AATTAATCTA
55939 AAATTAAA-CAAAACT
1 AAATTAAATCAAAACT
*
55954 AAATTAAATCTAAACT
1 AAATTAAATCAAAACT
55970 AA
1 AA
55972 GGAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTAAATCAAAACT
Found at i:58229 original size:327 final size:325
Alignment explanation
Indices: 57550--59268 Score: 1659
Period size: 327 Copynumber: 5.2 Consensus size: 325
57540 GACTCGATCA
* * * * *
57550 ATGCTCGTAAAAACAAATACTTAAATGCAATGTGGCTGATATTTGACTAGATGGATATAGATATT
1 ATGCTC-TAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATT
* * * * * *
57615 TCAAGGAGTCTTGACGCCAAAAGTCATGAAAAACTGAGCCGGGG-CCGGAAACT-CGTTTTTAGC
65 TCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGACCCGGGGCCCTG-AA-TGCATTTTTAGC
* ** * * *
57678 TAAAAAACTATGATGGTTAGTACAGGATTTCGTCTAAAATTTTGTAAAAAATGACCCGAAAAATT
128 -CAAAAACCGTGAT-G---GTACACGATTTCGACTAAAATTTTGCAAAAAATGACCCGAAAAA-T
* * * * * * *
57743 TTTTCCTCATTTTTTTGGTTAAAATACTCATGAAATATATATAATTT-ATGCCAAAAAGATTGCA
187 TTTTCCTCA-ATTTTTAGCTAAAATACTCATAAAAAATATATAATTTAATACCAAAAAGATTGAA
** * * * *
57807 GGACTTTTCAAACTTTTCATATTGTTTTTCATATTTTTTCTAAATTAATTTCTAATTAAACCGAA
251 GG-CTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAA
57872 ACAAGATTCAG
315 ACAAGATTCAG
* *
57883 ATGCTTCTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATGGATATC
1 ATGC-TCTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATT
* *
57948 TCAAGGAGTCTTGGGGCCAAAAATCATGCAAAACTGACCCGGGGCCCTTGAACGCATTTTTAGCC
65 TCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGACCCGGGGCCC-TGAATGCATTTTTAGCC
* * * * *
58013 AAAAACCGTGATGGTACACGATTTCGACTAAAATTTTACGAAAATTGACCAC-AAAGATATTTCC
129 AAAAACCGTGATGGTACACGATTTCGACTAAAATTTTGCAAAAAATGACC-CGAAAAATTTTTCC
* * * * *
58077 ACAATTTTTAGCTGAAATACTCAT-AAAAATATATAATTTAATGCCAAAAATATTCAAGGGTCTT
193 TCAATTTTTAGCTAAAATACTCATAAAAAATATATAATTTAATACCAAAAAGATTGAA-GG-CTT
* * * *
58141 TT-ACGCTTCTAATATCGTTTTTCCTATTTTTTCCGAATTAATTTGTAATTAAATCGAAACAAGA
256 TTCACGCTTTTAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGA
*
58205 TTTAG
321 TTCAG
* * *
58210 ATGCTCATAAAAGCAAATCCTTGAATCCAATGTGTCTGAGATTTGATTAGATGAATATAGATATT
1 ATGCTC-TAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATT
* * * * * * *
58275 TGAAGGAGTCTTGGCCCCAAAAATTATGCAAAAATGACCCGAGGCCCCGTAATGCGTTTTTAGCC
65 TCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGACCCGGGGCCCTG-AATGCATTTTTAGCC
* * *
58340 AAAAAAAACCGTGATGGTACACGATATT-GGCTAATATTTTGCAAAAAA--A-CCGAAATATTTT
129 ---AAAAACCGTGATGGTACACGAT-TTCGACTAAAATTTTGCAAAAAATGACCCGAAAAATTTT
* * *
58401 TCCTCAATTTTTATGC-ACAATACTCATAAAAAATATATAATTCAACACCAAAAAGATTGAAGTG
190 TCCTCAATTTTTA-GCTAAAATACTCATAAAAAATATATAATTTAATACCAAAAAGATTGAAG-G
* * * *
58465 CTTTTCACGCATCTAATATCGTTTTTCATATTTTTTTTTCAAATTAATTTCTAATTAAATCGAAA
253 CTTTTCACGCTTTTAATATCGTTTTTCATA-TTTTTTCT-GAATTAATTTCTAATTAAATCGAAA
* * *
58530 TATGATTCGG
316 CAAGATTCAG
* * *
58540 ATGCT-T-----CTAA-----AAA--CAA--TGACT-AGGATTTGGTTAGATGAATATAGATATT
1 ATGCTCTAAAAACAAATCCTTAAATCCAATGTGGCTGA-GATTTGATTAGATGAATATAGATATT
* * * ** *
58589 TGAAGGAGT-TTCGGCACCAAAAATCATGCAAAACTGAACC-GAACCCTAGTATGCATTTTTAGC
65 TCAAGGAGTCTT-GGCGCCAAAAATCATGCAAAACTGACCCGGGGCCCT-GAATGCATTTTTAGC
* * * * * *
58652 CAAAAACTGTGATGATTATTACACGATTCCGGCTAAAATTTTGCAAAAATTGACCCGAAAAGATA
128 CAAAAACCGTGATG----GTACACGATTTCGACTAAAATTTTGCAAAAAATGACCCGAAAA-ATT
* * * *
58717 TTTCCTCAATTTTTAGCCATAATGCTCATAAAAAATATATAATTCAACT-CCAAAAAAGATTGGA
188 TTTCCTCAATTTTTAGCTAAAATACTCATAAAAAATATATAATTTAA-TACC-AAAAAGATT-GA
** * *
58781 AGGCTTTTCATTCTTTTAATATCATTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCAAA
250 AGGCTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAA
58846 ACAAGATTCAG
315 ACAAGATTCAG
* * *
58857 ATAG-TCATAAAAACAAATCCTTAAATGCAATGTGGCTAAGATTTTATTAGATGAATATAGATAT
1 AT-GCTC-TAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATAT
* * * * *
58921 TTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACTGAGCC--GCCTCCTAAATGCATTTTTAGC
64 TTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGACCCGGGGC-CCTGAATGCATTTTTAGC
* * ** *
58984 AAAAAAAAAAACCGTGATGGTTACAAGATTTTTACTAAATTTTTGCAAAAAAAATGACCCGAAAA
128 -----CAAAAACCGTGATGG-TACACGATTTCGACTAAAATTTTGC--AAAAAATGACCCGAAAA
* * * * * *
59049 ATTTTTCCTCAATTTTTGGATAAAATACTCATAAAATATATATAATTTAACACCAAAAAAATTGG
185 ATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAAAATATATAATTTAATACCAAAAAGATTGA
* * *
59114 AGGACTTTTCACGCTTTTAATATCATTTTTCATATTTTTTCTGAACTAATTTCTAATTAAATCAA
250 AGG-CTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGA
59179 AACAAGATTCAG
314 AACAAGATTCAG
* * * * *
59191 ATGCTCGTAAAAACAAATTCTTATATCCTATGTGGCTGAGATTTGATTAGATGAATATGGATATC
1 ATGCTC-TAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATT
59256 TCAAGGAGTCTTG
65 TCAAGGAGTCTTG
59269 TGATCGTGTC
Statistics
Matches: 1151, Mismatches: 168, Indels: 133
0.79 0.12 0.09
Matches are distributed among these distances:
310 12 0.01
313 20 0.02
314 89 0.08
316 4 0.00
317 41 0.04
318 56 0.05
319 36 0.03
320 4 0.00
323 3 0.00
324 3 0.00
326 18 0.02
327 233 0.20
328 70 0.06
329 44 0.04
330 72 0.06
331 5 0.00
332 15 0.01
333 173 0.15
334 180 0.16
335 45 0.04
336 16 0.01
337 12 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (325 bp):
ATGCTCTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTT
CAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGACCCGGGGCCCTGAATGCATTTTTAGCCAA
AAACCGTGATGGTACACGATTTCGACTAAAATTTTGCAAAAAATGACCCGAAAAATTTTTCCTCA
ATTTTTAGCTAAAATACTCATAAAAAATATATAATTTAATACCAAAAAGATTGAAGGCTTTTCAC
GCTTTTAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAG
Found at i:62474 original size:15 final size:16
Alignment explanation
Indices: 62454--62483 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
62444 AAAGTTCATA
62454 ATATTATAAT-TAAAT
1 ATATTATAATCTAAAT
62469 ATATTATAATCTAAA
1 ATATTATAATCTAAA
62484 AATAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAATCTAAAT
Found at i:62930 original size:201 final size:203
Alignment explanation
Indices: 62546--62941 Score: 656
Period size: 201 Copynumber: 2.0 Consensus size: 203
62536 CTTTCCATAA
*
62546 TTTAAAAAATTTAAATATTGAATTTACAATATCTTTCCATAATTAATAAAAAAGTTAAATCATCT
1 TTTAAAAAATTTAAATATTAAATTTACAATATCTTTCCATAATTAATAAAAAAGTTAAATCATCT
62611 CAAAAAATAAAATAAAAAAAGTTAAATGACTAAAAAAATACTTATTAAAAAATCATTATACTAAA
66 CAAAAAATAAAATAAAAAAAGTTAAATGACTAAAAAAATACTTATTAAAAAATCATTATACTAAA
* *
62676 ATATTAAGGGTATTTATGAAATTTCCTAATTAGAATTTTTGAGTTCATGATTTTATATAGTAGTA
131 ATACTAAGGGTATTTATGAAATTTCCTAATTAAAATTTTTGAGTTCATGATTTTATATAGTAGTA
62741 AGATAAGG
196 AGATAAGG
*
62749 TTTAAAAAATTTAAATATTAAATTTACAATATCTTTCCATAATTAATAAAAAAGTTGAATCATCT
1 TTTAAAAAATTTAAATATTAAATTTACAATATCTTTCCATAATTAATAAAAAAGTTAAATCATCT
* * * * *
62814 CAAAAAA-ATAA-AAACAAAGTTAAATGACTAAAAAAATACTTATTAAAAAATTATTATATTATA
66 CAAAAAATAAAATAAAAAAAGTTAAATGACTAAAAAAATACTTATTAAAAAATCATTATACTAAA
*
62877 ATACTAAGGGTATTTATGAAATTTTCC-AATTAAAATTTTTGAGATT-GTGATTTTATATAGTAG
131 ATACTAAGGGTATTTATGAAA-TTTCCTAATTAAAATTTTTGAG-TTCATGATTTTATATAGTAG
62940 TA
194 TA
62942 CTAGTAAGAT
Statistics
Matches: 181, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
201 101 0.56
202 10 0.06
203 70 0.39
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (203 bp):
TTTAAAAAATTTAAATATTAAATTTACAATATCTTTCCATAATTAATAAAAAAGTTAAATCATCT
CAAAAAATAAAATAAAAAAAGTTAAATGACTAAAAAAATACTTATTAAAAAATCATTATACTAAA
ATACTAAGGGTATTTATGAAATTTCCTAATTAAAATTTTTGAGTTCATGATTTTATATAGTAGTA
AGATAAGG
Found at i:64211 original size:2 final size:2
Alignment explanation
Indices: 64204--64235 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
64194 CTATGTTAAA
*
64204 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64236 CAAGCATGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:71822 original size:18 final size:18
Alignment explanation
Indices: 71801--71842 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
71791 ATGACACTTG
* *
71801 AAAGAAACTCTAGGGAGT
1 AAAGAAACTCAAGAGAGT
*
71819 AAAGAAACTGAAGAGAGT
1 AAAGAAACTCAAGAGAGT
71837 AAAGAA
1 AAAGAA
71843 GAAGACTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.07, G:0.26, T:0.12
Consensus pattern (18 bp):
AAAGAAACTCAAGAGAGT
Found at i:73778 original size:3 final size:3
Alignment explanation
Indices: 73770--73794 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
73760 GCATTTTCCT
73770 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
73795 GGCCGGATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:73952 original size:25 final size:27
Alignment explanation
Indices: 73880--73953 Score: 71
Period size: 30 Copynumber: 2.7 Consensus size: 27
73870 AAGGAAGTGT
* *
73880 AAATTACAATTTTTCCATATATCCCAAA
1 AAATTACAATTTTACCATGTA-CCCAAA
*
73908 AAGATTTACAATTTAACCATGTA-CC-AA
1 AA-A-TTACAATTTTACCATGTACCCAAA
*
73935 AAATTACAATTTTGCCATG
1 AAATTACAATTTTACCATG
73954 AACATCATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 14 0.36
26 1 0.03
27 4 0.10
28 4 0.10
29 1 0.03
30 15 0.38
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (27 bp):
AAATTACAATTTTACCATGTACCCAAA
Found at i:82017 original size:20 final size:20
Alignment explanation
Indices: 81992--82033 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
81982 TCCTAGATGA
81992 AAATATAAGTTCAATCTCTT
1 AAATATAAGTTCAATCTCTT
82012 AAATATAAGTTCAATCTCTT
1 AAATATAAGTTCAATCTCTT
82032 AA
1 AA
82034 TTAACTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (20 bp):
AAATATAAGTTCAATCTCTT
Found at i:88824 original size:3 final size:3
Alignment explanation
Indices: 88816--88855 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
88806 ATAGTACTAG
88816 TAA TAA TAA TAA TAA TATA TAA TATA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA
88856 GGCAACAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:88839 original size:10 final size:9
Alignment explanation
Indices: 88816--88855 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
88806 ATAGTACTAG
88816 TAATAATAA
1 TAATAATAA
88825 TAATAATATA
1 TAATAATA-A
88835 TAATATATAA
1 TAATA-ATAA
88845 TAAT-ATAA
1 TAATAATAA
88853 TAA
1 TAA
88856 GGCAACAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.24
9 8 0.28
10 11 0.38
11 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATAATAA
Found at i:88846 original size:17 final size:16
Alignment explanation
Indices: 88818--88851 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
88808 AGTACTAGTA
88818 ATAATAATAATAATAT
1 ATAATAATAATAATAT
88834 ATAATATATAATAATAT
1 ATAATA-ATAATAATAT
88851 A
1 A
88852 ATAAGGCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATAATAATAATAT
Done.