Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 76 of 109
Found at i:15280890 original size:137 final size:137
Alignment explanation
Indices: 15280644--15280920 Score: 527
Period size: 137 Copynumber: 2.0 Consensus size: 137
15280634 TATGTTGTGC
*
15280644 TTAAATCTGTTACCCAATTATGTTTGCAAATATAAAAATATCCATACTTGTAAATTCTAAATTTA
1 TTAAATCTGTTACCCAATTATGTTTGCAAATATAAAAATATCCATACTTGTAAACTCTAAATTTA
*
15280709 CAAATAACTCTTAAAATTGAGAGTTTTATCAAGTGAATGAATTTCAAAATTTGAAATTATTTGCT
66 CAAATAACTCTTAAAATTGAGAGTTTTATCAAGTGAATGAATTTCAAAATTTAAAATTATTTGCT
15280774 ATTAAAA
131 ATTAAAA
15280781 TTAAATCTGTTACCCAATTATGTTTGCAAATATAAAAATATCCATACTTGTAAACTCTAAATTTA
1 TTAAATCTGTTACCCAATTATGTTTGCAAATATAAAAATATCCATACTTGTAAACTCTAAATTTA
*
15280846 CAAATAACTCTTAAAATTGAGAGTTTTATCAAGTGAATGAATTTCAAATTTTAAAATTATTTGCT
66 CAAATAACTCTTAAAATTGAGAGTTTTATCAAGTGAATGAATTTCAAAATTTAAAATTATTTGCT
15280911 ATTAAAA
131 ATTAAAA
15280918 TTA
1 TTA
15280921 TATCACATGT
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (137 bp):
TTAAATCTGTTACCCAATTATGTTTGCAAATATAAAAATATCCATACTTGTAAACTCTAAATTTA
CAAATAACTCTTAAAATTGAGAGTTTTATCAAGTGAATGAATTTCAAAATTTAAAATTATTTGCT
ATTAAAA
Found at i:15292935 original size:3 final size:3
Alignment explanation
Indices: 15292927--15292971 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
15292917 ACAATTTTAA
*
15292927 AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15292972 TTTCTACCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:15295030 original size:27 final size:28
Alignment explanation
Indices: 15294998--15295051 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
15294988 AGGACTAACC
15294998 GCATGTTGTATC-AAAAGAAAGAGTGAA
1 GCATGTTGTATCAAAAAGAAAGAGTGAA
*
15295025 GCATGTTGTATCAAAAAGAAAGCGTGA
1 GCATGTTGTATCAAAAAGAAAGAGTGA
15295052 GCTTCACGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.22
Consensus pattern (28 bp):
GCATGTTGTATCAAAAAGAAAGAGTGAA
Found at i:15297980 original size:20 final size:21
Alignment explanation
Indices: 15297944--15297985 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15297934 AATAAATGAA
15297944 AAAAAAAAGAAAAAAATTTTT
1 AAAAAAAAGAAAAAAATTTTT
*
15297965 AAAAAAAAGAAAAAATTTTTT
1 AAAAAAAAGAAAAAAATTTTT
15297986 TAATTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAAAAAGAAAAAAATTTTT
Found at i:15298080 original size:28 final size:26
Alignment explanation
Indices: 15298020--15298072 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
15298010 TTAATATCAA
*
15298020 ATTTTAAATAAAAAATCAATAAATAC
1 ATTTTAAATAAAAAATAAATAAATAC
*
15298046 ATATTTAAATATAAAATTAAATAAATA
1 AT-TTTAAATA-AAAAATAAATAAATA
15298073 TACTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 8 0.35
28 13 0.57
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (26 bp):
ATTTTAAATAAAAAATAAATAAATAC
Found at i:15298355 original size:396 final size:384
Alignment explanation
Indices: 15297588--15298356 Score: 1113
Period size: 396 Copynumber: 1.9 Consensus size: 384
15297578 TATAAGAAAA
*
15297588 TTTTTAATTTTTTTTGTGAAACTCATTTAATATCAAATTTTAAATAAAAAATCGATAAATACATA
1 TTTTTAATTTTTTTTGTGAAACTCATTTAATATCAAATTTTAAATAAAAAATCAATAAATACATA
* *
15297653 TTTAATAATAAAATAATAAATTTACTTTGGATTCTTTCATTAGTTTTTTATTAAAAATCAACTTG
66 TTTAATAATAAAATAATAAATATACTTTGGATTCTATCATTAGTTTTTTATTAAAAATCAACTTG
*
15297718 GATTGCATTCAAATTATTTTTAAATACTTTCATATCGAATCAAAAAGATAAAAAAATTTATGGAT
131 GATTGCATTCAAATTATTTTTAAATACGTTCATATCGAATCAAAAAGAT-AAAAAATTTATGGAT
*
15297783 ATAATATTTTATCATCTTTAAAATCGACTCATTTTATTGAAAATCATTGTAGAAAAATAAAAATA
195 ATAATATTTTATCATCTTTAAAATCGACTCATTTTATTGAAAATAATTGTAGAAAAATAAAAATA
15297848 TACAAAAGGAAATAAACAAATGAGAATTCGACATTGACACCTTTATTAACATTTTTTTTTTTACA
260 TACAAAAGGAAATAAACAAATGAGAATTCGACATTGACACCTTTATTAACA-TTTTTTTTTTACA
15297913 AAAATGATCTAATTAAAAAACAATAAATGAAAAAAAAAAGAAAAAAATTTTTAAAAAAAAGAAAA
324 AAAATGATCTAATTAAAAAACAATAAAT--------AAAGAAAAAAATTTTTAAAAAAAAGAAAA
15297978 AATT
381 AATT
15297982 TTTTTAATTTTCTTTGTGTGAAACTCATTTAATATCAAATTTTAAATAAAAAATCAATAAATACA
1 TTTTTAATTTT-TTT-TGTGAAACTCATTTAATATCAAATTTTAAATAAAAAATCAATAAATACA
*
15298047 TATTTAA-ATATAAAATTAAATAAATATACTTT-TATTCTATCATTAG-TTTTTATTAAAAATCA
64 TATTTAATA-ATAAAA-T-AATAAATATACTTTGGATTCTATCATTAGTTTTTTATTAAAAATCA
15298109 ACTTGGATTG-ATTCAATATTGATTTTTTTTAAATACGTTCATATCGAATCAAAACAGAT-AAAA
126 ACTTGGATTGCATTCAA-ATT-A---TTTTTAAATACGTTCATATCGAATCAAAA-AGATAAAAA
* * *
15298172 ATTTATTGGATATTAATTATTTTATCATCTTTATTAATCTACTCATTTTATTATAAAATTAATTT
185 ATTTA-TGGATA-TAA-TATTTTATCATCTTTA-AAATCGACTCATTTTATT-GAAAA-TAA-TT
15298237 GATTAG-AAAATAAAAAATATACAAAAGGAAATAAACAAATGAGAATTCGACATTGACACCTTTA
243 G--TAGAAAAAT-AAAAATATACAAAAGGAAATAAACAAATGAGAATTCGACATTGACACCTTTA
*
15298301 TTAACA-TTTTTTTTTACAAAAATGATCTAATTAAAAAACAATAAATTAA-AAAAAAA
305 TTAACATTTTTTTTTTACAAAAATGATCTAATTAAAAAACAATAAATAAAGAAAAAAA
15298357 GCAAAAAAAT
Statistics
Matches: 344, Mismatches: 10, Indels: 39
0.88 0.03 0.10
Matches are distributed among these distances:
394 11 0.03
395 10 0.03
396 90 0.26
397 21 0.06
398 15 0.04
399 9 0.03
400 34 0.10
401 7 0.02
402 16 0.05
403 16 0.05
404 4 0.01
405 2 0.01
406 43 0.12
407 5 0.01
408 61 0.18
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (384 bp):
TTTTTAATTTTTTTTGTGAAACTCATTTAATATCAAATTTTAAATAAAAAATCAATAAATACATA
TTTAATAATAAAATAATAAATATACTTTGGATTCTATCATTAGTTTTTTATTAAAAATCAACTTG
GATTGCATTCAAATTATTTTTAAATACGTTCATATCGAATCAAAAAGATAAAAAATTTATGGATA
TAATATTTTATCATCTTTAAAATCGACTCATTTTATTGAAAATAATTGTAGAAAAATAAAAATAT
ACAAAAGGAAATAAACAAATGAGAATTCGACATTGACACCTTTATTAACATTTTTTTTTTACAAA
AATGATCTAATTAAAAAACAATAAATAAAGAAAAAAATTTTTAAAAAAAAGAAAAAATT
Found at i:15300131 original size:17 final size:18
Alignment explanation
Indices: 15300097--15300165 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 18
15300087 TTCCTTTAAG
*
15300097 ATTTATATTATTTTTTTT
1 ATTTATATTATTTATTTT
*
15300115 ATTT-TATTGTTTATTTT
1 ATTTATATTATTTATTTT
* * *
15300132 ACTTAAATGATTT-TTTT
1 ATTTATATTATTTATTTT
*
15300149 CTTTTGATATTATTTAT
1 -ATTT-ATATTATTTAT
15300166 ATTCAACTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
17 18 0.49
18 11 0.30
19 7 0.19
20 1 0.03
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (18 bp):
ATTTATATTATTTATTTT
Found at i:15301945 original size:11 final size:11
Alignment explanation
Indices: 15301929--15301962 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
15301919 CCACTTATAA
15301929 AAATTATTTTT
1 AAATTATTTTT
*
15301940 AAATTATTTTGA
1 AAATTATTTT-T
15301952 AAATTATTTTT
1 AAATTATTTTT
15301963 GCCTAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (11 bp):
AAATTATTTTT
Found at i:15303179 original size:14 final size:15
Alignment explanation
Indices: 15303160--15303205 Score: 69
Period size: 14 Copynumber: 3.2 Consensus size: 15
15303150 CTTTATAATA
15303160 TGAGAATATGATTT-
1 TGAGAATATGATTTG
15303174 TGAGAATATGATTTG
1 TGAGAATATGATTTG
*
15303189 TGAAAATATG-TTTG
1 TGAGAATATGATTTG
15303203 TGA
1 TGA
15303206 ATACAAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 21 0.70
15 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (15 bp):
TGAGAATATGATTTG
Found at i:15304327 original size:3 final size:3
Alignment explanation
Indices: 15304319--15304361 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
15304309 GATCAAGATG
15304319 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15304362 AGTTTAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15305628 original size:17 final size:15
Alignment explanation
Indices: 15305589--15305619 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15305579 GCTTCGGTAC
*
15305589 TTTTTTTTTTCTCAA
1 TTTTTTTATTCTCAA
15305604 TTTTTTTATTCTCAA
1 TTTTTTTATTCTCAA
15305619 T
1 T
15305620 GTTTGTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTATTCTCAA
Found at i:15309301 original size:12 final size:12
Alignment explanation
Indices: 15309284--15309330 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
15309274 TGATAAAATC
15309284 AAATTATTTTTT
1 AAATTATTTTTT
*
15309296 AAATTA-ATTTT
1 AAATTATTTTTT
**
15309307 AAATTATTTTGA
1 AAATTATTTTTT
15309319 AAATTATTTTTT
1 AAATTATTTTTT
15309331 CCTAATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
AAATTATTTTTT
Found at i:15309322 original size:23 final size:23
Alignment explanation
Indices: 15309284--15309329 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15309274 TGATAAAATC
**
15309284 AAATTATTTTTTAAATTAATTTT
1 AAATTATTTTGAAAATTAATTTT
*
15309307 AAATTATTTTGAAAATTATTTTT
1 AAATTATTTTGAAAATTAATTTT
15309330 TCCTAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
AAATTATTTTGAAAATTAATTTT
Found at i:15311490 original size:5 final size:5
Alignment explanation
Indices: 15311480--15311556 Score: 65
Period size: 5 Copynumber: 15.4 Consensus size: 5
15311470 AATAAAAGTT
*
15311480 AATAA AATAA AAT-A AATAA AA-AA ATTGAA AATAA AA-AA AATCAA AATATA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AATAA AAT-AA AATA-A
15311530 AA-ATA AATAA AATAA AATTAA AA-AA AA
1 AATA-A AATAA AATAA AA-TAA AATAA AA
15311557 AGAGAAAACT
Statistics
Matches: 62, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
4 15 0.24
5 29 0.47
6 18 0.29
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:15311498 original size:9 final size:9
Alignment explanation
Indices: 15311484--15311545 Score: 54
Period size: 9 Copynumber: 6.3 Consensus size: 9
15311474 AAAGTTAATA
15311484 AAATAAAAT
1 AAATAAAAT
15311493 AAATAAAA-
1 AAATAAAAT
15311501 AAATTGAAAAT
1 AAA-T-AAAAT
*
15311512 AAAAAAAAT
1 AAATAAAAT
15311521 CAAAATATAAAAT
1 ---AA-ATAAAAT
15311534 AAATAAAAT
1 AAATAAAAT
15311543 AAA
1 AAA
15311546 ATTAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
8 3 0.07
9 24 0.55
10 6 0.14
11 3 0.07
12 2 0.05
13 6 0.14
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:15311516 original size:16 final size:14
Alignment explanation
Indices: 15311480--15311546 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 14
15311470 AATAAAAGTT
15311480 AATAAAATAAAAT-A
1 AATAAAA-AAAATAA
*
15311494 AATAAAAAAATTGAA
1 AATAAAAAAAAT-AA
15311509 AATAAAAAAAATCAA
1 AATAAAAAAAAT-AA
15311524 AATATAAAATAAATAA
1 AATA-AAAA-AAATAA
15311540 AATAAAA
1 AATAAAA
15311547 TTAAAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
13 4 0.09
14 7 0.15
15 21 0.46
16 10 0.22
17 4 0.09
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (14 bp):
AATAAAAAAAATAA
Found at i:15312368 original size:3 final size:3
Alignment explanation
Indices: 15312360--15312390 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15312350 ACGAAAAGAA
15312360 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15312391 TGTTATACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15312760 original size:55 final size:55
Alignment explanation
Indices: 15312691--15313339 Score: 292
Period size: 55 Copynumber: 11.8 Consensus size: 55
15312681 AACGACCAAT
* * * *
15312691 ATTGAACCATAAGTTTAAAAGATGATTAGGACTGAGCTGAGATCAAATGATCGAG
1 ATTGAACCACAAGTTAAAAAAATGATTAGGACTGAGCTGAGATCGAATGATCGAG
* ** * * * * *
15312746 ATTGAATCACAAGTTAAGAAAGCTGACCTA-GA-TCGGGTCT-AGGTCAAACGATCGAG
1 ATTGAACCACAAGTTAA-AAAAATGA-TTAGGACT-GAG-CTGAGATCGAATGATCGAG
* ** * *
15312802 ATTAAATTACAAGTTGAGAAAATGATCT-GGACTGAGCTGAGATCGAATGATC-AG
1 ATTGAACCACAAGTTAAAAAAATGAT-TAGGACTGAGCTGAGATCGAATGATCGAG
** * * * * * *
15312856 ATTGAACCGTAAGTCAGAGAAATGATCTA-GACTGAGCAGAGATCAAATGA-CTAAG
1 ATTGAACCACAAGTTAAAAAAATGAT-TAGGACTGAGCTGAGATCGAATGATC-GAG
* * * * *
15312911 ATTAAACCACAAGTCAAAAAAATAATCT-GGACTAAGCTAAGATCGAATGATCGAG
1 ATTGAACCACAAGTTAAAAAAATGAT-TAGGACTGAGCTGAGATCGAATGATCGAG
* * * * * * *
15312966 ATTGAACCAAAAGTTAAGAAAATGATTTGGATTAAGCTGAGATCGAACGA-CTAAG
1 ATTGAACCACAAGTTAAAAAAATGATTAGGACTGAGCTGAGATCGAATGATC-GAG
* * * * *
15313021 ATTGAATCATAAGTAAAAAAAAATGATTTGGACTGAG-TCGAGATCGAATGA-CTAGG
1 ATTGAACCACAAGT-TAAAAAAATGATTAGGACTGAGCT-GAGATCGAATGATCGA-G
* * * * * ** * *
15313077 ATTGATCCATAAGTCAAGAAAATGATCTA-GACTAAGCCAAGATCAAACGATC-AG
1 ATTGAACCACAAGTTAAAAAAATGAT-TAGGACTGAGCTGAGATCGAATGATCGAG
* * *
15313131 AATTGAACCATAAGTTAAAAAAATGATCTA-GACTGAG-TCGAGATCGAAT-AACTAGG
1 -ATTGAACCACAAGTTAAAAAAATGAT-TAGGACTGAGCT-GAGATCGAATGATCGA-G
* * * * ** * * *
15313187 ATTGAACTATAAGTTAAAAAAATGATTTGGATTGAGCCAAGATCAAACGACCGAG
1 ATTGAACCACAAGTTAAAAAAATGATTAGGACTGAGCTGAGATCGAATGATCGAG
* * * * * ** * *
15313242 ATTGAACTACAAATAAAAAAAATAAGCT-GGACTGAGCCAAGATTGAACGATC-AGG
1 ATTGAACCACAAGTTAAAAAAATGA-TTAGGACTGAGCTGAGATCGAATGATCGA-G
* * * * *
15313297 ATTGAATCATAAGTAAAAAAAATGATCT-GGACTAAACTGAGAT
1 ATTGAACCACAAGTTAAAAAAATGAT-TAGGACTGAGCTGAGAT
15313340 TAGGGTCGAC
Statistics
Matches: 457, Mismatches: 106, Indels: 62
0.73 0.17 0.10
Matches are distributed among these distances:
53 1 0.00
54 48 0.11
55 313 0.68
56 91 0.20
57 4 0.01
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (55 bp):
ATTGAACCACAAGTTAAAAAAATGATTAGGACTGAGCTGAGATCGAATGATCGAG
Found at i:15313040 original size:110 final size:110
Alignment explanation
Indices: 15312820--15313331 Score: 473
Period size: 110 Copynumber: 4.7 Consensus size: 110
15312810 ACAAGTTGAG
* *
15312820 AAAATGATCTGGACTGAGCTGAGATCGAATGATCA-GATTGAACCGTAAG-TCAGAGAAATGATC
1 AAAATGATCTGGACTGAGCTGAGATCGAATGATCAGGATTGAACCATAAGTTAAGA-AAATGATC
* * * * * * *
15312883 TAGACTGAGCAGAGATCAAATGACTAAGATTAAACCACAAGTCAAA
65 TGGACTAAGCCGAGATCAAACGACTAAGATTGAACCATAAGTAAAA
* * * * *
15312929 AAAATAATCTGGACTAAGCTAAGATCGAATGATC-GAGATTGAACCAAAAGTTAAGAAAATGATT
1 AAAATGATCTGGACTGAGCTGAGATCGAATGATCAG-GATTGAACCATAAGTTAAGAAAATGATC
* * * *
15312993 TGGATTAAGCTGAGATCGAACGACTAAGATTGAATCATAAGTAAAAA
65 TGGACTAAGCCGAGATCAAACGACTAAGATTGAACCATAAGT-AAAA
* * *
15313040 AAAATGATTTGGACTGAG-TCGAGATCGAATGA-CTAGGATTGATCCATAAGTCAAGAAAATGAT
1 AAAATGATCTGGACTGAGCT-GAGATCGAATGATC-AGGATTGAACCATAAGTTAAGAAAATGAT
* * * *
15313103 CTAGACTAAGCCAAGATCAAACGA-TCAGAATTGAACCATAAGTTAAA
64 CTGGACTAAGCCGAGATCAAACGACTAAG-ATTGAACCATAAGTAAAA
* * * *
15313150 AAAATGATCTAGACTGAG-TCGAGATCGAAT-AACTAGGATTGAACTATAAGTTAAAAAAATGAT
1 AAAATGATCTGGACTGAGCT-GAGATCGAATGATC-AGGATTGAACCATAAGTTAAGAAAATGAT
* * * * ** * * *
15313213 TTGGATTGAGCCAAGATCAAACGACCGAGATTGAACTACAAATAAAA
64 CTGGACTAAGCCGAGATCAAACGACTAAGATTGAACCATAAGTAAAA
* * ** * * * * *
15313260 AAAATAAGCTGGACTGAGCCAAGATTGAACGATCAGGATTGAATCATAAGTAAAAAAAATGATCT
1 AAAATGATCTGGACTGAGCTGAGATCGAATGATCAGGATTGAACCATAAGTTAAGAAAATGATCT
15313325 GGACTAA
66 GGACTAA
15313332 ACTGAGATTA
Statistics
Matches: 328, Mismatches: 63, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
109 32 0.10
110 203 0.62
111 92 0.28
112 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (110 bp):
AAAATGATCTGGACTGAGCTGAGATCGAATGATCAGGATTGAACCATAAGTTAAGAAAATGATCT
GGACTAAGCCGAGATCAAACGACTAAGATTGAACCATAAGTAAAA
Found at i:15313112 original size:166 final size:164
Alignment explanation
Indices: 15312812--15313339 Score: 508
Period size: 166 Copynumber: 3.2 Consensus size: 164
15312802 ATTAAATTAC
* * * * * *
15312812 AAGTTGAGAAAATGATCTGGACTGAGCTGAGATCGAATGA-TCAGATTGAACCGTAAGTCAGAGA
1 AAGTTAAGAAAATGATCTGGACTGAGCTGAGATCGAATGACTAAGATTGAA-CATAAGTAAAAAA
* * *
15312876 AATGATCTAGACTGAGCAGAGATCAAATGACTAAGATTAAACCACAAGTCAAAAAAATAATCTGG
65 AATGATTTGGACTGAGCAGAGATCAAATGACTAAGATTAAACCACAAGTCAAAAAAATAATCTAG
* * *
15312941 ACTAAGCTAAGATCGAATGATC-GAGATTGAACCAA
130 ACTAAGCCAAGATCAAACGATCAGA-ATTGAACCAA
* * * *
15312976 AAGTTAAGAAAATGATTTGGATTAAGCTGAGATCGAACGACTAAGATTGAATCATAAGTAAAAAA
1 AAGTTAAGAAAATGATCTGGACTGAGCTGAGATCGAATGACTAAGATTGAA-CATAAGT-AAAAA
* * * * * * *
15313041 AAATGATTTGGACTGAGTC-GAGATCGAATGACTAGGATTGATCCATAAGTCAAGAAAATGATCT
64 AAATGATTTGGACTGAG-CAGAGATCAAATGACTAAGATTAAACCACAAGTCAAAAAAATAATCT
*
15313105 AGACTAAGCCAAGATCAAACGATCAGAATTGAACCAT
128 AGACTAAGCCAAGATCAAACGATCAGAATTGAACCAA
* * * * *
15313142 AAGTTAAAAAAATGATCTAGACTGAG-TCGAGATCGAATAACTAGGATTGAACTATAAGTTAAAA
1 AAGTTAAGAAAATGATCTGGACTGAGCT-GAGATCGAATGACTAAGATTGAAC-ATAAGTAAAAA
* * ** * * * * *
15313206 AAATGATTTGGATTGAGCCA-AGATCAAACGACCGAGATTGAACTACAAATAAAAAAAATAAGCT
64 AAATGATTTGGACTGAG-CAGAGATCAAATGACTAAGATTAAACCACAAGTCAAAAAAATAATCT
* * ** * * *
15313270 GGACTGAGCCAAGATTGAACGATCAGGATTGAATCAT
128 AGACTAAGCCAAGATCAAACGATCAGAATTGAACCAA
* * * *
15313307 AAGTAAAAAAAATGATCTGGACTAAACTGAGAT
1 AAGTTAAGAAAATGATCTGGACTGAGCTGAGAT
15313340 TAGGGTCGAC
Statistics
Matches: 297, Mismatches: 59, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
164 35 0.12
165 127 0.43
166 132 0.44
167 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (164 bp):
AAGTTAAGAAAATGATCTGGACTGAGCTGAGATCGAATGACTAAGATTGAACATAAGTAAAAAAA
ATGATTTGGACTGAGCAGAGATCAAATGACTAAGATTAAACCACAAGTCAAAAAAATAATCTAGA
CTAAGCCAAGATCAAACGATCAGAATTGAACCAA
Found at i:15313192 original size:221 final size:219
Alignment explanation
Indices: 15312820--15313331 Score: 549
Period size: 221 Copynumber: 2.3 Consensus size: 219
15312810 ACAAGTTGAG
* *
15312820 AAAATGATCTGGACTGAGCTGAGATCGAATGATCA-GATTGAACCGTAAGTC-AGAGAAATGATC
1 AAAATGATCTGGACTGAGC-GAGATCGAATGATCAGGATTGATCCATAAGTCAAGA-AAATGATC
* * *
15312883 TAGACTGAGCAGAGATCAAATGACTAAGATTAAACCACAAGTCAAAAAAATAATCTGGACTAAGC
64 TAGACTAAGCAGAGATCAAACGACTAAGATTAAACCACAAGTCAAAAAAATAATCTAGACTAAGC
* * * ** *
15312948 TAAGATCGAATGATCGAGATTGAACCAAAAGTTAAGAAAATGATTTGGATTAAGCTGAGATCGAA
129 TAAGATCGAATAATAGAGATTGAACCAAAAGTTAAAAAAATGATTTGGATTAAGCCAAGATCAAA
*
15313013 CGACTAAGATTGAA-T-CATAAGTAAAAA
194 CGACCAAGATTGAACTACA-AA-T-AAAA
*
15313040 AAAATGATTTGGACTGAGTCGAGATCGAATGA-CTAGGATTGATCCATAAGTCAAGAAAATGATC
1 AAAATGATCTGGACTGAG-CGAGATCGAATGATC-AGGATTGATCCATAAGTCAAGAAAATGATC
* * * * * *
15313104 TAGACTAAGCCA-AGATCAAACGA-TCAGAATTGAACCATAAGTTAAAAAAATGATCTAGACTGA
64 TAGACTAAG-CAGAGATCAAACGACTAAG-ATTAAACCACAAGTCAAAAAAATAATCTAGACTAA
* * * *
15313167 G-TCGAGATCGAATAACTAG-GATTGAACTATAAGTTAAAAAAATGATTTGGATTGAGCCAAGAT
127 GCT-AAGATCGAATAA-TAGAGATTGAACCAAAAGTTAAAAAAATGATTTGGATTAAGCCAAGAT
*
15313230 CAAACGACCGAGATTGAACTACAAATAAAA
190 CAAACGACCAAGATTGAACTACAAATAAAA
* * * * * * *
15313260 AAAATAAGCTGGACTGAGCCAAGATTGAACGATCAGGATTGAAT-CATAAGTAAAAAAAATGATC
1 AAAATGATCTGGACTGAG-CGAGATCGAATGATCAGGATTG-ATCCATAAGTCAAGAAAATGATC
*
15313324 TGGACTAA
64 TAGACTAA
15313332 ACTGAGATTA
Statistics
Matches: 246, Mismatches: 34, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
219 1 0.00
220 95 0.39
221 138 0.56
222 10 0.04
223 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (219 bp):
AAAATGATCTGGACTGAGCGAGATCGAATGATCAGGATTGATCCATAAGTCAAGAAAATGATCTA
GACTAAGCAGAGATCAAACGACTAAGATTAAACCACAAGTCAAAAAAATAATCTAGACTAAGCTA
AGATCGAATAATAGAGATTGAACCAAAAGTTAAAAAAATGATTTGGATTAAGCCAAGATCAAACG
ACCAAGATTGAACTACAAATAAAA
Found at i:15313340 original size:55 final size:54
Alignment explanation
Indices: 15312820--15313331 Score: 295
Period size: 55 Copynumber: 9.3 Consensus size: 54
15312810 ACAAGTTGAG
* * * * * * *
15312820 AAAATGATCTGGACTGAGCTGAGATCGAATGATCA-GATTGAACCGTAAGTCAGA
1 AAAATGATCTGGACTAAGCTAAGATCGAACGA-CAGGATTGAATCATAAGTAAAA
* * * * * * * * * *
15312874 GAAATGATCTAGACTGAGC-AGAGATCAAATGACTAAGATTAAACCACAAGTCAAA
1 AAAATGATCTGGACTAAGCTA-AGATCGAACGAC-AGGATTGAATCATAAGTAAAA
* * * * * *
15312929 AAAATAATCTGGACTAAGCTAAGATCGAATGATC-GAGATTGAACCAAAAGTTAAG
1 AAAATGATCTGGACTAAGCTAAGATCGAACGA-CAG-GATTGAATCATAAGTAAAA
* * * *
15312984 AAAATGATTTGGATTAAGCTGAGATCGAACGACTAAGATTGAATCATAAGTAAAAA
1 AAAATGATCTGGACTAAGCTAAGATCGAACGAC-AGGATTGAATCATAAGT-AAAA
* * * * * *
15313040 AAAATGATTTGGACTGAG-TCGAGATCGAATGACTAGGATTG-ATCCATAAGTCAAG
1 AAAATGATCTGGACTAAGCT-AAGATCGAACGAC-AGGATTGAAT-CATAAGTAAAA
* * * * * *
15313095 AAAATGATCTAGACTAAGCCAAGATCAAACGATCAGAATTGAACCATAAGTTAAA
1 AAAATGATCTGGACTAAGCTAAGATCGAACGA-CAGGATTGAATCATAAGTAAAA
* * * ** *
15313150 AAAATGATCTAGACTGAG-TCGAGATCGAATAACTAGGATTGAA-CTATAAGTTAAA
1 AAAATGATCTGGACTAAGCT-AAGATCGAACGAC-AGGATTGAATC-ATAAGTAAAA
* * * * * *
15313205 AAAATGATTTGGATTGAGCCAAGATCAAACGACCGAGATTGAACTACA-AA-TAAAA
1 AAAATGATCTGGACTAAGCTAAGATCGAACGACAG-GATTGAA-T-CATAAGTAAAA
* * * * *
15313260 AAAATAAGCTGGACTGAGCCAAGATTGAACGATCAGGATTGAATCATAAGTAAAA
1 AAAATGATCTGGACTAAGCTAAGATCGAACGA-CAGGATTGAATCATAAGTAAAA
15313315 AAAATGATCTGGACTAA
1 AAAATGATCTGGACTAA
15313332 ACTGAGATTA
Statistics
Matches: 361, Mismatches: 72, Indels: 49
0.75 0.15 0.10
Matches are distributed among these distances:
53 3 0.01
54 35 0.10
55 269 0.75
56 52 0.14
57 1 0.00
58 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (54 bp):
AAAATGATCTGGACTAAGCTAAGATCGAACGACAGGATTGAATCATAAGTAAAA
Found at i:15318595 original size:17 final size:15
Alignment explanation
Indices: 15318575--15318621 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
15318565 TTTTAGCATA
15318575 TTGTTAGTTATTATATT
1 TTGTT-GTTA-TATATT
15318592 TTGTTGTTATATATT
1 TTGTTGTTATATATT
*
15318607 AT-TTGTTA-ATATT
1 TTGTTGTTATATATT
15318620 TT
1 TT
15318622 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 7 0.25
16 4 0.14
17 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
TTGTTGTTATATATT
Found at i:15318751 original size:16 final size:15
Alignment explanation
Indices: 15318730--15318779 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
15318720 TAATATTATC
15318730 TTTTTTA-ATTAATTCA
1 TTTTTTATATT-ATT-A
15318746 TTTTTTATATTATTA
1 TTTTTTATATTATTA
*
15318761 -TTTTTAAATATATTA
1 TTTTTTATAT-TATTA
15318776 TTTT
1 TTTT
15318780 ATGAGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 8 0.27
15 6 0.20
16 13 0.43
17 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTATATTATTA
Found at i:15318757 original size:17 final size:14
Alignment explanation
Indices: 15318730--15318779 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 14
15318720 TAATATTATC
15318730 TTTTTTAATTAATTCA
1 TTTTTTAATT-ATT-A
15318746 TTTTTTATATTATTA
1 TTTTTTA-ATTATTA
*
15318761 TTTTTAAATATATTA
1 TTTTTTAAT-TATTA
15318776 TTTT
1 TTTT
15318780 ATGAGATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 2 0.06
15 16 0.52
16 10 0.32
17 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTTAATTATTA
Found at i:15318779 original size:30 final size:30
Alignment explanation
Indices: 15318722--15318779 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
15318712 TTGGTAAATA
*
15318722 ATATTATCTTTTTTAATTAATTCATTTTTT
1 ATATTATCTTTTTTAAATAATTCATTTTTT
15318752 ATATTAT-TATTTTTAAATATATT-ATTTT
1 ATATTATCT-TTTTTAAATA-ATTCATTTT
15318780 ATGAGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 21 0.84
31 3 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
ATATTATCTTTTTTAAATAATTCATTTTTT
Found at i:15319142 original size:61 final size:61
Alignment explanation
Indices: 15319034--15319149 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
15319024 TGAATTTTAG
* *
15319034 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGGTAAGAATTTGTGAGTTTGAA
1 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGATAAGAATTTATGAGTTTGAA
* * * * * *
15319095 TTTACTATA-TTTTATGTATTTTATAATTCTATTATTTATGATGAGAATTTATGAG
1 TTTACTA-AGTTTTATATATTTCATAATTCCATCATCTATGATAAGAATTTATGAG
15319150 ATTTTTACTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 45 0.98
62 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (61 bp):
TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGATAAGAATTTATGAGTTTGAA
Found at i:15319537 original size:55 final size:55
Alignment explanation
Indices: 15319478--15319822 Score: 257
Period size: 55 Copynumber: 6.3 Consensus size: 55
15319468 AATAACTGGT
* * *
15319478 ATTGAACCATAAGTCAGGAAAATGATCTAGACTAAGCCAAGATCGAACGATTAAG
1 ATTGAACCACAAGTCAGGAAAATGATCTGGACTAAGCCAAGATCGAACGACTAAG
* * * * * * *
15319533 ATTGAACCAAAAGTCAAGAAAATAATCTGGATTAAGCCGAGATCAAACAACTGAA-
1 ATTGAACCACAAGTCAGGAAAATGATCTGGACTAAGCCAAGATCGAACGACT-AAG
* * *** * **
15319588 ATTGAACCACAAGTCA-GAAAATGATTTGGACTGAGTTGAGATCGAATGACTGGG
1 ATTGAACCACAAGTCAGGAAAATGATCTGGACTAAGCCAAGATCGAACGACTAAG
* * ** * * * **
15319642 ATTGAACCACAAGTCAAGAAAATGATTTGGACCGAGCTAAGATCAAACTACCGAG
1 ATTGAACCACAAGTCAGGAAAATGATCTGGACTAAGCCAAGATCGAACGACTAAG
* * * * *
15319697 ATTGAACCACAAGTTAGAAAAATGATCTAGG-CTAAGTCAAGATCGAATGACTAGG
1 ATTGAACCACAAGTCAGGAAAATGATCT-GGACTAAGCCAAGATCGAACGACTAAG
* * * * ** * * **
15319752 A-TGAAACCACAAGTCAGTAAAATGATTTGGGCTGAGCTGAGATAGAATGACCGAG
1 ATTG-AACCACAAGTCAGGAAAATGATCTGGACTAAGCCAAGATCGAACGACTAAG
15319807 ATTGAACCACAAGTCA
1 ATTGAACCACAAGTCA
15319823 AAAAAATAAT
Statistics
Matches: 229, Mismatches: 54, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
54 46 0.20
55 177 0.77
56 6 0.03
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (55 bp):
ATTGAACCACAAGTCAGGAAAATGATCTGGACTAAGCCAAGATCGAACGACTAAG
Found at i:15319656 original size:109 final size:109
Alignment explanation
Indices: 15319478--15319767 Score: 314
Period size: 109 Copynumber: 2.6 Consensus size: 109
15319468 AATAACTGGT
* * * * * * * *
15319478 ATTGAACCATAAGTCAGGAAAATGATCTAGACTAAGCCAAGATCGAACGATTAAGATTGAACCAA
1 ATTGAACCACAAGTCA-GAAAATGATTTGGACTAAGTCAAGATCGAATGACTAGGATTGAACCAC
** * *
15319543 AAGTCAAGAAAATAATCTGGATTAAGCCGAGATCAAACAACTGAA
65 AAGTCAAGAAAATAATCTGGACCAAGCCAAGATCAAACAACCGAA
* ** *
15319588 ATTGAACCACAAGTCAGAAAATGATTTGGACTGAGTTGAGATCGAATGACTGGGATTGAACCACA
1 ATTGAACCACAAGTCAGAAAATGATTTGGACTAAGTCAAGATCGAATGACTAGGATTGAACCACA
* * * * * *
15319653 AGTCAAGAAAATGATTTGGACCGAGCTAAGATCAAACTACCGAG
66 AGTCAAGAAAATAATCTGGACCAAGCCAAGATCAAACAACCGAA
* *
15319697 ATTGAACCACAAGTTAGAAAAATGATCTAGG-CTAAGTCAAGATCGAATGACTAGGA-TGAAACC
1 ATTGAACCACAAGTCAG-AAAATGAT-TTGGACTAAGTCAAGATCGAATGACTAGGATTG-AACC
15319760 ACAAGTCA
63 ACAAGTCA
15319768 GTAAAATGAT
Statistics
Matches: 149, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
109 90 0.60
110 56 0.38
111 3 0.02
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.20
Consensus pattern (109 bp):
ATTGAACCACAAGTCAGAAAATGATTTGGACTAAGTCAAGATCGAATGACTAGGATTGAACCACA
AGTCAAGAAAATAATCTGGACCAAGCCAAGATCAAACAACCGAA
Found at i:15319774 original size:110 final size:110
Alignment explanation
Indices: 15319478--15319829 Score: 383
Period size: 110 Copynumber: 3.2 Consensus size: 110
15319468 AATAACTGGT
* * * * * * * *
15319478 ATTGAACCATAAGTCAGGAAAATGATCTAGACTAAGCCAAGATCGAACGATTAAGATTGAACCAA
1 ATTGAACCACAAGTCAGAAAAATGATCTAGGCTAAGTCAAGATCGAATGACTAGGATTGAACCAC
* * * * * * * *
15319543 AAGTCAAGAAAATAATCTGGATTAAGCCGAGATCAAACAACTGAA
66 AAGTCAAGAAAATGATTTGGACTGAGCTGAGATCAAACTACCGAG
* * ** *
15319588 ATTGAACCACAAGTCAG-AAAATGAT-TTGGACTGAGTTGAGATCGAATGACTGGGATTGAACCA
1 ATTGAACCACAAGTCAGAAAAATGATCTAGG-CTAAGTCAAGATCGAATGACTAGGATTGAACCA
* *
15319651 CAAGTCAAGAAAATGATTTGGACCGAGCTAAGATCAAACTACCGAG
65 CAAGTCAAGAAAATGATTTGGACTGAGCTGAGATCAAACTACCGAG
*
15319697 ATTGAACCACAAGTTAGAAAAATGATCTAGGCTAAGTCAAGATCGAATGACTAGGA-TGAAACCA
1 ATTGAACCACAAGTCAGAAAAATGATCTAGGCTAAGTCAAGATCGAATGACTAGGATTG-AACCA
*
15319761 CAAGTC-AGTAAAATGATTTGGGCTGAGCTGAGAT-AGAA-TGACCGAG
65 CAAGTCAAG-AAAATGATTTGGACTGAGCTGAGATCA-AACT-ACCGAG
*
15319807 ATTGAACCACAAGTCAAAAAAAT
1 ATTGAACCACAAGTCAGAAAAAT
15319830 AATTTGAATT
Statistics
Matches: 202, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
108 2 0.01
109 90 0.45
110 107 0.53
111 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (110 bp):
ATTGAACCACAAGTCAGAAAAATGATCTAGGCTAAGTCAAGATCGAATGACTAGGATTGAACCAC
AAGTCAAGAAAATGATTTGGACTGAGCTGAGATCAAACTACCGAG
Found at i:15325422 original size:15 final size:15
Alignment explanation
Indices: 15325404--15325477 Score: 82
Period size: 15 Copynumber: 4.9 Consensus size: 15
15325394 AAAAGTCAGT
15325404 AAAATAAAATAAATC-
1 AAAATAAAATAAA-CA
15325419 AAAATAAAATAAATCA
1 AAAATAAAATAAA-CA
15325435 AAATATAAAATAAACA
1 AAA-ATAAAATAAACA
*
15325451 AAAATAAAAT-CA-A
1 AAAATAAAATAAACA
15325464 AAAATAAAAATAAA
1 AAAAT-AAAATAAA
15325478 ATGAAAAAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.11
14 6 0.11
15 23 0.43
16 8 0.15
17 10 0.19
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAACA
Found at i:15325461 original size:28 final size:28
Alignment explanation
Indices: 15325424--15325477 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
15325414 AAATCAAAAT
*
15325424 AAAATAAATCAAAATAT-AAAATAAACA
1 AAAATAAATCAAAAAATAAAAATAAACA
15325451 AAAATAAAATCAAAAAATAAAAATAAA
1 AAAAT-AAATCAAAAAATAAAAATAAA
15325478 ATGAAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 11 0.46
29 8 0.33
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (28 bp):
AAAATAAATCAAAAAATAAAAATAAACA
Found at i:15325465 original size:6 final size:5
Alignment explanation
Indices: 15325403--15325484 Score: 57
Period size: 5 Copynumber: 16.0 Consensus size: 5
15325393 TAAAAGTCAG
15325403 TAAAA TAAAA T-AAA TCAAAA TAAAA T-AAA TCAAAATA TAAAA TAAACA
1 TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA T--AAA-A TAAAA TAAA-A
*
15325451 -AAAA TAAAA T-CAA -AAAA TAAAAA TAAAA TGAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA T-AAAA
15325485 AAGAAAAACT
Statistics
Matches: 63, Mismatches: 2, Indels: 23
0.72 0.02 0.26
Matches are distributed among these distances:
4 13 0.21
5 29 0.46
6 17 0.27
7 2 0.03
8 2 0.03
ACGTcount: A:0.76, C:0.05, G:0.01, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:15325474 original size:19 final size:19
Alignment explanation
Indices: 15325450--15325492 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
15325440 TAAAATAAAC
*
15325450 AAAAATAAAATCAAAAAAT
1 AAAAATAAAATCAAAAAAG
*
15325469 AAAAATAAAATGAAAAAAG
1 AAAAATAAAATCAAAAAAG
15325488 AAAAA
1 AAAAA
15325493 CTCATGATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAAATAAAATCAAAAAAG
Found at i:15326272 original size:3 final size:3
Alignment explanation
Indices: 15326266--15326302 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
15326256 AACAGAAAGG
15326266 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
15326303 CAATATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15326892 original size:38 final size:37
Alignment explanation
Indices: 15326815--15326899 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 37
15326805 ATTTATTAAC
*
15326815 TAAATAGTTAATTTTTAATTAAAATAATGTTAAAAAA
1 TAAATAATTAATTTTTAATTAAAATAATGTTAAAAAA
* *
15326852 TAAATTATTAATTTTTTTATTATAAAT-ATG-TAAAAGAA
1 TAAATAATTAA-TTTTTAATTA-AAATAATGTTAAAA-AA
15326890 TAAATAATTA
1 TAAATAATTA
15326900 CAAATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.34
38 23 0.56
39 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (37 bp):
TAAATAATTAATTTTTAATTAAAATAATGTTAAAAAA
Found at i:15328619 original size:15 final size:16
Alignment explanation
Indices: 15328601--15328630 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15328591 TTTTTTTTTT
15328601 TTCTCAAT-TTTGTTA
1 TTCTCAATGTTTGTTA
15328616 TTCTCAATGTTTGTT
1 TTCTCAATGTTTGTT
15328631 TACGCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.60
Consensus pattern (16 bp):
TTCTCAATGTTTGTTA
Found at i:15329732 original size:2 final size:2
Alignment explanation
Indices: 15329725--15329751 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15329715 TTAATCTAGT
15329725 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15329752 CTTTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15332311 original size:19 final size:19
Alignment explanation
Indices: 15332273--15332313 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15332263 GATATAATTT
*
15332273 TTTTAAAATTTTTAATTAA
1 TTTTAAAATATTTAATTAA
15332292 TTTTATAAATATTTAA-TAA
1 TTTTA-AAATATTTAATTAA
15332311 TTT
1 TTT
15332314 AAATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAAATATTTAATTAA
Found at i:15332829 original size:16 final size:15
Alignment explanation
Indices: 15332804--15332854 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
15332794 AGTTTTAGGC
*
15332804 ATTTTAGATTTGGATT
1 ATTTT-GATTTGAATT
*
15332820 ATTTTGGATTAGAATT
1 ATTTT-GATTTGAATT
15332836 ATTTTGATTTTGAATT
1 ATTTTGA-TTTGAATT
15332852 ATT
1 ATT
15332855 CGAATTTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 2 0.07
16 28 0.93
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (15 bp):
ATTTTGATTTGAATT
Found at i:15334972 original size:2 final size:2
Alignment explanation
Indices: 15334967--15335008 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15334957 GTGTGTGTGT
15334967 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15335009 TCACCCCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15335793 original size:3 final size:3
Alignment explanation
Indices: 15335787--15335817 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15335777 TTAAATAATA
15335787 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
15335818 CTATGTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:15340169 original size:36 final size:36
Alignment explanation
Indices: 15340122--15340193 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
15340112 GATAATTCAA
*
15340122 GCTTTTTAAGCAATTAAGGTCATGTTTGGTGCATAG
1 GCTTTTTAAGCAATTAAGGTCACGTTTGGTGCATAG
15340158 GCTTTTTAAGCAATTAAGGTCACGTTTGGTGCATAG
1 GCTTTTTAAGCAATTAAGGTCACGTTTGGTGCATAG
15340194 AATGATAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (36 bp):
GCTTTTTAAGCAATTAAGGTCACGTTTGGTGCATAG
Found at i:15341249 original size:17 final size:17
Alignment explanation
Indices: 15341220--15341253 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15341210 AAAAACACCA
15341220 TTATGAGCATGATTTGG
1 TTATGAGCATGATTTGG
15341237 TTATG-GCATTGATTTGG
1 TTATGAGCA-TGATTTGG
15341254 CCAAGTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.21, C:0.06, G:0.29, T:0.44
Consensus pattern (17 bp):
TTATGAGCATGATTTGG
Found at i:15341710 original size:31 final size:32
Alignment explanation
Indices: 15341672--15341739 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
15341662 TTGAAATAGC
15341672 TGTTGACAGCAATCAAGATCTA-TCCCTCATT
1 TGTTGACAGCAATCAAGATCTATTCCCTCATT
* * * * *
15341703 TGTTGACAGTAATTACGATCTATTTCCTGATT
1 TGTTGACAGCAATCAAGATCTATTCCCTCATT
15341735 TGTTG
1 TGTTG
15341740 GGATTTAGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 19 0.61
32 12 0.39
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTTGACAGCAATCAAGATCTATTCCCTCATT
Found at i:15341755 original size:29 final size:29
Alignment explanation
Indices: 15341719--15341774 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
15341709 CAGTAATTAC
*
15341719 GATCTATTTCCTGATTTGTTGGGATTTAG
1 GATCTATTTCCTAATTTGTTGGGATTTAG
*
15341748 GATCTATTTCGTAATTTGTTGGGATTT
1 GATCTATTTCCTAATTTGTTGGGATTT
15341775 CCTGATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.18, C:0.09, G:0.23, T:0.50
Consensus pattern (29 bp):
GATCTATTTCCTAATTTGTTGGGATTTAG
Found at i:15343209 original size:14 final size:14
Alignment explanation
Indices: 15343190--15343247 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 14
15343180 GAATGTATGA
15343190 TAAATATATATTAT
1 TAAATATATATTAT
15343204 T-AA-ATATATTAT
1 TAAATATATATTAT
*
15343216 TAAATGTATA--A-
1 TAAATATATATTAT
*
15343227 TAAATATTTATTAT
1 TAAATATATATTAT
15343241 TAAATAT
1 TAAATAT
15343248 TATGCGGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
11 8 0.22
12 11 0.31
13 5 0.14
14 12 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
TAAATATATATTAT
Found at i:15343212 original size:12 final size:12
Alignment explanation
Indices: 15343195--15343247 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
15343185 TATGATAAAT
15343195 ATATATTATTAA
1 ATATATTATTAA
15343207 ATATATTATTAA
1 ATATATTATTAA
* *
15343219 ATGTA-TAATAA
1 ATATATTATTAA
15343230 ATATTTATTATTAA
1 ATA--TATTATTAA
15343244 ATAT
1 ATAT
15343248 TATGCGGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 7 0.21
12 17 0.50
13 2 0.06
14 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
ATATATTATTAA
Found at i:15343231 original size:37 final size:38
Alignment explanation
Indices: 15343181--15343286 Score: 137
Period size: 37 Copynumber: 2.8 Consensus size: 38
15343171 GGGTTATGGG
* *
15343181 AATGTATGATAAATATATATTATTAAATATATTAT-TA
1 AATGTATAATAAATATATATTATTAAATATATTATCGA
* *
15343218 AATGTATAATAAATATTTATTATT-AA-ATATTATGCGG
1 AATGTATAATAAATATATATTATTAAATATATTAT-CGA
*
15343255 TATGTATAATAAATATATATTATTAAATATAT
1 AATGTATAATAAATATATATTATTAAATATAT
15343287 AATTTTGGAC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
35 7 0.12
36 2 0.03
37 44 0.75
38 2 0.03
39 4 0.07
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.45
Consensus pattern (38 bp):
AATGTATAATAAATATATATTATTAAATATATTATCGA
Found at i:15343436 original size:8 final size:8
Alignment explanation
Indices: 15343378--15343440 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 8
15343368 TTATATCTAT
15343378 ATAATT-A
1 ATAATTAA
*
15343385 ATAATTAC
1 ATAATTAA
15343393 ATAATTAA
1 ATAATTAA
*
15343401 ATAATCAA
1 ATAATTAA
*
15343409 TTAA-TAA
1 ATAATTAA
*
15343416 AT-TTTAA
1 ATAATTAA
*
15343423 TTTAATTAA
1 -ATAATTAA
15343432 ATAATTAA
1 ATAATTAA
15343440 A
1 A
15343441 CCCACATACA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
7 12 0.29
8 26 0.62
9 4 0.10
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATTAA
Found at i:15344472 original size:11 final size:12
Alignment explanation
Indices: 15344448--15344480 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15344438 TTCAATTTAC
15344448 AATTTTTAGCTA
1 AATTTTTAGCTA
15344460 AATTTTTAG-TA
1 AATTTTTAGCTA
15344471 AATTTGTTAG
1 AATTT-TTAG
15344481 AGGATTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
AATTTTTAGCTA
Found at i:15352319 original size:13 final size:12
Alignment explanation
Indices: 15352292--15352321 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15352282 AAAAAATTCT
15352292 AAAATTTTTGTA
1 AAAATTTTTGTA
*
15352304 AAAATTTTTTTA
1 AAAATTTTTGTA
15352316 AAAATT
1 AAAATT
15352322 CCAAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
AAAATTTTTGTA
Found at i:15352403 original size:10 final size:10
Alignment explanation
Indices: 15352352--15352426 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
15352342 GAAAAAAATT
*
15352352 AAAAATGCTA
1 AAAAATTCTA
*
15352362 TAAAAGTTCTA
1 -AAAAATTCTA
*
15352373 AATAATTC-A
1 AAAAATTCTA
*
15352382 AAAAATTTTA
1 AAAAATTCTA
*
15352392 AAGAATTCTA
1 AAAAATTCTA
*
15352402 AAAATATT-TT
1 AAAA-ATTCTA
*
15352412 AAAAATTATA
1 AAAAATTCTA
15352422 AAAAA
1 AAAAA
15352427 ATTTTAATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
9 10 0.20
10 29 0.58
11 11 0.22
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:15352416 original size:11 final size:10
Alignment explanation
Indices: 15352381--15352433 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
15352371 TAAATAATTC
15352381 AAAAAATTTT
1 AAAAAATTTT
* *
15352391 AAAGAATTCT
1 AAAAAATTTT
15352401 AAAAATATTTT
1 AAAAA-ATTTT
*
15352412 -AAAAATTATA
1 AAAAAATT-TT
15352422 AAAAAATTTT
1 AAAAAATTTT
15352432 AA
1 AA
15352434 TTTAAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 3 0.09
10 20 0.59
11 11 0.32
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:15352418 original size:20 final size:19
Alignment explanation
Indices: 15352311--15352488 Score: 100
Period size: 19 Copynumber: 9.2 Consensus size: 19
15352301 GTAAAAATTT
* *
15352311 TTTTAAAAATTCCAAAAAT
1 TTTTAAAAATTCTAAAAAA
*
15352330 TTTTAAAAA-CCTGAAAAAA
1 TTTTAAAAATTCT-AAAAAA
* * *
15352349 -ATTAAAAATGCTATAAAAG
1 TTTTAAAAATTCTA-AAAAA
*
15352368 TTCTAAATAATTC-AAAAAA
1 TTTTAAA-AATTCTAAAAAA
15352387 TTTTAAAGAATTCTAAAAATA
1 TTTTAAA-AATTCTAAAAA-A
*
15352408 TTTTAAAAATTATAAAAAAA
1 TTTTAAAAATTCT-AAAAAA
15352428 TTTT---AATT-TAAAAAA
1 TTTTAAAAATTCTAAAAAA
* * * *
15352443 ATATAAAAATACCAAAAAA
1 TTTTAAAAATTCTAAAAAA
*
15352462 GGTTTTAAAAAATTTTAAAATAA
1 --TTTT-AAAAATTCTAAAA-AA
15352485 TTTT
1 TTTT
15352489 TTAAAATGAA
Statistics
Matches: 121, Mismatches: 22, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
15 8 0.07
16 1 0.01
17 4 0.03
18 12 0.10
19 41 0.34
20 20 0.17
21 23 0.19
22 10 0.08
23 2 0.02
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (19 bp):
TTTTAAAAATTCTAAAAAA
Found at i:15352651 original size:21 final size:21
Alignment explanation
Indices: 15352625--15352667 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15352615 TAATTTGAAA
15352625 TTTTTAAAAATTCAAAAAAAT
1 TTTTTAAAAATTCAAAAAAAT
15352646 TTTTTAAAAATTCAAAAAAAT
1 TTTTTAAAAATTCAAAAAAAT
15352667 T
1 T
15352668 AAAATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTTAAAAATTCAAAAAAAT
Found at i:15352673 original size:16 final size:16
Alignment explanation
Indices: 15352652--15352686 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15352642 AAATTTTTTA
15352652 AAAATTCAAAAAAATT
1 AAAATTCAAAAAAATT
* *
15352668 AAAATTTATAAAAATT
1 AAAATTCAAAAAAATT
15352684 AAA
1 AAA
15352687 TTTTCTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTCAAAAAAATT
Found at i:15352848 original size:10 final size:10
Alignment explanation
Indices: 15352825--15352888 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 10
15352815 TTTGAAAACT
*
15352825 TAAAAATTTAA
1 TAAAAA-TTCA
*
15352836 TAAAAATCCA
1 TAAAAATTCA
15352846 TAAAAATTCA
1 TAAAAATTCA
*
15352856 -AAAAAATC-
1 TAAAAATTCA
15352864 TAAAAATTCA
1 TAAAAATTCA
15352874 -AAAAATAT-A
1 TAAAAAT-TCA
15352883 TAAAAA
1 TAAAAA
15352889 ATTGGAATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
9 21 0.48
10 17 0.39
11 6 0.14
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (10 bp):
TAAAAATTCA
Found at i:15352858 original size:18 final size:17
Alignment explanation
Indices: 15352801--15352879 Score: 70
Period size: 17 Copynumber: 4.4 Consensus size: 17
15352791 TTTAAGTTTT
*
15352801 AAAAAATCTAAAAATTT
1 AAAAAATCTAAAAATTC
* * *
15352818 GAAAACT-TAAAAATTTA
1 AAAAAATCTAAAAA-TTC
15352835 ATAAAAATCCATAAAAATTC
1 A-AAAAAT-C-TAAAAATTC
15352855 AAAAAAATCTAAAAATTC
1 -AAAAAATCTAAAAATTC
15352873 AAAAAAT
1 AAAAAAT
15352880 ATATAAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
16 6 0.12
17 14 0.28
18 14 0.28
19 1 0.02
20 8 0.16
21 7 0.14
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (17 bp):
AAAAAATCTAAAAATTC
Found at i:15352887 original size:18 final size:18
Alignment explanation
Indices: 15352825--15352888 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 18
15352815 TTTGAAAACT
*
15352825 TAAAAATTTAATAAAAATCCA
1 TAAAAATTCAA-AAAAAT--A
*
15352846 TAAAAATTCAAAAAAATC
1 TAAAAATTCAAAAAAATA
15352864 TAAAAATTCAAAAAATATA
1 TAAAAATTCAAAAAA-ATA
15352883 TAAAAA
1 TAAAAA
15352889 ATTGGAATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 15 0.38
19 8 0.21
20 6 0.15
21 10 0.26
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAATTCAAAAAAATA
Found at i:15352969 original size:19 final size:19
Alignment explanation
Indices: 15352942--15352981 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15352932 TTTAAAAATG
15352942 TTTTAAAAAATTATTATTT
1 TTTTAAAAAATTATTATTT
* * *
15352961 TTTTCAAAATTTTTTATTT
1 TTTTAAAAAATTATTATTT
15352980 TT
1 TT
15352982 GATTTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAAAAAATTATTATTT
Found at i:15352987 original size:12 final size:13
Alignment explanation
Indices: 15352972--15353000 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15352962 TTTCAAAATT
15352972 TTTTATTTTTGA-
1 TTTTATTTTTGAG
15352984 TTTTATTTTTGAG
1 TTTTATTTTTGAG
15352997 TTTT
1 TTTT
15353001 TGTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTGAG
Found at i:15353159 original size:7 final size:8
Alignment explanation
Indices: 15353102--15353167 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
15353092 ATTTGAAAAT
15353102 TTTTTTAA
1 TTTTTTAA
*
15353110 ATTTTTAA
1 TTTTTTAA
*
15353118 GTTTCCTTAA
1 -TTT-TTTAA
*
15353128 TTCCTTTTCA
1 TT--TTTTAA
15353138 TTTTTTAAAA
1 TTTTTT--AA
15353148 TTTTTTAA
1 TTTTTTAA
15353156 TTTTTTAA
1 TTTTTTAA
15353164 TTTT
1 TTTT
15353168 AAGAAGTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
8 25 0.54
9 4 0.09
10 16 0.35
11 1 0.02
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (8 bp):
TTTTTTAA
Found at i:15353546 original size:14 final size:14
Alignment explanation
Indices: 15353513--15353552 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
15353503 ATGACGTAGG
*
15353513 CATGGCATGTCATGA
1 CATGGCAT-TGATGA
15353528 CATGGCATTGATGA
1 CATGGCATTGATGA
*
15353542 TATGGCATTGA
1 CATGGCATTGA
15353553 CCGAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (14 bp):
CATGGCATTGATGA
Found at i:15355961 original size:12 final size:12
Alignment explanation
Indices: 15355944--15355982 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
15355934 TAGATTTCGT
15355944 ATAATACATAGA
1 ATAATACATAGA
15355956 ATAATACATAGA
1 ATAATACATAGA
15355968 ATAATACATAGA
1 ATAATACATAGA
15355980 ATA
1 ATA
15355983 TTAATGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (12 bp):
ATAATACATAGA
Found at i:15359348 original size:16 final size:16
Alignment explanation
Indices: 15359327--15359358 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15359317 TGCATTTGTT
15359327 CACATTCACAATCATA
1 CACATTCACAATCATA
15359343 CACATTCACAATCATA
1 CACATTCACAATCATA
15359359 ATAGGCGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (16 bp):
CACATTCACAATCATA
Found at i:15363087 original size:2 final size:2
Alignment explanation
Indices: 15363080--15363108 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15363070 TTCTTGAGTT
15363080 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15363109 GTAGTGGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15365269 original size:22 final size:22
Alignment explanation
Indices: 15365241--15365285 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
15365231 GGAGCTTAGC
15365241 TCAGCCATCTTAAGAGGTGGCA
1 TCAGCCATCTTAAGAGGTGGCA
* *
15365263 TCAGCCATCTTTAGAGTTGGCA
1 TCAGCCATCTTAAGAGGTGGCA
15365285 T
1 T
15365286 AAGAAGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (22 bp):
TCAGCCATCTTAAGAGGTGGCA
Found at i:15370141 original size:8 final size:8
Alignment explanation
Indices: 15370128--15370164 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
15370118 TATGTGATAA
15370128 AATTTATT
1 AATTTATT
15370136 AATTTATT
1 AATTTATT
15370144 -ATTTATT
1 AATTTATT
15370151 -ATTTATT
1 AATTTATT
*
15370158 ATTTTAT
1 AATTTAT
15370165 CTTTTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 14 0.52
8 13 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
AATTTATT
Found at i:15370149 original size:7 final size:7
Alignment explanation
Indices: 15370129--15370161 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
15370119 ATGTGATAAA
15370129 ATTTATT
1 ATTTATT
15370136 AATTTATT
1 -ATTTATT
15370144 ATTTATT
1 ATTTATT
15370151 ATTTATT
1 ATTTATT
15370158 ATTT
1 ATTT
15370162 TATCTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTATT
Found at i:15377776 original size:28 final size:28
Alignment explanation
Indices: 15377741--15377796 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
15377731 TTACGCAAAG
15377741 AGTTCAATGTTTGAATTTCCGTATTTGT
1 AGTTCAATGTTTGAATTTCCGTATTTGT
*
15377769 AGTTCAATGTTTGAATTTTCGTATTTGT
1 AGTTCAATGTTTGAATTTCCGTATTTGT
15377797 TCTCTCCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.52
Consensus pattern (28 bp):
AGTTCAATGTTTGAATTTCCGTATTTGT
Found at i:15379621 original size:22 final size:23
Alignment explanation
Indices: 15379596--15379648 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
15379586 AAATTAAAGA
*
15379596 TAAAAATTT-TTTGGATAAAAAT
1 TAAAAATTTATTTGAATAAAAAT
*
15379618 TAAAAATTTATTTGAATATAAAT
1 TAAAAATTTATTTGAATAAAAAT
15379641 TAAAAATT
1 TAAAAATT
15379649 AACAACCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (23 bp):
TAAAAATTTATTTGAATAAAAAT
Found at i:15385812 original size:37 final size:37
Alignment explanation
Indices: 15385757--15385845 Score: 153
Period size: 37 Copynumber: 2.4 Consensus size: 37
15385747 CTATTGATTG
*
15385757 ATTCACCTT-TATTGTATATTTGCTAGGCTAGTTACTA
1 ATTCACCTTGT-TTTTATATTTGCTAGGCTAGTTACTA
15385794 ATTCACCTTGTTTTTATATTTGCTAGGCTAGTTACTA
1 ATTCACCTTGTTTTTATATTTGCTAGGCTAGTTACTA
15385831 ATTCACCTTGTTTTT
1 ATTCACCTTGTTTTT
15385846 GTTTCCTTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 49 0.98
38 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (37 bp):
ATTCACCTTGTTTTTATATTTGCTAGGCTAGTTACTA
Found at i:15388757 original size:13 final size:13
Alignment explanation
Indices: 15388739--15388782 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
15388729 GAAAAAGAAT
15388739 GAAAAAATAAAAA
1 GAAAAAATAAAAA
*
15388752 GAAAAACTAAAAA
1 GAAAAAATAAAAA
*
15388765 GAAAGAAAAAAAAA
1 GAAA-AAATAAAAA
15388779 GAAA
1 GAAA
15388783 TAAGCTGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (13 bp):
GAAAAAATAAAAA
Found at i:15392521 original size:21 final size:21
Alignment explanation
Indices: 15392477--15392524 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
15392467 CAACAACAAT
* * *
15392477 GACTTGATGAGCAAGAGTAGC
1 GACTTAATGAGCAAGAGCAAC
*
15392498 GACTTAATGAGCAATAGCAAC
1 GACTTAATGAGCAAGAGCAAC
15392519 GACTTA
1 GACTTA
15392525 CTACATTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (21 bp):
GACTTAATGAGCAAGAGCAAC
Found at i:15407721 original size:30 final size:30
Alignment explanation
Indices: 15407685--15407777 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
15407675 TGTCGATTAC
*
15407685 TCATAAAAGC-AATGTATCACGCATCAGGTT
1 TCATAAAAGCGAA-GTATCACACATCAGGTT
**
15407715 TCATAAAAGCGAAGTATCTTACATCAGGTT
1 TCATAAAAGCGAAGTATCACACATCAGGTT
* ** *
15407745 TCATAAAAGTGAAGTATCTTACGTCAGGTT
1 TCATAAAAGCGAAGTATCACACATCAGGTT
15407775 TCA
1 TCA
15407778 GGATCCCCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 55 0.96
31 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (30 bp):
TCATAAAAGCGAAGTATCACACATCAGGTT
Found at i:15410004 original size:22 final size:22
Alignment explanation
Indices: 15409978--15410021 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15409968 TGTATATTTA
*
15409978 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15410000 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
15410022 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:15413915 original size:2 final size:2
Alignment explanation
Indices: 15413908--15413933 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15413898 AGATAATAAA
15413908 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15413934 TATGGAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15414227 original size:15 final size:14
Alignment explanation
Indices: 15414209--15414251 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
15414199 ATATATTTAA
15414209 TTAAAAAATAAAAAT
1 TTAAAAAA-AAAAAT
15414224 TTAAAATAAAAAAAT
1 TTAAAA-AAAAAAAT
15414239 TGTAAAAAAAAAA
1 T-TAAAAAAAAAA
15414252 CCTAAATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
TTAAAAAAAAAAAT
Found at i:15414286 original size:29 final size:29
Alignment explanation
Indices: 15414213--15414286 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 29
15414203 ATTTAATTAA
* **
15414213 AAAATAAAAATTTA-AAATAAAAAAATTGT
1 AAAA-AAAAATTCATAAATAAAAAAATAAT
* * *
15414242 AAAAAAAAA-ACCTAAATAACAAAATAAT
1 AAAAAAAAATTCATAAATAAAAAAATAAT
15414270 AAAAAAAAATTCATAAA
1 AAAAAAAAATTCATAAA
15414287 ATGTGGCACA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 26 0.74
29 9 0.26
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.20
Consensus pattern (29 bp):
AAAAAAAAATTCATAAATAAAAAAATAAT
Found at i:15415376 original size:18 final size:18
Alignment explanation
Indices: 15415325--15415381 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
15415315 TCAAGTGGAT
15415325 TAAAAATAAAATAAAAAA
1 TAAAAATAAAATAAAAAA
*** *
15415343 TTTTAATTAAAT---AAA
1 TAAAAATAAAATAAAAAA
15415358 TAAAAATAAAATAAAAAA
1 TAAAAATAAAATAAAAAA
15415376 TAAAAA
1 TAAAAA
15415382 AGACATACAT
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
15 11 0.39
18 17 0.61
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAATAAAATAAAAAA
Found at i:15415556 original size:22 final size:23
Alignment explanation
Indices: 15415504--15415556 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
15415494 AAAAGAAATC
15415504 TTTTTAAATATATATTTTTATAA
1 TTTTTAAATATATATTTTTATAA
15415527 TTTTTAAA-A-ATATTTATTA-AA
1 TTTTTAAATATATATTT-TTATAA
15415548 TATTTTAAA
1 T-TTTTAAA
15415557 CTAAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTTAAATATATATTTTTATAA
Found at i:15421455 original size:57 final size:57
Alignment explanation
Indices: 15421367--15421486 Score: 132
Period size: 57 Copynumber: 2.1 Consensus size: 57
15421357 CCAATCATCC
* * * * * * * *
15421367 TCACTTGTGTCTTTTGCCTATACTAACTTCGACCTTAGCTTCAATCCCAAACCACCA
1 TCACTTATGCCTTTTGCCCACACTAACTTCGACCTCAACTCCAACCCCAAACCACCA
** * *
15421424 TCACTTATGCCTTTTGCCCACACTAGTTTCGACCTCAACTCCAACCCCAGACCACCT
1 TCACTTATGCCTTTTGCCCACACTAACTTCGACCTCAACTCCAACCCCAAACCACCA
15421481 TCACTT
1 TCACTT
15421487 GTGCTTATCA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.23, C:0.38, G:0.08, T:0.31
Consensus pattern (57 bp):
TCACTTATGCCTTTTGCCCACACTAACTTCGACCTCAACTCCAACCCCAAACCACCA
Found at i:15424476 original size:15 final size:14
Alignment explanation
Indices: 15424452--15424486 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
15424442 TTAATTGGTA
*
15424452 TTTAACCTTAATTT
1 TTTAATCTTAATTT
15424466 TCTTAATCTTAATTT
1 T-TTAATCTTAATTT
15424481 TTTAAT
1 TTTAAT
15424487 AATACTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAATCTTAATTT
Found at i:15436188 original size:49 final size:49
Alignment explanation
Indices: 15436114--15436290 Score: 176
Period size: 49 Copynumber: 3.6 Consensus size: 49
15436104 AAATAAAATA
* * *
15436114 TTTAAAGTTCCAAAACCTCTATTTATGGGGAGTCATTCCAAGCAAGATT
1 TTTAAAATTTCAAAACCTCTATTTATGGGGAGTCATTTCAAGCAAGATT
* * * *
15436163 TTTAAAATTTGAAAACCTCTGTTTAT-AGGAGTCATTTCTAGCAAGATT
1 TTTAAAATTTCAAAACCTCTATTTATGGGGAGTCATTTCAAGCAAGATT
* * * * * * * * **
15436211 CTTAAAGTTCCAAAGCTTCTGTTTATGGGAAGCCATTTCAAATAAGATT
1 TTTAAAATTTCAAAACCTCTATTTATGGGGAGTCATTTCAAGCAAGATT
* *
15436260 TTTAAAATTTCAAAGCCTCTATTTATCGGGA
1 TTTAAAATTTCAAAACCTCTATTTATGGGGA
15436291 ACCATTTTTA
Statistics
Matches: 101, Mismatches: 26, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 39 0.39
49 62 0.61
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (49 bp):
TTTAAAATTTCAAAACCTCTATTTATGGGGAGTCATTTCAAGCAAGATT
Found at i:15436296 original size:49 final size:48
Alignment explanation
Indices: 15436099--15436327 Score: 161
Period size: 49 Copynumber: 4.7 Consensus size: 48
15436089 GTCACGAATT
* * * * **
15436099 ATTTCAAATAAAATATTTAAAGTTCCAAAACCTCTATTTATGGGGAGTC
1 ATTTCAAATAAGATTTTTAAAATTTCAAAACCTCTATTTAT-GGGAACC
* ** * * * **
15436148 ATTCCAAGCAAGATTTTTAAAATTTGAAAACCTCTGTTTATAGGAGTC
1 ATTTCAAATAAGATTTTTAAAATTTCAAAACCTCTATTTATGGGAACC
* ** * * * * * *
15436196 ATTTCTAGCAAGATTCTTAAAGTTCCAAAGCTTCTGTTTATGGGAAGCC
1 ATTTCAAATAAGATTTTTAAAATTTCAAAACCTCTATTTATGGGAA-CC
*
15436245 ATTTCAAATAAGATTTTTAAAATTTCAAAGCCTCTATTTATCGGGAACC
1 ATTTCAAATAAGATTTTTAAAATTTCAAAACCTCTATTTAT-GGGAACC
* * * * *
15436294 ATTTTTAGATGAGATTTTTAAATTTTCAAGACCT
1 A-TTTCAAATAAGATTTTTAAAATTTCAAAACCT
15436328 TTGTTTTCAA
Statistics
Matches: 142, Mismatches: 35, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
48 42 0.30
49 69 0.49
50 31 0.22
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (48 bp):
ATTTCAAATAAGATTTTTAAAATTTCAAAACCTCTATTTATGGGAACC
Found at i:15436314 original size:50 final size:48
Alignment explanation
Indices: 15436158--15436322 Score: 145
Period size: 48 Copynumber: 3.4 Consensus size: 48
15436148 ATTCCAAGCA
* * * ** *
15436158 AGATTTTTAAAATTTGAAAACCTCTGTTTATAGGAGTCATTTCTAGCA-
1 AGATTTTTAAAATTTCAAAGCCTCTGTTTATGGGAACCATTTTTAG-AT
* * * * * *
15436206 AGATTCTTAAAGTTCCAAAGCTTCTGTTTATGGGAAGCCA-TTTCAAAT
1 AGATTTTTAAAATTTCAAAGCCTCTGTTTATGGGAA-CCATTTTTAGAT
*
15436254 AAGATTTTTAAAATTTCAAAGCCTCTATTTATCGGGAACCATTTTTAGAT
1 -AGATTTTTAAAATTTCAAAGCCTCTGTTTAT-GGGAACCATTTTTAGAT
*
15436304 GAGATTTTTAAATTTTCAA
1 -AGATTTTTAAAATTTCAA
15436323 GACCTTTGTT
Statistics
Matches: 91, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
47 1 0.01
48 31 0.34
49 31 0.34
50 28 0.31
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (48 bp):
AGATTTTTAAAATTTCAAAGCCTCTGTTTATGGGAACCATTTTTAGAT
Found at i:15436853 original size:18 final size:18
Alignment explanation
Indices: 15436799--15436853 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
15436789 AAATTTCATG
* *
15436799 TTAAAGCCTGAATTTTGTG
1 TTAAAGCC-AAATTTTGTA
* *
15436818 TTAAAACCAAGGTTTTGTA
1 TTAAAGCCAA-ATTTTGTA
15436837 TTAAAGCCAAATTTTGT
1 TTAAAGCCAAATTTTGT
15436854 CCAAAATTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (18 bp):
TTAAAGCCAAATTTTGTA
Found at i:15438696 original size:3 final size:3
Alignment explanation
Indices: 15438688--15438749 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
15438678 CAAGTGTAAA
* *
15438688 AAT AAT AAT AAA AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15438736 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
15438750 ATGAAAATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:15439892 original size:16 final size:16
Alignment explanation
Indices: 15439867--15439902 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15439857 AAAGAATCAT
* *
15439867 TCAATTAATACAAAAA
1 TCAATCAATAAAAAAA
15439883 TCAATCAATAAAAAAA
1 TCAATCAATAAAAAAA
15439899 TCAA
1 TCAA
15439903 CAAACCAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.22
Consensus pattern (16 bp):
TCAATCAATAAAAAAA
Found at i:15440686 original size:17 final size:18
Alignment explanation
Indices: 15440653--15440693 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
15440643 CGAAAGGAAG
15440653 AAAGAGAAAAGGAAAAAA
1 AAAGAGAAAAGGAAAAAA
* *
15440671 AAAGAGGAAAGAAAAAAA
1 AAAGAGAAAAGGAAAAAA
15440689 AAAGA
1 AAAGA
15440694 AGAAGAATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AAAGAGAAAAGGAAAAAA
Found at i:15440700 original size:17 final size:18
Alignment explanation
Indices: 15440660--15440697 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15440650 AAGAAAGAGA
* *
15440660 AAAGGAAAAAAAAAGAGG
1 AAAGAAAAAAAAAAGAAG
15440678 AAAGAAAAAAAAAAGAAG
1 AAAGAAAAAAAAAAGAAG
15440696 AA
1 AA
15440698 GAATCGATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAAGAAG
Found at i:15444048 original size:29 final size:29
Alignment explanation
Indices: 15443982--15444049 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
15443972 CATCTAATTA
15443982 AATATTTAATTGAGTGAAAATAAATATTT
1 AATATTTAATTGAGTGAAAATAAATATTT
* * *
15444011 GATAATTTAATTGATTG-TAATAAA-ATTTT
1 AAT-ATTTAATTGAGTGAAAATAAATA-TTT
15444040 AATAGTTTAA
1 AATA-TTTAA
15444050 AGGATAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 2 0.06
29 18 0.56
30 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (29 bp):
AATATTTAATTGAGTGAAAATAAATATTT
Found at i:15448223 original size:3 final size:3
Alignment explanation
Indices: 15448217--15448247 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
15448207 ACGAGAGGAG
*
15448217 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
15448248 CCATGAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15448625 original size:16 final size:16
Alignment explanation
Indices: 15448604--15448634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15448594 CTTCACAATT
15448604 GAGAAAAAGCAAGCAC
1 GAGAAAAAGCAAGCAC
*
15448620 GAGAAAAATCAAGCA
1 GAGAAAAAGCAAGCA
15448635 TACGCAGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.16, G:0.23, T:0.03
Consensus pattern (16 bp):
GAGAAAAAGCAAGCAC
Found at i:15448983 original size:27 final size:28
Alignment explanation
Indices: 15448910--15448973 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
15448900 ATGGAGTATC
15448910 AAAAATTTCCAGAACTCGAATTCTTATA
1 AAAAATTTCCAGAACTCGAATTCTTATA
*
15448938 AAAAATTTCCAGAACTCGAATTCTTATG
1 AAAAATTTCCAGAACTCGAATTCTTATA
15448966 AAAAATTT
1 AAAAATTT
15448974 GAGCCTTCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (28 bp):
AAAAATTTCCAGAACTCGAATTCTTATA
Found at i:15450556 original size:2 final size:2
Alignment explanation
Indices: 15450543--15450582 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
15450533 AAACATACTA
* *
15450543 AT AT AT AC AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15450583 TTTATATGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15451271 original size:23 final size:23
Alignment explanation
Indices: 15451245--15451297 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
15451235 ATTAAATATT
**
15451245 TTTATTATGAT-TTTTAACTTTAA
1 TTTATTATGATGAGTTAA-TTTAA
*
15451268 TTTATTATTATGAGTTAATTTAA
1 TTTATTATGATGAGTTAATTTAA
15451291 TTTATTA
1 TTTATTA
15451298 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTATTATGATGAGTTAATTTAA
Found at i:15451289 original size:29 final size:24
Alignment explanation
Indices: 15451242--15451293 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
15451232 TTCATTAAAT
15451242 ATTTTTATTATGATTTTTAACTTTA
1 ATTTTTATTATGATTTTTAA-TTTA
*
15451267 ATTTATTATTATGA--GTTAATTTA
1 ATTT-TTATTATGATTTTTAATTTA
15451290 ATTT
1 ATTT
15451294 ATTAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 8 0.32
24 4 0.16
25 4 0.16
26 9 0.36
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
ATTTTTATTATGATTTTTAATTTA
Found at i:15451818 original size:2 final size:2
Alignment explanation
Indices: 15451811--15451850 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
15451801 CGACAAGATA
*
15451811 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15451851 GTATTTCTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15453672 original size:13 final size:13
Alignment explanation
Indices: 15453654--15453684 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
15453644 AAAATTTTTT
15453654 ACAATATTCTATC
1 ACAATATTCTATC
15453667 ACAATATTCTATC
1 ACAATATTCTATC
15453680 ACAAT
1 ACAAT
15453685 TTTTGTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (13 bp):
ACAATATTCTATC
Found at i:15454971 original size:9 final size:9
Alignment explanation
Indices: 15454940--15455248 Score: 96
Period size: 9 Copynumber: 32.8 Consensus size: 9
15454930 AGAAAAATTA
*
15454940 AAAAATTCT
1 AAAAATTTT
15454949 AAACAATGTTT
1 AAA-AAT-TTT
15454960 AAAAATTTT
1 AAAAATTTT
15454969 AAAAAAATTTT
1 --AAAAATTTT
* *
15454980 TAAAATTCAT
1 AAAAATT-TT
**
15454990 AAATTTTTT
1 AAAAATTTT
* *
15454999 AAAAAATCT
1 AAAAATTTT
15455008 AAAAATTTT
1 AAAAATTTT
15455017 AAAAATTTT
1 AAAAATTTT
15455026 AAAAATTTAT
1 AAAAATTT-T
*
15455036 AAACTAA--AT
1 AAA--AATTTT
*
15455045 AATAAA-TTC
1 AA-AAATTTT
15455054 AAAAACTTTCT
1 AAAAA-TTT-T
* * *
15455065 TAAAGTTTAG
1 AAAAATTT-T
15455075 AAAAATTTTTTT
1 AAAAA---TTTT
*
15455087 AAATATTTT
1 AAAAATTTT
**
15455096 AACCATTTT
1 AAAAATTTT
*
15455105 AAAAA-ATT
1 AAAAATTTT
*
15455113 AAAACA-ATT
1 AAAA-ATTTT
15455122 AAAAATTTT
1 AAAAATTTT
**
15455131 AAAAA-TAC
1 AAAAATTTT
15455139 AAAAATTTT
1 AAAAATTTT
*
15455148 AAAAAATTT
1 AAAAATTTT
*
15455157 ---AATTCT
1 AAAAATTTT
*
15455163 AAAAAATTT
1 AAAAATTTT
15455172 AAAAATTTT
1 AAAAATTTT
* *
15455181 AAAAATCTC
1 AAAAATTTT
*
15455190 AAAATTTTTAT
1 AAAA-ATTT-T
* **
15455201 AAAAAATCC
1 AAAAATTTT
15455210 AAAAATTTT
1 AAAAATTTT
15455219 CAGAAAAATTTTT
1 ---AAAAA-TTTT
15455232 GAAAAATTTT
1 -AAAAATTTT
15455242 AAAAATT
1 AAAAATT
15455249 GAGCGTTTAA
Statistics
Matches: 219, Mismatches: 53, Indels: 56
0.67 0.16 0.17
Matches are distributed among these distances:
6 4 0.02
8 18 0.08
9 121 0.55
10 31 0.14
11 27 0.12
12 11 0.05
13 7 0.03
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:15455142 original size:26 final size:24
Alignment explanation
Indices: 15455139--15455186 Score: 51
Period size: 24 Copynumber: 2.0 Consensus size: 24
15455129 TTAAAAATAC
* * ***
15455139 AAAAATTTTAAAAAATTTAATTCT
1 AAAAAATTTAAAAATTTTAAAAAT
15455163 AAAAAATTTAAAAATTTTAAAAAT
1 AAAAAATTTAAAAATTTTAAAAAT
15455187 CTCAAAATTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAAATTTAAAAATTTTAAAAAT
Found at i:15455165 original size:15 final size:15
Alignment explanation
Indices: 15455142--15455173 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15455132 AAAATACAAA
*
15455142 AATTTTAAAAAATTT
1 AATTCTAAAAAATTT
15455157 AATTCTAAAAAATTT
1 AATTCTAAAAAATTT
15455172 AA
1 AA
15455174 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTCTAAAAAATTT
Found at i:15455184 original size:17 final size:17
Alignment explanation
Indices: 15455102--15455197 Score: 74
Period size: 17 Copynumber: 5.7 Consensus size: 17
15455092 TTTTAACCAT
*
15455102 TTTAAAAA-ATTAAAACA
1 TTTAAAAATTTTAAAA-A
*
15455119 ATTAAAAATTTTAAAAA
1 TTTAAAAATTTTAAAAA
**
15455136 TACAAAAATTTTAAAAAA
1 TTTAAAAATTTT-AAAAA
*
15455154 TTT---AATTCTAAAAAA
1 TTTAAAAATT-TTAAAAA
15455169 TTTAAAAATTTTAAAAA
1 TTTAAAAATTTTAAAAA
* *
15455186 TCTCAAAATTTT
1 TTTAAAAATTTT
15455198 TATAAAAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
15 12 0.19
16 1 0.02
17 33 0.53
18 16 0.26
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTAAAAATTTTAAAAA
Found at i:15455225 original size:21 final size:21
Alignment explanation
Indices: 15455181--15455226 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15455171 TAAAAATTTT
* *
15455181 AAAAATCTCAAAATTTTTATA
1 AAAAATCTCAAAATTTTCAGA
15455202 AAAAATC-CAAAAATTTTCAGA
1 AAAAATCTC-AAAATTTTCAGA
15455223 AAAA
1 AAAA
15455227 TTTTTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATCTCAAAATTTTCAGA
Found at i:15455436 original size:43 final size:43
Alignment explanation
Indices: 15455361--15455443 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
15455351 AAAATTTCCT
* * *
15455361 AAAATTAAAATTTTTTTAAAAAACCTTTAAAATATTTAAAACA
1 AAAAATAAAAATTTTTTAAAAAACCTTAAAAATATTTAAAACA
* *
15455404 AAAAATAAAAATTTTTTATAAAAATC-TAAAAATTTTTAAA
1 AAAAATAAAAATTTTTTA-AAAAACCTTAAAAATATTTAAA
15455444 TTTTCAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 28 0.82
44 6 0.18
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (43 bp):
AAAAATAAAAATTTTTTAAAAAACCTTAAAAATATTTAAAACA
Found at i:15455475 original size:28 final size:28
Alignment explanation
Indices: 15455413--15455475 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
15455403 AAAAAATAAA
*
15455413 AATTTTTTATAAAAATCTAAAAATTTTT
1 AATTTTTCATAAAAATCTAAAAATTTTT
* *
15455441 AAATTTTCA-AAAAATTCTAAATATTTTT
1 AATTTTTCATAAAAA-TCTAAAAATTTTT
*
15455469 CATTTTT
1 AATTTTT
15455476 TGAATTTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (28 bp):
AATTTTTCATAAAAATCTAAAAATTTTT
Found at i:15455541 original size:9 final size:9
Alignment explanation
Indices: 15455527--15455577 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
15455517 TTGCAAAATC
15455527 TTTTTTTAA
1 TTTTTTTAA
*
15455536 TTTTTTTGTA
1 TTTTTTT-AA
15455546 TTTTTATTAA
1 TTTTT-TTAA
* *
15455556 ATTTTTAAA
1 TTTTTTTAA
15455565 TTTTTTTAA
1 TTTTTTTAA
15455574 TTTT
1 TTTT
15455578 AGAATTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 21 0.62
10 11 0.32
11 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:15455638 original size:19 final size:19
Alignment explanation
Indices: 15455584--15455644 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
15455574 TTTTAGAATT
* *
15455584 TTTTTCAAAATTTTTAGAATT
1 TTTTTCAAAATTTTT--TATA
*
15455605 TTTTTGAAAA-TTTTTATA
1 TTTTTCAAAATTTTTTATA
*
15455623 TTTTTCAAAATTTTTTAGA
1 TTTTTCAAAATTTTTTATA
15455642 TTT
1 TTT
15455645 ATTTAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.32
19 10 0.29
20 4 0.12
21 9 0.26
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTTCAAAATTTTTTATA
Found at i:15455719 original size:11 final size:11
Alignment explanation
Indices: 15455703--15455758 Score: 71
Period size: 11 Copynumber: 5.3 Consensus size: 11
15455693 TAGTTTTAAA
15455703 TTTTTAGAATT
1 TTTTTAGAATT
15455714 TTTTTAGAATT
1 TTTTTAGAATT
* *
15455725 TTTAT-GAAGT
1 TTTTTAGAATT
*
15455735 TTTAT-GAATT
1 TTTTTAGAATT
15455745 TTTTTAGAATT
1 TTTTTAGAATT
15455756 TTT
1 TTT
15455759 ATAATTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
10 17 0.43
11 23 0.57
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (11 bp):
TTTTTAGAATT
Found at i:15455726 original size:10 final size:9
Alignment explanation
Indices: 15455696--15455768 Score: 67
Period size: 9 Copynumber: 7.6 Consensus size: 9
15455686 TAATTGTTAG
15455696 TTTTA-AAT
1 TTTTAGAAT
15455704 TTTTAGAATTT
1 TTTTAGAA--T
15455715 TTTTAGAAT
1 TTTTAGAAT
*
15455724 TTTTATGAAG
1 TTTTA-GAAT
15455734 TTTTATGAATTT
1 TTTTA-GAA--T
15455746 TTTTAGAAT
1 TTTTAGAAT
*
15455755 TTTTATAAT
1 TTTTAGAAT
15455764 TTTTA
1 TTTTA
15455769 AACGCTTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
8 5 0.09
9 22 0.39
10 12 0.21
11 12 0.21
12 5 0.09
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (9 bp):
TTTTAGAAT
Found at i:15455744 original size:31 final size:29
Alignment explanation
Indices: 15455696--15455768 Score: 103
Period size: 31 Copynumber: 2.5 Consensus size: 29
15455686 TAATTGTTAG
*
15455696 TTTTA-AATTTTTAGAATTTTTTTAGAAT
1 TTTTATAAGTTTTAGAATTTTTTTAGAAT
15455724 TTTTATGAAGTTTTATGAATTTTTTTAGAAT
1 TTTTAT-AAGTTTTA-GAATTTTTTTAGAAT
*
15455755 TTTTATAATTTTTA
1 TTTTATAAGTTTTA
15455769 AACGCTTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 5 0.12
30 14 0.35
31 21 0.52
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (29 bp):
TTTTATAAGTTTTAGAATTTTTTTAGAAT
Found at i:15455805 original size:10 final size:9
Alignment explanation
Indices: 15455781--15455875 Score: 66
Period size: 10 Copynumber: 9.9 Consensus size: 9
15455771 CGCTTATCAC
15455781 AAATTTTT-
1 AAATTTTTA
*
15455789 TAATTTTTCA
1 AAATTTTT-A
15455799 AAATTTTTTA
1 AAA-TTTTTA
*
15455809 TAATTTTTA
1 AAATTTTTA
15455818 AAATTTGTTA
1 AAATTT-TTA
*
15455828 GAATATTTTA
1 AAAT-TTTTA
15455838 ATAATTTTTA
1 A-AATTTTTA
*
15455848 TGAATTTTGTA
1 -AAATTTT-TA
* *
15455859 AAAATTTAA
1 AAATTTTTA
15455868 AAATTTTT
1 AAATTTTT
15455876 TTAATAATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
8 7 0.10
9 18 0.27
10 30 0.45
11 12 0.18
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (9 bp):
AAATTTTTA
Found at i:15455815 original size:19 final size:19
Alignment explanation
Indices: 15455784--15455861 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 19
15455774 TTATCACAAA
15455784 TTTTT-TAATTTTTCAAAAT
1 TTTTTATAATTTTT-AAAAT
15455803 TTTTTATAATTTTTAAAAT
1 TTTTTATAATTTTTAAAAT
* *
15455822 TTGTTAGAATATTTTAATAA-
1 TTTTTATAAT-TTTTAA-AAT
15455842 TTTTTATGAATTTTGTAAAA
1 TTTTTAT-AATTTT-TAAAA
15455862 ATTTAAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
19 18 0.36
20 24 0.48
21 8 0.16
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTTATAATTTTTAAAAT
Found at i:15455835 original size:21 final size:21
Alignment explanation
Indices: 15455811--15455901 Score: 64
Period size: 21 Copynumber: 4.3 Consensus size: 21
15455801 ATTTTTTATA
*
15455811 ATTTTTAA-AATTTGTTAGAAT
1 ATTTTTAATAATTT-TAAGAAT
*
15455832 A-TTTTAATAATTTTTATGAAT
1 ATTTTTAATAA-TTTTAAGAAT
* * *
15455853 -TTTGTAA-AAATTTAAAAAT
1 ATTTTTAATAATTTTAAGAAT
*
15455872 TTTTTTAATAATTTGTAAAGAAT
1 ATTTTTAATAATTT-T-AAGAAT
15455895 ATTTTTA
1 ATTTTTA
15455902 GAACGTTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
19 7 0.13
20 14 0.26
21 17 0.32
22 4 0.08
23 11 0.21
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTTTAATAATTTTAAGAAT
Found at i:15461158 original size:26 final size:27
Alignment explanation
Indices: 15461070--15461155 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
15461060 AGGTTGAGTA
*
15461070 GGTTGAGAATCTGGTTTTGAAAAGGTT
1 GGTTGAGAATCTGGTTTTGAAAGGGTT
* * *
15461097 GGCTGAGATTCTGGTTTTGAAAGGGCT
1 GGTTGAGAATCTGGTTTTGAAAGGGTT
* * *
15461124 AGTTGGGAATCTGGTTTTGAAGGGGTT
1 GGTTGAGAATCTGGTTTTGAAAGGGTT
15461151 GGTTG
1 GGTTG
15461156 GAAAATTGGC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.20, C:0.06, G:0.38, T:0.36
Consensus pattern (27 bp):
GGTTGAGAATCTGGTTTTGAAAGGGTT
Found at i:15462826 original size:22 final size:22
Alignment explanation
Indices: 15462800--15462843 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15462790 CGTATATTTA
* *
15462800 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
15462822 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
15462844 AACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:15465484 original size:28 final size:28
Alignment explanation
Indices: 15465453--15465506 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
15465443 TGAATGAAAT
*
15465453 ATTTAAT-TAAATATTTAAATTTTAAAAA
1 ATTTAATAT-AATATTTAAATTATAAAAA
*
15465481 ATTTTATATAATATTTAAATTATAAA
1 ATTTAATATAATATTTAAATTATAAA
15465507 TTTATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTAATATAATATTTAAATTATAAAAA
Found at i:15465592 original size:32 final size:30
Alignment explanation
Indices: 15465548--15465624 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 30
15465538 TTCATTAAAA
*
15465548 TAAATATCATATTAATTAAAAATTT-TATAATT
1 TAAATATTATATTAA--AAAAATTTATAT-ATT
*
15465580 TAAATATTATATT-AAAATATTTATATATT
1 TAAATATTATATTAAAAAAATTTATATATT
*
15465609 TAAATAATATATTAAA
1 TAAATATTATATTAAA
15465625 TATTTTATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 22 0.55
30 5 0.12
31 1 0.03
32 12 0.30
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
TAAATATTATATTAAAAAAATTTATATATT
Done.