Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 20 of 373
Found at i:5668088 original size:18 final size:17
Alignment explanation
Indices: 5668065--5668109 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
5668055 TGTTTCTTCC
5668065 CTGTTTCGTTTCCACATT
1 CTGTTTC-TTTCCACATT
*
5668083 CTGTTTCTTT--TCATT
1 CTGTTTCTTTCCACATT
5668098 CTGTTTCTTTCC
1 CTGTTTCTTTCC
5668110 TTTATTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 14 0.58
17 3 0.12
18 7 0.29
ACGTcount: A:0.07, C:0.27, G:0.09, T:0.58
Consensus pattern (17 bp):
CTGTTTCTTTCCACATT
Found at i:5668340 original size:21 final size:22
Alignment explanation
Indices: 5668287--5668343 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
5668277 CAATTTAAAT
*
5668287 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
5668309 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
5668330 AATAATAATAATAA
1 AATAATAATAATAA
5668344 TTTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:5685196 original size:19 final size:19
Alignment explanation
Indices: 5685172--5685210 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5685162 AATAAATATA
*
5685172 TATTTT-TAATAATATAATT
1 TATTTTGTAA-AAAATAATT
5685191 TATTTTGTAAAAAATAATT
1 TATTTTGTAAAAAATAATT
5685210 T
1 T
5685211 TTGTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATTTTGTAAAAAATAATT
Found at i:5687290 original size:22 final size:21
Alignment explanation
Indices: 5687224--5687291 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
5687214 GTGTGTGCAT
* *
5687224 AATATATATTTAGATATTAAAA
1 AATATATATATA-TTATTAAAA
* * *
5687246 CATATATACATAATGTATAAAAA
1 AATATATATAT-AT-TATTAAAA
5687269 GAATATATATATATTATTAAAA
1 -AATATATATATATTATTAAAA
5687291 A
1 A
5687292 TGGGAAATGT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
21 1 0.03
22 15 0.43
23 10 0.29
24 9 0.26
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (21 bp):
AATATATATATATTATTAAAA
Found at i:5688942 original size:42 final size:42
Alignment explanation
Indices: 5688894--5689008 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
5688884 CTAACTCTAT
* **
5688894 TGAAACTTCAAGGAGATCTACTGTGGCTTCAATCAACTTCGTC
1 TGAAACTTCAAGGAGATCTGCTGTGGCTTCAATCAA-TTCCAC
* * *
5688937 -GAAACTTCAAGGAGATCTGCTATAGCTTTAATCAATTCCAC
1 TGAAACTTCAAGGAGATCTGCTGTGGCTTCAATCAATTCCAC
5688978 TGAAACTTCAAGGAGATCTGCTGTGGCTTCA
1 TGAAACTTCAAGGAGATCTGCTGTGGCTTCA
5689009 GCCGCTACAA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 4 0.06
42 58 0.94
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
TGAAACTTCAAGGAGATCTGCTGTGGCTTCAATCAATTCCAC
Found at i:5689465 original size:44 final size:44
Alignment explanation
Indices: 5689409--5689558 Score: 151
Period size: 44 Copynumber: 3.4 Consensus size: 44
5689399 TGGCTTCTTA
*
5689409 CCCTACTGCTTAGGGGGTTAAAGCTCATTATCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTTAAAGCTCATTAACTTCGATCTGTTT
* * * * * * *
5689453 CCCTACTGCTTAGGGTGAT-AAGATCTATAAACTT-TAGCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAAGCTC-ATTAACTTCGATC-TGTTT
* * **
5689497 CCCTACTGCTTATGGGGTTAAAGCTCGTTGCCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTTAAAGCTCATTAACTTCGATCTGTTT
*
5689541 CCCTACTGCTTATGGGGT
1 CCCTACTGCTTAGGGGGT
5689559 AAGATCTGTG
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
43 7 0.08
44 69 0.83
45 7 0.08
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (44 bp):
CCCTACTGCTTAGGGGGTTAAAGCTCATTAACTTCGATCTGTTT
Found at i:5689507 original size:88 final size:86
Alignment explanation
Indices: 5689393--5689565 Score: 258
Period size: 88 Copynumber: 2.0 Consensus size: 86
5689383 TTAAGGCTTG
* *
5689393 TAAATTTGGCTTCTTACCCTACTGCTTAGGGGGTTAAAGCTCATTATCTTCGATCTGTTTCCCTA
1 TAAATTTAGCTTCTTACCCTACTGCTTAGGGGGTTAAAGCTCATTACCTTCGATCTGTTTCCCTA
5689458 CTGCTTA-GGGTGATAAGATCTA
66 CTGCTTATGGG-G-TAAGATCTA
* * * *
5689480 TAAACTTTAGCTTGTTACCCTACTGCTTATGGGGTTAAAGCTCGTTGCCTTCGATCTGTTTCCCT
1 TAAA-TTTAGCTTCTTACCCTACTGCTTAGGGGGTTAAAGCTCATTACCTTCGATCTGTTTCCCT
5689545 ACTGCTTATGGGGTAAGATCT
65 ACTGCTTATGGGGTAAGATCT
5689566 GTGAATTCAC
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
87 12 0.15
88 63 0.81
89 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (86 bp):
TAAATTTAGCTTCTTACCCTACTGCTTAGGGGGTTAAAGCTCATTACCTTCGATCTGTTTCCCTA
CTGCTTATGGGGTAAGATCTA
Found at i:5731497 original size:71 final size:71
Alignment explanation
Indices: 5731414--5731556 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
5731404 TTGAATCTTG
5731414 TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
1 TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
5731479 CTAAAA
66 CTAAAA
5731485 TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
1 TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
5731550 CTAAAA
66 CTAAAA
5731556 T
1 T
5731557 TCAATGATTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (71 bp):
TATTTGTATTTAATTGTAACATATTTGTTTATTTGTAGTAAAAATGTAAACACTAAACTTAATTC
CTAAAA
Found at i:5736551 original size:8 final size:8
Alignment explanation
Indices: 5736528--5736562 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
5736518 GGTTTCAACA
5736528 ATATACAT
1 ATATACAT
*
5736536 ATAGACAT
1 ATATACAT
*
5736544 ACATACAT
1 ATATACAT
5736552 ATATACAT
1 ATATACAT
5736560 ATA
1 ATA
5736563 CATATAGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.31
Consensus pattern (8 bp):
ATATACAT
Found at i:5750034 original size:25 final size:25
Alignment explanation
Indices: 5749998--5750059 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
5749988 ACAAATGTGC
*
5749998 TAATC-GATGAGCACTGACATGCTAA
1 TAATCAGA-GAGCACTAACATGCTAA
*
5750023 TAATTAGAGAGCACTAACATGCTAA
1 TAATCAGAGAGCACTAACATGCTAA
5750048 TAATCAGAGAGC
1 TAATCAGAGAGC
5750060 GTGCTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACATGCTAA
Found at i:5762185 original size:25 final size:24
Alignment explanation
Indices: 5762143--5762212 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 24
5762133 TTTTCTCAAA
*
5762143 AATTTAATTAATATAAAATTTTA-AT
1 AATTTAA-TAATATAAAA-ATTAGAT
*
5762168 AATTTAATAATTTGAAAAATTAGAT
1 AATTTAATAATAT-AAAAATTAGAT
* * *
5762193 AATTGAATAAAATTAAAATT
1 AATTTAATAATATAAAAATT
5762213 TAGGAGAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
24 14 0.38
25 23 0.62
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
AATTTAATAATATAAAAATTAGAT
Found at i:5762188 original size:17 final size:17
Alignment explanation
Indices: 5762159--5762213 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
5762149 ATTAATATAA
* *
5762159 AATTTTAATAATTTAAT
1 AATTTGAATAAATTAAT
5762176 AATTTGAA-AAATTAGAT
1 AATTTGAATAAATTA-AT
5762193 AA-TTGAATAAAATTAA-
1 AATTTGAAT-AAATTAAT
5762209 AATTT
1 AATTT
5762214 AGGAGAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 12 0.38
17 14 0.44
18 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
AATTTGAATAAATTAAT
Found at i:5768645 original size:26 final size:26
Alignment explanation
Indices: 5768615--5768669 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
5768605 CTACGTCCTT
5768615 CATGATGGGGTTTAGTCTTCGTTGTC
1 CATGATGGGGTTTAGTCTTCGTTGTC
5768641 CATGATGGGGTTTAGTCTTCGTTGTC
1 CATGATGGGGTTTAGTCTTCGTTGTC
5768667 CAT
1 CAT
5768670 CAATCGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.13, C:0.16, G:0.29, T:0.42
Consensus pattern (26 bp):
CATGATGGGGTTTAGTCTTCGTTGTC
Found at i:5772871 original size:30 final size:29
Alignment explanation
Indices: 5772816--5772879 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 29
5772806 ATGAATCGGA
***
5772816 AGCTTTGGCACTAAGTGTGTGATTTAAACT
1 AGCTTTGGCACTAAGTGTCCAATTT-AACT
5772846 AGCTTTGGCACTAAGTGTCCAATTTAACT
1 AGCTTTGGCACTAAGTGTCCAATTTAACT
5772875 AGCTT
1 AGCTT
5772880 CGGCTACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTCCAATTTAACT
Found at i:5774482 original size:39 final size:40
Alignment explanation
Indices: 5774439--5774606 Score: 130
Period size: 40 Copynumber: 4.2 Consensus size: 40
5774429 CTCGTTCAAT
* * * *
5774439 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
5774478 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
5774518 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * * *
5774558 GGCCTTCGAGACTTGACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
5774598 TGCCTTCGG
1 TGCCTTCGG
5774607 ATCTTAGTCC
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
39 26 0.24
40 78 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:5774619 original size:40 final size:40
Alignment explanation
Indices: 5774476--5774659 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
5774466 TAACTCATAC
* *
5774476 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
5774516 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* * *
5774556 AAGGCCTTCGAGACTTGACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
5774596 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
5774637 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
5774660 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 7 0.06
40 102 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:5782438 original size:80 final size:80
Alignment explanation
Indices: 5782343--5782524 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 80
5782333 TCGTTCAAGT
* *
5782343 GCCTTCGGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-
1 GCCTTC-GGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCCGGAT
*
5782405 ATTAGT-A-TCTCGCACAAA
63 A-TAGTCACT-TAGCACAAA
**
5782423 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATAT
1 -GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATAT
5782488 AGTCACTTAGCACAAA
65 AGTCACTTAGCACAAA
*
5782504 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
5782525 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 7 0.08
80 66 0.73
81 16 0.18
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:5782484 original size:40 final size:40
Alignment explanation
Indices: 5782342--5782524 Score: 194
Period size: 40 Copynumber: 4.5 Consensus size: 40
5782332 CTCGTTCAAG
* *
5782342 TGCCTTCGGGGACTTAACCCGGATTTTAA-AACTCGCACGAA
1 TGCCTTC-GGGACTTAACCCGGA-ATTAATAACTCGCACAAA
* *
5782383 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
*
5782423 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
** * * *
5782463 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACAAA
*
5782504 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
5782525 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
39 8 0.07
40 96 0.79
41 18 0.15
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
Found at i:5790336 original size:80 final size:80
Alignment explanation
Indices: 5790242--5790415 Score: 223
Period size: 80 Copynumber: 2.2 Consensus size: 80
5790232 TCGTTCAAGT
* *
5790242 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-A
1 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATA
*
5790304 TTAGT-A-TCTCGCACAAA
64 -TAGTCACT-TAGCACAAA
**
5790321 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATAT
1 -GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATAT
5790386 AGTCACTTAGCACAAA
65 AGTCACTTAGCACAAA
5790402 GCCTTCGGGACTTA
1 GCCTTCGGGACTTA
5790416 GCCCAGACAG
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
79 7 0.08
80 66 0.79
81 10 0.12
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:5790382 original size:40 final size:40
Alignment explanation
Indices: 5790241--5790369 Score: 197
Period size: 40 Copynumber: 3.2 Consensus size: 40
5790231 CTCGTTCAAG
* *
5790241 TGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAA
* *
5790281 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
*
5790321 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
5790361 TGCCTTCGG
1 TGCCTTCGG
5790370 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
Found at i:5790416 original size:40 final size:40
Alignment explanation
Indices: 5790242--5790419 Score: 157
Period size: 40 Copynumber: 4.5 Consensus size: 40
5790232 TCGTTCAAGT
* * * * *
5790242 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTAATAACTAGCACAAAG
* * * *
5790282 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
* * *
5790322 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
* * *
5790362 GCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGAAT-TAATAAC-TAGCACAAAG
5790402 GCCTTCGGGACTTAGCCC
1 GCCTTCGGGACTTAGCCC
5790420 AGACAGCATT
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 8 0.07
40 100 0.84
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
Found at i:5799051 original size:20 final size:21
Alignment explanation
Indices: 5798995--5799052 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
5798985 TTTACATCCA
* *
5798995 TTTTTCTTGTCGTTTTGCTATT
1 TTTTTCTTGT-ATTTTTCTATT
* *
5799017 TGTTTCTTCTATTTTTC-ATT
1 TTTTTCTTGTATTTTTCTATT
*
5799037 TTTTTCTTGTTTTTTT
1 TTTTTCTTGTATTTTT
5799053 TACTGCTCGC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 16 0.55
21 5 0.17
22 8 0.28
ACGTcount: A:0.05, C:0.12, G:0.09, T:0.74
Consensus pattern (21 bp):
TTTTTCTTGTATTTTTCTATT
Found at i:5802715 original size:16 final size:15
Alignment explanation
Indices: 5802693--5802745 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
5802683 ATATATTTTT
5802693 AAATTAAAATATAAA
1 AAATTAAAATATAAA
* **
5802708 AAATTTAAATTATACT
1 AAA-TTAAAATATAAA
5802724 AAATTAAAATAT-AA
1 AAATTAAAATATAAA
5802738 AAATTAAA
1 AAATTAAA
5802746 TTCTAAATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 8 0.26
15 11 0.35
16 12 0.39
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATTAAAATATAAA
Found at i:5802752 original size:14 final size:14
Alignment explanation
Indices: 5802693--5802745 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
5802683 ATATATTTTT
5802693 AAATTAAAATATAAA
1 AAATTAAAATAT-AA
* *
5802708 AAATTTAAATTATACT
1 AAA-TTAAAATATA-A
5802724 AAATTAAAATATAA
1 AAATTAAAATATAA
5802738 AAATTAAA
1 AAATTAAA
5802746 TTCTAAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 8 0.25
15 13 0.41
16 11 0.34
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATTAAAATATAA
Found at i:5802883 original size:29 final size:31
Alignment explanation
Indices: 5802837--5802903 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
5802827 AAATGATGAC
*
5802837 TTGAATTTCTAAT-AAAAAAC-AACATTCAA
1 TTGAATTTCTAATAAAAAAACTAACAATCAA
*
5802866 TTGAGTTT-TAATAAAAAAAACTAACAATCAA
1 TTGAATTTCTAAT-AAAAAAACTAACAATCAA
*
5802897 TTAAATT
1 TTGAATT
5802904 CTGAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 4 0.13
29 7 0.23
30 7 0.23
31 13 0.42
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (31 bp):
TTGAATTTCTAATAAAAAAACTAACAATCAA
Found at i:5803504 original size:15 final size:16
Alignment explanation
Indices: 5803486--5803515 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5803476 TTTTTTATAA
5803486 TTTTATA-ATTTTTAT
1 TTTTATATATTTTTAT
5803501 TTTTATATATTTTTA
1 TTTTATATATTTTTA
5803516 AATTCTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATATATTTTTAT
Found at i:5803519 original size:24 final size:24
Alignment explanation
Indices: 5803457--5803542 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 24
5803447 ACCTATATGA
* *
5803457 TTTATAATTTTTTAA--GTTATTT
1 TTTATAATTTTATAATTTTTATTT
5803479 TTTATAATTTTATAATTTTTATTT
1 TTTATAATTTTATAATTTTTATTT
*
5803503 TTATATATTTTTA-AATTCTATTAGTTT
1 TT-TATAATTTTATAATT-T-TTA-TTT
5803530 TTTAATAATTTTA
1 TTT-ATAATTTTA
5803543 AAAAAAATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
22 14 0.26
24 12 0.23
25 10 0.19
26 4 0.08
27 13 0.25
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTATAATTTTATAATTTTTATTT
Found at i:5803874 original size:29 final size:30
Alignment explanation
Indices: 5803842--5803899 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
5803832 AAATGTTATA
*
5803842 ATTTAA-TCACTGAACTATTAAAAATTTTC
1 ATTTAAGTCACTGAACCATTAAAAATTTTC
* *
5803871 ATTTAAGTCATTGAACCATTAAAATTTTT
1 ATTTAAGTCACTGAACCATTAAAAATTTT
5803900 TTATCTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (30 bp):
ATTTAAGTCACTGAACCATTAAAAATTTTC
Found at i:5810470 original size:47 final size:47
Alignment explanation
Indices: 5810396--5810489 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
5810386 ACATTACATG
*
5810396 CAGACATATATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCAT
1 CAGACATAAATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCAT
*
5810443 CAGACATAAATTCGAGGACACTGGTTCACTTTCAATCCTACTGCCAT
1 CAGACATAAATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCAT
5810490 TAGCAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (47 bp):
CAGACATAAATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCAT
Found at i:5811176 original size:18 final size:18
Alignment explanation
Indices: 5811153--5811264 Score: 90
Period size: 17 Copynumber: 6.4 Consensus size: 18
5811143 AAAGTTTTTT
*
5811153 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
*
5811171 AACACGAGAA--TTTGTA
1 AACACGAGAATTTTTGAA
* *
5811187 AACACGAAAATTTTAG-A
1 AACACGAGAATTTTTGAA
* *
5811204 AACATGAAAATTTTT-AA
1 AACACGAGAATTTTTGAA
* *
5811221 AACACGACATTTTTTTTG-A
1 AACACGAGA--ATTTTTGAA
*
5811240 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
5811258 AACACGA
1 AACACGA
5811265 ATTTTTTTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
16 14 0.19
17 28 0.38
18 19 0.26
19 13 0.18
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:5811184 original size:16 final size:16
Alignment explanation
Indices: 5811165--5811227 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
5811155 CACGGGAATT
*
5811165 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
5811181 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
* *
5811197 TTTTAGAAACATGAAAA
1 TTTGA-AAACACGAAAA
*
5811214 TTTTTAAAACACGA
1 -TTTGAAAACACGA
5811228 CATTTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
16 17 0.44
17 17 0.44
18 5 0.13
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:5811234 original size:16 final size:16
Alignment explanation
Indices: 5811161--5811270 Score: 71
Period size: 18 Copynumber: 6.4 Consensus size: 16
5811151 TTAACACGGG
5811161 AATTTTTGAAAACACGA
1 AATTTTT-AAAACACGA
*
5811178 GAATTTGT-AAACACGA
1 -AATTTTTAAAACACGA
* *
5811194 AAATTTTAGAAACATGAA
1 AATTTTTA-AAACACG-A
5811212 AATTTTTAAAACACGA
1 AATTTTTAAAACACGA
* * *
5811228 CATTTTTTTTGAAACACGGG
1 -A--ATTTTTAAAACAC-GA
5811248 AATTTTTGAAAACACG-
1 AATTTTT-AAAACACGA
5811264 AATTTTT
1 AATTTTT
5811271 TTATTCACGA
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
15 5 0.07
16 16 0.22
17 19 0.26
18 20 0.27
19 12 0.16
20 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (16 bp):
AATTTTTAAAACACGA
Found at i:5811242 original size:19 final size:18
Alignment explanation
Indices: 5811214--5811299 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
5811204 AACATGAAAA
* *
5811214 TTTTTAAAACACGACATTT
1 TTTTTGAAACACGAGA-TT
* *
5811233 TTTTTGAAACACGGGA-A
1 TTTTTGAAACACGAGATT
5811250 TTTTTGAAAACACGA-ATT
1 TTTTTG-AAACACGAGATT
**
5811268 TTTTT-ATTCACGAGAATT
1 TTTTTGAAACACGAG-ATT
5811286 TTTTTGAAACACGA
1 TTTTTGAAACACGA
5811300 TTTTTCTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
16 6 0.12
17 7 0.13
18 20 0.38
19 19 0.37
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (18 bp):
TTTTTGAAACACGAGATT
Found at i:5811252 original size:53 final size:53
Alignment explanation
Indices: 5811161--5811299 Score: 124
Period size: 53 Copynumber: 2.7 Consensus size: 53
5811151 TTAACACGGG
* * *
5811161 AATTTTTGAAAACACGAGAA--TTTGT-AAACACGAAAATTTTAG-AAACATGAA
1 AATTTTT-AAAACACGACAATTTTTTTGAAACACGAAAATTTTAGAAAACACG-A
* ** *
5811212 AATTTTTAAAACACGACATTTTTTTTGAAACACGGGAATTTTTGAAAACACGA
1 AATTTTTAAAACACGACAATTTTTTTGAAACACGAAAATTTTAGAAAACACGA
* * ** *
5811265 ATTTTTTTATTCACGAGAATTTTTTTGAAACACGA
1 AATTTTTAAAACACGACAATTTTTTTGAAACACGA
5811300 TTTTTCTTTA
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
50 10 0.14
51 7 0.10
52 4 0.06
53 43 0.61
54 6 0.09
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (53 bp):
AATTTTTAAAACACGACAATTTTTTTGAAACACGAAAATTTTAGAAAACACGA
Found at i:5811896 original size:11 final size:11
Alignment explanation
Indices: 5811880--5811906 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5811870 GTTTTTATTT
5811880 TTTTTAATTAC
1 TTTTTAATTAC
5811891 TTTTTAATTAC
1 TTTTTAATTAC
5811902 TTTTT
1 TTTTT
5811907 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:5811917 original size:10 final size:10
Alignment explanation
Indices: 5811904--5811946 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
5811894 TTAATTACTT
5811904 TTTTTCTTTC
1 TTTTTCTTTC
5811914 TTTTTCTTTC
1 TTTTTCTTTC
5811924 TCTTTT-TTTC
1 T-TTTTCTTTC
*
5811934 TTTCTTTTTTC
1 TTT-TTCTTTC
5811945 TT
1 TT
5811947 CCTTCTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.07
10 18 0.60
11 10 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:5811923 original size:14 final size:14
Alignment explanation
Indices: 5811902--5811955 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
5811892 TTTTAATTAC
5811902 TTTT-TTTCT-TTCT
1 TTTTCTTTCTCTT-T
5811915 TTTTCTTTCTCTTT
1 TTTTCTTTCTCTTT
5811929 TTTTCTTTCT-TTT
1 TTTTCTTTCTCTTT
*
5811942 TTCTTCCTTCTCTT
1 TT-TTCTTTCTCTT
5811956 CTTCTTGTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
13 9 0.25
14 23 0.64
15 4 0.11
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCTTTCTCTTT
Found at i:5811939 original size:28 final size:27
Alignment explanation
Indices: 5811902--5811955 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
5811892 TTTTAATTAC
*
5811902 TTTTTTTCTTTCTTT-TTCTTTCTCTTT
1 TTTTTTTCTTT-TTTCTTCCTTCTCTTT
5811929 TTTTCTTTCTTTTTTCTTCCTTCTCTT
1 TTTT-TTTCTTTTTTCTTCCTTCTCTT
5811956 CTTCTTGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTTTTCTTTTTTCTTCCTTCTCTTT
Found at i:5812560 original size:30 final size:30
Alignment explanation
Indices: 5812520--5812591 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
5812510 ATTTAGGATT
* *
5812520 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
* *
5812550 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAAGGGTC
5812580 AAAATGAAATTT
1 AAAATGAAATTT
5812592 TTATTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.31
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAAGGGTC
Found at i:5816374 original size:3 final size:3
Alignment explanation
Indices: 5816366--5816611 Score: 73
Period size: 3 Copynumber: 84.3 Consensus size: 3
5816356 AACGAAAACG
* * * * * * *
5816366 ATA ATA ATA ATG ATA ATA TTG ATA ATA ATA ATA GTA GTA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
5816414 ATA AT- ATA GTA ATA GTA ATA AAA AGA A-A AT- ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
5816459 ATA ATA AAA AGGT- ATA ATA GT- ATA TTA GATA GTA A-A A-A ACTA AAA
1 ATA ATA ATA A--TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA A-TA ATA
* * * * * *
5816504 AT- ATA ATA ATA ATA ATA GTA ATA A-A AAA ATG ATA ATA GTG ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
5816550 GTA GTA ATA GTA ATA A-A GTA ATA GTA ATA AAA ATA GTA CTA ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
5816597 ATA GTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
5816612 AGAAAAAAAA
Statistics
Matches: 170, Mismatches: 59, Indels: 28
0.66 0.23 0.11
Matches are distributed among these distances:
2 19 0.11
3 146 0.86
4 5 0.03
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5816474 original size:28 final size:26
Alignment explanation
Indices: 5816390--5816540 Score: 97
Period size: 26 Copynumber: 5.3 Consensus size: 26
5816380 AATATTGATA
* *
5816390 ATAATAATAGTAGTAAAAATAAAAAT
1 ATAATAATAATAGTAATAATAAAAAT
* *
5816416 A-ATATAGTAATAGTAATAAAAAGAAAAT
1 ATA-ATAATAATAGTAAT-AATA-AAAAT
5816444 ATAATAATAATAGTAATAATAAAAAGGT
1 ATAATAATAATAGTAATAATAAAAA--T
*
5816472 ATAATAGTATATTAGATAGTAAAAAACTAAAAAT
1 AT-A-A-TA-A-TA-ATAGT-AATAA-TAAAAAT
* * *
5816506 ATAATAATAATAATAGTAATAAAAAA
1 ATAATAATAATAGTAATAATAAAAAT
*
5816532 ATGATAATA
1 ATAATAATA
5816541 GTGATATTAG
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
25 1 0.01
26 30 0.30
27 9 0.09
28 26 0.26
29 4 0.04
30 2 0.02
31 4 0.04
32 2 0.02
33 3 0.03
34 8 0.08
35 4 0.04
36 6 0.06
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.28
Consensus pattern (26 bp):
ATAATAATAATAGTAATAATAAAAAT
Found at i:5816513 original size:62 final size:63
Alignment explanation
Indices: 5816439--5816556 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 63
5816429 TAATAAAAAG
* **
5816439 AAAATATAATAATAATAGTAATAATAAAAAGGT-ATAATAGT-ATATTAGATAGTAAAAAACTA
1 AAAATATAATAATAATAATAATAATAAAAAAATGATAATAGTGATATTAG-TAGTAAAAAACTA
*
5816501 AAAATATAATAATAATAATAGTAATAAAAAAATGATAATAGTGATATTAGTAGTAA
1 AAAATATAATAATAATAATAATAATAAAAAAATGATAATAGTGATATTAGTAGTAA
5816557 TAGTAATAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
62 29 0.58
63 14 0.28
64 7 0.14
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (63 bp):
AAAATATAATAATAATAATAATAATAAAAAAATGATAATAGTGATATTAGTAGTAAAAAACTA
Found at i:5816610 original size:26 final size:26
Alignment explanation
Indices: 5816499--5816608 Score: 89
Period size: 26 Copynumber: 4.2 Consensus size: 26
5816489 AGTAAAAAAC
*
5816499 TAAAAATA-TAATAATAATAATAGTAA
1 TAAAAATAGTAATAA-AGTAATAGTAA
* * * * *
5816525 TAAAAA-AATGATAATAGTGATATTAG
1 TAAAAATAGTAATAA-AGTAATAGTAA
**
5816551 TAGTAATAGTAATAAAGTAATAGTAA
1 TAAAAATAGTAATAAAGTAATAGTAA
* *
5816577 TAAAAATAGTACTAATGTTAATAGTAA
1 TAAAAATAGTAATAAAG-TAATAGTAA
5816604 TAAAA
1 TAAAA
5816609 TAAAGAAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
25 1 0.02
26 44 0.68
27 20 0.31
ACGTcount: A:0.57, C:0.01, G:0.11, T:0.31
Consensus pattern (26 bp):
TAAAAATAGTAATAAAGTAATAGTAA
Found at i:5816670 original size:13 final size:13
Alignment explanation
Indices: 5816646--5816680 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
5816636 AATGATGTAA
5816646 ATAATAATATATAC
1 ATAAT-ATATATAC
*
5816660 ATAATATATATAT
1 ATAATATATATAC
5816673 ATAATATA
1 ATAATATA
5816681 ATGATAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATATATATAC
Found at i:5816732 original size:3 final size:3
Alignment explanation
Indices: 5816718--5816796 Score: 63
Period size: 3 Copynumber: 26.0 Consensus size: 3
5816708 TAATGCTAAG
* *
5816718 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATG A-A ATA ATTCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA
* * * *
5816764 ATA GTA ATA ATG ACA ATA GTA GA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
5816797 GTATTTGAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.03
3 53 0.90
4 2 0.03
5 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5818563 original size:68 final size:68
Alignment explanation
Indices: 5818322--5819129 Score: 1148
Period size: 68 Copynumber: 12.0 Consensus size: 68
5818312 TCAATTTACT
* * *
5818322 CGCTCAAACTTCAAGGAGATCTGCTGTGGCTTCTAA-CTGCT-CAATGCCATTTCAGGGAGAAGA
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTC-AAGCCGCTCCAACGCCATTTCAGGGAGAAGA
5818385 GATC
65 GATC
* * *
5818389 CACTGAAACTTCAAGAAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCA-GG-G-AGA-
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
5818450 A--
66 ATC
* * *
5818451 CGCTGAAACTTCAAGGAGATCTACTGTGGCTTCTAGCCACTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
5818516 ATC
66 ATC
* * * * * *
5818519 CGTTGAAACTTTAAGGAGATCTACTGTGGCTTCAAGCCTCTCCAATGCCATTTCAGGGAGAAAAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
5818584 ATC
66 ATC
* * * * * *
5818587 TGCTGAAACTTCAAGGAGATCTGTTGTGGCTTAAAGCCACTCCAACTCCATTTCAGGGAGAAGTG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
5818652 ATC
66 ATC
** * * *
5818655 AACTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGTTCCAACGCCATTTTAAGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
*
5818720 GTC
66 ATC
* *
5818723 CGCTAAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
5818788 ATC
66 ATC
** * * *
5818791 TACTGAAACTTCAAGGAGATCTGCTGTAGCTTCTAGTCGCTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
*
5818856 ATT
66 ATC
*
5818859 CGCTGAAACTTCAAGGAGATCTGCTGTGGC-TCAAAGCCGCTCCAACGCCATTTTAGGGAGAAGA
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTC-AAGCCGCTCCAACGCCATTTCAGGGAGAAGA
5818923 GATC
65 GATC
* *
5818927 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCTATTTTAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
5818992 ATC
66 ATC
* * * *
5818995 CGCTGAAACTTCAAGAAGATCTACTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAA
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
5819060 ATC
66 ATC
*
5819063 CGCTGAAACTTCAAAGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
5819128 AT
66 AT
5819130 TTGTAATTCC
Statistics
Matches: 660, Mismatches: 71, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
62 51 0.08
63 2 0.00
64 2 0.00
65 6 0.01
66 3 0.00
67 38 0.06
68 556 0.84
69 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (68 bp):
CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
ATC
Found at i:5819294 original size:88 final size:88
Alignment explanation
Indices: 5819117--5819613 Score: 692
Period size: 88 Copynumber: 5.6 Consensus size: 88
5819107 ACGCCATTTC
* ** ** *
5819117 AGGGAGA-AGAGATTTGTAATTCCCAGCCTGTTACCCTA-TCGCTTAGGGGGTTAAGGCTTACCG
1 AGGGAGACA-AGATCTGTAATTTTCAGCCTGTTACCCTACT-GCTTAGGGGGTTAAGGCCCATCG
* * * * *
5819180 TATTTGATCTACTCCACTATTACTT
64 TCTTCGATCTGCTCCACTACTGCTT
* ** * * * *
5819205 AGAGAGGTAAGATCTGAAATTTTCAGCTTGTTACCCTACTACTTAGGGGGTTAAGGCTCATCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
*
5819270 TTTGATCTGCTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * *
5819293 AGGGAGACGAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGAGGGTTAAAGCCCATCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
*
5819358 TTCGATCTTCTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * *
5819381 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCCCTTCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
5819446 TTCGATCTGCTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* *
5819469 AGGGAGACAAGATATGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
*
5819534 TTCGATCTGTTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
*
5819557 AGGGAGACAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
5819614 TTACGAATTC
Statistics
Matches: 368, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
88 366 0.99
89 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (88 bp):
AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
TTCGATCTGCTCCACTACTGCTT
Found at i:5819332 original size:44 final size:44
Alignment explanation
Indices: 5819284--5819604 Score: 182
Period size: 44 Copynumber: 7.3 Consensus size: 44
5819274 ATCTGCTCCA
* *
5819284 CTACTGCTTAGGGAGACGAGATCTGTAATTTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* ** ** *
5819328 CTACTGCTTAGAGG-GTTA-AAG-CCCATCGTCTTC-GATCT-TCT-CC
1 CTACTGCTTAG-GGAG--ACAAGATCTGTAATTTTCAG-TCTGT-TACC
*
5819371 ACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* ** ** ** * *
5819416 CTACTACTTAAGGG-GTTAAGGCCCT-TCGTCTTC-GATCTGCT-CC
1 CTACTGCTT-AGGGAGACAA-GATCTGTAATTTTCAG-TCTGTTACC
* *
5819459 ACTACTGCTTAGGGAGACAAGATATGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* ** ** ** *
5819504 CTACTGCTTAGGGGGTTAAGGCCCT-TCGTCTTC-GATCTGTT-CC
1 CTACTGCTTAGGGAGACAA-GATCTGTAATTTTCAG-TCTGTTACC
5819547 ACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
5819592 CTACTGCTTAGGG
1 CTACTGCTTAGGG
5819605 GGTTAAGGCT
Statistics
Matches: 197, Mismatches: 54, Indels: 52
0.65 0.18 0.17
Matches are distributed among these distances:
42 1 0.01
43 24 0.12
44 148 0.75
45 23 0.12
46 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (44 bp):
CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
Found at i:5823362 original size:22 final size:22
Alignment explanation
Indices: 5823319--5823362 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5823309 GCAGCACTAC
* *
5823319 TTTAAGTTCTTCTATCTTCTCT
1 TTTAAGTTCTTCAATCTGCTCT
5823341 TTTAA-TTCTTCAATTCTGCTCT
1 TTTAAGTTCTTCAA-TCTGCTCT
5823363 GACTAGCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.16, C:0.23, G:0.05, T:0.57
Consensus pattern (22 bp):
TTTAAGTTCTTCAATCTGCTCT
Found at i:5826851 original size:3 final size:3
Alignment explanation
Indices: 5826843--5827164 Score: 92
Period size: 3 Copynumber: 108.3 Consensus size: 3
5826833 AACGAAAACG
* * * * * * *
5826843 ATA ATA ATA ATG ATA ATA TTG ATA ATA ATA ATA GTA GTA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
5826891 ATA AT- ATA GTA ATA GTA ATA AAA AGA A-A AT- ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
5826936 ATA ATA ATA AAA AGGT- ATA ATA GT- ATA TTA GATA GTA A-A AAA ATA
1 ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * * * *
5826981 AAA ATA A-A ATA ATA ATA GTA ATA AAA AAA ATG ATA ATA GTG ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
5827028 GTA GTA ATA GTA ATA A-A GTA ATA GTA ATA AAA ATA GTA CTA ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
5827075 ATA GTA ATA A-A ATA A-A GAAA ATA AAA ATT GTA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
5827119 AT- GTAA ATA ATA ATA TATA CATA ATA TATA TATA AT- ATA ATG ATA
1 ATA AT-A ATA ATA ATA -ATA -ATA ATA -ATA -ATA ATA ATA ATA ATA
5827164 A
1 A
5827165 CGATATGAAA
Statistics
Matches: 226, Mismatches: 74, Indels: 38
0.67 0.22 0.11
Matches are distributed among these distances:
2 19 0.08
3 189 0.84
4 18 0.08
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5826931 original size:28 final size:27
Alignment explanation
Indices: 5826864--5827018 Score: 125
Period size: 29 Copynumber: 5.2 Consensus size: 27
5826854 GATAATATTG
*
5826864 ATAATAATAATAGTAGTAAAAATAAAA-
1 ATAATAATAATAGTAATAAAAA-AAAAT
5826891 ATAATATAGTAATAGTAATAAAAAGAAAAT
1 ATAATA-A-TAATAGTAATAAAAA-AAAAT
5826921 ATAATAATAATAGTAATAATAATAAAAAGGT
1 ATAATAATAATAGTAATAA-AA-AAAAA--T
*
5826952 ATAATAGTATATTAGATAGTAAAAAAATAAAAAT
1 AT-A-A-TA-A-TA-ATAGTAATAAAA-AAAAAT
*
5826986 AAAATAATAATAGTAAT-AAAAAAAAT
1 ATAATAATAATAGTAATAAAAAAAAAT
5827012 GATAATA
1 -ATAATA
5827019 GTGATATTAG
Statistics
Matches: 108, Mismatches: 6, Indels: 28
0.76 0.04 0.20
Matches are distributed among these distances:
26 6 0.06
27 14 0.13
28 20 0.19
29 27 0.25
30 8 0.07
31 5 0.05
32 2 0.02
33 2 0.02
34 4 0.04
35 1 0.01
36 10 0.09
37 9 0.08
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (27 bp):
ATAATAATAATAGTAATAAAAAAAAAT
Found at i:5826995 original size:65 final size:62
Alignment explanation
Indices: 5826866--5827036 Score: 178
Period size: 65 Copynumber: 2.8 Consensus size: 62
5826856 TAATATTGAT
* * * * * *
5826866 AATAATAATAGTAGTAAAAATAA--A-AATAAT-ATAGTA-ATAGTAATAAAAAGAAAATAT
1 AATAATAATAGTAATAAAAAAAAGGATAATAGTGATATTAGATAGTAATAAAAAAAAAATAA
5826923 AATAATAATAGTAATAATAATAAAAAGGTATAATAGT-ATATTAGATAGTAA-AAAAATAAAAAT
1 AATAATAATAGTAAT-A-AA-AAAAAGG-ATAATAGTGATATTAGATAGTAATAAAAA-AAAAAT
5826986 AA
61 AA
*
5826988 AATAATAATAGTAATAAAAAAAATGATAATAGTGATATTAG-TAGTAATA
1 AATAATAATAGTAATAAAAAAAAGGATAATAGTGATATTAGATAGTAATA
5827037 GTAATAAAGT
Statistics
Matches: 96, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
57 14 0.15
58 1 0.01
59 2 0.02
60 4 0.04
61 14 0.15
62 14 0.15
63 3 0.03
64 16 0.17
65 28 0.29
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (62 bp):
AATAATAATAGTAATAAAAAAAAGGATAATAGTGATATTAGATAGTAATAAAAAAAAAATAA
Found at i:5827057 original size:65 final size:67
Alignment explanation
Indices: 5826896--5827070 Score: 184
Period size: 65 Copynumber: 2.6 Consensus size: 67
5826886 TAAAAATAAT
5826896 ATAGTAATAGTAATAAAAAGAAAATATAATAATAATAGTAATAATAATAAAAAGGTATAATAGTA
1 ATAGTAATAGTAAT--AAAG--AATATAATAATAATAGTAATAATAATAAAAAGGTATAATAGTA
5826961 TATTAG
62 TATTAG
** * *
5826967 ATAGTAA-AAAAATAAA-AATAAAATAATAATAGTAAT-A-AA-AAAAATG-ATAATAGTGATAT
1 ATAGTAATAGTAATAAAGAATATAATAATAATAGTAATAATAATAAAAAGGTATAATAGT-ATAT
5827026 TAG
65 TAG
* *
5827029 -TAGTAATAGTAATAAAGTAATAGTAATAAAAATAGTACTAAT
1 ATAGTAATAGTAATAAAG-AATA-TAATAATAATAGTAATAAT
5827071 GTTAATAGTA
Statistics
Matches: 88, Mismatches: 9, Indels: 18
0.77 0.08 0.16
Matches are distributed among these distances:
61 14 0.16
62 20 0.23
63 2 0.02
64 5 0.06
65 32 0.36
66 1 0.01
68 3 0.03
70 4 0.05
71 7 0.08
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.29
Consensus pattern (67 bp):
ATAGTAATAGTAATAAAGAATATAATAATAATAGTAATAATAATAAAAAGGTATAATAGTATATT
AG
Found at i:5827064 original size:93 final size:93
Alignment explanation
Indices: 5826865--5827065 Score: 216
Period size: 93 Copynumber: 2.2 Consensus size: 93
5826855 ATAATATTGA
* * * *
5826865 TAATAATAATAGTAGTAAAAATAAAAATAATATAGTAATAGTAATAAAAAGAAAATATAATAATA
1 TAATAAAAATAGTAGAAAAAATAAAAATAAAATAATAATAGTAATAAAAAGAAAATATAATAATA
5826930 ATAGTAATAATAATAAAAAGGTATAATAG
66 ATAGTAATAATAATAAAAAGG-ATAATAG
* *
5826959 T-ATATTAGATAGTA-AAAAAATAAAAATAAAATAATAATAGTAAT-AAAA-AAAATGATAATAG
1 TAATA-AAAATAGTAGAAAAAATAAAAATAAAATAATAATAGTAATAAAAAGAAAAT-ATAATA-
* * *
5827020 TGATATTAGTAGTAATAGTAATAAA-G-TAATAG
63 --ATAATAGTAATAATAATAA-AAAGGATAATAG
5827052 TAATAAAAATAGTA
1 TAATAAAAATAGTA
5827066 CTAATGTTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
91 5 0.06
92 10 0.11
93 44 0.49
94 10 0.11
95 17 0.19
96 3 0.03
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.28
Consensus pattern (93 bp):
TAATAAAAATAGTAGAAAAAATAAAAATAAAATAATAATAGTAATAAAAAGAAAATATAATAATA
ATAGTAATAATAATAAAAAGGATAATAG
Found at i:5827083 original size:41 final size:41
Alignment explanation
Indices: 5827032--5827111 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
5827022 ATATTAGTAG
* * *
5827032 TAATAGTAATAAAGTAATAG-TAATAAAAATAGTACTAATGT
1 TAATAGTAATAAAATAA-AGAAAATAAAAATAGTAATAATGT
*
5827073 TAATAGTAATAAAATAAAGAAAATAAAAATTGTAATAAT
1 TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAAT
5827112 AATAATGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (41 bp):
TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAATGT
Found at i:5827164 original size:11 final size:11
Alignment explanation
Indices: 5827128--5827157 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5827118 GATGTAAATA
*
5827128 ATAATATATAC
1 ATAATATATAT
5827139 ATAATATATAT
1 ATAATATATAT
5827150 ATAATATA
1 ATAATATA
5827158 ATGATAACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATATAT
Found at i:5827203 original size:3 final size:3
Alignment explanation
Indices: 5827195--5827270 Score: 75
Period size: 3 Copynumber: 25.0 Consensus size: 3
5827185 TAATGCTAAG
*
5827195 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG A-A ATA ATTCA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA
* * *
5827241 ATA ATA ATG ACA ATA GTA GA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
5827271 GTATTTGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.03
3 54 0.90
4 2 0.03
5 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5831489 original size:12 final size:12
Alignment explanation
Indices: 5831469--5831499 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5831459 AAACAGAAAC
5831469 GAAATGGATATG
1 GAAATGGATATG
*
5831481 GATATGGATATG
1 GAAATGGATATG
5831493 GAAATGG
1 GAAATGG
5831500 TTTTGCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (12 bp):
GAAATGGATATG
Found at i:5831848 original size:5 final size:5
Alignment explanation
Indices: 5831814--5831841 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
5831804 CCATAAGGTA
5831814 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5831842 TTATTTTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:5840658 original size:17 final size:17
Alignment explanation
Indices: 5840633--5840669 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5840623 TAACTACATG
5840633 ATATATAAAAATTTAAA
1 ATATATAAAAATTTAAA
* *
5840650 ATATGTAAAACTTTAAA
1 ATATATAAAAATTTAAA
5840667 ATA
1 ATA
5840670 CATGGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATATATAAAAATTTAAA
Found at i:5861598 original size:3 final size:3
Alignment explanation
Indices: 5861590--5861737 Score: 71
Period size: 3 Copynumber: 48.0 Consensus size: 3
5861580 ATAATTGTAA
* * * * * *
5861590 AAT AAT AAT AGT GAAA AAT AAT AGT AAT AAT GAT GTAT AAA AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * * * * *
5861637 AGT AAT AAA AAT AGT AAC GAT AAT AAT AAT AAC ATAT AAT AGT AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * * * *
5861683 AAT AAT AAC AAT TAT ATAT AAT AGT AAG AAT AAT AAT AAC AAT GAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
5861729 AAT ATT AAT
1 AAT AAT AAT
5861738 TAGTAATCCA
Statistics
Matches: 100, Mismatches: 41, Indels: 8
0.67 0.28 0.05
Matches are distributed among these distances:
3 92 0.92
4 8 0.08
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:5861620 original size:22 final size:25
Alignment explanation
Indices: 5861576--5861644 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
5861566 TATGGTATAT
* *
5861576 AAAAATAATTGTAAAATAATAATAGT-G
1 AAAAATAATAGT--AATAATGAT-GTAG
*
5861603 AAAAATAATAGTAATAATGATGTAT
1 AAAAATAATAGTAATAATGATGTAG
5861628 AAAAATAATAGTAATAA
1 AAAAATAATAGTAATAA
5861645 AAATAGTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 25 0.66
27 11 0.29
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (25 bp):
AAAAATAATAGTAATAATGATGTAG
Found at i:5861680 original size:28 final size:28
Alignment explanation
Indices: 5861646--5861721 Score: 109
Period size: 28 Copynumber: 2.7 Consensus size: 28
5861636 TAGTAATAAA
5861646 AATAGTAACG-ATAATAATAATAACATAT
1 AATAGTAA-GAATAATAATAATAACATAT
* * *
5861674 AATAGTAAGAATAATAACAATTATATAT
1 AATAGTAAGAATAATAATAATAACATAT
5861702 AATAGTAAGAATAATAATAA
1 AATAGTAAGAATAATAATAA
5861722 CAATGATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (28 bp):
AATAGTAAGAATAATAATAATAACATAT
Found at i:5863373 original size:133 final size:133
Alignment explanation
Indices: 5863200--5863475 Score: 385
Period size: 133 Copynumber: 2.1 Consensus size: 133
5863190 TACTGCTTAG
* *
5863200 GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTCCTACCTCAAGAAAATAAGACTTGTATCTT
* * * * *
5863265 CGACCTGCTCTCTTGCTACCTCAGAA-AGACAAGGCCGGTGGCTAAAATCTGC-TCTATAGCCGA
66 CAACCTGCTCTCTTGCTACCTCA-AAGAGACAAGGCCGATAGCTAAAATCTACTTC-ATAACCGA
5863328 TACAT
129 TACAT
** * *
5863333 GGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTCAGGAAAATGAGACTTGTATCTT
1 GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTCCTACCTCAAGAAAATAAGACTTGTATCTT
* * *
5863398 CAACCTGCTCTCTTGCTACCTCAAAGGGATAAGGCTGATAGCTAAAATCTACTTCATAACCGATA
66 CAACCTGCTCTCTTGCTACCTCAAAGAGACAAGGCCGATAGCTAAAATCTACTTCATAACCGATA
5863463 CAT
131 CAT
*
5863466 AGAGATAAGA
1 GGAGATAAGA
5863476 CTCACCATTT
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
132 2 0.02
133 122 0.97
134 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (133 bp):
GGAGATAAGATCTAAAATTTTCAGTCTGCTTCCTTCCTACCTCAAGAAAATAAGACTTGTATCTT
CAACCTGCTCTCTTGCTACCTCAAAGAGACAAGGCCGATAGCTAAAATCTACTTCATAACCGATA
CAT
Found at i:5863531 original size:45 final size:44
Alignment explanation
Indices: 5863443--5863537 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 44
5863433 TGATAGCTAA
*
5863443 AATCTACTTCATAACCGATACATAGAGATAAGACTCACCATTTTC
1 AATCTACTCCATAACCGATACATAGAGATAAGACTCA-CATTTTC
* * * *
5863488 GATCTACTCCATAGCCGATACATGGAGATAAGATCTGTA-ATTTTC
1 AATCTACTCCATAACCGATACATAGAGATAAGA-CT-CACATTTTC
5863533 AATCT
1 AATCT
5863538 GCTTCCTTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
45 39 0.93
46 2 0.05
47 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (44 bp):
AATCTACTCCATAACCGATACATAGAGATAAGACTCACATTTTC
Found at i:5863533 original size:178 final size:178
Alignment explanation
Indices: 5863311--5864072 Score: 998
Period size: 178 Copynumber: 4.3 Consensus size: 178
5863301 GGTGGCTAAA
*
5863311 ATCTGCTCTATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
* * * * *
5863376 AGGAAAATGAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAAAGGGATAAGGCTGATAGCT
66 AGGAAGATGAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
*
5863441 AAAATCTACTT-CATAACCGATACATAGAGATAAGACTCACCATTTTCG
131 AAAATCT-CTTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCG
* * *
5863489 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAATCTGCTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
5863554 AGGAAGATGAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
66 AGGAAGATGAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
* *
5863619 AAAATCTGC-TCCATAGCCAATACATGGAGATAAGACTCACCA-TTTCTG
131 AAAATCT-CTTCCATAGCCGATACATAGAGATAAGACTCACCATTTTC-G
*
5863667 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTACTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
* * * *
5863732 AGGAATAT-AGGACTTGTATCTTCAACTTGCTCTCTTGCTACCTTAGAGAAATAAGGCTGGTGGC
66 AGGAAGATGA-GACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGC
* * ** **
5863796 TAAAATCTGTTCCATAGCCGATACATGGAGATAAGACTCGTCATTTTTT
130 TAAAATCTCTTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCG
* * * * * * *
5863845 ATCTACTCTATAGCCAATACATGGAGATAAGATATGTAATTTTTAGCCTG-TTAC--CCTACTGC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTAC--C
* * * * ** * * *
5863907 TTAGGTAGATAAGGCTCATCGTCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCCGGTG
64 TCAGGAAGATGAGACTTGT-ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
* * * * *
5863972 GCTAAAATCTGTTCCATAGTCGATATATAGAGATAAGACTCGCCATTTCCG
128 GCTAAAATCTCTTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCG
* *
5864023 ATCTGCTCAATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTG
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTG
5864073 TTATCCTACT
Statistics
Matches: 515, Mismatches: 60, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
175 4 0.01
177 21 0.04
178 487 0.95
179 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (178 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTCCTACCTC
AGGAAGATGAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCT
AAAATCTCTTCCATAGCCGATACATAGAGATAAGACTCACCATTTTCG
Found at i:5864210 original size:12 final size:12
Alignment explanation
Indices: 5864195--5864219 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5864185 TTATGCCTAA
5864195 TGATTAGGATGC
1 TGATTAGGATGC
5864207 TGATTAGGATGC
1 TGATTAGGATGC
5864219 T
1 T
5864220 ATGATCAGAA
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:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TGATTAGGATGC
Found at i:5875929 original size:3 final size:3
Alignment explanation
Indices: 5875905--5876040 Score: 67
Period size: 3 Copynumber: 44.7 Consensus size: 3
5875895 ACTATGGTAT
* * * * *
5875905 ATA AAA ATA ATT ATA A-A ATA ATA ATA GTGA AAA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * * * **
5875950 ATG ATGT ATA AAA ATA ATA GTA ATA AAA ATA GTA ACG ATA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
5875996 ATA ACA TATA ATA GTA AGA ATA ATA ATA ACA ATG ATA ATA TTA AT
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
5876041 TAGCAATCCA
Statistics
Matches: 92, Mismatches: 37, Indels: 8
0.67 0.27 0.06
Matches are distributed among these distances:
2 2 0.02
3 85 0.92
4 5 0.05
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:5875942 original size:13 final size:12
Alignment explanation
Indices: 5875906--5876020 Score: 65
Period size: 13 Copynumber: 8.9 Consensus size: 12
5875896 CTATGGTATA
5875906 TAAAAATAATTA-
1 TAAAAATAA-TAG
5875918 TAAAATAATAATAG
1 T-AAA-AATAATAG
5875932 TGAAAAATAATAG
1 T-AAAAATAATAG
* *
5875945 TAATAATGAT-G
1 TAAAAATAATAG
5875956 TATAAAAATAATAG
1 --TAAAAATAATAG
5875970 TAATAAA-AATAG
1 TAA-AAATAATAG
*
5875982 TAACGATAATAATAA
1 TAA--A-AATAATAG
*
5875997 TAACATATAATAG
1 TAA-AAATAATAG
*
5876010 TAAGAATAATA
1 TAAAAATAATA
5876021 ATAACAATGA
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
11 1 0.01
12 25 0.31
13 35 0.43
14 13 0.16
15 7 0.09
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (12 bp):
TAAAAATAATAG
Found at i:5878956 original size:50 final size:50
Alignment explanation
Indices: 5878877--5878975 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
5878867 GCCTTATTCT
* * * *
5878877 AATCAATGTCAAATAGAAGGAGAGAAGTTCTATATGGATTCTACTTGTAC
1 AATCAATATCAAATAGAAGAAGAGAAGTTCTATACGAATTCTACTTGTAC
*
5878927 AATCAATATCAAATAGAAGAAGAGTAGTTCTATACGAATTCTACTTGTA
1 AATCAATATCAAATAGAAGAAGAGAAGTTCTATACGAATTCTACTTGTA
5878976 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (50 bp):
AATCAATATCAAATAGAAGAAGAGAAGTTCTATACGAATTCTACTTGTAC
Found at i:5884235 original size:13 final size:14
Alignment explanation
Indices: 5884193--5884237 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
5884183 TACTAATGAT
5884193 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
5884208 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
5884221 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
5884234 TAAA
1 TAAA
5884238 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:5895992 original size:29 final size:29
Alignment explanation
Indices: 5895928--5895989 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
5895918 TAAATGGTAC
* *
5895928 TAAAGTTTCACAATTATTATTATTTAAAA
1 TAAAATTTCAAAATTATTATTATTTAAAA
5895957 TAAAATTTCAAAATTATTA-TATTTAAAA
1 TAAAATTTCAAAATTATTATTATTTAAAA
5895985 TAAAA
1 TAAAA
5895990 ATTATAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (29 bp):
TAAAATTTCAAAATTATTATTATTTAAAA
Found at i:5918313 original size:20 final size:18
Alignment explanation
Indices: 5918267--5918318 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
5918257 ATAATATAAT
*
5918267 AAAAGAAATAATAAAAGA
1 AAAAGAAATAAAAAAAGA
5918285 ATAAAGAAATAAAATAAAGA
1 A-AAAGAAATAAAA-AAAGA
5918305 AAAAGGAAA-AAAAA
1 AAAA-GAAATAAAAA
5918319 GAAGGACGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.07
19 18 0.60
20 10 0.33
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (18 bp):
AAAAGAAATAAAAAAAGA
Found at i:5919229 original size:6 final size:6
Alignment explanation
Indices: 5919218--5919254 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
5919208 CCTGACTATA
* *
5919218 ACTGTT ACTGTT ACTGTC ATTGTT ACTGTT ACTGTT A
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT A
5919255 TCCTACGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ACTGTT
Found at i:5920569 original size:13 final size:13
Alignment explanation
Indices: 5920551--5920583 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
5920541 GCTACACTAG
5920551 TTTAGTTTTTTGC
1 TTTAGTTTTTTGC
5920564 TTTAG--TTTTGC
1 TTTAGTTTTTTGC
5920575 TTTAGTTTT
1 TTTAGTTTT
5920584 CTCTTAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.06, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTAGTTTTTTGC
Found at i:5924248 original size:20 final size:18
Alignment explanation
Indices: 5924215--5924251 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
5924205 GCAACTCATA
5924215 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
5924233 ATTTACAACTTATTTTACA
1 ATTT-CAAC-TATTTTACA
5924252 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:5926828 original size:39 final size:39
Alignment explanation
Indices: 5926769--5926865 Score: 158
Period size: 39 Copynumber: 2.5 Consensus size: 39
5926759 TGATCTGAAA
* * * *
5926769 CCCGAAGTCTAGCTGCAGCACATAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
5926808 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
5926847 CCCGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTGAAGC
5926866 TCATCAGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.26, T:0.12
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
Found at i:5935315 original size:2 final size:2
Alignment explanation
Indices: 5935303--5935332 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5935293 ACCAAAATTT
5935303 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5935333 TCATGTCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:5935805 original size:90 final size:90
Alignment explanation
Indices: 5935655--5935875 Score: 275
Period size: 90 Copynumber: 2.4 Consensus size: 90
5935645 GTTTTTCAAG
* * * **
5935655 AAAAGCAATTAAGCCCCTATTTTATTTTTTACACTCAATTGAGTACTTAAACTTTTAAAATGTA-
1 AAAAGCAATTAAGCCCCTGTTTT-TTTTTTACACTCAATTGAGTACTTAAACTATCAAAATACAC
** **
5935719 TTAAAAAGACCCTCAAACTTTAAAAAA
65 CAAAAAAG-CCCTCAAAAATTAAAAAA
* * * *
5935746 AAAAGTAATTAAGCCCCTGCTTTTTTTTTGCACTCAATTG-GATACTTGAACTATCAAAATACAC
1 AAAAGCAATTAAGCCCCTGTTTTTTTTTTACACTCAATTGAG-TACTTAAACTATCAAAATACAC
5935810 CAAAAAAGCCCTCAAAAATTAAAAAA
65 CAAAAAAGCCCTCAAAAATTAAAAAA
5935836 AAAAGCAATTAAGCCCCTGTTTTTTTTTTTACACTCAATT
1 AAAAGCAATTAAGCCCCTG-TTTTTTTTTTACACTCAATT
5935876 TTCAAAATGC
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 1 0.01
90 66 0.59
91 44 0.40
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (90 bp):
AAAAGCAATTAAGCCCCTGTTTTTTTTTTACACTCAATTGAGTACTTAAACTATCAAAATACACC
AAAAAAGCCCTCAAAAATTAAAAAA
Found at i:5936110 original size:27 final size:30
Alignment explanation
Indices: 5936074--5936138 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
5936064 TTTATTTTTT
* *
5936074 ATTAAAAATTAGA-A-AAAAATA-TAAAAA
1 ATTATAAATTAGATAGAAAAATAGGAAAAA
* *
5936101 ATTATAAATTATATAGAAATATAGGAAAAA
1 ATTATAAATTAGATAGAAAAATAGGAAAAA
5936131 ATTATAAA
1 ATTATAAA
5936139 ATTTTATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 11 0.35
28 1 0.03
29 6 0.19
30 13 0.42
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (30 bp):
ATTATAAATTAGATAGAAAAATAGGAAAAA
Found at i:5936178 original size:21 final size:22
Alignment explanation
Indices: 5936136--5936208 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 22
5936126 AAAAAATTAT
* * *
5936136 AAAATTTTATAAAGTCGT-AAG
1 AAAATTATAAAAAATCGTAAAG
5936157 AAAATTATAAAAAAT-GTAAAG
1 AAAATTATAAAAAATCGTAAAG
* *
5936178 AAAA--AT-AAAATTCGTAAAA
1 AAAATTATAAAAAATCGTAAAG
5936197 AAAATTATAAAA
1 AAAATTATAAAA
5936209 GTTATCGTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 5 0.12
19 11 0.26
20 2 0.05
21 21 0.50
22 3 0.07
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (22 bp):
AAAATTATAAAAAATCGTAAAG
Found at i:5936396 original size:22 final size:22
Alignment explanation
Indices: 5936368--5936415 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
5936358 TTAAAGGGCC
*
5936368 TTTTTTTATGCA-TTTTATAAAT
1 TTTTTTTATG-ATTTTTATAAAA
5936390 TTTTTTTATGATTTTTATAAAA
1 TTTTTTTATGATTTTTATAAAA
5936412 TTTT
1 TTTT
5936416 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTTTTATGATTTTTATAAAA
Found at i:5936424 original size:30 final size:29
Alignment explanation
Indices: 5936388--5936480 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 29
5936378 CATTTTATAA
*
5936388 ATTTTTTTTATGATTTTTATAAAATTTTAT
1 ATTTTTTTTAT-ATTTTTATAAAATTTAAT
* *
5936418 ATTTTTTTCTA-ATATTTAATAAAATTAAAT
1 ATTTTTTT-TATAT-TTTTATAAAATTTAAT
* *
5936448 A-TTTTTATATATTTTT-TAATATTTAAT
1 ATTTTTTTTATATTTTTATAAAATTTAAT
5936475 ATTTTT
1 ATTTTT
5936481 ATGTTTTTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
27 10 0.19
28 9 0.17
29 9 0.17
30 22 0.42
31 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (29 bp):
ATTTTTTTTATATTTTTATAAAATTTAAT
Found at i:5936460 original size:27 final size:27
Alignment explanation
Indices: 5936429--5936482 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5936419 TTTTTTTCTA
5936429 ATATTTAATAAAATTAAATATTTTTAT
1 ATATTTAATAAAATTAAATATTTTTAT
** * *
5936456 ATATTTTTTAATATTTAATATTTTTAT
1 ATATTTAATAAAATTAAATATTTTTAT
5936483 GTTTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
ATATTTAATAAAATTAAATATTTTTAT
Found at i:5936504 original size:25 final size:25
Alignment explanation
Indices: 5936448--5936504 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
5936438 AAAATTAAAT
*
5936448 ATTTTTATATATTTTTTAATATTTA
1 ATTTTTTTATATTTTTTAATATTTA
* * *
5936473 ATATTTTTATGTTTTTTATTATTT-
1 ATTTTTTTATATTTTTTAATATTTA
5936497 ATTTTTTT
1 ATTTTTTT
5936505 GGCACATGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (25 bp):
ATTTTTTTATATTTTTTAATATTTA
Found at i:5938240 original size:10 final size:11
Alignment explanation
Indices: 5938222--5938246 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5938212 ACTCTTTCAC
5938222 TTTCTTTTTTT
1 TTTCTTTTTTT
5938233 TTTCTTTTTTT
1 TTTCTTTTTTT
5938244 TTT
1 TTT
5938247 GTAAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:5938805 original size:12 final size:13
Alignment explanation
Indices: 5938786--5938823 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
5938776 TTGGTCAATA
5938786 ATTAGTTTTAATT
1 ATTAGTTTTAATT
* *
5938799 ATT-GTTTGATTT
1 ATTAGTTTTAATT
5938811 ATTAGTTTTAATT
1 ATTAGTTTTAATT
5938824 CTTTTTCAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (13 bp):
ATTAGTTTTAATT
Found at i:5940761 original size:50 final size:51
Alignment explanation
Indices: 5940684--5940792 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 51
5940674 GACCATGGCA
* * *
5940684 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
5940735 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
5940785 ACAAGTGA
1 ACAAGTGA
5940793 AAATGCAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:5941694 original size:46 final size:46
Alignment explanation
Indices: 5941618--5942069 Score: 618
Period size: 46 Copynumber: 9.8 Consensus size: 46
5941608 TGATGTCATA
* * * * *
5941618 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCGTG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCATGTTGCCATG
* * ***
5941664 GTATCTTTCAACCATAGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
* **
5941711 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCCGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
5941757 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
5941803 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* ***
5941849 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATG
*
5941896 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
*
5941942 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* * *
5941988 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
* *
5942034 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
5942070 GAGAGCACAC
Statistics
Matches: 368, Mismatches: 35, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
46 290 0.79
47 78 0.21
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATG
Found at i:5941891 original size:139 final size:138
Alignment explanation
Indices: 5941618--5942069 Score: 636
Period size: 139 Copynumber: 3.3 Consensus size: 138
5941608 TGATGTCATA
* * * * * * *
5941618 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCGTGGTATCTTTCAACCATAGT
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
** *** *
5941682 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCC
65 CTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
*
5941747 GGTTGCCATG
129 AGTTGCCATG
*
5941757 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
* * ** *
5941822 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCAT
66 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAA
5941887 GTTGCCATG
130 GTTGCCATG
*
5941896 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
* *
5941961 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAG
66 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAAG
*
5942026 TTGTCATG
131 TTGCCATG
* *
5942034 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
5942070 GAGAGCACAC
Statistics
Matches: 280, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
138 94 0.34
139 186 0.66
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (138 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAAG
TTGCCATG
Found at i:5941938 original size:185 final size:185
Alignment explanation
Indices: 5941618--5942055 Score: 725
Period size: 185 Copynumber: 2.4 Consensus size: 185
5941608 TGATGTCATA
* * * * * * * *
5941618 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCGTGGTATCTTTCAACCATAGT
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGGT
* *
5941682 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCC
65 CTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
**
5941747 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
130 GGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
5941803 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGGTC
5941868 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
66 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
*
5941933 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
131 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
5941988 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGTCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGGTC
5942053 TTA
66 TTA
5942056 CACATTCCAT
Statistics
Matches: 237, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
184 4 0.02
185 233 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (185 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCATGGTC
TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
Found at i:5944481 original size:31 final size:31
Alignment explanation
Indices: 5944443--5944526 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
5944433 GGCTATTACA
*
5944443 GAAAAGTGGTAGCTTCGGCTACCTGATCAGT
1 GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
*
5944474 GAAAAGTGGTAGCTTCTGCTACCTAATCAGT
1 GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
* *
5944505 TAATAGTGGTAGCTTCGGCTAC
1 GAAAAGTGGTAGCTTCGGCTAC
5944527 AAGTGACAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (31 bp):
GAAAAGTGGTAGCTTCGGCTACCTAATCAGT
Found at i:5944614 original size:47 final size:46
Alignment explanation
Indices: 5944544--5944714 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 46
5944534 AAGTGATTTC
* * *
5944544 CGTATAAGACCATATCTGGGATATGACATCCGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGACATCCGTGTGATATGTGATA
* * * * *
5944590 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGACATCCGTGTGATATGTGATA
* * *
5944637 CGTGTAAGACCATAGCTGGGCTATGGCAT-CGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGACATCCG---TGTGATATGTGA-TA
* *
5944686 CGTGTAAGACCATAGCTGGGCTATGACAT
1 CGTATAAGACCATAGCTGGGATATGACAT
5944715 TGATATATGA
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
45 1 0.01
46 26 0.24
47 40 0.37
48 11 0.10
49 29 0.27
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGACATCCGTGTGATATGTGATA
Found at i:5944699 original size:49 final size:48
Alignment explanation
Indices: 5944595--5944720 Score: 175
Period size: 49 Copynumber: 2.6 Consensus size: 48
5944585 TGCTACTGTA
* * *
5944595 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTCGTG
*
5944641 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATT-CGTG
* *
5944690 TAAGACCATAGCTGGGCTATGACATTGATAT
1 TAAGACCATAGCTGGGCTATGGCATCGATAT
5944721 ATGAAGATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
46 24 0.34
47 1 0.01
48 13 0.18
49 33 0.46
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTCGTG
Found at i:5954635 original size:43 final size:43
Alignment explanation
Indices: 5954533--5954637 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
5954523 CCTTGCTATA
* * *
5954533 ATCTTACACAAAATCAAATAACGATGTCAATGTCCCAGACATG
1 ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
* ** * *
5954576 GTCTTACATGTAATCACATAATGATGCCGATGTCCCAGACATG
1 ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
5954619 ATCTTACACATAATCACAT
1 ATCTTACACATAATCACAT
5954638 CTCGTTAATC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (43 bp):
ATCTTACACATAATCACATAACGATGCCAATGTCCCAGACATG
Found at i:5959966 original size:48 final size:48
Alignment explanation
Indices: 5959910--5960007 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
5959900 CATATGTTCC
5959910 ACCAGAGAACATTGAGAACATCACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATCACTTCTGCTCATGCATCACAGTATCA
*
5959958 ACCAGAGAACATTGAGAACATTACTTCTGCTCATGCATCACAGTATCA
1 ACCAGAGAACATTGAGAACATCACTTCTGCTCATGCATCACAGTATCA
5960006 AC
1 AC
5960008 GAAATCCTGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (48 bp):
ACCAGAGAACATTGAGAACATCACTTCTGCTCATGCATCACAGTATCA
Found at i:5961471 original size:17 final size:18
Alignment explanation
Indices: 5961436--5961475 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
5961426 TACCTCTTAG
*
5961436 AAGTATTTTTGGGATTAA
1 AAGTATTTTTGAGATTAA
5961454 AAGTATTTTTGAGA-TAA
1 AAGTATTTTTGAGATTAA
5961471 AAGTA
1 AAGTA
5961476 ATGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
AAGTATTTTTGAGATTAA
Found at i:5964677 original size:18 final size:18
Alignment explanation
Indices: 5964654--5964690 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
5964644 TTATTCTTCT
5964654 TATTCGGTAACCATTGGA
1 TATTCGGTAACCATTGGA
*
5964672 TATTCGGTAACTATTGGA
1 TATTCGGTAACCATTGGA
5964690 T
1 T
5964691 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (18 bp):
TATTCGGTAACCATTGGA
Found at i:5968986 original size:12 final size:13
Alignment explanation
Indices: 5968961--5968989 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5968951 TGGTGGCGCA
5968961 GTGGTGGCTGCTG
1 GTGGTGGCTGCTG
5968974 GTGGTGG-TGCTG
1 GTGGTGGCTGCTG
5968986 GTGG
1 GTGG
5968990 CGAAGCCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.10, G:0.59, T:0.31
Consensus pattern (13 bp):
GTGGTGGCTGCTG
Found at i:5969747 original size:3 final size:3
Alignment explanation
Indices: 5969739--5969773 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
5969729 AGAATGCCAA
5969739 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
5969774 GGTGTTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5979914 original size:37 final size:38
Alignment explanation
Indices: 5979850--5979927 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 38
5979840 GAAGATTTCC
5979850 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
1 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
* **
5979888 ATTTAATCTCTTT-AAATCTTTAATTATATTGGTTTTA
1 ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
5979925 ATT
1 ATT
5979928 AGAATAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (38 bp):
ATTTAATCCCTTTAAAATCTTTAATTATATCAGTTTTA
Found at i:5980857 original size:91 final size:89
Alignment explanation
Indices: 5980751--5981014 Score: 336
Period size: 91 Copynumber: 2.9 Consensus size: 89
5980741 TAATATATTG
*
5980751 ATTGATAGTTCAAGTATCACATT-GAACATTTTCAAAGTATAAGTACCTAGTTGGACAATTTATG
1 ATTGATAGTTCAAGTACCACATTAG-ACATTTTCAAAGTATAAGTACC-A-TTGGACAATTTATG
5980815 AAAGTACATGTATCAAATAAGACACAA
63 AAAGTACATGTATCAAATAAGACACAA
* *
5980842 ATTGATAGTTCAAGTACCACATTAGAGATTTTCAAAGTAT-AGATATCACATTAGAC-ATATTAT
1 ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAAG-TA-C-CATTGGACAAT-TTAT
* *
5980905 GAAAGTACATGTACCAAATAATACACAA
62 GAAAGTACATGTATCAAATAAGACACAA
* * *
5980933 ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAGGTACCACATTGAACATTTTATGA
1 ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAAGTA-C-CATTGGACAATTTATGA
* *
5980998 AAGTATAAGTATCAAAT
64 AAGTACATGTATCAAAT
5981015 GTGACATTAT
Statistics
Matches: 152, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
90 4 0.03
91 142 0.93
92 5 0.03
93 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (89 bp):
ATTGATAGTTCAAGTACCACATTAGACATTTTCAAAGTATAAGTACCATTGGACAATTTATGAAA
GTACATGTATCAAATAAGACACAA
Found at i:5981004 original size:31 final size:29
Alignment explanation
Indices: 5980855--5980993 Score: 93
Period size: 29 Copynumber: 4.7 Consensus size: 29
5980845 GATAGTTCAA
*
5980855 GTACCACATTAGAGATTTTCAAAGTATAG
1 GTACCACATTAGACATTTTCAAAGTATAG
* * * * *
5980884 ATATCACATTAGACATATTATGAAAGTACAT
1 GTACCACATTAGACAT-TT-TCAAAGTATAG
* * ** * * *
5980915 GTACCAAATAATACACAAATTGATAGT-TCAA
1 GTACCACAT--TAGACATTTTCAAAGTAT-AG
5980946 GTACCACATTAGACATTTTCAAAGTATAG
1 GTACCACATTAGACATTTTCAAAGTATAG
5980975 GTACCACATT-GAACATTTT
1 GTACCACATTAG-ACATTTT
5980994 ATGAAAGTAT
Statistics
Matches: 81, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
28 1 0.01
29 42 0.52
30 3 0.04
31 29 0.36
32 1 0.01
33 5 0.06
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (29 bp):
GTACCACATTAGACATTTTCAAAGTATAG
Found at i:5983339 original size:24 final size:24
Alignment explanation
Indices: 5983286--5983344 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
5983276 AAAATATAAC
5983286 ATTAA-AAATATATATATGTAATAT
1 ATTAAGAAATATATATA-GTAATAT
*
5983310 A-CAAGAAATATATATA-TAATAGT
1 ATTAAGAAATATATATAGTAATA-T
5983333 ATTAAG-AATATA
1 ATTAAGAAATATA
5983345 AACATAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 5 0.17
23 10 0.33
24 15 0.50
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (24 bp):
ATTAAGAAATATATATAGTAATAT
Found at i:5984229 original size:14 final size:16
Alignment explanation
Indices: 5984205--5984246 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
5984195 AAGGTAAAAA
5984205 TTATATTTTTTTG-TT
1 TTATATTTTTTTGCTT
5984220 TTAT-TTTTTTTGCTT
1 TTATATTTTTTTGCTT
*
5984235 TT-TAGTTTTTTG
1 TTATATTTTTTTG
5984247 GTATTTGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.79
Consensus pattern (16 bp):
TTATATTTTTTTGCTT
Found at i:5986720 original size:20 final size:19
Alignment explanation
Indices: 5986684--5986755 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
5986674 AAAATTAAAA
*
5986684 TATATTTTT-ATATATTTT
1 TATATTTTTAATAAATTTT
5986702 TATACTTTTTAATAAA-TTT
1 TATA-TTTTTAATAAATTTT
* *
5986721 TAAATTTTTACTATAATTTT
1 TATATTTTTAATA-AATTTT
* *
5986741 TAAAATTTTAA-AAAT
1 TATATTTTTAATAAAT
5986756 AATTAATTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
18 15 0.33
19 14 0.31
20 16 0.36
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTTTTAATAAATTTT
Found at i:5991188 original size:34 final size:34
Alignment explanation
Indices: 5991145--5991214 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
5991135 TAGGAGTTTA
5991145 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
1 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
5991179 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
1 TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
5991213 TT
1 TT
5991215 GACTTTTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (34 bp):
TTAGCTAGGTAGGGTACTAATCAGTCCAAGCTGG
Found at i:5994639 original size:14 final size:15
Alignment explanation
Indices: 5994620--5994652 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
5994610 AAATAAAGGG
5994620 CTTTTTCTTT-TTTT
1 CTTTTTCTTTATTTT
5994634 CTTTTTCTTTATTTT
1 CTTTTTCTTTATTTT
5994649 -TTTT
1 CTTTT
5994653 AACCTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (15 bp):
CTTTTTCTTTATTTT
Found at i:5997867 original size:40 final size:40
Alignment explanation
Indices: 5997812--5997933 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
5997802 TGTCGCACTT
*
5997812 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGAATTTTAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
*
5997852 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTGAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
*
5997892 TTCTATTTTAACCCTAGTATTCTTGCTCTAAGGATTTTAC
1 TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
5997932 TT
1 TT
5997934 TGCTCCATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (40 bp):
TTCTATTTCAACCCTAGTATTCTTGCTCTAAGGATTTTAC
Found at i:6006752 original size:19 final size:19
Alignment explanation
Indices: 6006730--6006767 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6006720 TTTTAATTAT
6006730 TATAATAAAAAAGAAAAAA
1 TATAATAAAAAAGAAAAAA
* *
6006749 TATATTTAAAAAGAAAAAA
1 TATAATAAAAAAGAAAAAA
6006768 ATTTAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
TATAATAAAAAAGAAAAAA
Found at i:6008199 original size:30 final size:30
Alignment explanation
Indices: 6008140--6008202 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
6008130 GTCTACATAC
* *
6008140 TTTATTTGATCAAATTTAACCCTTGTACTT
1 TTTAATTGATCAAATTTAACCCTTATACTT
* * *
6008170 TTTAATTGGTCAATTTTAATCCTTATACTT
1 TTTAATTGATCAAATTTAACCCTTATACTT
6008200 TTT
1 TTT
6008203 TTGAATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.54
Consensus pattern (30 bp):
TTTAATTGATCAAATTTAACCCTTATACTT
Found at i:6014082 original size:20 final size:20
Alignment explanation
Indices: 6014051--6014103 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
6014041 GATGATATTT
*
6014051 TATA-ATTA-TTTAATTAGA
1 TATATATTATTTTAATGAGA
6014069 TATATATTATTTTAATGAGA
1 TATATATTATTTTAATGAGA
* *
6014089 TGTCTTATTATTTTA
1 TAT-ATATTATTTTA
6014104 TTATTATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 4 0.14
20 11 0.38
21 10 0.34
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
TATATATTATTTTAATGAGA
Found at i:6014107 original size:3 final size:3
Alignment explanation
Indices: 6014093--6014137 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
6014083 ATGAGATGTC
*
6014093 TTA TTA TT- TTA TTA TTA TT- TCA TTA TTA TT- TTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
6014136 TT
1 TT
6014138 TAGTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 28 0.78
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6014109 original size:11 final size:11
Alignment explanation
Indices: 6014093--6014131 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
6014083 ATGAGATGTC
6014093 TTATTATTTTA
1 TTATTATTTTA
*
6014104 TTATTATTTCA
1 TTATTATTTTA
6014115 TTATTATTTTA
1 TTATTATTTTA
6014126 TTATTA
1 TTATTA
6014132 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:6016320 original size:23 final size:23
Alignment explanation
Indices: 6016286--6016435 Score: 142
Period size: 23 Copynumber: 6.4 Consensus size: 23
6016276 CCTATATATA
*
6016286 GCTCTTTATGAGCTTCCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
*
6016309 GCTCTTTGTGAGCCTCCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
** *
6016332 TGCTCGCT-TGAACTTCCCGATATATG
1 -GCTCTTTGTGAGCTTCCCG--ATA-G
* * *
6016358 GCTATCTG-GAGCTTCCCGGTAG
1 GCTCTTTGTGAGCTTCCCGATAG
* *
6016380 GCTCTTCGTGAGCTTTCCGATAG
1 GCTCTTTGTGAGCTTCCCGATAG
6016403 GCTCTTTGTGAGCTTCCCGATATG
1 GCTCTTTGTGAGCTTCCCGATA-G
*
6016427 GTTCTTTGT
1 GCTCTTTGT
6016436 AAACTACCTA
Statistics
Matches: 102, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
22 6 0.06
23 64 0.63
24 14 0.14
25 17 0.17
26 1 0.01
ACGTcount: A:0.14, C:0.26, G:0.25, T:0.35
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCCCGATAG
Found at i:6018409 original size:43 final size:43
Alignment explanation
Indices: 6018354--6018474 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
6018344 AACAAGTACA
* *
6018354 ATGCCGACGTCCCAAACGTGGTCTTACATGTAATTCA-ATATCG
1 ATGCCGATGTCCCAAACGTGGTCTTACATGTAAATCAGATA-CG
** *
6018397 ATGCCTCTGTCCCAAACAG-GGTCTTACACG-AAATCAGATACG
1 ATGCCGATGTCCCAAAC-GTGGTCTTACATGTAAATCAGATACG
* * *
6018439 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATC
1 ATGCCGATGTCCCAAACGTGGTCTTACATGTAAATC
6018475 TTAATTGAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAAACGTGGTCTTACATGTAAATCAGATACG
Found at i:6018506 original size:85 final size:86
Alignment explanation
Indices: 6018354--6018513 Score: 191
Period size: 85 Copynumber: 1.9 Consensus size: 86
6018344 AACAAGTACA
* * **
6018354 ATGCCGACGTCCCAAACGTGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAGGGT
1 ATGCCGACGTCCCAAACATGGTCTTACATGTAATTCAATATCGAGGCCTCTGTCCCAAACACAGT
6018419 C-TTACACGAAATCAGATACG
66 CTTTACACGAAATCAGATACG
* * * * * *
6018439 ATGCCGATGTCCCAGACATGGTCTTATATGTAAATCTTAAT-T-GAGGCCTGTGTCCCAGACACA
1 ATGCCGACGTCCCAAACATGGTCTTACATGT-AAT-TCAATATCGAGGCCTCTGTCCCAAACACA
6018502 GTCTTTACACGA
64 GTCTTTACACGA
6018514 TGTCTCAGAC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 46 0.74
86 12 0.19
87 4 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (86 bp):
ATGCCGACGTCCCAAACATGGTCTTACATGTAATTCAATATCGAGGCCTCTGTCCCAAACACAGT
CTTTACACGAAATCAGATACG
Found at i:6020493 original size:86 final size:86
Alignment explanation
Indices: 6020403--6020699 Score: 292
Period size: 86 Copynumber: 3.5 Consensus size: 86
6020393 CCTCTCAATG
* * *
6020403 CACTTAGTC-AAATTTATTTAAGGCGCACACCCTACAAGGGTA-TGACCCGCTAAGTCAATAGTA
1 CACTTAG-CAAAATTTATTTAAGGCACACACCCTACGAGGGTACTG-CCCGCTAAGTCAATAGCA
*
6020466 GAATCGTTGCTAGCCTCCTAAGA
64 AAATCGTTGCTAGCCTCCTAAGA
* * ** * *
6020489 CACTTAGCAAAATTTATTTAAGGCACACACCTTATGAGGGTACTGCTAGTTAAGTTAATAGCAAA
1 CACTTAGCAAAATTTATTTAAGGCACACACCCTACGAGGGTACTGCCCGCTAAGTCAATAGCAAA
* * * *
6020554 ATCATTGTTAGCCTCTTAAGG
66 ATCGTTGCTAGCCTCCTAAGA
* * * * * * * *
6020575 CACTTAGCTAAGTTTATTTAAAGCACAAACCCTACGAGGGTATTGCCCACTAAGCCAATAACAAA
1 CACTTAGCAAAATTTATTTAAGGCACACACCCTACGAGGGTACTGCCCGCTAAGTCAATAGCAAA
* * * *
6020640 ATCGCTACTAGCCTTCTAAGC
66 ATCGTTGCTAGCCTCCTAAGA
* * * *
6020661 CACTTAGCGAAATTTATTTAAGGCATACATCCTATGAGG
1 CACTTAGCAAAATTTATTTAAGGCACACACCCTACGAGG
6020700 ATATTACCCT
Statistics
Matches: 167, Mismatches: 42, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
85 1 0.01
86 164 0.98
87 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (86 bp):
CACTTAGCAAAATTTATTTAAGGCACACACCCTACGAGGGTACTGCCCGCTAAGTCAATAGCAAA
ATCGTTGCTAGCCTCCTAAGA
Found at i:6020609 original size:172 final size:170
Alignment explanation
Indices: 6020267--6020699 Score: 426
Period size: 172 Copynumber: 2.5 Consensus size: 170
6020257 ACACACCTTT
* * * ** * * * *
6020267 CAAGGGTATTGTCTGCTAAGTTAATAGTAGAATTTTTGCTAACCTCTTAATGCACTTAACCAAAT
1 CAAGGGTATTGCCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAA-GCACTTAGCAAAAT
* * * * *
6020332 TTATTTGAA-GCAC-CCCCTATGAGAGTATTGTTCACTAAGTTAATAGCAGAACCACTGCTAACC
65 TTATTT-AAGGCACACACCTATGAGGGTACTGCTCACTAAGTTAATAGCAAAACCACTGCTAACC
* * * *
6020395 TCTCAATGCACTTAGTCAAATTTATTTAAGGCGCACACCCTA
129 TCTCAAGGCACTTAGTCAAATTTATTTAAAGCACAAACCCTA
6020437 CAAGGGTA-TGACCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAGACACTTAGCAAAA
1 CAAGGGTATTG-CCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAG-CACTTAGCAAAA
* * * * *
6020501 TTTATTTAAGGCACACACCTTATGAGGGTACTGCT-AGTTAAGTTAATAGCAAAATCATTGTTAG
64 TTTATTTAAGGCACACACC-TATGAGGGTACTGCTCA-CTAAGTTAATAGCAAAACCACTGCTAA
* *
6020565 CCTCTTAAGGCACTTAG-CTAAGTTTATTTAAAGCACAAACCCTA
127 CCTCTCAAGGCACTTAGTC-AAATTTATTTAAAGCACAAACCCTA
* * * ** * * * * *
6020609 CGAGGGTATTGCCCACTAAGCCAATAACAAAATCGCTACTAGCCTTCTAAGCCACTTAGCGAAAT
1 CAAGGGTATTGCCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAG-CACTTAGCAAAAT
*
6020674 TTATTTAAGGCATACATCCTATGAGG
65 TTATTTAAGGCACACA-CCTATGAGG
6020700 ATATTACCCT
Statistics
Matches: 217, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
169 5 0.02
170 61 0.28
171 5 0.02
172 142 0.65
173 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (170 bp):
CAAGGGTATTGCCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAGCACTTAGCAAAATT
TATTTAAGGCACACACCTATGAGGGTACTGCTCACTAAGTTAATAGCAAAACCACTGCTAACCTC
TCAAGGCACTTAGTCAAATTTATTTAAAGCACAAACCCTA
Found at i:6020742 original size:172 final size:173
Alignment explanation
Indices: 6020366--6020750 Score: 404
Period size: 172 Copynumber: 2.2 Consensus size: 173
6020356 GTATTGTTCA
* * * * * * * *
6020366 CTAAGTTAATAGCAGAACCACTGCTAACCTCTCAATGCACTTAGTCAAATTTATTTAAGGCGCAC
1 CTAAGTTAATAGAAGAATCACTGCTAGCCTCTTAAGGCACTTAGTCAAATTTATTTAAAGCACAA
* * ** * * *
6020431 ACCCTACAAGGGTATGACCCGCTAAGTCAATAGTAGAATCGTTGCTAGCCTCCTAAGACACTTAG
66 ACCCTACAAGGGTATGACCCACTAAGCCAATAACAAAATCGCTACTAGCCTCCTAAGACACTTAG
* * *
6020496 CAAAATTTATTTAAGGCACACACCTTATGAGGGTACTGCTAGT
131 CAAAATTTATTTAAGGCACACACCTTATGAGGATACTACTACT
* * *
6020539 -TAAGTTAATAGCAA-AATCATTGTTAGCCTCTTAAGGCACTTAG-CTAAGTTTATTTAAAGCAC
1 CTAAGTTAATAG-AAGAATCACTGCTAGCCTCTTAAGGCACTTAGTC-AAATTTATTTAAAGCAC
* * *
6020601 AAACCCTACGAGGGTATTG-CCCACTAAGCCAATAACAAAATCGCTACTAGCCTTCTAAGCCACT
64 AAACCCTACAAGGGTA-TGACCCACTAAGCCAATAACAAAATCGCTACTAGCCTCCTAAGACACT
* * * *
6020665 TAGCGAAATTTATTTAAGGCATACATCC-TATGAGGATATTAC-CCT
128 TAGCAAAATTTATTTAAGGCACACA-CCTTATGAGGATACTACTACT
** * *
6020710 CTAAGTTAATAGAAGAATTGCTGCTCGCCTCTTTAGGCACT
1 CTAAGTTAATAGAAGAATCACTGCTAGCCTCTTAAGGCACT
6020751 AAAATTCAAG
Statistics
Matches: 172, Mismatches: 34, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
171 4 0.02
172 163 0.95
173 5 0.03
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (173 bp):
CTAAGTTAATAGAAGAATCACTGCTAGCCTCTTAAGGCACTTAGTCAAATTTATTTAAAGCACAA
ACCCTACAAGGGTATGACCCACTAAGCCAATAACAAAATCGCTACTAGCCTCCTAAGACACTTAG
CAAAATTTATTTAAGGCACACACCTTATGAGGATACTACTACT
Done.