Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 168 of 325
Found at i:54423123 original size:24 final size:24
Alignment explanation
Indices: 54423091--54423247 Score: 77
Period size: 24 Copynumber: 6.4 Consensus size: 24
54423081 TCGATTTCGT
54423091 ACACATAGTGCTATTCAAATCCGC
1 ACACATAGTGCTATTCAAATCCGC
* * ** * *
54423115 ACACTTAGTGCCACGCTAA-CCTGT
1 ACACATAGTGCTATTCAAATCC-GC
** *
54423139 ACACATAGTGCCT-TAGAAATCCAC
1 ACACATAGTG-CTATTCAAATCCGC
* * *
54423163 ACACTCGTATTGAC-ATTCAAATCAGC
1 ACA--CATAGTG-CTATTCAAATCCGC
*
54423189 ACACATAGTGCTATTCAATTCCGC
1 ACACATAGTGCTATTCAAATCCGC
** * *
54423213 GGACATAGTGCCATTCAAAATCCTC
1 ACACATAGTGCTATTC-AAATCCGC
*
54423238 ACACTTAGTG
1 ACACATAGTG
54423248 GCAATGTCAT
Statistics
Matches: 92, Mismatches: 33, Indels: 15
0.66 0.24 0.11
Matches are distributed among these distances:
23 3 0.03
24 57 0.62
25 16 0.17
26 16 0.17
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (24 bp):
ACACATAGTGCTATTCAAATCCGC
Found at i:54446238 original size:15 final size:15
Alignment explanation
Indices: 54446206--54446234 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54446196 TTTTTTTGTG
54446206 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
54446221 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
54446235 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:54448610 original size:35 final size:35
Alignment explanation
Indices: 54448560--54448636 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
54448550 ACATGTATAC
*
54448560 TATA-AGTATATGATATACTTGGTACACGGATAAT
1 TATATAGTATATGATATAATTGGTACACGGATAAT
* *
54448594 TATATAGTATATGATATAATTGGTATATGGATAAT
1 TATATAGTATATGATATAATTGGTACACGGATAAT
*
54448629 GATATAGT
1 TATATAGT
54448637 CATGAGAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
34 4 0.11
35 34 0.89
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (35 bp):
TATATAGTATATGATATAATTGGTACACGGATAAT
Found at i:54463322 original size:26 final size:26
Alignment explanation
Indices: 54463293--54463359 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
54463283 AGCATAGCTG
**
54463293 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAACCA
*
54463319 CCAGATACAGATATTGTGGCAGAACCA
1 CCAGA-ACAGATATTGTGACAGAACCA
* *
54463346 CTAGAATAGATATT
1 CCAGAACAGATATT
54463360 TGTTGCATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAACCA
Found at i:54463373 original size:27 final size:27
Alignment explanation
Indices: 54463343--54463408 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
54463333 TGTGGCAGAA
* * *
54463343 CCACTAGAATAGATATTTGTTGCATAG
1 CCACAAGAATAGATATTTATGGCATAG
* *
54463370 CCACCAAAAACAGATATTTATGGCATAG
1 CCA-CAAGAATAGATATTTATGGCATAG
*
54463398 CCACCAGAATA
1 CCACAAGAATA
54463409 CTTCCTCTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (27 bp):
CCACAAGAATAGATATTTATGGCATAG
Found at i:54464509 original size:17 final size:17
Alignment explanation
Indices: 54464483--54464523 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
54464473 GGGTTCAGCT
54464483 ATGG-AGAAAAGAAAAG
1 ATGGAAGAAAAGAAAAG
*
54464499 ATGGAAGAAAAGAAACG
1 ATGGAAGAAAAGAAAAG
54464516 ATGAGAAG
1 ATG-GAAG
54464524 GGGAGTAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.59, C:0.02, G:0.32, T:0.07
Consensus pattern (17 bp):
ATGGAAGAAAAGAAAAG
Found at i:54478378 original size:28 final size:28
Alignment explanation
Indices: 54478289--54478378 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
54478279 GTGACAGAGT
* * * *
54478289 CACCAGATATAGATA-TTGTGGCAAAAC
1 CACCAGAAACAGATATTTGTGGCATAGC
54478316 CACCAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
* *
54478343 TACGAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
54478371 CACCAGAA
1 CACCAGAA
54478379 TGCTTCCTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.11
27 20 0.38
28 27 0.51
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:54484385 original size:79 final size:82
Alignment explanation
Indices: 54484274--54484458 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
54484264 GCTACTCGTT
* * *
54484274 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCC
* *
54484337 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
54484354 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
54484417 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
54484434 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54484459 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:54484458 original size:40 final size:40
Alignment explanation
Indices: 54484274--54484458 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
54484264 GCTACTCGTT
* *
54484274 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
54484314 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
54484354 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
54484393 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
54484434 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54484459 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:54494979 original size:41 final size:39
Alignment explanation
Indices: 54494871--54495012 Score: 132
Period size: 38 Copynumber: 3.7 Consensus size: 39
54494861 AAGTGACCAT
* * *
54494871 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAG-ATACTA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTTACTA
* *
54494910 ATTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTTTCTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTTACT-A
* *
54494950 ATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAG-TTAC-A
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTTACTA
* *
54494988 TAT--GGGCTATGTCCGAAGGCATTTG
1 -ATCCGGGCTAAGCCCGAAGGCATTTG
54495013 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
36 12 0.14
37 6 0.07
38 20 0.23
39 15 0.17
40 14 0.16
41 19 0.22
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTTACTA
Found at i:54502700 original size:39 final size:41
Alignment explanation
Indices: 54502599--54502782 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
54502589 TTGAATGATG
* *
54502599 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
54502639 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
54502679 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
54502718 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
54502757 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54502783 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:54502735 original size:79 final size:80
Alignment explanation
Indices: 54502599--54502782 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
54502589 TTGAATGATG
*
54502599 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
54502663 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
54502678 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
54502740 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
54502757 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54502783 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:54502805 original size:78 final size:79
Alignment explanation
Indices: 54502652--54502815 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
54502642 GGACTAAGAT
* **
54502652 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
54502717 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
54502731 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
54502793 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54502809 CCGAAGG
1 CCGAAGG
54502816 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54504333 original size:21 final size:20
Alignment explanation
Indices: 54504309--54504347 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
54504299 AAAACCATTC
54504309 TTAAAATAAAAGAAACCTTAA
1 TTAAAATAAAA-AAACCTTAA
**
54504330 TTAACCTAAAAAAACCTT
1 TTAAAATAAAAAAACCTT
54504348 TCAGTTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (20 bp):
TTAAAATAAAAAAACCTTAA
Found at i:54505430 original size:29 final size:28
Alignment explanation
Indices: 54505362--54505464 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
54505352 TACCTATATC
*
54505362 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATT-ATA
*
54505390 TGGCCCATTTAGGCCCAAATCACATGTATA
1 TGGCCCA-TTAGGCCCAAATCATAT-TATA
*
54505420 TGGCCCATTAGGCCCAAATAATATTTATA
1 TGGCCCATTAGGCCCAAATCATA-TTATA
*
54505449 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
54505465 GTCACATTCA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.11
29 40 0.61
30 18 0.27
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCATATTATA
Found at i:54508736 original size:34 final size:34
Alignment explanation
Indices: 54508693--54508762 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
54508683 AGCTAGACAA
54508693 ACTCAATAGCCTACAGAACTTATGTAGCCAAGCT
1 ACTCAATAGCCTACAGAACTTATGTAGCCAAGCT
54508727 ACTCAATAGCCTACAGAACTTATGTAGCCAAGCT
1 ACTCAATAGCCTACAGAACTTATGTAGCCAAGCT
54508761 AC
1 AC
54508763 CATGTAACCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (34 bp):
ACTCAATAGCCTACAGAACTTATGTAGCCAAGCT
Found at i:54509324 original size:30 final size:30
Alignment explanation
Indices: 54509279--54509338 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
54509269 ATTTAATAAT
*
54509279 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
54509309 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
54509339 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:54527920 original size:28 final size:28
Alignment explanation
Indices: 54527888--54527992 Score: 129
Period size: 28 Copynumber: 3.8 Consensus size: 28
54527878 CAGAACAAAT
* * **
54527888 ATTGTGACAGAGTCACCAGCTACAGATA
1 ATTGTGGCAGAGCCACCAGAAACAGATA
* *
54527916 ATTGTGGCAGGGCCACCAGAAACAAATA
1 ATTGTGGCAGAGCCACCAGAAACAGATA
* *
54527944 TTTGTGGTAGAGCCACCAGAAACAGATA
1 ATTGTGGCAGAGCCACCAGAAACAGATA
*
54527972 TTTGTGGCAGAGCCACCAGAA
1 ATTGTGGCAGAGCCACCAGAA
54527993 TGCTTCCTCC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (28 bp):
ATTGTGGCAGAGCCACCAGAAACAGATA
Found at i:54527961 original size:56 final size:55
Alignment explanation
Indices: 54527877--54527992 Score: 153
Period size: 56 Copynumber: 2.1 Consensus size: 55
54527867 AGCATGGCTG
* ** *
54527877 CCAG-AACAAATATTGTGACAGAGTCACCAGCTACAGATAATTGTGGCAGGGCCA
1 CCAGAAACAAATATTGTGACAGAGCCACCAGAAACAGATAATTGTGGCAGAGCCA
** *
54527931 CCAGAAACAAATATTTGTGGTAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAAATA-TTGTGACAGAGCCACCAGAAACAGATAATTGTGGCAGAGCCA
54527987 CCAGAA
1 CCAGAA
54527993 TGCTTCCTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 4 0.08
55 8 0.15
56 41 0.77
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (55 bp):
CCAGAAACAAATATTGTGACAGAGCCACCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:54543502 original size:40 final size:40
Alignment explanation
Indices: 54543447--54543618 Score: 260
Period size: 40 Copynumber: 4.3 Consensus size: 40
54543437 TATTCGGATG
54543447 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
*
54543487 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
*
54543527 ATAACCGGGCTAAGTACC-GAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGT-CCTGAAGGCATTTGTGCGAGTTACT
* *
54543567 ATAACCGAGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTA-CT
*
54543607 ATATCC-GGCTAA
1 ATAACCGGGCTAA
54543619 ACCCCGAAGG
Statistics
Matches: 122, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 9 0.07
40 111 0.91
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
Found at i:54545912 original size:22 final size:22
Alignment explanation
Indices: 54545887--54545929 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
54545877 AAAACCGAGG
54545887 AGCTCAATA-AGGAGAAAAGGAA
1 AGCT-AATATAGGAGAAAAGGAA
* *
54545909 AGCTGATATAGGAGCAAAGGA
1 AGCTAATATAGGAGAAAAGGA
54545930 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.49, C:0.09, G:0.30, T:0.12
Consensus pattern (22 bp):
AGCTAATATAGGAGAAAAGGAA
Found at i:54546626 original size:54 final size:56
Alignment explanation
Indices: 54546456--54546626 Score: 298
Period size: 56 Copynumber: 3.1 Consensus size: 56
54546446 ACAAGGGATG
*
54546456 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
54546512 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAT-G--GAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
54546565 ATGGGC-AAACATGTCATG-AACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
54546619 ATGGGCAA
1 ATGGGCAA
54546627 TAAACTAATA
Statistics
Matches: 110, Mismatches: 1, Indels: 9
0.92 0.01 0.08
Matches are distributed among these distances:
51 16 0.15
52 13 0.12
53 21 0.19
54 22 0.20
55 2 0.02
56 36 0.33
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:54547887 original size:78 final size:81
Alignment explanation
Indices: 54547752--54547933 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
54547742 TCGAATGATG
* *
54547752 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
54547816 TGTGCGAG-TACTA-A
66 TGTGCGAGTTACTATA
* * * **
54547830 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
54547892 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
54547910 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54547934 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 44 0.49
79 31 0.35
80 13 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:54547893 original size:40 final size:40
Alignment explanation
Indices: 54547752--54547935 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
54547742 TCGAATGATG
* * * *
54547752 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
54547792 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54547831 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54547870 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54547911 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54547936 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 18 0.14
39 29 0.23
40 68 0.54
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54547966 original size:79 final size:78
Alignment explanation
Indices: 54547804--54547968 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 78
54547794 CGGACTAAGA
* **
54547804 TCCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
54547869 ATCCGGGTTAAGT
66 ATCCGGGTTAAAT
* * *
54547882 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAG-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-
*
54547945 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
54547961 TCCGAAGG
1 TCCGAAGG
54547969 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 21 0.28
79 29 0.39
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAAT
Found at i:54552133 original size:38 final size:41
Alignment explanation
Indices: 54552066--54552208 Score: 140
Period size: 38 Copynumber: 3.5 Consensus size: 41
54552056 CACTAGTTTC
* *
54552066 GGCTAAGTCCCGGAAGGTATTTGTACGAGTTAC-TAAATCCG
1 GGCTAAGTCCC-GAAGGCATTTGTGCGAGTTACTTAAATCCG
54552107 GG-TAAGTCCCGAA-GCATTTGTGCGAG-TACTTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTAAATCCG
*
54552145 GGCTATAGTTCCCGAAGGCAATTGTGCGAG-TACTCT-AA-CC-
1 GGCTA-AG-TCCCGAAGGCATTTGTGCGAGTTACT-TAAATCCG
*
54552185 GGCTATGTCCCGAAAGGGCATTTG
1 GGCTAAGTCCCG-AA-GGCATTTG
54552209 ACGATTAGCT
Statistics
Matches: 89, Mismatches: 5, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
37 3 0.03
38 26 0.29
39 8 0.09
40 22 0.25
41 11 0.12
42 18 0.20
43 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTAAATCCG
Found at i:54560225 original size:40 final size:40
Alignment explanation
Indices: 54560041--54560269 Score: 331
Period size: 39 Copynumber: 5.8 Consensus size: 40
54560031 TGGATGATAA
* * * * **
54560041 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
54560081 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
54560120 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
54560159 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
54560198 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
54560238 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
54560270 AGCTATATTC
Statistics
Matches: 175, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 111 0.63
40 62 0.35
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:54560293 original size:79 final size:80
Alignment explanation
Indices: 54560080--54560295 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 80
54560070 AGTGACTAGT
* *
54560080 TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT-AAGTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAATTCCGAAGGCAATT
54560143 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
54560158 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAATTCCGAAGGCAATT
*
54560222 GTGCGAGTTACTCTAA
66 GTGCGAGTTACT-AAA
* * * * *
54560238 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATTC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGCTAAATTCCGAAGG
54560296 TACGTGATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
78 42 0.35
79 53 0.44
80 26 0.21
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAATTCCGAAGGCAATT
GTGCGAGTTACTAAA
Found at i:54561858 original size:40 final size:40
Alignment explanation
Indices: 54561803--54561954 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
54561793 TGGATGATAA
* * **
54561803 CCGGGCTAAGTCCCGAAGGCTTTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAAAT
* * *
54561843 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAAAT
* * * * *
54561883 CTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACT-AAAT
* * *
54561923 CCGGGCTATGTCTCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGT
54561955 AGCTATATCC
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 93 0.98
41 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAAAT
Found at i:54563539 original size:40 final size:40
Alignment explanation
Indices: 54563484--54563701 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
54563474 TGGATGATAA
* * *
54563484 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
54563524 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54563564 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54563604 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
54563644 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54563684 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54563702 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54577919 original size:16 final size:18
Alignment explanation
Indices: 54577898--54577930 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
54577888 AATACAAGCT
54577898 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
54577914 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
54577931 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:54578577 original size:45 final size:45
Alignment explanation
Indices: 54578479--54578611 Score: 205
Period size: 45 Copynumber: 3.0 Consensus size: 45
54578469 CAATATCATT
* *
54578479 TCACCGGCATTATAGCCTACTAGGCTCGAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
54578523 TTACCGGCATTATAGCCTGCTAGGCTCAAAGGACCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
54578568 TCACTGGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
54578612 TGTACGATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 27 0.34
45 53 0.66
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:54581101 original size:26 final size:26
Alignment explanation
Indices: 54581067--54581119 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
54581057 TTTATAGTTT
54581067 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
54581093 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
54581119 T
1 T
54581120 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:54581507 original size:33 final size:34
Alignment explanation
Indices: 54581430--54581510 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 34
54581420 TACGGGCCAT
**
54581430 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTCC
* * **
54581464 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTACC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-CC
54581497 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
54581511 GGGCTTAGGC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 13 0.35
33 13 0.35
34 11 0.30
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTCC
Found at i:54589035 original size:26 final size:26
Alignment explanation
Indices: 54589005--54589057 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
54588995 TTTATAGTTT
54589005 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* * *
54589031 TACCCTTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
54589057 T
1 T
54589058 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:54590267 original size:47 final size:46
Alignment explanation
Indices: 54590203--54590297 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 46
54590193 AAAAATTTCT
* * *
54590203 TTAACTACGTAACTTATCCGGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATAATAAGAGC-AATTTAACAAGC
*
54590250 TTAACTAAGT-ACTTTATCCGAAAATATTAAGAGCAATTTAACAAGC
1 TTAACTAAGTAAC-TTATCCGAAAATAATAAGAGCAATTTAACAAGC
54590296 TT
1 TT
54590298 TAAATTCAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 16 0.37
47 27 0.63
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCCGAAAATAATAAGAGCAATTTAACAAGC
Found at i:54597197 original size:27 final size:26
Alignment explanation
Indices: 54597153--54597204 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54597143 GGACTACCGA
*
54597153 TTTGCCCCTAGAGGGTAAAATGACTAT
1 TTTGCCCCTAGAGCGT-AAATGACTAT
* *
54597180 TTTGCCCCTCGTGCGTAAATGACTA
1 TTTGCCCCTAGAGCGTAAATGACTA
54597205 ACTTGTGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (26 bp):
TTTGCCCCTAGAGCGTAAATGACTAT
Found at i:54613357 original size:31 final size:31
Alignment explanation
Indices: 54613278--54613364 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 31
54613268 GAGTGAGAGG
*
54613278 TGGGAGAGGAGGCAGGGGGGGGG-GGGGAGGAA
1 TGGGAGCGG-GGC-GGGGGGGGGAGGGGAGGAA
* *
54613310 TGGGCGCGGGGCGGGGGGGGGAGGGGAGGGA
1 TGGGAGCGGGGCGGGGGGGGGAGGGGAGGAA
54613341 -GAGGAGCGGCGG-GGGGGGCGGGAG
1 TG-GGAGCGG-GGCGGGGGG-GGGAG
54613365 CCAGAAAGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
30 10 0.21
31 23 0.49
32 14 0.30
ACGTcount: A:0.15, C:0.08, G:0.75, T:0.02
Consensus pattern (31 bp):
TGGGAGCGGGGCGGGGGGGGGAGGGGAGGAA
Found at i:54613499 original size:19 final size:21
Alignment explanation
Indices: 54613464--54613502 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
54613454 AAGAGGCGGC
54613464 GGGAGGGAGGAGCGGGAGGGG
1 GGGAGGGAGGAGCGGGAGGGG
54613485 GGGAGGG-GG-GCGGGAGGG
1 GGGAGGGAGGAGCGGGAGGG
54613503 CCGGAGGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.15, C:0.05, G:0.79, T:0.00
Consensus pattern (21 bp):
GGGAGGGAGGAGCGGGAGGGG
Found at i:54613508 original size:19 final size:19
Alignment explanation
Indices: 54613465--54613519 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
54613455 AGAGGCGGCG
**
54613465 GGAGGGAGGAGCGGGAGGGGG
1 GGAGGG-GG-GCGGGAGGGCC
54613486 GGAGGGGGGCGGGAGGGCC
1 GGAGGGGGGCGGGAGGGCC
54613505 GGAGGCGGAGGCGGG
1 GGAGG-GG-GGCGGG
54613520 GGAAGGAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.15, C:0.11, G:0.75, T:0.00
Consensus pattern (19 bp):
GGAGGGGGGCGGGAGGGCC
Found at i:54613520 original size:28 final size:28
Alignment explanation
Indices: 54613456--54613521 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
54613446 GGGCAGAAAA
* *
54613456 GAGGCGGCGGGAGGGAGGAGCGGGAGGG
1 GAGGCGGGGGGAGGGAGGAGCCGGAGGG
* * *
54613484 GGGGAGGGGGGCGGGAGG-GCCGGAGGCG
1 GAGGCGGGGGGAGGGAGGAGCCGGAGG-G
54613512 GAGGCGGGGG
1 GAGGCGGGGG
54613522 AAGGAGGGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.14, C:0.12, G:0.74, T:0.00
Consensus pattern (28 bp):
GAGGCGGGGGGAGGGAGGAGCCGGAGGG
Found at i:54613546 original size:24 final size:24
Alignment explanation
Indices: 54613514--54613565 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
54613504 CGGAGGCGGA
*
54613514 GGCGGGGGAAGGAGGGAGGGGAAG
1 GGCGGGGGAAGAAGGGAGGGGAAG
* *
54613538 GGCGGGGGAAGAAGTGAGGGGGAG
1 GGCGGGGGAAGAAGGGAGGGGAAG
54613562 GGCG
1 GGCG
54613566 CAGCGGGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.06, G:0.69, T:0.02
Consensus pattern (24 bp):
GGCGGGGGAAGAAGGGAGGGGAAG
Found at i:54613647 original size:24 final size:25
Alignment explanation
Indices: 54613601--54613648 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
54613591 GGGGCGGGAA
*
54613601 GGGGGAGGGAGGGGAGGGAGAAAGG
1 GGGGGAAGGAGGGGAGGGAGAAAGG
54613626 GGGGGAAGG-GGGG-GGGATGAAAG
1 GGGGGAAGGAGGGGAGGGA-GAAAG
54613649 AGGGCGGCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 9 0.43
25 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.71, T:0.02
Consensus pattern (25 bp):
GGGGGAAGGAGGGGAGGGAGAAAGG
Found at i:54613757 original size:16 final size:18
Alignment explanation
Indices: 54613732--54613777 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 18
54613722 GAGGCGGTCG
*
54613732 GGGGAGGGGGGGAG-GGA
1 GGGGAAGGGGGGAGAGGA
54613749 -GGGAA-GGGGGAGAGGA
1 GGGGAAGGGGGGAGAGGA
54613765 GGCGGAAGGGGGG
1 GG-GGAAGGGGGG
54613778 CGGGGGGGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 1 0.04
18 4 0.17
19 5 0.21
ACGTcount: A:0.22, C:0.02, G:0.76, T:0.00
Consensus pattern (18 bp):
GGGGAAGGGGGGAGAGGA
Found at i:54613758 original size:17 final size:18
Alignment explanation
Indices: 54613736--54613777 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
54613726 CGGTCGGGGG
54613736 AGGGGGGGAGG-GAG-GGA
1 AGGGGGGGAGGAG-GCGGA
*
54613753 AGGGGGAGAGGAGGCGGA
1 AGGGGGGGAGGAGGCGGA
54613771 AGGGGGG
1 AGGGGGG
54613778 CGGGGGGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.24, C:0.02, G:0.74, T:0.00
Consensus pattern (18 bp):
AGGGGGGGAGGAGGCGGA
Found at i:54613870 original size:22 final size:22
Alignment explanation
Indices: 54613845--54613912 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
54613835 GGGGGAGAGC
54613845 GGGCGGAGAGCAAGGGGGCGGA
1 GGGCGGAGAGCAAGGGGGCGGA
* * **
54613867 GGGCGGGGGGCGGGGGGGCGGA
1 GGGCGGAGAGCAAGGGGGCGGA
*
54613889 -GGCGGCAGAGAAAGGGGG-GGA
1 GGGCGG-AGAGCAAGGGGGCGGA
54613910 GGG
1 GGG
54613913 GAGGGGAGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 8 0.23
22 27 0.77
ACGTcount: A:0.18, C:0.12, G:0.71, T:0.00
Consensus pattern (22 bp):
GGGCGGAGAGCAAGGGGGCGGA
Found at i:54614084 original size:20 final size:20
Alignment explanation
Indices: 54614039--54614121 Score: 73
Period size: 24 Copynumber: 4.0 Consensus size: 20
54614029 GGGCGGAGCT
54614039 GAGAGGCGGGGGGGGCAGAGGCGA
1 GAGAGGCGGGGGGGG--G-GG-GA
54614063 GAGAGGCGGGGGGGGGGGGA
1 GAGAGGCGGGGGGGGGGGGA
*
54614083 GAGA-G-GGGGGGGCGGGGA
1 GAGAGGCGGGGGGGGGGGGA
*
54614101 GCA-AGGGGGGGGGGCGGGGGA
1 G-AGAGGCGGGGGGG-GGGGGA
54614122 AGCAAAGGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
18 14 0.26
19 3 0.06
20 13 0.25
21 7 0.13
22 1 0.02
24 15 0.28
ACGTcount: A:0.17, C:0.08, G:0.75, T:0.00
Consensus pattern (20 bp):
GAGAGGCGGGGGGGGGGGGA
Found at i:54614091 original size:18 final size:18
Alignment explanation
Indices: 54614070--54614114 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
54614060 CGAGAGAGGC
54614070 GGGGGGGGGGGGAG-AGAG
1 GGGGGGGGGGGGAGCA-AG
*
54614088 GGGGGGGCGGGGAGCAAG
1 GGGGGGGGGGGGAGCAAG
54614106 GGGGGGGGG
1 GGGGGGGGG
54614115 CGGGGGAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.13, C:0.04, G:0.82, T:0.00
Consensus pattern (18 bp):
GGGGGGGGGGGGAGCAAG
Found at i:54614126 original size:22 final size:20
Alignment explanation
Indices: 54614070--54614119 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
54614060 CGAGAGAGGC
*
54614070 GGGGGGGG-GGGGAG--AGA
1 GGGGGGGGCGGGGAGCAAGG
54614087 GGGGGGGGCGGGGAGCAAGG
1 GGGGGGGGCGGGGAGCAAGG
54614107 GGGGGGGGCGGGG
1 GGGGGGGGCGGGG
54614120 GAAGCAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 8 0.28
18 6 0.21
20 15 0.52
ACGTcount: A:0.12, C:0.06, G:0.82, T:0.00
Consensus pattern (20 bp):
GGGGGGGGCGGGGAGCAAGG
Found at i:54614184 original size:23 final size:24
Alignment explanation
Indices: 54614156--54614220 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
54614146 AGAAAGCGGG
54614156 GGAGGGGGAGGAGAGGGGG-G-CGA
1 GGAGGGGGAGGA-AGGGGGAGCCGA
*
54614179 GGAGGGGGAAGAAAGGGGGGAGCCGA
1 GGAGGGGG-AGGAA-GGGGGAGCCGA
*
54614205 GGGGGGGGAGGAAGGG
1 GGAGGGGGAGGAAGGG
54614221 CGCGGAGAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 9 0.26
24 11 0.31
25 5 0.14
26 10 0.29
ACGTcount: A:0.25, C:0.05, G:0.71, T:0.00
Consensus pattern (24 bp):
GGAGGGGGAGGAAGGGGGAGCCGA
Found at i:54614373 original size:18 final size:18
Alignment explanation
Indices: 54614350--54614427 Score: 63
Period size: 18 Copynumber: 4.3 Consensus size: 18
54614340 CAAAAGGGGG
*
54614350 GGGGGGGGGGCCGAGGGA
1 GGGGGGGGGGCAGAGGGA
*
54614368 GGGGGGGGGGGAGAGGGA
1 GGGGGGGGGGCAGAGGGA
*
54614386 GGCAGGGGGGGGGGAGAGGG-
1 -G--GGGGGGGGGCAGAGGGA
* *
54614406 CGGAGGGGGG-AGAGGG-
1 GGGGGGGGGGCAGAGGGA
54614422 GGGGGG
1 GGGGGG
54614428 CAGGAAAAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
16 10 0.20
17 8 0.16
18 16 0.31
19 1 0.02
21 16 0.31
ACGTcount: A:0.14, C:0.05, G:0.81, T:0.00
Consensus pattern (18 bp):
GGGGGGGGGGCAGAGGGA
Found at i:54614393 original size:21 final size:20
Alignment explanation
Indices: 54614350--54614415 Score: 82
Period size: 21 Copynumber: 3.3 Consensus size: 20
54614340 CAAAAGGGGG
*
54614350 GGGGGGGGGGCCGAGGGA-G-
1 GGGGGGGGGG-AGAGGGAGGA
54614369 GGGGGGGGGGAGAGGGAGGCA
1 GGGGGGGGGGAGAGGGAGG-A
*
54614390 GGGGGGGGGGAGAGGGCGGA
1 GGGGGGGGGGAGAGGGAGGA
54614410 GGGGGG
1 GGGGGG
54614416 AGAGGGGGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 6 0.14
19 11 0.26
20 7 0.17
21 18 0.43
ACGTcount: A:0.14, C:0.06, G:0.80, T:0.00
Consensus pattern (20 bp):
GGGGGGGGGGAGAGGGAGGA
Found at i:54614543 original size:19 final size:18
Alignment explanation
Indices: 54614521--54614582 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
54614511 GGGAAGGATA
54614521 AGGGGGGGGAAGGGGGGAG
1 AGGGGGGGG-AGGGGGGAG
** *
54614540 AGGGGCAGGAGGCGGGA-
1 AGGGGGGGGAGGGGGGAG
* * *
54614557 AGAGGGGGGAGAGGGCAG
1 AGGGGGGGGAGGGGGGAG
54614575 AGGGGGGG
1 AGGGGGGG
54614583 CGGCGGGCGG
Statistics
Matches: 32, Mismatches: 10, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
17 11 0.34
18 14 0.44
19 7 0.22
ACGTcount: A:0.23, C:0.05, G:0.73, T:0.00
Consensus pattern (18 bp):
AGGGGGGGGAGGGGGGAG
Found at i:54614665 original size:25 final size:25
Alignment explanation
Indices: 54614623--54614678 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
54614613 GGGGGGCGAG
*
54614623 GGGAAGG--GGGGGGGGGGAAGGG-
1 GGGAAGGCAGGGGGGAGGGAAGGGC
54614645 GCGGAAGGCAGGGGGGAGGGAAGGGC
1 G-GGAAGGCAGGGGGGAGGGAAGGGC
54614671 GGGAAGGC
1 GGGAAGGC
54614679 GAGGCAGGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 6 0.21
25 21 0.72
26 1 0.03
ACGTcount: A:0.21, C:0.07, G:0.71, T:0.00
Consensus pattern (25 bp):
GGGAAGGCAGGGGGGAGGGAAGGGC
Found at i:54614810 original size:19 final size:18
Alignment explanation
Indices: 54614737--54614811 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
54614727 CGGGGCAAGA
*
54614737 AGGGAGGGGAGGAAAGGGG
1 AGGGAGGGGAGG-AAGAGG
* *
54614756 AGGGAGGGGGGGGAGAGG
1 AGGGAGGGGAGGAAGAGG
*
54614774 -GGGAGGAGGAAGG-CGAGG
1 AGGGAGG-GG-AGGAAGAGG
54614792 AGGGAGGGCGAGGAAGAGG
1 AGGGAGGG-GAGGAAGAGG
54614811 A
1 A
54614812 AGGGGTAGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
17 6 0.13
18 14 0.31
19 25 0.56
ACGTcount: A:0.29, C:0.03, G:0.68, T:0.00
Consensus pattern (18 bp):
AGGGAGGGGAGGAAGAGG
Found at i:54615250 original size:16 final size:17
Alignment explanation
Indices: 54615231--54615274 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
54615221 GGAGGAAGGG
54615231 GGAGGGGGAGGGGCGA-
1 GGAGGGGGAGGGGCGAT
*
54615247 GGAGAGGG-GGGGCGAT
1 GGAGGGGGAGGGGCGAT
54615263 GGAGGGCGGAGG
1 GGAGGG-GGAGG
54615275 AAGAGGGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 7 0.30
16 12 0.52
17 2 0.09
18 2 0.09
ACGTcount: A:0.18, C:0.07, G:0.73, T:0.02
Consensus pattern (17 bp):
GGAGGGGGAGGGGCGAT
Found at i:54615376 original size:37 final size:36
Alignment explanation
Indices: 54615293--54615377 Score: 84
Period size: 37 Copynumber: 2.3 Consensus size: 36
54615283 GAGCCGGCGC
* *
54615293 GGGAAGGGGCCGGAAGAGGGGAGGGGGGGTGCGGGAG
1 GGGAA-GGGCGGGAAGAGGGGAGGGGGGATGCGGGAG
* *
54615330 GCGAGGGGCGGGAGAGAGGGGGAGGGGAGGATG-GGG-G
1 GGGAAGGGCGGGA-AGA-GGGGAGGGG-GGATGCGGGAG
54615367 GGGAAGGGCGG
1 GGGAAGGGCGG
54615378 AAGGTGGCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
36 7 0.18
37 16 0.41
38 12 0.31
39 4 0.10
ACGTcount: A:0.19, C:0.07, G:0.72, T:0.02
Consensus pattern (36 bp):
GGGAAGGGCGGGAAGAGGGGAGGGGGGATGCGGGAG
Found at i:54615701 original size:22 final size:23
Alignment explanation
Indices: 54615648--54615701 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
54615638 CGAGGGAGGG
*
54615648 GGGGGGA-GAGGAGGGGGGAACA
1 GGGGGGAGGAGGAAGGGGGAACA
54615670 GGGGGG-GGAGGAAGGGGG-AC-
1 GGGGGGAGGAGGAAGGGGGAACA
54615690 GGGGCGGAGGAG
1 GGGG-GGAGGAG
54615702 CGGGCGGGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.14
21 4 0.14
22 20 0.71
ACGTcount: A:0.22, C:0.06, G:0.72, T:0.00
Consensus pattern (23 bp):
GGGGGGAGGAGGAAGGGGGAACA
Found at i:54615826 original size:27 final size:26
Alignment explanation
Indices: 54615792--54615920 Score: 76
Period size: 26 Copynumber: 4.9 Consensus size: 26
54615782 GGAGCAGTGC
*
54615792 GGGG-GGGGAGGCAGAAGGGGGAGGAG
1 GGGGAGGGGAGGAAGAAGGGGG-GGAG
*
54615818 GGGGAGGGGGAAGGGAG-AGGGAAGGGG-G
1 GGGGA-GGGG-AGGAAGAAGGG--GGGGAG
54615846 GGGGAGGGCG-GGAAGAAGGAGGGGG-G
1 GGGGAGGG-GAGGAAGAAGG-GGGGGAG
* * *
54615872 GGAGAAGGGGAGGCAG--GGGGCGGAG
1 GG-GGAGGGGAGGAAGAAGGGGGGGAG
54615897 GGGG-GGGGAGGAAGGAAGGGGGGG
1 GGGGAGGGGAGGAA-GAAGGGGGGG
54615921 GAGGAGGCGG
Statistics
Matches: 81, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
23 8 0.10
24 6 0.07
25 5 0.06
26 22 0.27
27 15 0.19
28 16 0.20
29 7 0.09
30 2 0.02
ACGTcount: A:0.23, C:0.03, G:0.74, T:0.00
Consensus pattern (26 bp):
GGGGAGGGGAGGAAGAAGGGGGGGAG
Found at i:54615830 original size:22 final size:21
Alignment explanation
Indices: 54615805--54615922 Score: 67
Period size: 23 Copynumber: 5.1 Consensus size: 21
54615795 GGGGGAGGCA
54615805 GAAGGGGGAGGAGGGGGAGGGG
1 GAAGGGGGAGGAGGGGG-GGGG
* *
54615827 GAAGGGAGAGGGAAGGGGGGGG
1 GAAGGGGGA-GGAGGGGGGGGG
* *
54615849 GAGGGCGGGAAGAAGGAGGGGGGG
1 GAAGG-GGG-AGGAGG-GGGGGGG
*
54615873 GAGAAGGGGAGGCAGGGGGCGGAGG
1 GA-AGGGGGAGG-AGGGGG-GG-GG
*
54615898 G-GGGGGGAGGAAGGAAGGGGGGG
1 GAAGGGGGAGG-AGG--GGGGGGG
54615921 GA
1 GA
54615923 GGAGGCGGCG
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
22 16 0.22
23 30 0.41
24 20 0.27
25 7 0.10
ACGTcount: A:0.25, C:0.03, G:0.73, T:0.00
Consensus pattern (21 bp):
GAAGGGGGAGGAGGGGGGGGG
Found at i:54615850 original size:17 final size:16
Alignment explanation
Indices: 54615792--54615853 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
54615782 GGAGCAGTGC
*
54615792 GGGGGGGGAGGCAGAA-
1 GGGGGGGGAGG-GGAAG
* *
54615808 GGGGGAGGAGGGGGAG
1 GGGGGGGGAGGGGAAG
*
54615824 GGGGAAGGGAGAGGGAAG
1 GGGG-GGGGAG-GGGAAG
54615842 GGGGGGGGAGGG
1 GGGGGGGGAGGG
54615854 CGGGAAGAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
15 2 0.06
16 16 0.44
17 9 0.25
18 9 0.25
ACGTcount: A:0.23, C:0.02, G:0.76, T:0.00
Consensus pattern (16 bp):
GGGGGGGGAGGGGAAG
Found at i:54615923 original size:27 final size:26
Alignment explanation
Indices: 54615792--54615924 Score: 78
Period size: 25 Copynumber: 5.1 Consensus size: 26
54615782 GGAGCAGTGC
* * *
54615792 GGGGGGGGAGGCA-GAAGGGGGAGGA
1 GGGGGGGGGGGAAGGAAGGGGGGGGA
*
54615817 GGGGGAGGGGGAAGGGAGAGGGAAGGGGG-
1 GGGGGGGGGGGAA-GGA-AGGG--GGGGGA
* *
54615846 GGGGAGGGCGGGAA-GAAGGAGGGGG-
1 GGGG-GGGGGGGAAGGAAGGGGGGGGA
* ** * *
54615871 GGGAGAAGGGG-AGGCAGGGGGCGGA
1 GGGGGGGGGGGAAGGAAGGGGGGGGA
54615896 GGGGGGGGGAGGAAGGAAGGGGGGGGA
1 GGGGGGGGG-GGAAGGAAGGGGGGGGA
54615923 GG
1 GG
54615925 AGGCGGCGGG
Statistics
Matches: 79, Mismatches: 19, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
23 1 0.01
24 12 0.15
25 24 0.30
26 2 0.03
27 19 0.24
28 6 0.08
29 4 0.05
30 11 0.14
ACGTcount: A:0.23, C:0.03, G:0.74, T:0.00
Consensus pattern (26 bp):
GGGGGGGGGGGAAGGAAGGGGGGGGA
Found at i:54615958 original size:17 final size:17
Alignment explanation
Indices: 54615891--54615971 Score: 60
Period size: 17 Copynumber: 4.7 Consensus size: 17
54615881 GAGGCAGGGG
*
54615891 GCGGAGGGGGGGGGAGGAA
1 GCGGA-GGGAGGGGAGG-A
* *
54615910 G-GAAGGGGGGGGAGGA
1 GCGGAGGGAGGGGAGGA
* *
54615926 GGCGGCGGG-GGCGAGGGA
1 -GCGGAGGGAGGGGA-GGA
54615944 G-GGAGGGAGGGGAGGA
1 GCGGAGGGAGGGGAGGA
54615960 GCGGAGGGAGGG
1 GCGGAGGGAGGG
54615972 CGCGGGGGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
16 10 0.20
17 31 0.61
18 9 0.18
19 1 0.02
ACGTcount: A:0.20, C:0.06, G:0.74, T:0.00
Consensus pattern (17 bp):
GCGGAGGGAGGGGAGGA
Found at i:54615965 original size:21 final size:21
Alignment explanation
Indices: 54615933--54615984 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
54615923 GGAGGCGGCG
54615933 GGGGCGAG-GGAGGGAGGGAG-
1 GGGG-GAGCGGAGGGAGGGAGC
*
54615953 GGGAGGAGCGGAGGGAGGGCGC
1 GGG-GGAGCGGAGGGAGGGAGC
54615975 GGGGGAGCGG
1 GGGGGAGCGG
54615985 GAGTGGGGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.21
21 19 0.68
22 3 0.11
ACGTcount: A:0.17, C:0.10, G:0.73, T:0.00
Consensus pattern (21 bp):
GGGGGAGCGGAGGGAGGGAGC
Found at i:54615966 original size:39 final size:36
Alignment explanation
Indices: 54615875--54615966 Score: 89
Period size: 36 Copynumber: 2.5 Consensus size: 36
54615865 AGGGGGGGGA
54615875 GAAGGGGAGGCAGGG-GGCGGAGGGGGGGGGAGGAAG
1 GAAGGGGAGG-AGGGAGGCGGAGGGGGGGGGAGGAAG
* * *
54615911 GAAGGGG-GGGGAGGAGGCGGCGGGGGCGAGGGAGGGAG
1 GAAGGGGAGGAG-GGAGGCGGAGGGGG-G-GGGAGGAAG
*
54615949 GGAGGGGAGGAGCGGAGG
1 GAAGGGGAGGAG-GGAGG
54615967 GAGGGCGCGG
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
34 1 0.02
35 4 0.09
36 17 0.38
37 1 0.02
38 14 0.31
39 8 0.18
ACGTcount: A:0.21, C:0.07, G:0.73, T:0.00
Consensus pattern (36 bp):
GAAGGGGAGGAGGGAGGCGGAGGGGGGGGGAGGAAG
Found at i:54618172 original size:40 final size:40
Alignment explanation
Indices: 54618112--54618331 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
54618102 TATTCGAATG
* * *
54618112 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
54618152 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
54618192 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
54618232 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * **
54618272 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
54618311 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
54618332 ATACTTGGGT
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 13 0.08
39 17 0.11
40 121 0.79
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:54620071 original size:27 final size:27
Alignment explanation
Indices: 54620008--54620345 Score: 340
Period size: 27 Copynumber: 12.6 Consensus size: 27
54619998 TAATAAAGAG
** *
54620008 AAATTACTAAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
*
54620034 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
54620061 AAATTACCGAAATACCTTTGATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
54620088 AAATTACTGAAACACCCTCAATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
*
54620115 AAATTATCGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* * * *
54620142 AATTTACCAAAATACCCTTGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** *
54620168 AAATTACTAAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
54620195 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*** * *
54620222 AAATTATTAAAACACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
54620249 AAATTACCGAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
54620276 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
54620303 AAATTATCAAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
54620330 AAATTATCGAAATACC
1 AAATTACCGAAATACC
54620346 TTTGTAGTGT
Statistics
Matches: 262, Mismatches: 46, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
26 41 0.16
27 221 0.84
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:54620364 original size:54 final size:54
Alignment explanation
Indices: 54620017--54620345 Score: 378
Period size: 54 Copynumber: 6.1 Consensus size: 54
54620007 GAAATTACTA
* * * * *
54620017 AAATACCCTCGA-TTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
* * * ** * *
54620070 AAATACCTTTGATTTTTAAAATTACTGAAACACCCTCAATTTATAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
* * * * *
54620124 AAATACCC-CTGATTTGTAAATTTACCAAAATACCCTTGA-TTGTGAAATTA-CTA
1 AAATACCCTC-GATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATC-G
* **
54620177 AAATACCCTCGATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTATTA
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
* * * *
54620231 AAACACCCTCGATTTATAAAATTACCGAAACACCCTTGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
* *
54620285 AAATACCCTCGATTTGTAAAATTATCAAAACACCCCCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
54620339 AAATACC
1 AAATACC
54620346 TTTGTAGTGT
Statistics
Matches: 229, Mismatches: 41, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.00
53 52 0.23
54 176 0.77
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATACCCTCGATTTGTAAAATTACCAAAACACCCTCGATTTGTAAAATTATCG
Found at i:54620384 original size:27 final size:27
Alignment explanation
Indices: 54620273--54620387 Score: 81
Period size: 27 Copynumber: 4.3 Consensus size: 27
54620263 CCCTTGATTT
* **
54620273 GTAAAATTATCGAAATACCCTCGAT-TT
1 GTAAAATTATCGAAATACCC-CTATAGG
* * * **
54620300 GTAAAATTATCAAAACACCCCCGAT-TT
1 GTAAAATTATCGAAATA-CCCCTATAGG
** * *
54620327 GTAAAATTATCGAAATACCTTTGTAGT
1 GTAAAATTATCGAAATACCCCTATAGG
*
54620354 GTAAAATTATCGAATTACCCCTATAGG
1 GTAAAATTATCGAAATACCCCTATAGG
54620381 GTAAAAT
1 GTAAAAT
54620388 GAGTATTTTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 66 0.92
28 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCCTATAGG
Found at i:54620385 original size:81 final size:81
Alignment explanation
Indices: 54620021--54620387 Score: 249
Period size: 81 Copynumber: 4.6 Consensus size: 81
54620011 TTACTAAAAT
* * ** * * * ***
54620021 ACCCTCGAT-TGTGAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCTTTGATTT
1 ACCCTTGATGTGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCAAAACACCCCCGATTT
* *
54620085 TTAAAATTACTGAAAC
66 ATAAAATTACCGAAAC
** * * ** * * * **
54620101 ACCCTCAATTTATAAAATTATCGAAATACCC-CTGATTTGTAAATTTACCAAAATACCCTTGA-T
1 ACCCTTGATGTGTAAAATTATCGAAATACCCTC-GATGGGTAAAATTATCAAAACACCCCCGATT
* * ** *
54620164 TGTGAAATTACTAAAAT
65 TATAAAATTACCGAAAC
* * * * * * ** * *
54620181 ACCCTCGATTTGTGAAATTACCAAAACACCCTCGATTTGTAAAATTATTAAAACACCCTCGATTT
1 ACCCTTGATGTGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCAAAACACCCCCGATTT
54620246 ATAAAATTACCGAAAC
66 ATAAAATTACCGAAAC
* **
54620262 ACCCTTGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAAACACCCCCGATTT
1 ACCCTTGATGTGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCAAAACACCCCCGATTT
* * *
54620327 GTAAAATTATCGAAAT
66 ATAAAATTACCGAAAC
* * *
54620343 ACCTTTG-TAGTGTAAAATTATCGAATTACCC-CTATAGGGTAAAAT
1 ACCCTTGAT-GTGTAAAATTATCGAAATACCCTCGAT-GGGTAAAAT
54620388 GAGTATTTTG
Statistics
Matches: 239, Mismatches: 42, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
80 76 0.32
81 163 0.68
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (81 bp):
ACCCTTGATGTGTAAAATTATCGAAATACCCTCGATGGGTAAAATTATCAAAACACCCCCGATTT
ATAAAATTACCGAAAC
Found at i:54634597 original size:46 final size:47
Alignment explanation
Indices: 54634465--54634633 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 47
54634455 GGTCAGACAT
* * *
54634465 CGATGCCATGTCCCAGACATGGTCTTACACTA--ACACATCTCGTAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCGTCTCG-AGC
*** *
54634511 CGATG-CATGTCCTGGATAT-GTCTTACACTAGCTTA-T-GTCTCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGC--ACTCGTCTCGA-GC
* *
54634557 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCGTCTCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCGTCTCGA-GC
54634603 CGATGCCATGTCCCAAACATGGTCTTACACT
1 CGATGCCATGTCCCAAACATGGTCTTACACT
54634634 TGTAACACCC
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
44 12 0.12
45 13 0.13
46 52 0.51
47 14 0.14
48 11 0.11
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCGTCTCGAGC
Found at i:54637323 original size:26 final size:26
Alignment explanation
Indices: 54637289--54637396 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
54637279 TGAAATGCCC
*
54637289 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
54637315 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
54637341 ATCATGGAATATTTACCTAATCCACT
1 ATCATGGAACATTTACCTAACCCATT
54637367 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
54637393 ATCA
1 ATCA
54637397 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:54641958 original size:45 final size:45
Alignment explanation
Indices: 54641896--54642208 Score: 300
Period size: 45 Copynumber: 7.0 Consensus size: 45
54641886 TAGGATTTCG
* * *
54641896 ATATGTGTTTTTATGTAAGACCACATCT-GGCATGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGG-ACGTTGGCATCGAT
* *
54641941 ATATGTGTTTTTGTGTAAGATCATGTCTAGGACGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* * * **
54641986 ACATGTGTTTTTGTGTAAAACCACGTCTGGGACGTTGGCATTAAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* *
54642031 ATATGTGTTTTTGTGTAAGACCAC-ACTTAGGACGTTGGCATTGAT
1 ATATGTGTTTTTGTGTAAGACCACGTC-TAGGACGTTGGCATCGAT
* * * *
54642076 ATATATGTTTTCGTGTAAAACCACGTCTAGGACATTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* ** * * * * *
54642121 ATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGGTATCG-T
1 ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
* *
54642165 AT-T-TG-ATTTGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGAT
54642207 AT
1 AT
54642209 GAGATAGCAT
Statistics
Matches: 224, Mismatches: 38, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
41 26 0.12
42 5 0.02
43 1 0.00
44 4 0.02
45 185 0.83
46 3 0.01
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (45 bp):
ATATGTGTTTTTGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
Found at i:54642138 original size:135 final size:135
Alignment explanation
Indices: 54641896--54642153 Score: 349
Period size: 135 Copynumber: 1.9 Consensus size: 135
54641886 TAGGATTTCG
* * * *
54641896 ATATGTGTTTTTATGTAAGACCACATCTGGCATGTTGGCATCGATATATGTGTTTTTGTGTAAGA
1 ATATGTGTTTTTATGTAAGACCACATCTGGCACGTTGGCATCGATATATATGTTTTCGTGTAAAA
* * * * **
54641961 TCATGTCTAGGACGTTGGCATCGATACATGTGTTTTTGTGTAAAACCACGTCTGGGACGTTGGCA
66 CCACGTCTAGGACATTGGCATCGATACATGTGGTTACGTGTAAAACCACGTCTGGGACGTTGGCA
54642026 TTAAT
131 TTAAT
* *
54642031 ATATGTGTTTTTGTGTAAGACCACA-CTTAGG-ACGTTGGCATTGATATATATGTTTTCGTGTAA
1 ATATGTGTTTTTATGTAAGACCACATC-T-GGCACGTTGGCATCGATATATATGTTTTCGTGTAA
* * *
54642094 AACCACGTCTAGGACATTGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTGGGAC
64 AACCACGTCTAGGACATTGGCATCGATACATGTGGTTACGTGTAAAACCACGTCTGGGAC
54642154 ATCGGTATCG
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
134 1 0.01
135 103 0.97
136 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (135 bp):
ATATGTGTTTTTATGTAAGACCACATCTGGCACGTTGGCATCGATATATATGTTTTCGTGTAAAA
CCACGTCTAGGACATTGGCATCGATACATGTGGTTACGTGTAAAACCACGTCTGGGACGTTGGCA
TTAAT
Found at i:54649422 original size:29 final size:29
Alignment explanation
Indices: 54649389--54649488 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
54649379 AATGTGACTA
*
54649389 GGCCTAACGGGCCATATAAATATGATTTG
1 GGCCTAATGGGCCATATAAATATGATTTG
* ** *
54649418 GGCCTAATGGGCCATATACAGGTAATTTG
1 GGCCTAATGGGCCATATAAATATGATTTG
*
54649447 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATATGATTTG
* *
54649475 GGCTTAGTGGGCCA
1 GGCCTAATGGGCCA
54649489 GATACAGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 15 0.25
29 44 0.75
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATATGATTTG
Found at i:54652102 original size:27 final size:27
Alignment explanation
Indices: 54652072--54652132 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
54652062 TAAAATAGAT
54652072 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
54652099 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
54652126 AAATTAC
1 AAATTAC
54652133 CAAAGTACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:54652141 original size:27 final size:27
Alignment explanation
Indices: 54652081--54652141 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
54652071 TAAATTACTG
**
54652081 AAATACCCTCGACCTGTAAAATTATTG
1 AAATACCCTCGACCTGTAAAATTATCC
*
54652108 AAATACCCTCGACTTGTAAAATTA-CC
1 AAATACCCTCGACCTGTAAAATTATCC
54652134 AAAGTACC
1 AAA-TACC
54652142 TTTGATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.26
Consensus pattern (27 bp):
AAATACCCTCGACCTGTAAAATTATCC
Found at i:54652157 original size:27 final size:27
Alignment explanation
Indices: 54652145--54652348 Score: 300
Period size: 27 Copynumber: 7.6 Consensus size: 27
54652135 AAGTACCTTT
54652145 GATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
54652172 GATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
* * *
54652199 GATTTATAGAATTATCGTCTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
*
54652226 GATTTATAAAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
*
54652253 GATTTATAGAATTACTATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
* * * *
54652280 GATTTGTAGAATTACCATCTTACCGTT
1 GATTTATAGAATTACCATTTTACCCTC
54652307 GATTTATAGAATTACCATTTTACCCTC
1 GATTTATAGAATTACCATTTTACCCTC
* * *
54652334 AATTTACAAAATTAC
1 GATTTATAGAATTAC
54652349 TGAAATACCC
Statistics
Matches: 156, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
GATTTATAGAATTACCATTTTACCCTC
Found at i:54652158 original size:54 final size:55
Alignment explanation
Indices: 54652111--54652348 Score: 277
Period size: 54 Copynumber: 4.4 Consensus size: 55
54652101 ATTATTGAAA
* * *** * * *
54652111 TACCCTCGACTTGTAAAATTACCAAAGTACCTTTGATTTATAGAATTA-CCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGATTT
* *
54652165 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCG-TCT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGATTT
*
54652219 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTA-CTATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGATTT
* * * * * *
54652273 TACCCTCGATTTGTAGAATTACCATCTTACCGTTGATTTATAGAATTA-CCATTT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGATTT
* *
54652327 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAAAATTAC
54652349 TGAAATACCC
Statistics
Matches: 159, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 157 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (55 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGATTT
Found at i:54652349 original size:81 final size:81
Alignment explanation
Indices: 54652111--54652349 Score: 334
Period size: 81 Copynumber: 3.0 Consensus size: 81
54652101 ATTATTGAAA
* * *** *
54652111 TACCCTCGACTTGTAAAATTACCAAAGTACCTTTGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTGTAGAATTACCATCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
*
54652176 TATAGAATTACCATTT
66 TATAGAATTACTATTT
* * * * *
54652192 TACCCTCGATTTATAGAATTATCGTCTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTGTAGAATTACCATCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
54652257 TATAGAATTACTATTT
66 TATAGAATTACTATTT
* *
54652273 TACCCTCGATTTGTAGAATTACCATCTTACCGTTGATTTATAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTGTAGAATTACCATCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
* *
54652338 TACAAAATTACT
66 TATAGAATTACT
54652350 GAAATACCCT
Statistics
Matches: 137, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 137 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTGTAGAATTACCATCTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
TATAGAATTACTATTT
Found at i:54652357 original size:27 final size:27
Alignment explanation
Indices: 54652327--54652439 Score: 93
Period size: 27 Copynumber: 4.2 Consensus size: 27
54652317 ATTACCATTT
**
54652327 TACCCTCAATTTACAAAATTACTGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
***
54652354 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* ** *
54652381 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
** **
54652408 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
54652435 TACCC
1 TACCC
54652440 CTAATTTGTG
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 70 0.99
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:54652374 original size:54 final size:54
Alignment explanation
Indices: 54652327--54652469 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
54652317 ATTACCATTT
*
54652327 TACCCTCAATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
* ** ** * **
54652381 TACCCTCGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
* *
54652435 TACCC-CTAATTTGTGAAATTACTGAAATACCCTTG
1 TACCCTC-AATTTATAAAATTACTGAAATACCCTTG
54652470 TAGGGTAAAA
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 1 0.01
54 70 0.99
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (54 bp):
TACCCTCAATTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:54652440 original size:27 final size:27
Alignment explanation
Indices: 54652341--54652496 Score: 118
Period size: 27 Copynumber: 5.8 Consensus size: 27
54652331 CTCAATTTAC
** * **
54652341 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* ***
54652368 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GGTTTGT
54652395 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
54652422 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* ** * **
54652449 GAAATTACTGAAATA-CCCTTGTAGGGT
1 AAAATTACCAAAATACCCCTGGT-TTGT
*
54652476 AAAATTACTAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
54652497 TAGGGTGGAA
Statistics
Matches: 102, Mismatches: 23, Indels: 7
0.77 0.17 0.05
Matches are distributed among these distances:
26 8 0.08
27 86 0.84
28 8 0.08
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:54652478 original size:54 final size:53
Alignment explanation
Indices: 54652420--54652538 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 53
54652410 CCCCTGGTTT
** *
54652420 GTAAAATTACCAAAATACCCCTA-ATTTGTGAAATTACTGAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCCTATA-GGGTGAAATTACCGAAATA-CCTTGTAGG
* * * * *
54652474 GTAAAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATACCTTGTGGG
1 GTAAAATTACCAAAATACCCCTATAGGGTGAAATTACCGAAATACCTTGTAGG
54652527 GTAAAATTACCA
1 GTAAAATTACCA
54652539 TTTTGCCCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
53 19 0.35
54 35 0.64
55 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCCTATAGGGTGAAATTACCGAAATACCTTGTAGG
Found at i:54652498 original size:27 final size:27
Alignment explanation
Indices: 54652394--54652538 Score: 107
Period size: 27 Copynumber: 5.4 Consensus size: 27
54652384 CCTCGATCAA
**
54652394 TAAAATTACCAAAATACCCCTGGT-TTG
1 TAAAATTACCAAAATACCCCT-GTAGGG
* **
54652421 TAAAATTACCAAAATACCCCT-AATTTG
1 TAAAATTACCAAAATACCCCTGTA-GGG
* ** *
54652448 TGAAATTACTGAAATACCCTTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
*
54652475 TAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
** * * * *
54652502 TGGAATTACCGAGATA-CCTTGTGGGG
1 TAAAATTACCAAAATACCCCTGTAGGG
54652528 TAAAATTACCA
1 TAAAATTACCA
54652539 TTTTGCCCCT
Statistics
Matches: 94, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
26 16 0.17
27 77 0.82
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGTAGGG
Found at i:54653016 original size:22 final size:22
Alignment explanation
Indices: 54652964--54653028 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
54652954 TTAAAGCGTT
*
54652964 CTGATTATGGCTTTGTGT-CAAC
1 CTGATTATGGCTCTGT-TCCAAC
*
54652986 CT-ACATATGGCTCTGTTCCAAC
1 CTGA-TTATGGCTCTGTTCCAAC
* *
54653008 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTTCCAA
54653029 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTTCCAAC
Found at i:54653217 original size:27 final size:26
Alignment explanation
Indices: 54653194--54653287 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 26
54653184 TAAGTGGATT
* *
54653194 TGCCACATTATTTGTTTCTGGTGGCTA
1 TGCCACAATATCTG-TTCTGGTGGCTA
*
54653221 TGCCACAAATATCTGTTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTGGTGGCTA
* * *
54653248 TGCCACAATATCTATATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGGCTA
*
54653275 TGTCACAATATCT
1 TGCCACAATATCT
54653288 AATAACTGAG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
26 8 0.14
27 45 0.76
28 6 0.10
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGGCTA
Found at i:54653288 original size:27 final size:26
Alignment explanation
Indices: 54653209--54653288 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
54653199 CATTATTTGT
* *
54653209 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTA
54653236 TTCTGGTGGCTCTGCCACAATATCTA
1 TTCTGGTGGCTCTGCCACAATATCTA
* *
54653262 TATCTGGTGACTCTGTCACAATATCTA
1 T-TCTGGTGGCTCTGCCACAATATCTA
54653289 ATAACTGAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.17
27 40 0.83
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTA
Found at i:54653463 original size:6 final size:6
Alignment explanation
Indices: 54653448--54653519 Score: 69
Period size: 6 Copynumber: 11.8 Consensus size: 6
54653438 ATTCTGTTAC
* *
54653448 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATAT -TGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGAT-T CTGATT CTGATT
54653497 CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
54653520 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
5 4 0.07
6 46 0.82
7 4 0.07
8 1 0.02
9 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:54653476 original size:31 final size:31
Alignment explanation
Indices: 54653425--54653505 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
54653415 TTGCATTCAC
*
54653425 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
54653457 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
54653488 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
54653506 ATTCTAGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 39 0.85
32 7 0.15
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:54656988 original size:40 final size:40
Alignment explanation
Indices: 54656933--54657189 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
54656923 TGGATGATAA
* * *
54656933 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
54656973 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54657013 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54657052 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54657092 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
54657132 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54657172 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54657190 TACTTGGCTT
Statistics
Matches: 203, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
39 55 0.27
40 148 0.73
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54657065 original size:79 final size:80
Alignment explanation
Indices: 54656933--54657189 Score: 378
Period size: 79 Copynumber: 3.2 Consensus size: 80
54656923 TGGATGATAA
* * *
54656933 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
54656997 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
54657013 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
54657077 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * *
54657092 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
54657157 AGCAAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
54657172 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54657190 TACTTGGCTT
Statistics
Matches: 164, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 90 0.55
80 73 0.45
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:54657185 original size:119 final size:119
Alignment explanation
Indices: 54656933--54657189 Score: 367
Period size: 119 Copynumber: 2.2 Consensus size: 119
54656923 TGGATGATAA
* * *
54656933 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* * *
54656998 TGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTCGAGCAAGTTACTATAT
* * *
54657052 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
*
54657116 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
65 GTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTCGAGCAAGTTA-CTATAT
*
54657172 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAATCCCGAAGG
54657190 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
118 1 0.01
119 100 0.80
120 24 0.19
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTCGAGCAAGTTACTATAT
Found at i:54665135 original size:40 final size:40
Alignment explanation
Indices: 54665080--54665337 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
54665070 TGGATGATAA
* * *
54665080 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
54665120 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTTTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54665160 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54665200 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54665240 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
54665280 CCGGGCTATGTCTCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54665320 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54665338 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.08
40 182 0.92
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54690691 original size:68 final size:63
Alignment explanation
Indices: 54690544--54690691 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 63
54690534 CATGATTTTG
* **
54690544 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATACGACCTAGCCAGTTTATCTCGTA
* * *
54690607 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATACGACCTAGCTACA-TCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACACATAGTACCACCCATACGACCTAGC--CAGT--T--TATC
54690670 TCGTA
59 TCGTA
54690675 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
54690692 ATGTGCACTC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 42 0.59
64 1 0.01
65 2 0.03
66 1 0.01
68 23 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATACGACCTAGCCAGTTTATCTCGTA
Found at i:54692125 original size:46 final size:47
Alignment explanation
Indices: 54692049--54692409 Score: 299
Period size: 46 Copynumber: 7.9 Consensus size: 47
54692039 TACCTATTTG
* * * * *
54692049 GGTTAAACCTACATGAATC-AGATAACAATGCTTGGTCACCCGTTAA
1 GGTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCACCCGTTAA
* * * * **
54692095 GGTTGAACCTACACGAATCGA-ATATTAATGCATGATCACCTATTAA
1 GGTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCACCCGTTAA
* * * * *
54692141 GGTTAAACCTACACGAATC-AGATAATAGTGCCCGGCCACCAGTTAG
1 GGTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCACCCGTTAA
* * *
54692187 GGTTGAACCTACACAAATCG-GATAATAGTGCCTGGCCACTCGTTAA
1 GGTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCACCCGTTAA
* * * ** *
54692233 GGTTGAACCTACACAAATC-AGATAATAGTGTCTAGTCATTCGTTAG
1 GGTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCACCCGTTAA
* * * *
54692279 GGTTGAACGTACATGAATCGA-ACAATAGTGCCTGGTCACCCATTAA
1 GGTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCACCCGTTAA
* * * * **
54692325 GGTTGAACCTATACAAATCG-GATAATAGTGTCTAGTCATTCGTT-A
1 GGTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCACCCGTTAA
* ** *
54692370 GTGTTGAACATACATAAATCGA-ACAATAGTGCCTGGTCAC
1 G-GTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCAC
54692410 TTGTTCGGGC
Statistics
Matches: 251, Mismatches: 56, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
45 3 0.01
46 246 0.98
47 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (47 bp):
GGTTGAACCTACACGAATCGAGATAATAGTGCCTGGTCACCCGTTAA
Found at i:54692197 original size:92 final size:91
Alignment explanation
Indices: 54692025--54692409 Score: 349
Period size: 92 Copynumber: 4.2 Consensus size: 91
54692015 CAGGTGAAAG
* * * ** ** * * *
54692025 TAATAGTGTCTAGTTACCTATTTGGGTTAAACCTACATGAATCAGATAACAATGCTTGGTCACCC
1 TAATAGTGCCTGGTCACCTATTAAGGTTAAACCTACACAAATCAGATAATAGTGCCTGGTCA-CC
*
54692090 GTTAAGGTTGAACCTACACGAATCGAA
65 GTTAGGGTTGAACCTACACGAATCGAA
* * * * * * *
54692117 TATTAATGCATGATCACCTATTAAGGTTAAACCTACACGAATCAGATAATAGTGCCCGGCCACCA
1 TAATAGTGCCTGGTCACCTATTAAGGTTAAACCTACACAAATCAGATAATAGTGCCTGGTCACC-
* *
54692182 GTTAGGGTTGAACCTACACAAATCGGA
65 GTTAGGGTTGAACCTACACGAATCGAA
* * * * * *
54692209 TAATAGTGCCTGGCCA-CTCGTTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATT
1 TAATAGTGCCTGGTCACCT-ATTAAGGTTAAACCTACACAAATCAGATAATAGTGCCTGGTCA-C
* *
54692273 CGTTAGGGTTGAACGTACATGAATCGAA
64 CGTTAGGGTTGAACCTACACGAATCGAA
* * * * * * * *
54692301 CAATAGTGCCTGGTCACCCATTAAGGTTGAACCTATACAAATCGGATAATAGTGTCTAGTCATTC
1 TAATAGTGCCTGGTCACCTATTAAGGTTAAACCTACACAAATCAGATAATAGTGCCTGGTCA-CC
* * **
54692366 GTTAGTGTTGAACATACATAAATCGAA
65 GTTAGGGTTGAACCTACACGAATCGAA
*
54692393 CAATAGTGCCTGGTCAC
1 TAATAGTGCCTGGTCAC
54692410 TTGTTCGGGC
Statistics
Matches: 245, Mismatches: 44, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
91 4 0.02
92 239 0.98
93 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (91 bp):
TAATAGTGCCTGGTCACCTATTAAGGTTAAACCTACACAAATCAGATAATAGTGCCTGGTCACCG
TTAGGGTTGAACCTACACGAATCGAA
Found at i:54692424 original size:92 final size:92
Alignment explanation
Indices: 54692137--54692429 Score: 363
Period size: 92 Copynumber: 3.2 Consensus size: 92
54692127 TGATCACCTA
* * * ** * * * *
54692137 TTAAGGTTAAACCTACACGAATCAGATAATAGTGCCCGGCCA-CCAGTTAGGGTTGAACCTACAC
1 TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTC-GTTAGGGTTGAACATACAT
* * *
54692201 AAATCGGATAATAGTGCCTGGCCACTCG
65 AAATCGAACAATAGTGCCTGGTCACTCG
* *
54692229 TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAGGGTTGAACGTACATG
1 TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAGGGTTGAACATACATA
* *
54692294 AATCGAACAATAGTGCCTGGTCACCCA
66 AATCGAACAATAGTGCCTGGTCACTCG
* * *
54692321 TTAAGGTTGAACCTATACAAATCGGATAATAGTGTCTAGTCATTCGTTAGTGTTGAACATACATA
1 TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAGGGTTGAACATACATA
*
54692386 AATCGAACAATAGTGCCTGGTCACTTG
66 AATCGAACAATAGTGCCTGGTCACTCG
** *
54692413 TTCGGGCTGAACCTACA
1 TTAAGGTTGAACCTACA
54692430 TAACAAATAG
Statistics
Matches: 173, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
92 172 0.99
93 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (92 bp):
TTAAGGTTGAACCTACACAAATCAGATAATAGTGTCTAGTCATTCGTTAGGGTTGAACATACATA
AATCGAACAATAGTGCCTGGTCACTCG
Found at i:54701279 original size:47 final size:47
Alignment explanation
Indices: 54701208--54701340 Score: 196
Period size: 49 Copynumber: 2.8 Consensus size: 47
54701198 CTCAATTGAT
*
54701208 AAGTACCTATACCATGGTCCGTAGCCAAATCAAGGTAACT-TATCCCA
1 AAGTACCTATACCATGG-CCGTAGCCAAATCAAGGTAACTCTATCCAA
*
54701255 GAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCCTATCCAA
1 AAGTACCTATACCATGGCC-GTAGCCAAATCAAGGTAACT-CTATCCAA
*
54701304 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGG-CCGTAGCCAAATCAAGGTA
54701341 TAATTAGCAC
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
46 2 0.03
47 36 0.46
49 38 0.49
50 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCGTAGCCAAATCAAGGTAACTCTATCCAA
Found at i:54702008 original size:18 final size:17
Alignment explanation
Indices: 54701985--54702027 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
54701975 ATTGATAACA
*
54701985 TATAAAAGTTTTAGAACT
1 TATAAAAGTTTT-CAACT
*
54702003 TATAAAAATTTTCAACT
1 TATAAAAGTTTTCAACT
*
54702020 TTTAAAAG
1 TATAAAAG
54702028 GTCACACACC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (17 bp):
TATAAAAGTTTTCAACT
Found at i:54711875 original size:29 final size:27
Alignment explanation
Indices: 54711857--54711926 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
54711847 ATATTAAGTC
54711857 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
54711884 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
54711912 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
54711927 TTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:54711920 original size:28 final size:28
Alignment explanation
Indices: 54711857--54711954 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
54711847 ATATTAAGTC
*
54711857 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
54711884 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54711912 CGCACACTTAGTGCTTTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
54711941 CACACACTTAGTGC
1 CGCACACTTAGTGC
54711955 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.35
28 23 0.37
29 18 0.29
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54719941 original size:27 final size:26
Alignment explanation
Indices: 54719924--54719993 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
54719914 ATATTAAGTC
54719924 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
54719951 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
54719979 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
54719994 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:54719987 original size:28 final size:28
Alignment explanation
Indices: 54719924--54720021 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
54719914 ATATTAAGTC
*
54719924 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
54719951 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54719979 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
54720008 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54720022 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54725003 original size:27 final size:28
Alignment explanation
Indices: 54724919--54725016 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
54724909 CATGAGATTG
* * * * *
54724919 GCACTAAGTGCGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
54724948 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54724976 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54725003 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
54725017 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.35
29 17 0.27
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54725030 original size:29 final size:27
Alignment explanation
Indices: 54724947--54725030 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
54724937 TAAATTGTAC
* *
54724947 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
54724975 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
54725002 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
54725031 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:54726906 original size:27 final size:27
Alignment explanation
Indices: 54726857--54727112 Score: 316
Period size: 27 Copynumber: 9.5 Consensus size: 27
54726847 CTCAAATCTA
* * *
54726857 TAGGCTAGCATTACTAAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCTTG
* *
54726884 TAAGGTAGAAATACTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCTTG
* * * *
54726911 TAGGGTAGAAATACCGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCTTG
*
54726938 TAGGGTAGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCTTG
* *
54726965 TAGGGTTGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCTTG
* * *
54726992 TAGGGTTGAATTACTGAAATACCCCTA
1 TAGGGTAGAATTACTGAAATACCCTTG
* *
54727019 TAAGGTAGAATTATTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCTTG
54727046 TAGGGTAGAATTACTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATACCCTTG
* *
54727073 TAGGGTAGAATTACCGAGATACCC-TG
1 TAGGGTAGAATTACTGAAATACCCTTG
* *
54727099 TGGGGTAAAATTAC
1 TAGGGTAGAATTAC
54727113 CATTTTACCC
Statistics
Matches: 204, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 14 0.07
27 190 0.93
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCTTG
Found at i:54726994 original size:81 final size:81
Alignment explanation
Indices: 54726854--54727096 Score: 360
Period size: 81 Copynumber: 3.0 Consensus size: 81
54726844 AATCTCAAAT
* * * * *
54726854 CTATAGGCTAGCATTACTAAAATACCCTTGTAAGGTAGAAATACTGAAATACCCTTGTAGGGTAG
1 CTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
*
54726919 AAATACCGAAATACCC
66 AATTACCGAAATACCC
* * * *
54726935 CTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTTGAATTACTGAAATACCCCTGTAGGGTTG
1 CTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
*
54727000 AATTACTGAAATACCC
66 AATTACCGAAATACCC
* *
54727016 CTATAAGGTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
1 CTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
*
54727081 AATTACCGAGATACCC
66 AATTACCGAAATACCC
54727097 TGTGGGGTAA
Statistics
Matches: 143, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 143 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (81 bp):
CTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
AATTACCGAAATACCC
Found at i:54727382 original size:27 final size:26
Alignment explanation
Indices: 54727337--54727415 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 26
54727327 GGAGGAAGCA
* *
54727337 TTCTGGTGGCTATGTCACAAATATCTG
1 TTCTGGAGGCTATGCCAC-AATATCTG
*
54727364 TTCTGGAGGCTCTGCCACAATATCTG
1 TTCTGGAGGCTATGCCACAATATCTG
* * * *
54727390 TATCTGGTGACTTTGCCATAATATCT
1 T-TCTGGAGGCTATGCCACAATATCT
54727416 ATTAACCGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 9 0.20
27 35 0.80
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
TTCTGGAGGCTATGCCACAATATCTG
Found at i:54727752 original size:27 final size:27
Alignment explanation
Indices: 54727722--54727829 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
54727712 ATTCTGTTAA
* *
54727722 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
54727749 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
54727776 GAGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
54727803 GTGACTCTGTCACAATATCTG-TTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
54727829 G
1 G
54727830 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 12 0.18
27 50 0.74
28 6 0.09
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:54727787 original size:54 final size:53
Alignment explanation
Indices: 54727724--54727829 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
54727714 TCTGTTAAGT
* * * *
54727724 GGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTATTCTGGA
1 GGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCTATTCTGGA
* * *
54727778 GGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTGTTCTGG
1 GGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTATTCTGG
54727830 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 13 0.29
54 32 0.71
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTATTCTGGA
Found at i:54728009 original size:6 final size:6
Alignment explanation
Indices: 54727998--54728072 Score: 82
Period size: 6 Copynumber: 12.3 Consensus size: 6
54727988 TTGTCACCTA
*
54727998 ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* *
54728047 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
54728073 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
5 2 0.03
6 51 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:54728011 original size:31 final size:31
Alignment explanation
Indices: 54727970--54728051 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
54727960 ATTCTGTTAC
* *
54727970 CTGATACTGATTCTGATTTTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATT
*
54728001 CTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATT
54728032 CTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
54728052 CATTTTGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (31 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATT
Found at i:54728029 original size:25 final size:25
Alignment explanation
Indices: 54727953--54728046 Score: 98
Period size: 25 Copynumber: 3.5 Consensus size: 25
54727943 TTCACATTAC
* * *
54727953 GATTCTAATTCTGTTACCTGATACT
1 GATTCTGATTCTGTCACCTGATTCT
*
54727978 GATTCTGATTTTGTCACCTAATTCTGATTCT
1 GATTCTGATTCTGTCA-C-----CTGATTCT
54728009 GATTCTGATTCTGTCACCTGATTCT
1 GATTCTGATTCTGTCACCTGATTCT
54728034 GATTCTGATTCTG
1 GATTCTGATTCTG
54728047 ATTCTCATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 34 0.59
26 1 0.02
30 1 0.02
31 22 0.38
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
GATTCTGATTCTGTCACCTGATTCT
Found at i:54744316 original size:17 final size:16
Alignment explanation
Indices: 54744289--54744321 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
54744279 GCTTGTAGGA
54744289 GATATGAGTAAAAGAT
1 GATATGAGTAAAAGAT
54744305 GATATAGAGTAAAAGAT
1 GATAT-GAGTAAAAGAT
54744322 TTGACGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (16 bp):
GATATGAGTAAAAGAT
Found at i:54747338 original size:27 final size:26
Alignment explanation
Indices: 54747272--54747341 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
54747262 ACACGTTAGA
* * *
54747272 AAAGAAAGCCTTTATGGAGAACTATG
1 AAAGAAAGCCTTTGTGGAAAACCATG
* *
54747298 AAAAAAAGCTTTTGTGGAAAACCATG
1 AAAGAAAGCCTTTGTGGAAAACCATG
*
54747324 AAGTGAAAGCCTTTGTGG
1 AA-AGAAAGCCTTTGTGG
54747342 CTAAAAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 23 0.66
27 12 0.34
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (26 bp):
AAAGAAAGCCTTTGTGGAAAACCATG
Found at i:54747454 original size:27 final size:27
Alignment explanation
Indices: 54747424--54747490 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
54747414 CTTTGTTGCA
* * *
54747424 AACTCTAGAGGAATGGTATTCATGGTG
1 AACTCTAAAGGAATGGTATGCATGGAG
54747451 AACTCTAAAGGAATGGTATGCATGGAG
1 AACTCTAAAGGAATGGTATGCATGGAG
* *
54747478 AACTATGAAGGAA
1 AACTCTAAAGGAA
54747491 ATGCCCTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.28, T:0.24
Consensus pattern (27 bp):
AACTCTAAAGGAATGGTATGCATGGAG
Found at i:54747861 original size:13 final size:15
Alignment explanation
Indices: 54747827--54747863 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
54747817 CGCCTCGAAT
*
54747827 TTGGGCCTAGAAGTA
1 TTGGGCCTTGAAGTA
54747842 TTGGGCCTTG-AGTA
1 TTGGGCCTTGAAGTA
54747856 -TGGGCCTT
1 TTGGGCCTT
54747864 AATGTCTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 4 0.19
15 9 0.43
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.32
Consensus pattern (15 bp):
TTGGGCCTTGAAGTA
Found at i:54749266 original size:22 final size:22
Alignment explanation
Indices: 54749241--54749302 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
54749231 GTTGCTGTGA
*
54749241 TATCTACGGCGTTGAGCCGTCC
1 TATCTATGGCGTTGAGCCGTCC
*
54749263 TATCTATGGTGTTGAGCCGTCC
1 TATCTATGGCGTTGAGCCGTCC
* *
54749285 TGTCTATGGCGTTCAGCC
1 TATCTATGGCGTTGAGCC
54749303 ATCTTGTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.32
Consensus pattern (22 bp):
TATCTATGGCGTTGAGCCGTCC
Found at i:54757254 original size:39 final size:39
Alignment explanation
Indices: 54757176--54757354 Score: 193
Period size: 39 Copynumber: 4.6 Consensus size: 39
54757166 CGTTCAAATG
* *
54757176 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCACA
*
54757216 AATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCACA
* * *
54757255 AATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCACA
* * * * * *
54757294 AATGCCTTC-GGATCTTAGTCGGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGATTTAGTAAC-TCGCACA
54757334 AA-GCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
54757355 GACATCATTC
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
38 9 0.08
39 69 0.59
40 39 0.33
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCACA
Done.