Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 181 of 216
Found at i:56683172 original size:2 final size:2
Alignment explanation
Indices: 56683165--56683193 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56683155 GACAAAAACT
56683165 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56683194 TATTTGAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56685729 original size:19 final size:19
Alignment explanation
Indices: 56685705--56685741 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
56685695 TAATTTCTTG
*
56685705 AAAATGTTTTACTTTTCTA
1 AAAATGATTTACTTTTCTA
56685724 AAAATGATTTACTTTTCT
1 AAAATGATTTACTTTTCT
56685742 GATGTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (19 bp):
AAAATGATTTACTTTTCTA
Found at i:56691407 original size:22 final size:22
Alignment explanation
Indices: 56691379--56691423 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
56691369 GCGAGTAAGG
*
56691379 TTCTATATTTGGTTTTATATGT
1 TTCTATATTCGGTTTTATATGT
56691401 TTCTATATTCGGTTTTATATGT
1 TTCTATATTCGGTTTTATATGT
56691423 T
1 T
56691424 AATGACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.07, G:0.13, T:0.62
Consensus pattern (22 bp):
TTCTATATTCGGTTTTATATGT
Found at i:56693436 original size:21 final size:23
Alignment explanation
Indices: 56693412--56693456 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
56693402 GTAAAAAAAG
*
56693412 TAAATATAGAT-TAAAAA-ATTT
1 TAAATATAAATATAAAAATATTT
*
56693433 TAAATGTAAATATAAAAATATTT
1 TAAATATAAATATAAAAATATTT
56693456 T
1 T
56693457 TAAGATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
TAAATATAAATATAAAAATATTT
Found at i:56709417 original size:19 final size:19
Alignment explanation
Indices: 56709393--56709429 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56709383 TGTTGTTTGA
* *
56709393 AATTTGATGTGATAGAAAC
1 AATTTGAGGAGATAGAAAC
56709412 AATTTGAGGAGATAGAAA
1 AATTTGAGGAGATAGAAA
56709430 ACTGGTAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (19 bp):
AATTTGAGGAGATAGAAAC
Found at i:56712153 original size:40 final size:40
Alignment explanation
Indices: 56712109--56712190 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
56712099 TGTACGTTTA
*
56712109 AAAATAACATAAAATAAAAAAAATTATATACTTTGAAGCT
1 AAAATAACATAAAATAAAAAAAATTATATACTTTGAAACT
* *
56712149 AAAATAACATACAATAAAAAAAATTGTATACTTTGAAACT
1 AAAATAACATAAAATAAAAAAAATTATATACTTTGAAACT
56712189 AA
1 AA
56712191 TAACAATAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.27
Consensus pattern (40 bp):
AAAATAACATAAAATAAAAAAAATTATATACTTTGAAACT
Found at i:56712940 original size:14 final size:15
Alignment explanation
Indices: 56712910--56712946 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
56712900 GCATTATTAC
56712910 TTTTTCATCACTCCA
1 TTTTTCATCACTCCA
56712925 TTTTTC-TC-CTCTCA
1 TTTTTCATCACTC-CA
56712939 TTTTTCAT
1 TTTTTCAT
56712947 TCATTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 10 0.50
15 7 0.35
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTTCATCACTCCA
Found at i:56716558 original size:21 final size:19
Alignment explanation
Indices: 56716537--56716574 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
56716527 TTTTGTATTA
56716537 AATAAAATTTATATATTTTT
1 AATAAAATTTAT-TATTTTT
*
56716557 AATTAAATTTATTATTTT
1 AATAAAATTTATTATTTT
56716575 GGGAGGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AATAAAATTTATTATTTTT
Found at i:56720464 original size:42 final size:42
Alignment explanation
Indices: 56720404--56720558 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
56720394 TCAAAAGCTG
* *
56720404 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAATAGAAACCCATAAGGGTTA
* * **
56720446 AACAGAAGCTCGTAAGAGCTTAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAATAGAAACCCATAAGGGTTA
* * * * * * *
56720488 AACAAAAGCTTAAAAGAGCTAAA-CGAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAATAG-AAACCCATAAGGGTTA
* *
56720530 AATAGAAGCTCGTAAGAGCTAAATAGAAA
1 AACAGAAGCTCATAAGAGCTAAATAGAAA
56720559 GTAAAACACG
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAATAGAAACCCATAAGGGTTA
Found at i:56723747 original size:41 final size:41
Alignment explanation
Indices: 56723690--56723839 Score: 219
Period size: 41 Copynumber: 3.7 Consensus size: 41
56723680 TTTAACATAT
* * *
56723690 TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATCCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
56723731 TCACCGGCACTTAGCCTGCTAGGTTTACAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
56723772 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
56723813 TCACCGGCACTTAGTCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
56723840 AAGTCCGAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 99 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:56725598 original size:18 final size:19
Alignment explanation
Indices: 56725577--56725631 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
56725567 TTGTTTTTAT
56725577 TATTATAATT-TTATAATA-
1 TATTATAATTATTATAA-AC
*
56725595 TATTATTTATTATTATAAAC
1 TATTA-TAATTATTATAAAC
56725615 T-TTATAATTATTATAAA
1 TATTATAATTATTATAAA
56725632 AACTATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 17 0.53
19 8 0.25
20 7 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTATAATTATTATAAAC
Found at i:56725604 original size:28 final size:28
Alignment explanation
Indices: 56725572--56725628 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
56725562 TATGTTTGTT
*
56725572 TTTATTATTAT-AATTTTATAATATATTA
1 TTTATTATTATAAACTTTATAAT-TATTA
56725600 TTTATTATTATAAACTTTATAATTATTA
1 TTTATTATTATAAACTTTATAATTATTA
56725628 T
1 T
56725629 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTATTATTATAAACTTTATAATTATTA
Found at i:56725640 original size:20 final size:21
Alignment explanation
Indices: 56725601--56725642 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
56725591 AATATATTAT
* *
56725601 TTATTATTATAAACTTTATAA
1 TTATTATTAAAAACTATATAA
56725622 TTATTA-TAAAAACTATATAA
1 TTATTATTAAAAACTATATAA
56725642 T
1 T
56725643 ATATACATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATTATTAAAAACTATATAA
Found at i:56725839 original size:14 final size:15
Alignment explanation
Indices: 56725820--56725848 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56725810 TTACGAAACT
56725820 TTCACACAT-ATAAA
1 TTCACACATAATAAA
56725834 TTCACACATAATAAA
1 TTCACACATAATAAA
56725849 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:56729426 original size:61 final size:61
Alignment explanation
Indices: 56729304--56729458 Score: 168
Period size: 61 Copynumber: 2.5 Consensus size: 61
56729294 GAAATTTTAC
* * * *
56729304 AAATTTTGTAAATTTTGAAGGTTAAATTTATTGAGTTTTTTAGAATTTGAACCAAAATGAT
1 AAATTTTGTAAATATTGAAGGTTAAATTTATTGAATATTTTAGAATTTAAACCAAAATGAT
* * * * *
56729365 AAATTTTGTAAACATTGAAGGTTAAATTTGTTGAATATTTTA-TATTTAAGATCAAATTGAT
1 AAATTTTGTAAATATTGAAGGTTAAATTTATTGAATATTTTAGAATTTAA-ACCAAAATGAT
* * * *
56729426 AAAATGTGTAAATATTGGAGAGCTAAATTTATT
1 AAATTTTGTAAATATTGAAG-GTTAAATTTATT
56729459 ATTAGAGTAA
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
60 5 0.06
61 62 0.81
62 10 0.13
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (61 bp):
AAATTTTGTAAATATTGAAGGTTAAATTTATTGAATATTTTAGAATTTAAACCAAAATGAT
Found at i:56732502 original size:25 final size:26
Alignment explanation
Indices: 56732465--56732516 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
56732455 TTTCGATAAT
* *
56732465 AATTTTTACATTTCAAAGT-TTTTAA
1 AATTTTTACATTTAAAAATATTTTAA
56732490 AATTTATTA-ATTTAAAAATATTTTAA
1 AATTT-TTACATTTAAAAATATTTTAA
56732516 A
1 A
56732517 TTAAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
AATTTTTACATTTAAAAATATTTTAA
Found at i:56734240 original size:6 final size:6
Alignment explanation
Indices: 56734220--56734294 Score: 60
Period size: 6 Copynumber: 12.0 Consensus size: 6
56734210 AGATGATAAC
* * * * *
56734220 GAAGAC GAAGAG GAAGTG GAAGAG CAGAACGAA GAGGAG GAAGAC GAAGAG
1 GAAGAG GAAGAG GAAGAG GAAGAG --GAA-GAG GAAGAG GAAGAG GAAGAG
* *
56734271 GAAGAG GAGGAG GAGGAG GAAGAG
1 GAAGAG GAAGAG GAAGAG GAAGAG
56734295 TTTTCTTTTG
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
6 48 0.87
7 2 0.04
8 3 0.05
9 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.48, T:0.01
Consensus pattern (6 bp):
GAAGAG
Found at i:56734263 original size:21 final size:21
Alignment explanation
Indices: 56734218--56734281 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 21
56734208 GAAGATGATA
56734218 ACGAAGACGAAGAGGAAGTGGAAG
1 ACGAAGACGAAGAGG-A--GGAAG
*
56734242 A-GCAGAACGAAGAGGAGGAAG
1 ACGAAG-ACGAAGAGGAGGAAG
*
56734263 ACGAAGAGGAAGAGGAGGA
1 ACGAAGACGAAGAGGAGGA
56734282 GGAGGAGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 18 0.51
22 3 0.09
23 4 0.11
24 10 0.29
ACGTcount: A:0.47, C:0.08, G:0.44, T:0.02
Consensus pattern (21 bp):
ACGAAGACGAAGAGGAGGAAG
Found at i:56734280 original size:9 final size:9
Alignment explanation
Indices: 56734250--56734294 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
56734240 AGAGCAGAAC
56734250 GAAGAGGAG
1 GAAGAGGAG
56734259 GAAGACGAAGAG
1 GAAGA-G--GAG
56734271 GAAGAGGAG
1 GAAGAGGAG
*
56734280 GAGGAGGAG
1 GAAGAGGAG
56734289 GAAGAG
1 GAAGAG
56734295 TTTTCTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 21 0.68
10 1 0.03
11 1 0.03
12 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.53, T:0.00
Consensus pattern (9 bp):
GAAGAGGAG
Found at i:56736170 original size:20 final size:21
Alignment explanation
Indices: 56736141--56736194 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
56736131 ATAAACTTAC
56736141 AAAA-ATTATAAAAATTC-AT
1 AAAATATTATAAAAATTCAAT
*
56736160 AAAATATTATAAACATTCTAAT
1 AAAATATTATAAAAATTC-AAT
56736182 AAAAT-TTATAAAA
1 AAAATATTATAAAA
56736195 TTAAATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.13
20 12 0.40
21 7 0.23
22 7 0.23
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTATAAAAATTCAAT
Found at i:56736260 original size:18 final size:17
Alignment explanation
Indices: 56736233--56736272 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 17
56736223 AATTTTATAA
56736233 AAAAACTTATAAATAATAT
1 AAAAACTTATAAAT--TAT
56736252 AAAAA-TTATAAATTAT
1 AAAAACTTATAAATTAT
56736268 AAAAA
1 AAAAA
56736273 AAAGTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
18 8 0.38
19 5 0.24
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAACTTATAAATTAT
Found at i:56736273 original size:18 final size:19
Alignment explanation
Indices: 56736227--56736274 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
56736217 ATTTAAAATT
56736227 TTATAAAAAAACTTATAAA
1 TTATAAAAAAACTTATAAA
* *
56736246 TAATATAAAAA-TTATAAA
1 TTATAAAAAAACTTATAAA
56736264 TTATAAAAAAA
1 TTATAAAAAAA
56736275 AGTCTAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
TTATAAAAAAACTTATAAA
Found at i:56738979 original size:41 final size:40
Alignment explanation
Indices: 56738930--56739069 Score: 208
Period size: 41 Copynumber: 3.4 Consensus size: 40
56738920 TAAGTATAGT
*
56738930 AGGCTAAGTGCCGGTGATCTGAACCAGGTTATGAACCTAGC
1 AGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AACCTAGC
*
56738971 AGGTTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGC
1 AGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AACCTAGC
* *
56739012 AGGCTACGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGC
1 AGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA-CCTAGC
*
56739053 AAGCTAAGTGCCGGTGA
1 AGGCTAAGTGCCGGTGA
56739070 ATATGTTAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 2 0.02
41 88 0.98
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (40 bp):
AGGCTAAGTGCCGGTGATCTGAATCAGGTTATAACCTAGC
Found at i:56739893 original size:41 final size:41
Alignment explanation
Indices: 56739834--56739942 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 41
56739824 GCAACATTAA
* * *
56739834 CAGCGTTTATAAGGAAGCGCCGCTAATGTTCTGTG-ATTTAG
1 CAGCGTTTTTATGAAAGCGCCGCTAATGTTCTG-GCATTTAG
* * * *
56739875 CGGCGTTTTTCTGTAAGCGCCGCTAATGTTCTGGCCTTTAG
1 CAGCGTTTTTATGAAAGCGCCGCTAATGTTCTGGCATTTAG
*
56739916 CAGTGTTTTTATGAAAGCGCCGCTAAT
1 CAGCGTTTTTATGAAAGCGCCGCTAAT
56739943 AATATGGGCT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.02
41 56 0.98
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (41 bp):
CAGCGTTTTTATGAAAGCGCCGCTAATGTTCTGGCATTTAG
Found at i:56739955 original size:41 final size:41
Alignment explanation
Indices: 56739870--56739981 Score: 109
Period size: 41 Copynumber: 2.7 Consensus size: 41
56739860 TGTTCTGTGA
* * * ** *
56739870 TTTAGCGGCGTTTTTCTGTAAGCGCCGCTAATGTTCTGGCC
1 TTTAGCAGCGTTTTTATGAAAGCGCCGCTAATAATATGGCC
* *
56739911 TTTAGCAGTGTTTTTATGAAAGCGCCGCTAATAATATGGGC
1 TTTAGCAGCGTTTTTATGAAAGCGCCGCTAATAATATGGCC
* * *
56739952 TTTAGCGGCGTTTCTAT-ATAATCGCCGCTA
1 TTTAGCAGCGTTTTTATGA-AAGCGCCGCTA
56739982 TCGTTGTGAG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
40 1 0.02
41 57 0.98
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTAGCAGCGTTTTTATGAAAGCGCCGCTAATAATATGGCC
Found at i:56740439 original size:31 final size:32
Alignment explanation
Indices: 56740383--56740444 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
56740373 AGTTTAAGGG
*
56740383 TTTTATAGTTTAAGGTTTAATGTTTACTATAA
1 TTTTATAGTTTAAGGTTTAAGGTTTACTATAA
* * *
56740415 TTTTA-AGTTTATGGTTTAGGGTTTATTATA
1 TTTTATAGTTTAAGGTTTAAGGTTTACTATA
56740445 TTTGGTTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (32 bp):
TTTTATAGTTTAAGGTTTAAGGTTTACTATAA
Found at i:56740897 original size:45 final size:44
Alignment explanation
Indices: 56740837--56740931 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 44
56740827 TTTGGTTCGC
* * * *
56740837 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGCTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGCTGAA
* ** *
56740882 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGCTGAA
56740926 TGTAAT
1 TGTAAT
56740932 AGAGGTGTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 17 0.40
45 25 0.60
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGCTGAA
Found at i:56741114 original size:18 final size:17
Alignment explanation
Indices: 56741093--56741127 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56741083 TTATTATTTA
*
56741093 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56741111 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56741128 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56741121 original size:28 final size:27
Alignment explanation
Indices: 56741051--56741123 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
56741041 TTTATTATCA
*
56741051 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
56741079 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
56741106 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
56741124 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:56741261 original size:18 final size:17
Alignment explanation
Indices: 56741240--56741274 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56741230 TTATTATTAA
*
56741240 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56741258 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56741275 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56741286 original size:147 final size:149
Alignment explanation
Indices: 56741012--56741286 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
56741002 ATGATTATTG
*
56741012 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
56741077 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
56741142 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
56741161 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
56741224 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
56741287 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:56741318 original size:54 final size:54
Alignment explanation
Indices: 56741260--56741438 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
56741250 ATTAAAATAT
*
56741260 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
56741314 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
56741377 TAT
53 -AC
*
56741380 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
56741434 ATAAT
1 ATAAT
56741439 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:56741381 original size:18 final size:17
Alignment explanation
Indices: 56741360--56741394 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56741350 TTATTATTAA
56741360 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
56741378 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
56741395 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:56741509 original size:18 final size:17
Alignment explanation
Indices: 56741470--56741501 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56741460 TTTTAAATAA
56741470 TTAATATTAAATATATT
1 TTAATATTAAATATATT
56741487 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
56741502 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:56741526 original size:120 final size:120
Alignment explanation
Indices: 56741223--56741515 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
56741213 ATCATATTTA
56741223 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
56741288 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
56741343 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
56741408 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
56741464 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
56741516 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:56743332 original size:20 final size:19
Alignment explanation
Indices: 56743273--56743319 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
56743263 CAACTACACA
56743273 AATTCACAATGTAACCTACT
1 AATT-ACAATGTAACCTACT
56743293 AATTACAATGTAACCTACT
1 AATTACAATGTAACCTACT
56743312 AATTACAA
1 AATTACAA
56743320 CTTCGACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTACAATGTAACCTACT
Found at i:56743378 original size:41 final size:41
Alignment explanation
Indices: 56743327--56743419 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
56743317 CAACTTCGAC
56743327 CTACTACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTAC-ACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
56743369 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
56743410 CTACACAAAT
1 CTACACAAAT
56743420 TCACAATGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (41 bp):
CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
Found at i:56744072 original size:14 final size:14
Alignment explanation
Indices: 56744047--56744081 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
56744037 AAGAAGAAGC
56744047 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
56744062 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
56744076 AGAAAA
1 AGAAAA
56744082 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:56744079 original size:19 final size:18
Alignment explanation
Indices: 56744057--56744101 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
56744047 AGAAATATGG
56744057 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
56744076 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
56744093 AGAAAAGAA
1 AGAAAAGAA
56744102 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:56747316 original size:18 final size:19
Alignment explanation
Indices: 56747293--56747330 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
56747283 TTTTAATTAA
56747293 AAATCATTC-ATCTATTTT
1 AAATCATTCTATCTATTTT
*
56747311 AAATCATTCTATTTATTTT
1 AAATCATTCTATCTATTTT
56747330 A
1 A
56747331 TTTAATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATCATTCTATCTATTTT
Found at i:56747571 original size:21 final size:21
Alignment explanation
Indices: 56747545--56747603 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
56747535 TGTATATTAA
*
56747545 TGCAGCGAGGGAAGCAGAGGC
1 TGCAGCGAGAGAAGCAGAGGC
*
56747566 TGCAGCGAGAGAAGTAGAGGC
1 TGCAGCGAGAGAAGCAGAGGC
* *
56747587 CGCAGTGAGAGAAGCAG
1 TGCAGCGAGAGAAGCAG
56747604 CGAGAGAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.44, T:0.07
Consensus pattern (21 bp):
TGCAGCGAGAGAAGCAGAGGC
Found at i:56748118 original size:43 final size:40
Alignment explanation
Indices: 56748051--56748301 Score: 202
Period size: 43 Copynumber: 5.9 Consensus size: 40
56748041 TTTGTGAAAT
* * *
56748051 AAGCGCCG-TGAAAGAACACTACTTTCAGCGGCATTTTTAGA
1 AAGCGCCGCT-AAAGAACA-TACTTTTAGCGGCGTTTTTACA
*
56748092 TGAAGCGCCGCTAAAGAACATAACTTTTATCGGCGTTTTCTACA
1 --AAGCGCCGCTAAAGAACAT-ACTTTTAGCGGCGTTTT-TACA
* * *
56748136 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACA-TACTTTTAGCGGCG--TTTTTACA
* * *
56748179 AAGCGCCACTAAAGAACATGATTTTTAGCGGCGTTTTTTCCCA
1 AAGCGCCGCTAAAGAACAT-ACTTTTAGCGGCG-TTTTT-ACA
* * * *
56748222 AA-TGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACAT-ACT-TTTAGCGGCG--TTTTTACA
56748264 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACAT-ACTTTTAGCGGCGTTTTT
56748302 TTTGTAAGCG
Statistics
Matches: 178, Mismatches: 18, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
41 6 0.03
42 66 0.37
43 97 0.54
44 9 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACATACTTTTAGCGGCGTTTTTACA
Found at i:56748152 original size:42 final size:42
Alignment explanation
Indices: 56748094--56748302 Score: 260
Period size: 42 Copynumber: 4.9 Consensus size: 42
56748084 TTTTTAGATG
* * * *
56748094 AAGCGCCGCTAAAGAACATAACTTTTATCGGCGTTTTCTACA
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCCA
* * *
56748136 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCG-TTTTTTCCA
* *
56748179 AAGCGCCACTAAAGAACATGATTTTTAGCGGCGTTTTTTCCCA
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT-CCA
* * *
56748222 AA-TGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCG-TTTTTTCCA
56748264 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT
56748303 TTGTAAGCGC
Statistics
Matches: 144, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 71 0.49
43 71 0.49
44 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCCA
Found at i:56748301 original size:85 final size:85
Alignment explanation
Indices: 56748094--56748302 Score: 296
Period size: 85 Copynumber: 2.5 Consensus size: 85
56748084 TTTTTAGATG
* * * * *
56748094 AAGCGCCGCTAAAGAACATAACTTTTATCGGCGTTTTCTACAAAGCGCCGCTATAGAACATTACT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGACT
*
56748159 TTTAGCGGCGTTTTTTTCCT
66 ATTAGCGGCGTTTTTTTCCT
* * * *
56748179 AAGCGCCACTAAAGAACATGATTTTTAGCGGCGTTTTTTCCCAAA-TGCCGCTAAAGAACATGA-
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT-ACAAAGCGCCGCTAAAGAACATGAC
56748242 TCATTAGCGGCGTTTTTTTCCT
65 T-ATTAGCGGCGTTTTTTTCCT
56748264 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT
56748303 TTGTAAGCGC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
84 1 0.01
85 105 0.95
86 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACAAAGCGCCGCTAAAGAACATGACT
ATTAGCGGCGTTTTTTTCCT
Found at i:56748302 original size:43 final size:43
Alignment explanation
Indices: 56748094--56748320 Score: 280
Period size: 43 Copynumber: 5.3 Consensus size: 43
56748084 TTTTTAGATG
* * * * *
56748094 AAGCGCCGCTAAAGAACATAACTTTTATCGGCG-TTTTCTACA
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCCT
* *
56748136 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCCT
* * *
56748179 AAGCGCCACTAAAGAACATGATTTTTAGCGGCG-TTTTTTCCC
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCCT
** *
56748221 AAATGCCGCTAAAGAACATGA-TCATTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTTCCT
**
56748264 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTTGT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCCT
*
56748307 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
56748321 TTAGCGACGT
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 65 0.41
43 92 0.58
44 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTTCCT
Found at i:56748625 original size:18 final size:18
Alignment explanation
Indices: 56748558--56748625 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
56748548 CAATAAATGA
*
56748558 ATTTTCATAATTCTAT-AT
1 ATTTTAATAATT-TATAAT
* *
56748576 ATTTTAATATTTTATTAGT
1 ATTTTAATAATTTA-TAAT
*
56748595 -TTTTAA-AAATTATAAT
1 ATTTTAATAATTTATAAT
56748611 ATTTTAATAATTTAT
1 ATTTTAATAATTTAT
56748626 TAGAACTCGT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
16 3 0.08
17 12 0.31
18 23 0.59
19 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.57
Consensus pattern (18 bp):
ATTTTAATAATTTATAAT
Found at i:56749302 original size:29 final size:29
Alignment explanation
Indices: 56749234--56749302 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
56749224 TTAATGATAT
*
56749234 TGGCTCAATTAGGTGCAAATTTAGTGTAG
1 TGGCTCAATTGGGTGCAAATTTAGTGTAG
* *
56749263 -GAGCTCAATTGGGTGCAGATTTGGTGTAG
1 TG-GCTCAATTGGGTGCAAATTTAGTGTAG
56749292 TGGCTCAATTG
1 TGGCTCAATTG
56749303 ATTTTTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.03
29 33 0.94
30 1 0.03
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (29 bp):
TGGCTCAATTGGGTGCAAATTTAGTGTAG
Found at i:56754162 original size:9 final size:9
Alignment explanation
Indices: 56754144--56754192 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
56754134 TTTGGTTAAA
56754144 AATTAACCG
1 AATTAACCG
*
56754153 AATTACCCG
1 AATTAACCG
*
56754162 AATTAATCG
1 AATTAACCG
*
56754171 AATTACCCG
1 AATTAACCG
*
56754180 AATTAACCA
1 AATTAACCG
56754189 AATT
1 AATT
56754193 GAATCACTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:56754167 original size:18 final size:18
Alignment explanation
Indices: 56754144--56754192 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
56754134 TTTGGTTAAA
56754144 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
56754162 AATTAATCGAATTACCCG
1 AATTAACCGAATTACCCG
*
56754180 AATTAACCAAATT
1 AATTAACCGAATT
56754193 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:56754192 original size:27 final size:28
Alignment explanation
Indices: 56754144--56754197 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
56754134 TTTGGTTAAA
* *
56754144 AATTAACCGAATTACCCGAATT-AATCG
1 AATTAACCGAATTAACCAAATTGAATCG
*
56754171 AATTACCCGAATTAACCAAATTGAATC
1 AATTAACCGAATTAACCAAATTGAATC
56754198 ACTACATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (28 bp):
AATTAACCGAATTAACCAAATTGAATCG
Found at i:56757008 original size:24 final size:24
Alignment explanation
Indices: 56756976--56757023 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
56756966 GTAATATTGG
56756976 GTGCATAGGTGATTAACTTCATTA
1 GTGCATAGGTGATTAACTTCATTA
56757000 GTGCATAGGTGATTAACTTCATTA
1 GTGCATAGGTGATTAACTTCATTA
56757024 CCTGATACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (24 bp):
GTGCATAGGTGATTAACTTCATTA
Found at i:56768668 original size:17 final size:18
Alignment explanation
Indices: 56768642--56768675 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56768632 TATAAATATA
*
56768642 TACAATATAAT-TATTTT
1 TACAACATAATATATTTT
56768659 TACAACATAATATATTT
1 TACAACATAATATATTT
56768676 GGGTCGATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (18 bp):
TACAACATAATATATTTT
Found at i:56769181 original size:21 final size:23
Alignment explanation
Indices: 56769147--56769209 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
56769137 ATATTAATAA
* *
56769147 TAATATTGATATCA-ATTTA-AT
1 TAATATTAAAATCACATTTATAT
*
56769168 TAATATTAAAATCATATTTTATAT
1 TAATATTAAAATCACA-TTTATAT
*
56769192 TCATA-TAAAATCACATTT
1 TAATATTAAAATCACATTT
56769210 CCACTATGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 12 0.34
22 4 0.11
23 13 0.37
24 6 0.17
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (23 bp):
TAATATTAAAATCACATTTATAT
Found at i:56769188 original size:23 final size:23
Alignment explanation
Indices: 56769162--56769209 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
56769152 TTGATATCAA
*
56769162 TTTA-ATTAATATTAAAATCATAT
1 TTTATATTAATA-TAAAATCACAT
*
56769185 TTTATATTCATATAAAATCACAT
1 TTTATATTAATATAAAATCACAT
56769208 TT
1 TT
56769210 CCACTATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTATATTAATATAAAATCACAT
Found at i:56772515 original size:46 final size:44
Alignment explanation
Indices: 56772490--56772791 Score: 336
Period size: 46 Copynumber: 6.5 Consensus size: 44
56772480 GATCAAGTGA
* *
56772490 CAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
* *
56772535 CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
56772581 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
* *
56772627 CAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
*
56772679 CAAGTGATAAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTT-AGCTATACTTATCTGAT
* *
56772725 CAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGC-TTAGCTATACTTATCTGAT
*
56772771 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
56772792 GCTACACTTA
Statistics
Matches: 234, Mismatches: 11, Indels: 23
0.87 0.04 0.09
Matches are distributed among these distances:
44 2 0.01
45 5 0.02
46 182 0.78
47 2 0.01
52 43 0.18
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
CAAGTGACAAGTGATAAGTGATAGCTTAGCTATACTTATCTGAT
Found at i:56772551 original size:98 final size:94
Alignment explanation
Indices: 56772431--56772791 Score: 473
Period size: 98 Copynumber: 3.8 Consensus size: 94
56772421 TTTGAGTACT
* *
56772431 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-A-T-
* *
56772496 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
63 -AAAGTGATAAGTGATAGCTTCAGCTATACTTA
* *
56772529 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--AAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACATAAA
56772592 GTGATAAGTGATAGCTTCAGCTATACTTA
66 GTGATAAGTGATAGCTTCAGCTATACTTA
* * *
56772621 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG-
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
56772685 -ATAAAGTGATAAGTGATAGCTTCAGCTATACTTA
60 CATAAAGTGATAAGTGATAGCTTCAGCTATACTTA
* * * *
56772719 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--AAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACATAAA
56772782 GTGATAAGTG
66 GTGATAAGTG
56772792 GCTACACTTA
Statistics
Matches: 239, Mismatches: 14, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
92 94 0.39
95 2 0.01
96 1 0.00
98 142 0.59
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (94 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACATAAA
GTGATAAGTGATAGCTTCAGCTATACTTA
Found at i:56772691 original size:144 final size:144
Alignment explanation
Indices: 56772431--56772780 Score: 637
Period size: 144 Copynumber: 2.4 Consensus size: 144
56772421 TTTGAGTACT
* *
56772431 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
56772496 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
*
56772561 TTCGGCTATACTTA
131 TTCAGCTATACTTA
* *
56772575 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
56772640 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
56772705 TTCAGCTATACTTA
131 TTCAGCTATACTTA
* *
56772719 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
56772781 AGTGATAAGT
Statistics
Matches: 197, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 197 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
TTCAGCTATACTTA
Found at i:56772799 original size:37 final size:37
Alignment explanation
Indices: 56772755--56772863 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
56772745 GATAGCTTTA
56772755 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
56772792 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
56772829 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
56772864 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:56781601 original size:18 final size:20
Alignment explanation
Indices: 56781558--56781602 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
56781548 TTAAAAAAAT
*
56781558 TATTTTTAGAAAATGATTTAC
1 TATTTTTAGAAAA-GATTTAA
56781579 T-TTTTTAGAAAA-A-TTAA
1 TATTTTTAGAAAAGATTTAA
56781596 TATTTTT
1 TATTTTT
56781603 TTTTGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
20 11 0.50
21 1 0.05
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (20 bp):
TATTTTTAGAAAAGATTTAA
Found at i:56781760 original size:13 final size:14
Alignment explanation
Indices: 56781732--56781760 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56781722 TTGAGTTTAT
56781732 TTTATATTTATAAA
1 TTTATATTTATAAA
56781746 TTTATATTT-TAAA
1 TTTATATTTATAAA
56781759 TT
1 TT
56781761 ATTTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATATTTATAAA
Found at i:56782531 original size:16 final size:16
Alignment explanation
Indices: 56782500--56782536 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
56782490 ATATGACGAA
56782500 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
56782516 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
56782532 TATTA
1 TATTA
56782537 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:56783911 original size:23 final size:23
Alignment explanation
Indices: 56783884--56783948 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 23
56783874 TTAAAATTTA
*
56783884 AAAATTTAAAAAATAAATTAACT
1 AAAATTTAAAAATTAAATTAACT
* * * *
56783907 AAAATTGACTAAATTAATTTAATT
1 AAAATTTA-AAAATTAAATTAACT
*
56783931 AAAATATAAAAATTAAAT
1 AAAATTTAAAAATTAAAT
56783949 CCATAATTTT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAATTTAAAAATTAAATTAACT
Found at i:56784104 original size:6 final size:6
Alignment explanation
Indices: 56784095--56784152 Score: 107
Period size: 6 Copynumber: 9.7 Consensus size: 6
56784085 GTGACCCAAC
*
56784095 CCATAC CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA
1 CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA CCATAA
56784143 CCATAA CCAT
1 CCATAA CCAT
56784153 TCTCTTTCTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (6 bp):
CCATAA
Found at i:56788099 original size:23 final size:23
Alignment explanation
Indices: 56788087--56788164 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
56788077 TTACTATTTA
56788087 ATTATTAATTATTATTATATTAT
1 ATTATTAATTATTATTATATTAT
* * *
56788110 ATTATTACTTGTTTATCATTATTAT
1 ATTATTAATT-ATTATTA-TATTAT
*
56788135 -TTATT-ATTATTATTAATATTGAA
1 ATTATTAATTATTATT-ATATT-AT
56788158 ATTATTA
1 ATTATTA
56788165 TTTTCGTGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 8 0.19
23 13 0.31
24 15 0.36
25 6 0.14
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (23 bp):
ATTATTAATTATTATTATATTAT
Found at i:56788112 original size:13 final size:12
Alignment explanation
Indices: 56788081--56788154 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 12
56788071 ACTATTTTAC
56788081 TATTTA-ATTAT
1 TATTTATATTAT
*
56788092 TAATTATTATTA-
1 TATTTA-TATTAT
56788104 TATTATATTATTACT
1 TATT-TA-TATTA-T
*
56788119 TGTTTATCATTAT
1 TATTTAT-ATTAT
56788132 TATTTATTATTAT
1 TATTTA-TATTAT
*
56788145 TATTAATATT
1 TATTTATATT
56788155 GAAATTATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
11 5 0.10
12 7 0.14
13 29 0.57
14 7 0.14
15 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (12 bp):
TATTTATATTAT
Found at i:56788166 original size:3 final size:3
Alignment explanation
Indices: 56788087--56788154 Score: 59
Period size: 3 Copynumber: 22.0 Consensus size: 3
56788077 TTACTATTTA
* *
56788087 ATT ATT AATT ATT ATT A-T ATT A-T ATT ATT ACTT GTTT ATC ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT
*
56788133 ATTT ATT ATT ATT ATT AAT ATT
1 A-TT ATT ATT ATT ATT ATT ATT
56788155 GAAATTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 4 0.08
3 39 0.74
4 10 0.19
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:56793129 original size:13 final size:13
Alignment explanation
Indices: 56793111--56793140 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56793101 GACGAGATGA
*
56793111 AAAATGAAAATTG
1 AAAATGAAAACTG
56793124 AAAATGAAAACTG
1 AAAATGAAAACTG
56793137 AAAA
1 AAAA
56793141 ATGGAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.17
Consensus pattern (13 bp):
AAAATGAAAACTG
Found at i:56793147 original size:8 final size:7
Alignment explanation
Indices: 56793107--56793148 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
56793097 AAATGACGAG
56793107 ATGAAAA
1 ATGAAAA
56793114 ATGAAAA
1 ATGAAAA
*
56793121 TTG-AAA
1 ATGAAAA
56793127 ATGAAAA
1 ATGAAAA
*
56793134 CTGAAAA
1 ATGAAAA
56793141 ATGGAAAA
1 AT-GAAAA
56793149 GTAAAATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 5 0.17
7 19 0.66
8 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.17, T:0.17
Consensus pattern (7 bp):
ATGAAAA
Found at i:56793292 original size:42 final size:42
Alignment explanation
Indices: 56793231--56793330 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
56793221 GAAAAGGGCG
*
56793231 GCTCAAATATTGATTAGAATGGGGCATGAGATTATCGGAGTA
1 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGTA
* *
56793273 GCTCAAATATTGATCAGAATGTGGCATGAGATTATTGGAGTA
1 GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGTA
*
56793315 GCTCAAATACTGATCA
1 GCTCAAATATTGATCA
56793331 ACATGAGGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (42 bp):
GCTCAAATATTGATCAGAATGGGGCATGAGATTATCGGAGTA
Found at i:56793341 original size:42 final size:42
Alignment explanation
Indices: 56793231--56793342 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
56793221 GAAAAGGGCG
* *
56793231 GCTCAAATATTGATTAGAATGGGGCATGAGATTATCGGAGTA
1 GCTCAAATATTGATCAGAATGAGGCATGAGATTATCGGAGTA
* *
56793273 GCTCAAATATTGATCAGAATGTGGCATGAGATTATTGGAGTA
1 GCTCAAATATTGATCAGAATGAGGCATGAGATTATCGGAGTA
*
56793315 GCTCAAATACTGATCA-ACATGAGGCATG
1 GCTCAAATATTGATCAGA-ATGAGGCATG
56793343 TAGTGGTCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (42 bp):
GCTCAAATATTGATCAGAATGAGGCATGAGATTATCGGAGTA
Found at i:56795118 original size:18 final size:17
Alignment explanation
Indices: 56795085--56795123 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
56795075 TTGTATAAAT
56795085 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
56795103 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
56795120 TGTG
1 TGTG
56795124 GAAGGGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:56795376 original size:23 final size:23
Alignment explanation
Indices: 56795349--56795421 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
56795339 AGTGTTATTG
56795349 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
56795372 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
56795395 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
56795418 ATCA
1 ATCA
56795422 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:56801682 original size:18 final size:17
Alignment explanation
Indices: 56801649--56801687 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
56801639 TTGTATAAAT
56801649 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
56801667 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
56801684 TGTG
1 TGTG
56801688 GAAGGGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:56801940 original size:23 final size:23
Alignment explanation
Indices: 56801913--56801985 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
56801903 AGTGTTATTG
56801913 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
56801936 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
56801959 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
56801982 ATCA
1 ATCA
56801986 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:56803286 original size:44 final size:44
Alignment explanation
Indices: 56803170--56803693 Score: 559
Period size: 44 Copynumber: 11.8 Consensus size: 44
56803160 TCACGTATTA
* ***
56803170 GCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTG
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
* *
56803214 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
1 G-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
* ***
56803259 GCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTG
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
* * * *
56803303 GTGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCATGTA-TCG
1 G-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT-G
* * * *
56803348 GCGTGAAGTAGATCGAATATAGCAGATCTTATCTTCATGTATTG
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
* * * *** *
56803392 GCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATATTG
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
* * *
56803436 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
1 G-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
* * *
56803481 GCGTGAAGTAGATCGAAGATAGCAGATCTTGCCTTCATGTATTG
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
* * * ***
56803525 GTGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
* * *
56803569 GTGACGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTA-TCG
1 GCG-TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT-G
* * *
56803614 GCGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATATA-TAG
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT-G
* *
56803658 GCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
56803694 CCATACTGGT
Statistics
Matches: 406, Mismatches: 67, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
44 261 0.64
45 145 0.36
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (44 bp):
GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTG
Found at i:56803416 original size:133 final size:133
Alignment explanation
Indices: 56803174--56804075 Score: 1036
Period size: 133 Copynumber: 6.9 Consensus size: 133
56803164 GTATTAGCGT
*** * *
56803174 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATA-CTGGTGGCGAAGTAGATCGAAGAAAGC
1 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATC-GG-CGTGAAGTAGATCGAAGAAAGC
* * *
56803238 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTG
64 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTG
56803303 GTGGC
129 GTGGC
* * *
56803308 GAAGTAGATCGAAGAAAGTAGATCTTATCTTCATGTATCGGCGTGAAGTAGATCGAATATAGCAG
1 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAGCAG
* * * *
56803373 ATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATATTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
56803438 GGC
131 GGC
* * *
56803441 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAGCAG
* * *
56803506 ATCTTGCCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
*
56803571 GAC
131 GGC
*
56803574 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAG
1 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAGCAG
* * * *
56803639 ATATTGTCTTCATATATAGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
56803704 ---
131 GGC
*
56803704 ---G--G--C---G-AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAGCAG
* * *** *
56803758 ATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
* *
56803822 CGT
131 GGC
* * * *** * * *
56803825 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATA-CTGGTGGCGAAGTAGATCGAAGAAAAC
1 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATC-GG-CGTGAAGTAGATCGAAGAAAGC
* * * *** *
56803889 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGTAAATCTTGTCTTCATGTATTG
64 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTG
* *
56803954 G-CGT
129 GTGGC
* * * *** * *
56803958 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATA-CTGGTGGCGAAGTAGATCGAAGAAAGC
1 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATC-GG-CGTGAAGTAGATCGAAGAAAGC
56804022 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA-CA-AGTCTTGTCT
64 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGA-TCTTGTCT
56804076 CCCTGAAGTT
Statistics
Matches: 689, Mismatches: 61, Indels: 38
0.87 0.08 0.05
Matches are distributed among these distances:
119 102 0.15
120 1 0.00
123 1 0.00
124 1 0.00
125 1 0.00
126 1 0.00
127 1 0.00
128 1 0.00
131 3 0.00
132 28 0.04
133 513 0.74
134 35 0.05
135 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGAAAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
GGC
Found at i:56803716 original size:89 final size:87
Alignment explanation
Indices: 56803170--56803693 Score: 584
Period size: 89 Copynumber: 5.9 Consensus size: 87
56803160 TCACGTATTA
* * *
56803170 GCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATACTGG-CGCGAAGTAGATCGAAGAA
56803235 AGCAGATCTTGTCTTCATGTACTG
65 AGCAGATCTTGTCTTCATGTA-TG
* * *
56803259 GCGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATACTGG-CGCGAAGTAGATCGAAGAA
* *
56803324 AGTAGATCTTATCTTCATGTATCG
65 AGCAGATCTTGTCTTCATGTAT-G
* * * ** * * * *
56803348 GCGTGAAGTAGATCGAATATAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATACTGGCGCGAAGTAGATCGAAGAAA
* *
56803413 GTAGATCTTGTCTTCCCATAT-TG
66 GCAGATCTTGTCTT--CATGTATG
* * ** * * *
56803436 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 G-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATACTGGCGCGAAGTAGATCGAAGAA
*
56803501 AGCAGATCTTGCCTTCATGTATTG
65 AGCAGATCTTGTCTTCATGTA-TG
* * * * *
56803525 GTGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCGAAGAA
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATACTGGCG-CGAAGTAGATCGAAGAA
*
56803590 AGTAGATCTTGTCTTCATGTATCG
65 AGCAGATCTTGTCTTCATGTAT-G
* * * * * *
56803614 GCGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATATA-TAGGCGTGAAGTAGATCAAAGAT
1 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATACT-GGCGCGAAGTAGATCGAAGAA
56803678 AGCAGATCTTGTCTTC
65 AGCAGATCTTGTCTTC
56803694 CCATACTGGT
Statistics
Matches: 376, Mismatches: 50, Indels: 19
0.84 0.11 0.04
Matches are distributed among these distances:
87 4 0.01
88 100 0.27
89 268 0.71
90 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (87 bp):
GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCACATACTGGCGCGAAGTAGATCGAAGAAA
GCAGATCTTGTCTTCATGTATG
Found at i:56803735 original size:119 final size:119
Alignment explanation
Indices: 56803589--56803812 Score: 378
Period size: 119 Copynumber: 1.9 Consensus size: 119
56803579 AGATCGAAGA
56803589 AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATAT
1 AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATAT
*
56803654 A-TAGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCG
66 ATTA-GCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCG
* * * *
56803708 AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGT
1 AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATAT
*
56803773 ATTAGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
66 ATTAGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTC
56803813 ATGTATTGGC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
119 96 0.98
120 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (119 bp):
AAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATAT
ATTAGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCG
Found at i:56803765 original size:44 final size:44
Alignment explanation
Indices: 56803712--56804075 Score: 480
Period size: 44 Copynumber: 8.2 Consensus size: 44
56803702 GTGGCGAAGT
*
56803712 AGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
* *
56803756 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
*
56803800 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
*** * * * * *
56803844 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAC
1 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
* *
56803889 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
* *
56803933 AAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
*** * * * *
56803977 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
56804022 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA-C
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
56804065 A-AGTCTTGTCT
1 AGA-TCTTGTCT
56804076 CCCTGAAGTT
Statistics
Matches: 272, Mismatches: 45, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
42 1 0.00
43 10 0.04
44 190 0.70
45 71 0.26
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
Found at i:56803844 original size:163 final size:167
Alignment explanation
Indices: 56803219--56804034 Score: 733
Period size: 177 Copynumber: 4.7 Consensus size: 167
56803209 TACTGGTGGC
* * * *
56803219 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAAAGTAG
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
** * * * * * * * *** *
56803284 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCATGTATCGG
66 ATCTTGTCTTCATATATTGG-CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATA-CTG
* * * * * *
56803349 CGTGAAGTAGATCGAATATAGCAGATCTTATCTTCATGTATTGGCGT
129 -GTG--G-CGA-AG-AGATA--AGATCTTGTCTTCATGTATCGGCAT
* *** * *
56803396 GAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCA
* * * *** *
56803461 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGCCTTCATGTATTGG
65 GATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACT-G
* * *** * *
56803526 TGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATA-CTGGTGAC
129 -GTG--G-CGA--AGAGATA--AGATCTTGTCTTCATGTATC-GG-CAT
* * *
56803574 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAGCAG
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
* *
56803639 ATATTGTCTTCATATATAGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
*
56803704 GGCG-A-AG-T-AGATCTTGTCTTCATGTATCGGCGT
131 GGCGAAGAGATAAGATCTTGTCTTCATGTATCGGCAT
* *
56803737 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
*
56803802 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
*
56803867 GGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCAT
131 GGCGAAG-AGAT--------A-AGATCTTGTCTTCATGTATCGGCAT
* * *
56803914 GAAGTAGATCGAAGATAGTAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
** * * * * *
56803979 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
66 ATCTTGTCTTCATATATTGG-CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
56804035 ATGTATTGGC
Statistics
Matches: 535, Mismatches: 83, Indels: 41
0.81 0.13 0.06
Matches are distributed among these distances:
163 126 0.24
164 18 0.03
165 1 0.00
166 2 0.00
167 2 0.00
168 2 0.00
169 1 0.00
172 1 0.00
173 1 0.00
175 3 0.01
176 1 0.00
177 274 0.51
178 103 0.19
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (167 bp):
GAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
ATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
GGCGAAGAGATAAGATCTTGTCTTCATGTATCGGCAT
Found at i:56803879 original size:296 final size:296
Alignment explanation
Indices: 56803441--56804012 Score: 991
Period size: 296 Copynumber: 1.9 Consensus size: 296
56803431 TATTGGTGGC
* *
56803441 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGCAG
*
56803506 ATCTTGCCTTCATGTATTGGTGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
** *
56803571 GACGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCGAAAAAAG
131 GACGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAAAAAG
*
56803636 CAGATATTGTCTTCATATATAGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACT
196 CAAATATTGTCTTCATATATAGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACT
56803701 GGTGGCGAAGTAGATCTTGTCTTCATGTATCGGCGT
261 GGTGGCGAAGTAGATCTTGTCTTCATGTATCGGCGT
*
56803737 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGCAG
*
56803802 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
* * * *
56803867 GGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAG
131 GACGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAAAAAG
* * * *
56803932 TAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACT
196 CAAATATTGTCTTCATATATAGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACT
56803997 GGTGGCGAAGTAGATC
261 GGTGGCGAAGTAGATC
56804013 GAAGAAAGCA
Statistics
Matches: 259, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
296 259 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (296 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGCAG
ATCTTGCCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
GACGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATCGGCATGAAGTAGATCGAAAAAAG
CAAATATTGTCTTCATATATAGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACT
GGTGGCGAAGTAGATCTTGTCTTCATGTATCGGCGT
Found at i:56804063 original size:89 final size:88
Alignment explanation
Indices: 56803737--56804061 Score: 388
Period size: 89 Copynumber: 3.7 Consensus size: 88
56803727 GTATCGGCGT
*
56803737 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGAAAGCAG
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
* * *
56803802 ATCTTGTCTT-CATGTATTGG-CGT
66 ATCTTGTCTTCCA--TACTGGTGGC
* *** * * * *
56803825 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCA
* **
56803890 GATCTTGTCTT-CAT-GTATTGGC
65 GATCTTGTCTTCCATACTGGTGGC
* * * *
56803912 ATGAAGTAGATCGAAGATAGTAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGC
1 --GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGC
56803977 AGATCTTGTCTTCCCATACTGGTGGC
64 AGATCTTGTCTT-CCATACTGGTGGC
*
56804003 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
56804062 TACAAGTCTT
Statistics
Matches: 197, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.01
87 2 0.01
88 64 0.32
89 122 0.62
90 3 0.02
91 5 0.03
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (88 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAG
ATCTTGTCTTCCATACTGGTGGC
Found at i:56805551 original size:3 final size:3
Alignment explanation
Indices: 56805538--56805599 Score: 56
Period size: 3 Copynumber: 20.0 Consensus size: 3
56805528 TTACTATTTA
*
56805538 ATT ATTT ATT ATT A-T ATT A-T ATT ATT ACTT ATTT ATC ATT ATT ATTT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT A-TT
*
56805585 ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT
56805600 GAAATTCTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
2 4 0.08
3 33 0.67
4 12 0.24
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:56805560 original size:10 final size:11
Alignment explanation
Indices: 56805538--56805599 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 11
56805528 TTACTATTTA
56805538 ATTAT-TTATT
1 ATTATATTATT
56805548 ATTATATTA-T
1 ATTATATTATT
56805558 A-T-TATTACTT
1 ATTATATTA-TT
56805568 ATTTATCATTATT
1 A-TTAT-ATTATT
56805581 ATT-TATTATT
1 ATTATATTATT
56805591 ATTAATATT
1 ATT-ATATT
56805600 GAAATTCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
8 5 0.12
9 1 0.02
10 18 0.42
11 4 0.09
12 7 0.16
13 4 0.09
14 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTATATTATT
Found at i:56805569 original size:27 final size:27
Alignment explanation
Indices: 56805539--56805591 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
56805529 TACTATTTAA
*
56805539 TTATTTATTATTA-TATTATATTATTAC
1 TTATTTATCATTATTATT-TATTATTAC
56805566 TTATTTATCATTATTATTTATTATTA
1 TTATTTATCATTATTATTTATTATTA
56805592 TTAATATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (27 bp):
TTATTTATCATTATTATTTATTATTAC
Found at i:56808825 original size:114 final size:114
Alignment explanation
Indices: 56808492--56808826 Score: 462
Period size: 114 Copynumber: 3.0 Consensus size: 114
56808482 CAGGGGAACC
* * * *
56808492 AAGTTCAATGATAATTCGACATGTTACATGTTAATAAAAACAAGTTAG-GCCAGCAAAGCAGCAA
1 AAGTTGAATGATGATTCCACATTTTACATGTTAATAAAAACAAGTTAGAG-CAGCAAAGCAGCAA
* ** *
56808556 TAATTTTACATGT--AAGAAATATTTGGTTCATAGTTAGAATATGCGGGC
65 TATTTTTACATGTAAAAGAAATATTTGGTTCATAGTTAGAATATGCAAGA
* *
56808604 AAGTTGAATGATGATTCCACATTTCACATGTTACTAAAAACAAGTTAGAGCAGCAAAGCAGCAAT
1 AAGTTGAATGATGATTCCACATTTTACATGTTAATAAAAACAAGTTAGAGCAGCAAAGCAGCAAT
* *
56808669 ATTTTTACATGTAAAAGAAATATTTGGTTTATAATTAGAATATGCAAGA
66 ATTTTTACATGTAAAAGAAATATTTGGTTCATAGTTAGAATATGCAAGA
* * * *
56808718 AAGTTGAATGATGATTCCACATTTTACGTGTTAATAGAAACAAATTAGAGCAGCAAAGCAACAAT
1 AAGTTGAATGATGATTCCACATTTTACATGTTAATAAAAACAAGTTAGAGCAGCAAAGCAGCAAT
* *
56808783 ATTTTTACATATAAAAGAAACATTTGGTTCATAGTT-GAAATATG
66 ATTTTTACATGTAAAAGAAATATTTGGTTCATAGTTAG-AATATG
56808827 AGCACACCAG
Statistics
Matches: 197, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
112 68 0.35
113 2 0.01
114 127 0.64
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (114 bp):
AAGTTGAATGATGATTCCACATTTTACATGTTAATAAAAACAAGTTAGAGCAGCAAAGCAGCAAT
ATTTTTACATGTAAAAGAAATATTTGGTTCATAGTTAGAATATGCAAGA
Found at i:56809417 original size:110 final size:108
Alignment explanation
Indices: 56809207--56809801 Score: 775
Period size: 110 Copynumber: 5.5 Consensus size: 108
56809197 TGCTGGCCTG
* * * * *
56809207 AGTAAACAGTAAATTTTTTTTTCTTTTTTTTCTTGTGTCAGAATCAGATATAAATATACTAAAAA
1 AGTACACAGTAAAATTTTTTTTCTTTTTTTT-TTGTGTCAGAATCAGATATAAAAATACGAGAAA
**
56809272 AATAAAAAAATAATTTTTTGGGTGCTTCCCTGTCAATGGCCGGCACCC
65 AAT-AAAAAA-AA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCC
* * *
56809320 AGTACACAGTAAAATTTTTTTT-ATTTTTTTTTGTGTCAGAATCAGATATAAATATACGAAAAAA
1 AGTACACAGTAAAATTTTTTTTCTTTTTTTTTTGTGTCAGAATCAGATATAAAAATACGAGAAAA
* *
56809384 AAAAAAAATAATTTTTTGGGTGCTGGCCTGTCAATGGCTGGCACCC
66 ATAAAAAA-AA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCC
*
56809430 AGTACACAGTAAAATTTTTTTTC-TTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAGAAAA
1 AGTACACAGTAAAATTTTTTTTCTTTTTTTTTTGTGTCAGAATCAGATATAAAAATACGAGAAAA
* *
56809494 ATAAAAAAAA-TTTGGGTGCTGGCTTGTCAATGGCCAGCACCC
66 ATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCC
*
56809536 AGTACACAGTAAAATTTTTTTTTCTTTTTTTTTTCGTGTCAGAATCAAATATAAAAATACGAGAA
1 AGTACACAGTAAAA-TTTTTTTTCTTTTTTTTTT-GTGTCAGAATCAGATATAAAAATACGAGAA
*
56809601 AAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCC
64 AAATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCC
* *
56809646 AGTACACAGT-AAA---------TTTTTTTTTCGTGTCAAAATCAGATATAAAAATACGAGAAAA
1 AGTACACAGTAAAATTTTTTTTCTTTTTTTTTTGTGTCAGAATCAGATATAAAAATACGAGAAAA
* * *
56809701 ATAAAAAAAATTTCGGGTGCTGGTCTGTCAATGGCTGGCACCC
66 ATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCC
56809744 AGTACACAGTAAAAATGTTTTTTTTCTTTTTTTTTTCGTGTCAGAATCAGATATAAAA
1 AGTACACAGT-AAAA--TTTTTTTTCTTTTTTTTTT-GTGTCAGAATCAGATATAAAA
56809802 TTTTTTTTCG
Statistics
Matches: 436, Mismatches: 27, Indels: 39
0.87 0.05 0.08
Matches are distributed among these distances:
98 79 0.18
99 9 0.02
100 3 0.01
106 43 0.10
107 9 0.02
108 8 0.02
109 46 0.11
110 149 0.34
111 43 0.10
112 27 0.06
113 20 0.05
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (108 bp):
AGTACACAGTAAAATTTTTTTTCTTTTTTTTTTGTGTCAGAATCAGATATAAAAATACGAGAAAA
ATAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCC
Found at i:56809548 original size:216 final size:216
Alignment explanation
Indices: 56809207--56809801 Score: 811
Period size: 216 Copynumber: 2.8 Consensus size: 216
56809197 TGCTGGCCTG
* * * * *
56809207 AGTAAACAGTAAATTTTTTTTTCTTTTTTTTCTTGTGTCAGAATCAGATATAAATATACTAAAAA
1 AGTACACAGTAAAATTTTTTTTCTTTTTTTTC--GTGTCAGAATCAGATATAAAAATACGAGAAA
** *
56809272 AATAAAAAAATAATTTTTTGGGTGCTTCCCTGTCAATGGCCGGCACCCAGTACACAGTAAAA-TT
64 AAT-AAAAAA-AA---TTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACACAGTAAAATTT
* *
56809336 TTTTTT-ATTTTTTTTT-GTGTCAGAATCAGATATAAATATACGAAAAAAAAAAAAAATAATTTT
124 TTTTTTCTTTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAAAAAAAA-AA--TT
**
56809399 TTGGGTGCTGGCCTGTCAATGGCTGGCACCC
186 TTGGGTGCTGGCCTGTCAATGGCCAGCACCC
56809430 AGTACACAGTAAAATTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAGAAAAA
1 AGTACACAGTAAAATTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAGAAAAA
*
56809495 TAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCAGCACCCAGTACACAGTAAAATTTTTTTTTC
66 TAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACACAGTAAAATTTTTTTTTC
* * *
56809560 TTTTTTTTTTCGTGTCAGAATCAAATATAAAAATACGAGAAAAATAAAAAAAATTTTGGGTGCTG
131 TTTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAAAAAAAAAATTTTGGGTGCTG
56809625 GCCTGTCAATGGCCAGCACCC
196 GCCTGTCAATGGCCAGCACCC
*
56809646 AGTACACAGT-AAA-------T-TTTTTTTTCGTGTCAAAATCAGATATAAAAATACGAGAAAAA
1 AGTACACAGTAAAATTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAGAAAAA
*
56809702 TAAAAAAAATTTCGGGTGCTGG-TCTGTCAATGGCTGGCACCCAGTACACAGTAAAAATGTTTTT
66 TAAAAAAAATTT-GGGTGCTGGCT-TGTCAATGGCCGGCACCCAGTACACAGT-AAAAT-TTTTT
56809766 TTTCTTTTTTTTTTCGTGTCAGAATCAGATATAAAA
127 TTTCTTTTTTTTTTCGTGTCAGAATCAGATATAAAA
56809802 TTTTTTTTCG
Statistics
Matches: 345, Mismatches: 20, Indels: 27
0.88 0.05 0.07
Matches are distributed among these distances:
207 54 0.16
208 36 0.10
209 5 0.01
210 40 0.12
215 3 0.01
216 83 0.24
217 8 0.02
218 11 0.03
219 38 0.11
220 6 0.02
221 31 0.09
223 30 0.09
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (216 bp):
AGTACACAGTAAAATTTTTTTTCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAGAAAAA
TAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACACAGTAAAATTTTTTTTTC
TTTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAAAAAAAAAATTTTGGGTGCTG
GCCTGTCAATGGCCAGCACCC
Found at i:56810118 original size:23 final size:22
Alignment explanation
Indices: 56810072--56810118 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
56810062 AATAAACATT
56810072 AAAAAATTATTTAAAAAAATAA
1 AAAAAATTATTTAAAAAAATAA
* *
56810094 AAAAAATTATTT-TAAAATTAA
1 AAAAAATTATTTAAAAAAATAA
56810115 AAAA
1 AAAA
56810119 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAAATTATTTAAAAAAATAA
Found at i:56815951 original size:112 final size:111
Alignment explanation
Indices: 56815739--56815962 Score: 369
Period size: 112 Copynumber: 2.0 Consensus size: 111
56815729 AGCCATGGAA
56815739 TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTAAGTATTCTTGTCCCATTTTTATGATTT
1 TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTAAGTATTCTTGTCCCATTTTTATGATTT
* *
56815804 CTATGTTTCCGAGATCATAATAGCTTAATCTAGCTAGCTCGGGGAT
66 CTATGTTTCCGAGATCATAATAGCTTAATCAAGCTAGCTCAGGGAT
*
56815850 TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTCA-TATTCTTGTCCCATTTTTTTATGAT
1 TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTAAGTATTCTTGTCCCA--TTTTTATGAT
* * *
56815914 TTTTATGTTTTCGAGATCGTAATAGCTTAATCAAGCTAGCTCAGGGAT
64 TTCTATGTTTCCGAGATCATAATAGCTTAATCAAGCTAGCTCAGGGAT
56815962 T
1 T
56815963 AATTTACCAA
Statistics
Matches: 105, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
110 13 0.12
111 38 0.36
112 54 0.51
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.46
Consensus pattern (111 bp):
TTTTGAGTTTTAGCAAACTTATTTTACTCATTTAGGTAAGTATTCTTGTCCCATTTTTATGATTT
CTATGTTTCCGAGATCATAATAGCTTAATCAAGCTAGCTCAGGGAT
Found at i:56816676 original size:25 final size:25
Alignment explanation
Indices: 56816647--56816711 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
56816637 GACACACCAT
56816647 AGCTCGCATGAGCTTTCTGATATAC
1 AGCTCGCATGAGCTTTCTGATATAC
56816672 AGCTCGCATGAGCTTTCTGATATAC
1 AGCTCGCATGAGCTTTCTGATATAC
*
56816697 AGCTCTCATGAGCTT
1 AGCTCGCATGAGCTT
56816712 CCCATTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (25 bp):
AGCTCGCATGAGCTTTCTGATATAC
Found at i:56816725 original size:25 final size:25
Alignment explanation
Indices: 56816697--56816762 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
56816687 TCTGATATAC
* *
56816697 AGCTCTCATGAGCTTCCCATTATTT
1 AGCTCACATGAGCTTCCCATTACTT
* * * *
56816722 AGCTCGCTTAAGCTTCCCGTTACTT
1 AGCTCACATGAGCTTCCCATTACTT
56816747 AGCTCACATGAGCTTC
1 AGCTCACATGAGCTTC
56816763 TTGTTATTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (25 bp):
AGCTCACATGAGCTTCCCATTACTT
Found at i:56820441 original size:46 final size:46
Alignment explanation
Indices: 56820330--56820602 Score: 414
Period size: 46 Copynumber: 6.0 Consensus size: 46
56820320 ACATTGCTAT
* * *
56820330 AACTCAGTATGGTTTTTCTTCACGGAAATATCATACCTACTTTT---
1 AACTCAGTATGG-TTTTCTTTACCGAAATACCATACCTACTTTTCAC
* *
56820374 --CTCAGTATGGTTTTCTTTACCGAAATACAATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
56820418 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
56820464 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
*
56820510 AACTCAGTATGGTTTTCTTTACCGAAATACCATAGCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
* *
56820556 AACTCAGTATGGTTTTC-TTCCCTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTTACC-GAAATACCATACCTACTTTTCAC
56820602 A
1 A
56820603 CATTGCCATG
Statistics
Matches: 213, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
41 27 0.13
42 10 0.05
45 4 0.02
46 172 0.81
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
Found at i:56829562 original size:18 final size:17
Alignment explanation
Indices: 56829515--56829562 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
56829505 TGTCGTTCGT
*
56829515 TTTCAAAACATTATTCA
1 TTTCAAAACGTTATTCA
* *
56829532 TTTACAGATCGTTATTCAA
1 TTT-CAAAACGTTATTC-A
56829551 TTTCAAAACGTT
1 TTTCAAAACGTT
56829563 TATTTTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (17 bp):
TTTCAAAACGTTATTCA
Found at i:56832616 original size:39 final size:39
Alignment explanation
Indices: 56832556--56832702 Score: 186
Period size: 39 Copynumber: 3.8 Consensus size: 39
56832546 ACTTCCAATA
* * **
56832556 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* *
56832595 GACCGGCACAAAGCCTACTAGGAACTTAGCCCGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* * * *
56832634 TACCGGCACAAATCCTGCTAGGCACTTAGCCTGAATAAT
1 CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
* *
56832673 CATCGGCACAAAGCCTACTGGGCACTTAGC
1 CACCGGCACAAAGCCTACTAGGCACTTAGC
56832703 TTAAATTTAG
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.16
Consensus pattern (39 bp):
CACCGGCACAAAGCCTACTAGGCACTTAGCCCGAATAAT
Found at i:56832686 original size:78 final size:78
Alignment explanation
Indices: 56832557--56832702 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
56832547 CTTCCAATAC
* *
56832557 ACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAATGACCGGCACAAAGCCTACTAGGAACTT
1 ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
56832622 AGCCCGAATAATT
66 AGCCCGAATAATT
* ** * * * *
56832635 ACCGGCACAAATCCTGCTAGGCACTTAGCCTGAATAATCATCGGCACAAAGCCTACTGGGCACTT
1 ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
56832700 AGC
66 AGC
56832703 TTAAATTTAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.32, C:0.31, G:0.21, T:0.16
Consensus pattern (78 bp):
ACCGGCACAAAGCCTGCTAGGCACAAAGCCCGAATAATCACCGGCACAAAGCCTACTAGGAACTT
AGCCCGAATAATT
Found at i:56833125 original size:17 final size:18
Alignment explanation
Indices: 56833095--56833136 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
56833085 TCGAAATTCA
*
56833095 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
56833113 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
56833131 -CAAATA
1 TCAAATA
56833137 TTCTAAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:56836539 original size:20 final size:20
Alignment explanation
Indices: 56836516--56836555 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56836506 CTATTCAAAC
*
56836516 AATATTA-ATTGAATAGTTAT
1 AATATTAGA-TGAATAATTAT
56836536 AATATTAGATGAATAATTAT
1 AATATTAGATGAATAATTAT
56836556 GTCTCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
AATATTAGATGAATAATTAT
Found at i:56836624 original size:13 final size:15
Alignment explanation
Indices: 56836592--56836626 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
56836582 GAAAAGACAC
56836592 CTATAAAAAATGTCT
1 CTATAAAAAATGTCT
56836607 CTATAAAAAAT-TCT
1 CTATAAAAAATGTCT
56836621 -TATAAA
1 CTATAAA
56836627 TAGTAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 3 0.15
15 11 0.55
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (15 bp):
CTATAAAAAATGTCT
Found at i:56839210 original size:30 final size:30
Alignment explanation
Indices: 56839174--56839234 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
56839164 ATACCAAAGC
* *
56839174 ACATGAGTTGCATATACATGGTCAGTGACT
1 ACATGAGTTGCATACACATGATCAGTGACT
*
56839204 ACATGAGTTGCATACGCATGATCAGTGACT
1 ACATGAGTTGCATACACATGATCAGTGACT
56839234 A
1 A
56839235 AATCATGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (30 bp):
ACATGAGTTGCATACACATGATCAGTGACT
Found at i:56848550 original size:19 final size:20
Alignment explanation
Indices: 56848514--56848551 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56848504 AGATGACATA
56848514 TAAATATTTAATTAATATTT
1 TAAATATTTAATTAATATTT
*
56848534 TAAATTTTTAA-TAATATT
1 TAAATATTTAATTAATATT
56848552 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATATTTAATTAATATTT
Found at i:56849190 original size:35 final size:35
Alignment explanation
Indices: 56849151--56849225 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
56849141 ATATATTTTT
*
56849151 TATTTTTATTTTTTAAATTTAAAATACTTTTAAAA
1 TATTTTTATTTTTTAAATTTAAAATAATTTTAAAA
** **
56849186 TATTTTTATTTTTTATTTTTAAAATAATTTTTTAA
1 TATTTTTATTTTTTAAATTTAAAATAATTTTAAAA
56849221 TATTT
1 TATTT
56849226 ATTAAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (35 bp):
TATTTTTATTTTTTAAATTTAAAATAATTTTAAAA
Found at i:56849328 original size:16 final size:16
Alignment explanation
Indices: 56849307--56849343 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
56849297 CCTAGTAGTT
56849307 GGCCCGAACCCGGCCC
1 GGCCCGAACCCGGCCC
*
56849323 GGCCCGAACCCGGCCT
1 GGCCCGAACCCGGCCC
56849339 GGCCC
1 GGCCC
56849344 ATGGACAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.54, G:0.32, T:0.03
Consensus pattern (16 bp):
GGCCCGAACCCGGCCC
Found at i:56853462 original size:25 final size:25
Alignment explanation
Indices: 56853434--56853483 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
56853424 AAAGAAAACT
56853434 AAGATATTATAAAATTGAAAAATGA
1 AAGATATTATAAAATTGAAAAATGA
56853459 AAGATATTATAAAATTGAAAAATGA
1 AAGATATTATAAAATTGAAAAATGA
56853484 GTATGCGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (25 bp):
AAGATATTATAAAATTGAAAAATGA
Found at i:56866289 original size:42 final size:42
Alignment explanation
Indices: 56866215--56866296 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
56866205 CCCGAAAAGG
* *
56866215 GCGACTCAAATATTGATTAAAATAGGGTATGAGGTGATCTCA
1 GCGACTCAAATATTGATCAAAATAGGGCATGAGGTGATCTCA
* *
56866257 GCGACTCAAATATTGATCAGAATGGGGCATGAGGTGATCT
1 GCGACTCAAATATTGATCAAAATAGGGCATGAGGTGATCT
56866297 GAGTAGTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (42 bp):
GCGACTCAAATATTGATCAAAATAGGGCATGAGGTGATCTCA
Found at i:56866963 original size:43 final size:43
Alignment explanation
Indices: 56866916--56867500 Score: 217
Period size: 43 Copynumber: 13.1 Consensus size: 43
56866906 AAATATAGAT
*
56866916 CTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGACCCCATC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCATC
* * * * * * **
56866959 CTTATCTCCCTAAGTAGCAGTGGAGTAGGTTGAAATAAATACAGAT-
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTG--A-AGA-CCCCATC
*
56867005 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCATC
* * * * * * * * **
56867048 CTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTTAAATAAATACAGAT-
1 CTTATCTCCCTAAGCAGTAGTGGAGCA-GATT-GA-AGA-CCCCATC
* * *
56867094 CTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGACCCCAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCATC
* * * * ****
56867137 CTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAA-AAAAAATAC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAT-C
* * *
56867180 AGATCTTATCTCTCTAAACAGTAGTGGAGCAGATTGAAGACCCCAGC
1 ----CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCATC
* * * * * * **** *
56867227 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAATATATATAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTG---AAGA-CCCCAT---C
* * * *
56867277 CTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACCCTAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCATC
* * * * * * ****
56867320 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAAAATAC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAT-C
* * *
56867364 AGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGC
1 ----CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCATC
* * * * * * * * **
56867411 CTTCTCTCCCTCAGCA-AAATGGAGGAGGTTGAAAAATTACAGAT-
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTG-AAGA--CCCCATC
* *
56867455 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCATC
56867498 CTT
1 CTT
56867501 GCCTCCTTGA
Statistics
Matches: 370, Mismatches: 139, Indels: 66
0.64 0.24 0.11
Matches are distributed among these distances:
42 18 0.05
43 158 0.43
44 23 0.06
45 16 0.04
46 60 0.16
47 39 0.11
48 31 0.08
50 25 0.07
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCATC
Found at i:56867025 original size:89 final size:89
Alignment explanation
Indices: 56866867--56867521 Score: 954
Period size: 89 Copynumber: 7.3 Consensus size: 89
56866857 GAAACCATAA
*
56866867 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATATAGATCTTATCTCCCTAAGCA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
* *
56866932 GTAGTGGAGCAAATTGAAGACCCC
66 GTAGTGGAGCAGATCGAAGACCCC
* * * *
56866956 ATCCTTATCTCCCTAAGTAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
*
56867021 GTAGTGGAGCAGATTGAAGACCCC
66 GTAGTGGAGCAGATCGAAGACCCC
* * *
56867045 AGCCTTGTCTTCCTGAGCAGTAGTGGAGTAGGTTTAAATAAATACAGATCTTATCTCCCTAAGCA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
*
56867110 GTAGTGGAGCAGGTCGAAGACCCC
66 GTAGTGGAGCAGATCGAAGACCCC
* * * *
56867134 AGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTCTCTAAAC
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG-AAATAAATACAGATCTTATCTCCCTAAGC
*
56867199 AGTAGTGGAGCAGATTGAAGACCCC
65 AGTAGTGGAGCAGATCGAAGACCCC
* * *
56867224 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAATATATATAGATCTTATCTCCTTA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG----AAATAAATACAGATCTTATCTCCCTA
*
56867289 AGCAGTAGTGGAGCAGATCGAAGACCCT
62 AGCAGTAGTGGAGCAGATCGAAGACCCC
* *
56867317 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAAAATACAGATATTATCTCCCTAAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG--AAATAAATACAGATCTTATCTCCCTAAG
56867382 CAGTAGTGGAGCAGATCGAAGACCCC
64 CAGTAGTGGAGCAGATCGAAGACCCC
* * * * * *
56867408 AGCCTTCTCTCCCTCAGCA-AAATGGAGGAGGTTGAAA-AATTACAGATCTTATCTCCCTAAGCA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
56867471 GTAGTGGAGCAGATCGAAGACCCC
66 GTAGTGGAGCAGATCGAAGACCCC
* *
56867495 AGCCTTGCCTCCTTGAGCAGCAGTGGA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGA
56867522 CGGAGCGGAT
Statistics
Matches: 511, Mismatches: 50, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
87 63 0.12
88 8 0.02
89 196 0.38
90 95 0.19
91 67 0.13
93 82 0.16
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (89 bp):
AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACCCC
Found at i:56867545 original size:361 final size:356
Alignment explanation
Indices: 56866867--56867555 Score: 1017
Period size: 361 Copynumber: 1.9 Consensus size: 356
56866857 GAAACCATAA
56866867 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATATAGATCTTATCTCCCTAAGCA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATATAGATCTTATCTCCCTAAGCA
* * * *
56866932 GTAGTGGAGCAAATTGAAGACCCCATCCTTATCTCCCTAAGTAGCAGTGGAGTAGGTTGAAATAA
66 GTAGTGGAGCAAATCGAAGACCCCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAAA
* * * * *
56866997 ATACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAGCCTTGTCTTCCTGAG
131 ATACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTCTCTCCCTCAG
* * * * *
56867062 CAGTAGTGGAGTAGGTTTAAATAAATACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGA
196 CAGAAATGGAGGAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
* * *
56867127 AGACCCCAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAAAAAATACAGATCTTATCTC
261 AGACCCCAGCCTTGCCTCCCTGAGCAGCAGTGGAGGAGG-TGAAAAAAAATACAGATCTTATCTC
56867192 TCTAAACAGTAGTGGAGCAGATTGAAGACCCC
325 TCTAAACAGTAGTGGAGCAGATTGAAGACCCC
* *
56867224 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAATATATATAGATCTTATCTCCTTA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG----AAATAAATATAGATCTTATCTCCCTA
* * * *
56867289 AGCAGTAGTGGAGCAGATCGAAGACCCTAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAA
62 AGCAGTAGTGGAGCAAATCGAAGACCCCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTG--
56867354 AAAAAAATACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTCTCTC
125 AAAAAAATACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTCTCTC
*
56867419 CCTCAGCA-AAATGGAGGAGGTTGAAA-AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
190 CCTCAGCAGAAATGGAGGAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
* **
56867482 GATCGAAGACCCCAGCCTTGCCTCCTTGAGCAGCAGTGGACGGAGCG-G-ATTAAAATAACAGAT
255 GATCGAAGACCCCAGCCTTGCCTCCCTGAGCAGCAGTGGA-GGAG-GTGAAAAAAAAT-ACAGAT
56867545 CTTATCTCTCT
317 CTTATCTCTCT
56867556 GAAGTTACAG
Statistics
Matches: 296, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
357 35 0.12
360 6 0.02
361 170 0.57
362 17 0.06
363 68 0.23
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (356 bp):
AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAATAAATATAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAAATCGAAGACCCCAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAAA
ATACAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTCTCTCCCTCAG
CAGAAATGGAGGAGGTTGAAATAAATACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
AGACCCCAGCCTTGCCTCCCTGAGCAGCAGTGGAGGAGGTGAAAAAAAATACAGATCTTATCTCT
CTAAACAGTAGTGGAGCAGATTGAAGACCCC
Found at i:56867617 original size:41 final size:41
Alignment explanation
Indices: 56867540--56867617 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
56867530 ATTAAAATAA
* * *
56867540 CAGATCTTATCTCTCTGAAGTTACAGTAGAGGAGATCACAT
1 CAGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCACAT
* *
56867581 CAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATC
1 CAGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATC
56867618 GAAGAAGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGATCTTATCTCCCTGAAGTTACAGCAGAGCAGATCACAT
Found at i:56867920 original size:16 final size:17
Alignment explanation
Indices: 56867899--56867936 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
56867889 CATACATTTC
56867899 AAAAAAACA-AACAAAT
1 AAAAAAACATAACAAAT
* *
56867915 AAAAAAATATAATAAAT
1 AAAAAAACATAACAAAT
56867932 AAAAA
1 AAAAA
56867937 TAAAGCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (17 bp):
AAAAAAACATAACAAAT
Found at i:56871694 original size:62 final size:62
Alignment explanation
Indices: 56871614--56871765 Score: 159
Period size: 62 Copynumber: 2.5 Consensus size: 62
56871604 GATTATGTAT
* * * * *
56871614 ATATGTGTTTTAAATTCTATAAGTT-AAA-AAAATGTATGAATTGTATATATATGTCTTAGCC-A
1 ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTAT-AAAT-TATATATATAT-TTAGCCAA
* * *
56871676 ATGTATGTTTTGAGTTCTATAAATTGAAACAAATTGTATAAATTATATATATATTTAGCCAA
1 ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTATAAATTATATATATATTTAGCCAA
*
56871738 ATATATGTGTTGAGATTC-ATAAGTTGAA
1 ATATATGTTTTGAG-TTCTATAAGTTGAA
56871766 TGTAATTATA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
61 6 0.08
62 52 0.69
63 9 0.12
64 8 0.11
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (62 bp):
ATATATGTTTTGAGTTCTATAAGTTGAAACAAAATGTATAAATTATATATATATTTAGCCAA
Found at i:56871782 original size:62 final size:62
Alignment explanation
Indices: 56871648--56871789 Score: 153
Period size: 62 Copynumber: 2.3 Consensus size: 62
56871638 TAAAAAAATG
* * * *
56871648 TATGAATTGTATATATATGTCTTAGCCAATGTATGTTTTGAGTTCTATAAATTGAAACAAATTG
1 TATGAA-T-TATATATATATCTTAGCCAATATATGTGTTGAGTTCTATAAATTGAAACAAATTA
* * ***
56871712 TATAAATTATATATATAT-TTAGCCAAATATATGTGTTGAGATTC-ATAAGTTGAATGTAATTA
1 TATGAATTATATATATATCTTAGCC-AATATATGTGTTGAG-TTCTATAAATTGAAACAAATTA
56871774 TATGAATTATATATAT
1 TATGAATTATATATAT
56871790 GTTAGTCGAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
61 6 0.09
62 51 0.77
63 4 0.06
64 5 0.08
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (62 bp):
TATGAATTATATATATATCTTAGCCAATATATGTGTTGAGTTCTATAAATTGAAACAAATTA
Found at i:56879760 original size:62 final size:64
Alignment explanation
Indices: 56879664--56879798 Score: 152
Period size: 62 Copynumber: 2.1 Consensus size: 64
56879654 GTATGAATTG
* * *
56879664 TATATATATATCTATTAGCCAATGTATGTTTTGAG-TTCTATAAATTGAAACAAATTGTATAAAT
1 TATATATATATCTATTAGCCAATATATGTGTTGAGATTC-ATAAATTGAAACAAATTATATAAAT
* *** *
56879728 TATATATATAT-T-TT-GCCAAATATATGTGTTGAGATTCATAAGTTGAATGTAATTATATGAAT
1 TATATATATATCTATTAGCC-AATATATGTGTTGAGATTCATAAATTGAAACAAATTATATAAAT
56879790 TATATATAT
1 TATATATAT
56879799 GTTAGTCGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
61 3 0.05
62 43 0.70
63 4 0.07
64 11 0.18
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.44
Consensus pattern (64 bp):
TATATATATATCTATTAGCCAATATATGTGTTGAGATTCATAAATTGAAACAAATTATATAAAT
Found at i:56881953 original size:15 final size:14
Alignment explanation
Indices: 56881914--56881953 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
56881904 AGAAACCCTA
56881914 TTTTTCCTTTTTCT
1 TTTTTCCTTTTTCT
*
56881928 TTTCTTTCTTTTTCCT
1 TTT-TTCCTTTTT-CT
56881944 TTTTTCCTTT
1 TTTTTCCTTT
56881954 CTCTATTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 14 0.64
16 5 0.23
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCCTTTTTCT
Found at i:56885537 original size:3 final size:3
Alignment explanation
Indices: 56885529--56885563 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
56885519 AATATATAGG
56885529 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56885564 AATTTAAAAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:56885591 original size:17 final size:18
Alignment explanation
Indices: 56885571--56885604 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56885561 TAAAATTTAA
56885571 AAAACACAAAAA-AAAAC
1 AAAACACAAAAAGAAAAC
*
56885588 AAAATACAAAAAGAAAA
1 AAAACACAAAAAGAAAA
56885605 AATCAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.03
Consensus pattern (18 bp):
AAAACACAAAAAGAAAAC
Found at i:56893377 original size:25 final size:24
Alignment explanation
Indices: 56893344--56893390 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
56893334 TGGGAGGATT
*
56893344 TTATTTTATTTAATATTAATATCA
1 TTATTTTATTCAATATTAATATCA
56893368 TTATATTTATTCAATATTAATAT
1 TTAT-TTTATTCAATATTAATAT
56893391 GAAATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTTTATTCAATATTAATATCA
Found at i:56901025 original size:18 final size:18
Alignment explanation
Indices: 56901002--56901054 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
56900992 AATATATATG
*
56901002 AAAATCTCTGAAGGATTT
1 AAAATCCCTGAAGGATTT
**
56901020 AAAATCCCAAAATGGATTT
1 AAAATCCCTGAA-GGATTT
56901039 AAAATCCCTGAAGGAT
1 AAAATCCCTGAAGGAT
56901055 ATAGAGTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (18 bp):
AAAATCCCTGAAGGATTT
Found at i:56903053 original size:12 final size:12
Alignment explanation
Indices: 56903023--56903055 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
56903013 CTCTCAATAA
*
56903023 AAATTACAAAAT
1 AAATTTCAAAAT
56903035 AAA-TTCAAAAT
1 AAATTTCAAAAT
56903046 AAATTTCAAA
1 AAATTTCAAA
56903056 TTTCAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATTTCAAAAT
Found at i:56903739 original size:15 final size:14
Alignment explanation
Indices: 56903701--56903739 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
56903691 ATTTCATCTG
56903701 TGTATATTATTTCT
1 TGTATATTATTTCT
*
56903715 TGTAACATTATTTCTT
1 TGT-ATATTATTTC-T
56903731 TGTATATTA
1 TGTATATTA
56903740 AATCACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 14 0.67
16 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (14 bp):
TGTATATTATTTCT
Done.