Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 276 of 333
Found at i:91387932 original size:19 final size:19
Alignment explanation
Indices: 91387901--91387957 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
91387891 ATTTAAGCTA
91387901 AAAAATTATTAAAATATTAT
1 AAAAATTA-TAAAATATTAT
* *
91387921 AAAAATTATAAAAAACTAT
1 AAAAATTATAAAATATTAT
** *
91387940 AAATTTTATTAAATATTA
1 AAAAATTATAAAATATTA
91387958 GAATTTTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTATAAAATATTAT
Found at i:91387935 original size:11 final size:10
Alignment explanation
Indices: 91387899--91387942 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
91387889 TTATTTAAGC
91387899 TAAAAAATTA
1 TAAAAAATTA
*
91387909 TTAAAATATTA
1 -TAAAAAATTA
91387920 T-AAAAATTA
1 TAAAAAATTA
*
91387929 TAAAAAACTA
1 TAAAAAATTA
91387939 TAAA
1 TAAA
91387943 TTTTATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.28
10 12 0.41
11 9 0.31
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:91387965 original size:19 final size:17
Alignment explanation
Indices: 91387939--91387989 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
91387929 TAAAAAACTA
91387939 TAAATTTTATTAAATAT
1 TAAATTTTATTAAATAT
**
91387956 TAGAATTTTTAAAAAATAT
1 TA-AA-TTTTATTAAATAT
*
91387975 TAAATATTATTAAAT
1 TAAATTTTATTAAAT
91387990 CAAACAAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 10 0.37
18 4 0.15
19 13 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TAAATTTTATTAAATAT
Found at i:91388244 original size:17 final size:18
Alignment explanation
Indices: 91388198--91388244 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
91388188 ATAAATTTAT
* *
91388198 AAAAATTATATGTTATTA
1 AAAAATTAAATGTTATCA
91388216 AAAACTATTAAATGTTA-CA
1 AAAA--ATTAAATGTTATCA
91388235 AAAAATTAAA
1 AAAAATTAAA
91388245 ATTCTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 5 0.20
20 10 0.40
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (18 bp):
AAAAATTAAATGTTATCA
Found at i:91388525 original size:30 final size:30
Alignment explanation
Indices: 91388491--91388592 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
91388481 TATTACATGA
91388491 TTTAATTAATTGCTAACTTTCTATTAAAGG
1 TTTAATTAATTGCTAACTTTCTATTAAAGG
* * * *
91388521 TTTAATTGATTGC--ATTTTTTGA-CAAGAGG
1 TTTAATTAATTGCTAACTTTCT-ATTAA-AGG
* * * *
91388550 CTCAATTAATTGCTAACTTTCGATTAAATG
1 TTTAATTAATTGCTAACTTTCTATTAAAGG
*
91388580 TTTAATTGATTGC
1 TTTAATTAATTGC
91388593 ACTTTTTAAC
Statistics
Matches: 52, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
28 7 0.13
29 14 0.27
30 25 0.48
31 6 0.12
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (30 bp):
TTTAATTAATTGCTAACTTTCTATTAAAGG
Found at i:91388586 original size:59 final size:59
Alignment explanation
Indices: 91388494--91388619 Score: 191
Period size: 59 Copynumber: 2.1 Consensus size: 59
91388484 TACATGATTT
* * * *
91388494 AATTAATTGCTAACTTTCTATTAAAGGTTTAATTGATTGCATTTTTTGACAA-GAGGCTC
1 AATTAATTGCTAACTTTCGATTAAAGGTTTAATTGATTGCACTTTTTAACAATG-GGATC
*
91388553 AATTAATTGCTAACTTTCGATTAAATGTTTAATTGATTGCACTTTTTAACAATGGGATC
1 AATTAATTGCTAACTTTCGATTAAAGGTTTAATTGATTGCACTTTTTAACAATGGGATC
91388612 AATTAATT
1 AATTAATT
91388620 TTATAATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 60 0.98
60 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (59 bp):
AATTAATTGCTAACTTTCGATTAAAGGTTTAATTGATTGCACTTTTTAACAATGGGATC
Found at i:91389775 original size:27 final size:26
Alignment explanation
Indices: 91389732--91389784 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
91389722 TTATGTTATT
*
91389732 TTAAATACTTTTTAAGG-CTTTTTAA
1 TTAAATACTTTTCAAGGTCTTTTTAA
91389757 TTAAATAAGCTTTTCAAGGTCTTTTTAA
1 TTAAAT-A-CTTTTCAAGGTCTTTTTAA
91389785 AGGCATTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
26 1 0.04
27 9 0.38
28 8 0.33
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (26 bp):
TTAAATACTTTTCAAGGTCTTTTTAA
Found at i:91400355 original size:12 final size:12
Alignment explanation
Indices: 91400338--91400370 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
91400328 TGGCCCGCCC
91400338 ATATTAATTTTT
1 ATATTAATTTTT
91400350 ATATT-ATTTTT
1 ATATTAATTTTT
91400361 ATA-TAATTTT
1 ATATTAATTTT
91400371 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:91400529 original size:28 final size:27
Alignment explanation
Indices: 91400498--91400552 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
91400488 TAAGAAAATG
91400498 TTTC-TAAAATAATAACAAAATTAACAAA
1 TTTCTTAAAATAAT-A-AAAATTAACAAA
91400526 TTTCTTTAAAATAATAAAAATTAACAA
1 TTTC-TTAAAATAATAAAAATTAACAA
91400553 TAAAATAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 15 0.60
29 1 0.04
30 9 0.36
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (27 bp):
TTTCTTAAAATAATAAAAATTAACAAA
Found at i:91400624 original size:11 final size:11
Alignment explanation
Indices: 91400590--91400629 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
91400580 CAATAATAAC
*
91400590 AAAATAGTAGC
1 AAAATAGTAGT
* *
91400601 AACATAATAGT
1 AAAATAGTAGT
91400612 AAAATAGTAGT
1 AAAATAGTAGT
91400623 AAAATAG
1 AAAATAG
91400630 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (11 bp):
AAAATAGTAGT
Found at i:91401686 original size:12 final size:12
Alignment explanation
Indices: 91401656--91401723 Score: 75
Period size: 12 Copynumber: 5.7 Consensus size: 12
91401646 AATAGAGTTC
91401656 AAAATATAAAGA-
1 AAAA-ATAAAGAT
* *
91401668 CAAAATAAACAT
1 AAAAATAAAGAT
*
91401680 AAAAATAAAAAT
1 AAAAATAAAGAT
91401692 AAAAATAAAGAT
1 AAAAATAAAGAT
*
91401704 AAAGATAAAGAT
1 AAAAATAAAGAT
*
91401716 AAAGATAA
1 AAAAATAA
91401724 TCGGACTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
11 6 0.12
12 43 0.88
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAAATAAAGAT
Found at i:91401687 original size:6 final size:6
Alignment explanation
Indices: 91401669--91401723 Score: 65
Period size: 6 Copynumber: 9.2 Consensus size: 6
91401659 ATATAAAGAC
* * * *
91401669 AAAATA AACATA AAAATA AAAATA AAAATA AAGATA AAGATA AAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
91401717 AAGATA A
1 AAAATA A
91401724 TCGGACTCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:91401692 original size:18 final size:18
Alignment explanation
Indices: 91401656--91401723 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
91401646 AATAGAGTTC
*
91401656 AAAATATAAAGA-CAAAAT
1 AAAA-ATAAAGATAAAAAT
* *
91401674 AAACATAAAAATAAAAAT
1 AAAAATAAAGATAAAAAT
*
91401692 AAAAATAAAGATAAAGAT
1 AAAAATAAAGATAAAAAT
*
91401710 AAAGATAAAGATAA
1 AAAAATAAAGATAA
91401724 TCGGACTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
17 6 0.14
18 36 0.86
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAAATAAAGATAAAAAT
Found at i:91403299 original size:7 final size:7
Alignment explanation
Indices: 91403283--91403328 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
91403273 ACTAAAATAG
*
91403283 AATAACA
1 AATAAGA
91403290 AATAAGA
1 AATAAGA
91403297 AATAAGA
1 AATAAGA
91403304 AATAAAGA
1 AAT-AAGA
91403312 AATAA-A
1 AATAAGA
*
91403318 AA-AATA
1 AATAAGA
91403324 AATAA
1 AATAA
91403329 AACTGAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
5 2 0.06
6 6 0.17
7 20 0.57
8 7 0.20
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (7 bp):
AATAAGA
Found at i:91403313 original size:8 final size:8
Alignment explanation
Indices: 91403289--91403325 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
91403279 ATAGAATAAC
91403289 AAAT-AAG
1 AAATAAAG
91403296 AAAT-AAG
1 AAATAAAG
91403303 AAATAAAG
1 AAATAAAG
*
91403311 AAATAAAA
1 AAATAAAG
91403319 AAATAAA
1 AAATAAA
91403326 TAAAACTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
7 11 0.39
8 17 0.61
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (8 bp):
AAATAAAG
Found at i:91407895 original size:26 final size:26
Alignment explanation
Indices: 91407859--91407966 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
91407849 TGATACAAAT
91407859 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91407885 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91407911 TGATAATGGGTTTGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91407937 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91407963 TGAT
1 TGAT
91407967 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91409598 original size:27 final size:28
Alignment explanation
Indices: 91409558--91409698 Score: 161
Period size: 27 Copynumber: 5.2 Consensus size: 28
91409548 AGGAAGCGTC
*
91409558 CTGGTGGCTATGCCACAAT-TATCTGAT
1 CTGGTGGCTCTGCCACAATATATCTGAT
*
91409585 ATGGTGGCTCTGCCAC-ATATATCT-AT
1 CTGGTGGCTCTGCCACAATATATCTGAT
* *
91409611 CCTGGTTGCTATGCCACAAT-TATCTGAT
1 -CTGGTGGCTCTGCCACAATATATCTGAT
*
91409639 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAATATATCTGAT
*
91409666 CTGGGGGCTCTGCCACAATAT-T-TGTAT
1 CTGGTGGCTCTGCCACAATATATCTG-AT
91409693 CTGGTG
1 CTGGTG
91409699 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 8 0.08
27 80 0.83
28 8 0.08
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAATATATCTGAT
Found at i:91409695 original size:54 final size:54
Alignment explanation
Indices: 91409556--91409698 Score: 207
Period size: 54 Copynumber: 2.6 Consensus size: 54
91409546 GGAGGAAGCG
*
91409556 TCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTA
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
* *
91409610 TCCTGGTTGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
* * * *
91409664 TTCTGGGGGCTCTGCCACAA-TATTTGTATCTGGTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
91409699 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
Found at i:91415275 original size:40 final size:39
Alignment explanation
Indices: 91415230--91415367 Score: 131
Period size: 40 Copynumber: 3.6 Consensus size: 39
91415220 GTATTTGTCA
*
91415230 GTTTATCCGATTAGTGCTGGGCACACATTTGATATCTTCG
1 GTTTATCCGACTAGTGCTGGGCACACATTTGATAT-TTCG
* * * * *
91415270 GTTTATCTGACTAGTGTTGGGCAGAC--CT-A-ATTATTG
1 GTTTATCCGACTAGTGCTGGGCACACATTTGATATT-TCG
* * *
91415306 TTTTATACGACTAGTGCTGGGTACACATTTGATATTGTCG
1 GTTTATCCGACTAGTGCTGGGCACACATTTGATATT-TCG
*
91415346 GTTTATCCGACTAGCGCTGGGC
1 GTTTATCCGACTAGTGCTGGGC
91415368 GTAAAACGTT
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
35 1 0.01
36 24 0.32
37 1 0.01
38 2 0.03
39 1 0.01
40 45 0.61
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (39 bp):
GTTTATCCGACTAGTGCTGGGCACACATTTGATATTTCG
Found at i:91424363 original size:40 final size:40
Alignment explanation
Indices: 91424277--91424363 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
91424267 CGACTATGTT
* *
91424277 TGGCACTTATTGTGCGATTCAAAATAGCTTTGCCTATATG
1 TGGCACTTAGTGTGCGATTCAAAATAGCTTCGCCTATATG
** ** *
91424317 AAGCACTTAGTGTGCGAATT-GGAATAGCTTCGGCTATATG
1 TGGCACTTAGTGTGCG-ATTCAAAATAGCTTCGCCTATATG
91424357 TGGCACT
1 TGGCACT
91424364 GAATGTTCGA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCAAAATAGCTTCGCCTATATG
Found at i:91424737 original size:31 final size:30
Alignment explanation
Indices: 91424680--91424738 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
91424670 GTATATACTC
*
91424680 AAAATTTAAGGGATTAAAGTGTAAATATGA
1 AAAATTTAAGGGATTAAAGTGCAAATATGA
91424710 AAAATTTGAAGGG-TTAATAGTGCAAATAT
1 AAAATTT-AAGGGATTAA-AGTGCAAATAT
91424739 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (30 bp):
AAAATTTAAGGGATTAAAGTGCAAATATGA
Found at i:91429475 original size:26 final size:26
Alignment explanation
Indices: 91429404--91429475 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
91429394 TGATAAAGGG
* *
91429404 TTAGGTAAATGTTCCATGAGAATGGA
1 TTAGGTAAATGTTCCATGATAATAGA
*
91429430 TTAGGTAAATGTTCCATGATAATAGT
1 TTAGGTAAATGTTCCATGATAATAGA
91429456 TTAGGTAAATGTTCCATGAT
1 TTAGGTAAATGTTCCATGAT
91429476 GGGCATTTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (26 bp):
TTAGGTAAATGTTCCATGATAATAGA
Found at i:91431103 original size:27 final size:27
Alignment explanation
Indices: 91431065--91431201 Score: 158
Period size: 27 Copynumber: 5.1 Consensus size: 27
91431055 AGCGTCCTGA
*
91431065 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTCTGCCACAATTATCTGATCTGG
*
91431092 TGGCTCTGCCAC-ATATATCTG-TCCTAG
1 TGGCTCTGCCACAAT-TATCTGAT-CTGG
*
91431119 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTCTGCCACAATTATCTGATCTGG
91431146 TGGCTCTGCCAC-ATATATCT-ATTCTGG
1 TGGCTCTGCCACAAT-TATCTGA-TCTGG
*
91431173 TGGCTCTACCACAA-TATCTGTATCTGG
1 TGGCTCTGCCACAATTATCTG-ATCTGG
91431200 TG
1 TG
91431202 ACTTCGTCAC
Statistics
Matches: 95, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
26 11 0.12
27 79 0.83
28 5 0.05
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
TGGCTCTGCCACAATTATCTGATCTGG
Found at i:91431140 original size:54 final size:54
Alignment explanation
Indices: 91431065--91431201 Score: 213
Period size: 54 Copynumber: 2.5 Consensus size: 54
91431055 AGCGTCCTGA
*
91431065 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAG
1 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTAG
* *
91431119 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGG
1 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTAG
* *
91431173 TGGCTCTACCACAA-TATCTGTATCTGGTG
1 TGGCTATGCCACAATTATCTG-ATCTGGTG
91431202 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 6 0.08
54 71 0.92
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (54 bp):
TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCCTAG
Found at i:91431213 original size:81 final size:80
Alignment explanation
Indices: 91431065--91431219 Score: 183
Period size: 81 Copynumber: 1.9 Consensus size: 80
91431055 AGCGTCCTGA
* *
91431065 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGGCTATGCCA
1 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTCCTAGTGACTATGCCA
91431130 CAATTATCTGATCTGG
66 CAA-TATCTGATCTGG
* * *
91431146 TGGCTCTGCCAC-ATATATCT-ATTCTGGTGGCTCTACCACA-ATATCTGTATCTGGTGACT-TC
1 TGGCTATGCCACAAT-TATCTGA-TCTGGTGGCTCTACCACATATATCTGT-CCTAGTGACTAT-
*
91431207 GTCACAATATCTG
62 GCCACAATATCTG
91431220 GCAGCCTCGC
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
80 18 0.28
81 46 0.72
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.34
Consensus pattern (80 bp):
TGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTCCTAGTGACTATGCCA
CAATATCTGATCTGG
Found at i:91436847 original size:57 final size:58
Alignment explanation
Indices: 91436759--91436877 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 58
91436749 GTTGGAAGAA
*
91436759 AGAAATAGTCTCAGCTTTCCTTATAAAAGAGA-AAAAAAAGAAATAGTGTCAGTTTGG
1 AGAAATAGTCTCAGCTTTCCTTATAAAAGAGAGAAAAAAAGAAATAGTCTCAGTTTGG
*
91436816 AGAAATAGTCTTAGCTTTCCTTATAAAAGAGAGAAAAAAAGAAATAGTCTCAGTTTGG
1 AGAAATAGTCTCAGCTTTCCTTATAAAAGAGAGAAAAAAAGAAATAGTCTCAGTTTGG
91436874 AGAA
1 AGAA
91436878 GTTCATAACC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 31 0.53
58 28 0.47
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (58 bp):
AGAAATAGTCTCAGCTTTCCTTATAAAAGAGAGAAAAAAAGAAATAGTCTCAGTTTGG
Found at i:91440079 original size:35 final size:35
Alignment explanation
Indices: 91440039--91440107 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
91440029 TTGTTAATTC
*
91440039 TTCTTTAAACGTGCTGAGTTCT-TTTTTTTTATTTG
1 TTCTTT-AACGTGCTGAGTTCTCTATTTTTTATTTG
* * *
91440074 TTCTTTAATGTGTTGGGTTCTCTATTTTTTATTT
1 TTCTTTAACGTGCTGAGTTCTCTATTTTTTATTT
91440108 TTTATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 12 0.41
35 17 0.59
ACGTcount: A:0.13, C:0.10, G:0.14, T:0.62
Consensus pattern (35 bp):
TTCTTTAACGTGCTGAGTTCTCTATTTTTTATTTG
Found at i:91442523 original size:36 final size:37
Alignment explanation
Indices: 91442483--91442559 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
91442473 GACTAAATAA
* * *
91442483 TAAAAATTGTAAAATTTGA-ATTTAGGGGTTGTTTTG
1 TAAAAACTATAAAATTTGAGATATAGGGGTTGTTTTG
** *
91442519 TAAAAACTATAATTTTTGAGGTATAGGGGTTGTTTTG
1 TAAAAACTATAAAATTTGAGATATAGGGGTTGTTTTG
91442556 TAAA
1 TAAA
91442560 TGTTGAAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 15 0.44
37 19 0.56
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (37 bp):
TAAAAACTATAAAATTTGAGATATAGGGGTTGTTTTG
Found at i:91443484 original size:54 final size:55
Alignment explanation
Indices: 91443375--91443503 Score: 161
Period size: 54 Copynumber: 2.4 Consensus size: 55
91443365 AATTGTTTAG
* * * *
91443375 TTTGATTCCTTTAGACTATGGAGAACTTATATTACCTACCAATATAATTACTCAA
1 TTTGATTCCTTTAGACTATGGAGAACTTAAACTACCAACCAATACAATTACTCAA
* * * * **
91443430 TTTGACTCC-TTAGACTATGGATAACTTAAACTACCAACTAATACATTTGGTCAA
1 TTTGATTCCTTTAGACTATGGAGAACTTAAACTACCAACCAATACAATTACTCAA
91443484 TTTGATTCCTTTAGACTATG
1 TTTGATTCCTTTAGACTATG
91443504 TATTATGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
54 44 0.71
55 18 0.29
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.38
Consensus pattern (55 bp):
TTTGATTCCTTTAGACTATGGAGAACTTAAACTACCAACCAATACAATTACTCAA
Found at i:91444858 original size:39 final size:39
Alignment explanation
Indices: 91444804--91444878 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
91444794 GATTTAGGCT
91444804 GTGTGGGCTACACGAGCGTGTAGGATTTTGGGTCAGTCC
1 GTGTGGGCTACACGAGCGTGTAGGATTTTGGGTCAGTCC
*
91444843 GTGTGTGCTACACGAGCGTGTAGGATTTTGGGTCAG
1 GTGTGGGCTACACGAGCGTGTAGGATTTTGGGTCAG
91444879 GTCGTCCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.16, C:0.16, G:0.39, T:0.29
Consensus pattern (39 bp):
GTGTGGGCTACACGAGCGTGTAGGATTTTGGGTCAGTCC
Found at i:91444895 original size:39 final size:39
Alignment explanation
Indices: 91444813--91444896 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
91444803 TGTGTGGGCT
** *
91444813 ACACGAGCGTGTAGGATTTTGGGTCAGTCCGTGTGTGCT
1 ACACGAGCGTGTAGGATTTTGGGTCAGTCCGTCCGTGCC
91444852 ACACGAGCGTGTAGGATTTTGGGTCAGGT-CGTCCGAT-CC
1 ACACGAGCGTGTAGGATTTTGGGTCA-GTCCGTCCG-TGCC
91444891 ACACGA
1 ACACGA
91444897 CCAAGGAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 37 0.93
40 3 0.08
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.26
Consensus pattern (39 bp):
ACACGAGCGTGTAGGATTTTGGGTCAGTCCGTCCGTGCC
Found at i:91454822 original size:13 final size:13
Alignment explanation
Indices: 91454804--91454835 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
91454794 TGTACCTTAA
*
91454804 TTAACTATTTCAT
1 TTAACTAATTCAT
91454817 TTAACTAATTCAT
1 TTAACTAATTCAT
91454830 TTAACT
1 TTAACT
91454836 TATAACTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAACTAATTCAT
Found at i:91457304 original size:20 final size:19
Alignment explanation
Indices: 91457265--91457326 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
91457255 ATCTACACTA
*
91457265 AATT-GGTTAATTACAATT
1 AATTAGGTTAATTATAATT
*
91457283 AAGGTTA-GTTAATTATAGTT
1 AA--TTAGGTTAATTATAATT
*
91457303 AATTAGGTTAATTATAAAT
1 AATTAGGTTAATTATAATT
91457322 AATTA
1 AATTA
91457327 TAATTTTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 5 0.14
19 16 0.44
20 15 0.42
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.44
Consensus pattern (19 bp):
AATTAGGTTAATTATAATT
Found at i:91461207 original size:5 final size:5
Alignment explanation
Indices: 91461197--91461236 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
91461187 AATTTGTGTG
*
91461197 TTATT TTATT TT-TT TT-CT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
91461237 TTTCACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:91465676 original size:17 final size:17
Alignment explanation
Indices: 91465654--91465686 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
91465644 AATTTGTGTG
91465654 TTATTTTATTTTTTTCT
1 TTATTTTATTTTTTTCT
91465671 TTATTTTATTTTTTTC
1 TTATTTTATTTTTTTC
91465687 ACATTGTCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (17 bp):
TTATTTTATTTTTTTCT
Found at i:91470016 original size:26 final size:26
Alignment explanation
Indices: 91469987--91470094 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
91469977 TGGTACAAAT
91469987 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
91470013 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91470039 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91470065 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91470091 TGAT
1 TGAT
91470095 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91473540 original size:37 final size:37
Alignment explanation
Indices: 91473490--91473568 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
91473480 TTATTACGAA
* * * *
91473490 GTCTTACCCGGACATAATCTCCATACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
91473527 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
91473564 GTCTT
1 GTCTT
91473569 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:91473765 original size:47 final size:47
Alignment explanation
Indices: 91473687--91473871 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
91473677 CCCTTCGGGA
* * * * * *
91473687 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
91473734 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
91473781 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
91473828 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
91473872 CAAAGCTTCA
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:91477369 original size:27 final size:27
Alignment explanation
Indices: 91477331--91477386 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
91477321 TAAGGTCAGG
91477331 TATCGATACTAGATGTAAAAATATCCA
1 TATCGATACTAGATGTAAAAATATCCA
91477358 TATCGATACTAGATGTAAAAATATCCA
1 TATCGATACTAGATGTAAAAATATCCA
91477385 TA
1 TA
91477387 CTTGAGTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (27 bp):
TATCGATACTAGATGTAAAAATATCCA
Found at i:91479108 original size:16 final size:16
Alignment explanation
Indices: 91479087--91479121 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
91479077 TGCTACTTGT
91479087 TTTCATT-TTATTTTTA
1 TTTCATTGTTA-TTTTA
91479103 TTTCATTGTTATTTTA
1 TTTCATTGTTATTTTA
91479119 TTT
1 TTT
91479122 ACTCATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTCATTGTTATTTTA
Found at i:91479650 original size:31 final size:32
Alignment explanation
Indices: 91479599--91479667 Score: 122
Period size: 31 Copynumber: 2.2 Consensus size: 32
91479589 CGAAACCACC
*
91479599 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
91479631 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTTGATTCTGTTACCTGATACTG
91479662 ATTCTG
1 ATTCTG
91479668 TCACCTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 29 0.81
32 7 0.19
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (32 bp):
ATTCTGATTTTTGATTCTGTTACCTGATACTG
Found at i:91479663 original size:19 final size:19
Alignment explanation
Indices: 91479641--91479686 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
91479631 ATTCTGATTT
* *
91479641 TGATTCTGTTACCTGATAC
1 TGATTCTGTCACCTAATAC
*
91479660 TGATTCTGTCACCTAATTC
1 TGATTCTGTCACCTAATAC
91479679 TGATTCTG
1 TGATTCTG
91479687 ATTCTAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
TGATTCTGTCACCTAATAC
Found at i:91480524 original size:87 final size:87
Alignment explanation
Indices: 91480386--91480833 Score: 488
Period size: 87 Copynumber: 5.2 Consensus size: 87
91480376 CCGGCACGTA
** ** * * * * * * **
91480386 AGTGCATCATCGGAT-AAATTGAAGAAAATATACTGGCACAAATAGTGCATCATCAGATATACTG
1 AGTGCATCATCGGATGAAACCGAAGCTACTATATTGGCACACACAGTGCATCATCGGATAAACCA
* **
91480450 AAGCAAATATACTAACACACAC
66 AAGAAAATATACTGGCACACAC
* * * *
91480472 AGTGCATCATTGGATGAAACTGAAACTACTATATTAGCACACACAGTGCATCATCGGATAAACCA
1 AGTGCATCATCGGATGAAACCGAAGCTACTATATTGGCACACACAGTGCATCATCGGATAAACCA
*
91480537 AAGAAAATATACTGGTACACAC
66 AAGAAAATATACTGGCACACAC
* * *
91480559 AGTGCATCATCGGATGAAACCGAAGCTACTATACTGGCACACACAGTGGATCATCGGATAAATCA
1 AGTGCATCATCGGATGAAACCGAAGCTACTATATTGGCACACACAGTGCATCATCGGATAAACCA
*
91480624 AAGAAAATATACTGGTACACAC
66 AAGAAAATATACTGGCACACAC
*
91480646 AGTGCATCATCGGATGAAACCGAAGCTACTATATTGGCACACACAATGCATCATCGGATAAACCA
1 AGTGCATCATCGGATGAAACCGAAGCTACTATATTGGCACACACAGTGCATCATCGGATAAACCA
91480711 AAGAAAATATACTGGCACACAC
66 AAGAAAATATACTGGCACACAC
* * ** * * * * * * * * * *
91480733 AGTGCATCATCAGCT-ATGCTGAAGCAAATATACTT-GCATACATAATGCATCGTTGGATATACT
1 AGTGCATCATCGGATGAAACCGAAGCTACTATA-TTGGCACACACAGTGCATCATCGGATAAACC
* **
91480796 AAAGCAAATATACTGGCACATGC
65 AAAGAAAATATACTGGCACACAC
91480819 AGTGCATCATCGGAT
1 AGTGCATCATCGGAT
91480834 ATACCAAAGT
Statistics
Matches: 312, Mismatches: 48, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
86 81 0.26
87 231 0.74
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (87 bp):
AGTGCATCATCGGATGAAACCGAAGCTACTATATTGGCACACACAGTGCATCATCGGATAAACCA
AAGAAAATATACTGGCACACAC
Found at i:91480762 original size:130 final size:129
Alignment explanation
Indices: 91480386--91480842 Score: 350
Period size: 130 Copynumber: 3.5 Consensus size: 129
91480376 CCGGCACGTA
*** * * * * * **
91480386 AGTGCATCATCGGATAAATTGAAGAAAATATACTGGCACAAATAGTGCATCATCAGAT-ATACTG
1 AGTGCATCATCGGATAAACCAAAGAAAATATACTGGCACACACAATGCATCATCGGATGAAACCA
* ** ** ** * * *
91480450 AAGCAAATATACTAACACACACAGTGCATCATTGGATGAA--ACTGAAACTACTATATTAGCACA
66 AAGAAAATATACTGGCACACACAGTGCATCATCAGAT-AATCAAAGAAA--A-TATACTGGTACA
91480513 CAC
127 CAC
* * *
91480516 AGTGCATCATCGGATAAACCAAAGAAAATATACTGGTACACACAGTGCATCATCGGATGAAACCG
1 AGTGCATCATCGGATAAACCAAAGAAAATATACTGGCACACACAATGCATCATCGGATGAAACCA
** * * *
91480581 AAGCTACTATACTGGCACACACAGTGGATCATCGGATAAATCAAAGAAAATATACTGGTACACAC
66 AAGAAAATATACTGGCACACACAGTGCATCATCAGAT-AATCAAAGAAAATATACTGGTACACAC
* ** * *
91480646 AGTGCATCATCGGATGAAACCGAAGCTACTATATTGGCACACACAATGCATCATCGGAT-AAACC
1 AGTGCATCATCGGAT-AAACCAAAGAAAATATACTGGCACACACAATGCATCATCGGATGAAACC
* * * * * *
91480710 AAAGAAAATATACTGGCACACACAGTGCATCATCAGCT-ATGCTGAAGCAAATATACTTGCATAC
65 AAAGAAAATATACTGGCACACACAGTGCATCATCAGATAAT-C-AAAGAAAATATACTGGTACAC
*
91480774 AT
128 AC
* * * * * * ** * *
91480776 AATGCATCGTTGGATATACTAAAGCAAATATACTGGCACATGCAGTGCATCATCGGAT-ATACCA
1 AGTGCATCATCGGATAAACCAAAGAAAATATACTGGCACACACAATGCATCATCGGATGAAACCA
91480840 AAG
66 AAG
91480843 TATAACCTGT
Statistics
Matches: 267, Mismatches: 54, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
128 2 0.01
129 43 0.16
130 143 0.54
131 74 0.28
133 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (129 bp):
AGTGCATCATCGGATAAACCAAAGAAAATATACTGGCACACACAATGCATCATCGGATGAAACCA
AAGAAAATATACTGGCACACACAGTGCATCATCAGATAATCAAAGAAAATATACTGGTACACAC
Found at i:91480837 original size:43 final size:43
Alignment explanation
Indices: 91480386--91480834 Score: 416
Period size: 43 Copynumber: 10.4 Consensus size: 43
91480376 CCGGCACGTA
* * * * *
91480386 AGTGCATCATCGGATAAATTGAAGAAAATATACTGGCACAAAT
1 AGTGCATCATCGGATAAACTAAAGCAAATATACTGGCACACAC
* * * **
91480429 AGTGCATCATCAGATATACTGAAGCAAATATACTAACACACAC
1 AGTGCATCATCGGATAAACTAAAGCAAATATACTGGCACACAC
* * * * *
91480472 AGTGCATCATTGGATGAAACTGAAA-CTACTATATTAGCACACAC
1 AGTGCATCATCGGAT-AAACT-AAAGCAAATATACTGGCACACAC
* * *
91480516 AGTGCATCATCGGATAAACCAAAGAAAATATACTGGTACACAC
1 AGTGCATCATCGGATAAACTAAAGCAAATATACTGGCACACAC
** * *
91480559 AGTGCATCATCGGATGAAACCGAAGCTACTATACTGGCACACAC
1 AGTGCATCATCGGAT-AAACTAAAGCAAATATACTGGCACACAC
* * *
91480603 AGTGGATCATCGGATAAA-TCAAAGAAAATATACTGGTACACAC
1 AGTGCATCATCGGATAAACT-AAAGCAAATATACTGGCACACAC
** * * *
91480646 AGTGCATCATCGGATGAAACCGAAGCTACTATATTGGCACACAC
1 AGTGCATCATCGGAT-AAACTAAAGCAAATATACTGGCACACAC
* * *
91480690 AATGCATCATCGGATAAACCAAAGAAAATATACTGGCACACAC
1 AGTGCATCATCGGATAAACTAAAGCAAATATACTGGCACACAC
* * ** * * * *
91480733 AGTGCATCATCAGCTATGCTGAAGCAAATATACTTGCATACAT
1 AGTGCATCATCGGATAAACTAAAGCAAATATACTGGCACACAC
* * * * **
91480776 AATGCATCGTTGGATATACTAAAGCAAATATACTGGCACATGC
1 AGTGCATCATCGGATAAACTAAAGCAAATATACTGGCACACAC
91480819 AGTGCATCATCGGATA
1 AGTGCATCATCGGATA
91480835 TACCAAAGTA
Statistics
Matches: 323, Mismatches: 76, Indels: 14
0.78 0.18 0.03
Matches are distributed among these distances:
42 3 0.01
43 214 0.66
44 104 0.32
45 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (43 bp):
AGTGCATCATCGGATAAACTAAAGCAAATATACTGGCACACAC
Found at i:91487653 original size:21 final size:20
Alignment explanation
Indices: 91487629--91487679 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
91487619 CAAGAGATTA
91487629 TTTAGAATT-TAATTTAATTT
1 TTTA-AATTATAATTTAATTT
*
91487649 CTTTAAATTATCATTTAATTT
1 -TTTAAATTATAATTTAATTT
91487670 TTTATAATTA
1 TTTA-AATTA
91487680 AATAATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAAATTATAATTTAATTT
Found at i:91488572 original size:24 final size:24
Alignment explanation
Indices: 91488527--91488573 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
91488517 ATAAAAACTA
* *
91488527 AACCCTGAAAACCTGAAAACAAAG
1 AACCCTCAAAACATGAAAACAAAG
91488551 AACCCTCAAAACAT-AAACACAAA
1 AACCCTCAAAACATGAAA-ACAAA
91488574 ATTCTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.57, C:0.28, G:0.06, T:0.09
Consensus pattern (24 bp):
AACCCTCAAAACATGAAAACAAAG
Found at i:91488651 original size:88 final size:88
Alignment explanation
Indices: 91488539--91488714 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
91488529 CCCTGAAAAC
91488539 CTGAAAACAAAGAACCCTCAAAACATAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
1 CTGAAAACAAAGAACCCTCAAAACATAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
91488604 CTAATGGATTTTTTTCTAATGTT
66 CTAATGGATTTTTTTCTAATGTT
91488627 CTGAAAACAAAGAACCCTCAAAACATAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
1 CTGAAAACAAAGAACCCTCAAAACATAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
91488692 CTAATGGATTTTTTTCTAATGTT
66 CTAATGGATTTTTTTCTAATGTT
91488715 GTAAAAGAGC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (88 bp):
CTGAAAACAAAGAACCCTCAAAACATAAACACAAAATTCTCTAAATGTGTTATGAGTTCTAATCT
CTAATGGATTTTTTTCTAATGTT
Found at i:91492607 original size:40 final size:40
Alignment explanation
Indices: 91492542--91492638 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
91492532 CCATCTCCGT
* *
91492542 CCAACCCAACACACC-AG-GTGGGGATAAAATAAACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATAAACCCAC
* * * * *
91492580 CCAGCTCTACACACCAAGTATGGGGATAGAATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATAAACCCAC
91492620 CCAACCCTACACACCAAGT
1 CCAACCCTACACACCAAGT
91492639 GGTACCGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
38 12 0.25
39 2 0.04
40 34 0.71
ACGTcount: A:0.38, C:0.35, G:0.14, T:0.12
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATAAACCCAC
Found at i:91494807 original size:33 final size:33
Alignment explanation
Indices: 91494707--91494865 Score: 146
Period size: 33 Copynumber: 4.8 Consensus size: 33
91494697 GAACATTGAA
* *
91494707 AGTCCACTAGGACAGTAAGCACATAATAGAGAT
1 AGTCCACTAGGACAGTAAACACATAATAGAAAT
* ** *
91494740 AATCTGC-AGAGACAGTAAACACAAAATAGAAAT
1 AGTCCACTAG-GACAGTAAACACATAATAGAAAT
* *
91494773 AGTCCGCTAGGACAGTAAACACATAATAAAAAT
1 AGTCCACTAGGACAGTAAACACATAATAGAAAT
* * *
91494806 AG-CCTACT-GTGACATTAAACACATAACAGAGAT
1 AGTCC-ACTAG-GACAGTAAACACATAATAGAAAT
* *
91494839 AGTCCACTGGGAAAGTAAACACA-AATA
1 AGTCCACTAGGACAGTAAACACATAATA
91494866 AAGTTTATCG
Statistics
Matches: 102, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
32 8 0.08
33 89 0.87
34 5 0.05
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.18
Consensus pattern (33 bp):
AGTCCACTAGGACAGTAAACACATAATAGAAAT
Found at i:91494825 original size:66 final size:66
Alignment explanation
Indices: 91494707--91494867 Score: 180
Period size: 66 Copynumber: 2.5 Consensus size: 66
91494697 GAACATTGAA
* * * * * *
91494707 AGTCCACTAGGACAGTAAGCACATAATAGAGATAATCTGCAGAGACAGTAAACACAAAATAGAAA
1 AGTCCACTAGGACAGTAAACACATAATAAAAATAACCTACAGAGACAGTAAACACAAAACAGAAA
91494772 T
66 T
* * * * * * *
91494773 AGTCCGCTAGGACAGTAAACACATAATAAAAATAGCCTACTGTGACATTAAACACATAACAGAGA
1 AGTCCACTAGGACAGTAAACACATAATAAAAATAACCTACAGAGACAGTAAACACAAAACAGAAA
91494838 T
66 T
* *
91494839 AGTCCACTGGGAAAGTAAACACA-AATAAA
1 AGTCCACTAGGACAGTAAACACATAATAAA
91494868 GTTTATCGGG
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
65 6 0.08
66 73 0.92
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (66 bp):
AGTCCACTAGGACAGTAAACACATAATAAAAATAACCTACAGAGACAGTAAACACAAAACAGAAA
T
Found at i:91506320 original size:244 final size:244
Alignment explanation
Indices: 91505891--91506376 Score: 837
Period size: 244 Copynumber: 2.0 Consensus size: 244
91505881 TTCTCGAGGT
* *
91505891 AGACCCCCGAGACATCCCAGAAATGCAAGTGGCAGTTGAACTGTTGCTAAGGATGCTACTGTAAA
1 AGACCCCCGAGACATCCCAGAAATGCAAGTGGCAGTCGAACTGTTGCTAAGGATGCTACTGCAAA
* * *
91505956 ACCAGAGGCTCGAGCCCGGGAAAGAACTTATGCAATACGCGCTCGAGATGAAGCCACTACTCCCG
66 ACCAGAGGCTCGAGCCCCGGAAAGAACTTATGCAATAAGCGCTCGAGAGGAAGCCACTACTCCCG
*
91506021 ATGTCATCAGGGTACATTTTATATCTGTAATACTCGTGTCATTGCCTTAATTGATCTAGGGTCAA
131 ATGTCATCAGGGTACATTTTATATCTGTAATACTCGTGTCATTGCCTTAATTGATCCAGGGTCAA
* **
91506086 TCCATTCATACATTTGTATGGACTTGGTGTCTAGTATGGATATGTCTGC
196 TCCATTCATAAATTTGTATAAACTTGGTGTCTAGTATGGATATGTCTGC
*
91506135 AGACCCCCGAGACATCCCAGAAGTGCAAGTGGCAGTCGAACTGTTGCTAAGGATGCTACTGCAAA
1 AGACCCCCGAGACATCCCAGAAATGCAAGTGGCAGTCGAACTGTTGCTAAGGATGCTACTGCAAA
*
91506200 ACCAGAGGCTCGAGCCCCGGCAAGAACTTATGCAATAAGCGCTCGAGAGGAAGCCACTACTCCCG
66 ACCAGAGGCTCGAGCCCCGGAAAGAACTTATGCAATAAGCGCTCGAGAGGAAGCCACTACTCCCG
* * *
91506265 ATGTCATCAGGGTACATTTTATATTTGTAATACTTGTGTCATTGCCTTAATTGATCCAGGGTTAA
131 ATGTCATCAGGGTACATTTTATATCTGTAATACTCGTGTCATTGCCTTAATTGATCCAGGGTCAA
*
91506330 TCCATTCGTAAATTTGTATAAACTTGGTGTCTAGTATGGATATGTCT
196 TCCATTCATAAATTTGTATAAACTTGGTGTCTAGTATGGATATGTCT
91506377 ATAGAACCTA
Statistics
Matches: 227, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
244 227 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (244 bp):
AGACCCCCGAGACATCCCAGAAATGCAAGTGGCAGTCGAACTGTTGCTAAGGATGCTACTGCAAA
ACCAGAGGCTCGAGCCCCGGAAAGAACTTATGCAATAAGCGCTCGAGAGGAAGCCACTACTCCCG
ATGTCATCAGGGTACATTTTATATCTGTAATACTCGTGTCATTGCCTTAATTGATCCAGGGTCAA
TCCATTCATAAATTTGTATAAACTTGGTGTCTAGTATGGATATGTCTGC
Found at i:91512353 original size:28 final size:29
Alignment explanation
Indices: 91512321--91512375 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
91512311 CACGAGCGAT
91512321 GACAC-GA-GTGTGTCTAGGCCGTGTGAGG
1 GACACGGACGTGTG-CTAGGCCGTGTGAGG
*
91512349 GACACGGACGTGTGCTTGGCCGTGTGA
1 GACACGGACGTGTGCTAGGCCGTGTGA
91512376 AAACCTCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 14 0.58
30 5 0.21
ACGTcount: A:0.16, C:0.20, G:0.42, T:0.22
Consensus pattern (29 bp):
GACACGGACGTGTGCTAGGCCGTGTGAGG
Found at i:91513180 original size:43 final size:43
Alignment explanation
Indices: 91513132--91513287 Score: 206
Period size: 43 Copynumber: 3.6 Consensus size: 43
91513122 GGTACTGGTT
* *
91513132 TAAAGAACATGATCTTTAGTGGTGCTTTTCCTACAAACGCTGC
1 TAAAGAACATGATCTTTAGCGGCGCTTTTCCTACAAACGCTGC
* *
91513175 TAAAGAACATGATTTTTAGCGGCGTTTTTCCTACAAACGCTGC
1 TAAAGAACATGATCTTTAGCGGCGCTTTTCCTACAAACGCTGC
* * * * *
91513218 TAAAGATCATGATCTTTAACGGCGCTTTTACTA-ATAATGCCGC
1 TAAAGAACATGATCTTTAGCGGCGCTTTTCCTACA-AACGCTGC
*
91513261 TATAGAACATGATCTTTAGCGGCGCTT
1 TAAAGAACATGATCTTTAGCGGCGCTT
91513288 CTTAAAAAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 97 0.99
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (43 bp):
TAAAGAACATGATCTTTAGCGGCGCTTTTCCTACAAACGCTGC
Found at i:91513847 original size:30 final size:27
Alignment explanation
Indices: 91513797--91513852 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
91513787 TTGGGTTAAG
91513797 GAATTGTATAAGATTTGTTGTTATTAT
1 GAATTGTATAAGATTTGTTGTTATTAT
*
91513824 GAATTGTATAAGATTTGTTGTTGTTAT
1 GAATTGTATAAGATTTGTTGTTATTAT
91513851 GA
1 GA
91513853 TCATCATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (27 bp):
GAATTGTATAAGATTTGTTGTTATTAT
Found at i:91515691 original size:31 final size:31
Alignment explanation
Indices: 91515653--91515714 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
91515643 TATTTTGGAG
91515653 TTAGCAGCTTAAAGGAGCCAAACCCAACGAC
1 TTAGCAGCTTAAAGGAGCCAAACCCAACGAC
91515684 TTAGCAGCTTAAAGGAGCCAAACCCAACGAC
1 TTAGCAGCTTAAAGGAGCCAAACCCAACGAC
91515715 GGCTTTGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.29, G:0.19, T:0.13
Consensus pattern (31 bp):
TTAGCAGCTTAAAGGAGCCAAACCCAACGAC
Found at i:91521490 original size:20 final size:21
Alignment explanation
Indices: 91521453--91521499 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
91521443 GCGACAAAAA
91521453 GAAAAAAAGAAGATTAGAACAC
1 GAAAAAAAGAAGATTAG-ACAC
91521475 -AAAAAAA-AA-ATGTAGACAC
1 GAAAAAAAGAAGAT-TAGACAC
91521494 GAAAAA
1 GAAAAA
91521500 TACGAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 6 0.26
20 10 0.43
21 7 0.30
ACGTcount: A:0.68, C:0.09, G:0.15, T:0.09
Consensus pattern (21 bp):
GAAAAAAAGAAGATTAGACAC
Found at i:91523045 original size:13 final size:13
Alignment explanation
Indices: 91523029--91523060 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
91523019 TGTCCTTGCC
91523029 CTTTTTCCTTTTT
1 CTTTTTCCTTTTT
*
91523042 CTTTTTCTTTTTT
1 CTTTTTCCTTTTT
91523055 CTTTTT
1 CTTTTT
91523061 GTACTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
CTTTTTCCTTTTT
Found at i:91524401 original size:22 final size:20
Alignment explanation
Indices: 91524364--91524404 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
91524354 CTCTCTTTAA
91524364 ATTTTTTTTATTTTCCTTTT
1 ATTTTTTTTATTTTCCTTTT
*
91524384 ATTTTTCTTTTTTCTTCCTTT
1 ATTTTT-TTTATT-TTCCTTT
91524405 ATAATGTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (20 bp):
ATTTTTTTTATTTTCCTTTT
Found at i:91531367 original size:20 final size:20
Alignment explanation
Indices: 91531342--91531383 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
91531332 CGATACCTTT
* *
91531342 AAAAAGTACTGTTCCTTAAA
1 AAAAAGTACTGATACTTAAA
*
91531362 AAAAAGTATTGATACTTAAA
1 AAAAAGTACTGATACTTAAA
91531382 AA
1 AA
91531384 TGTATCGACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
AAAAAGTACTGATACTTAAA
Found at i:91534592 original size:46 final size:46
Alignment explanation
Indices: 91534542--91534717 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
91534532 TGGTTGAGCA
91534542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91534588 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
91534633 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
91534681 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91534718 GCGAGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:91534698 original size:93 final size:93
Alignment explanation
Indices: 91534539--91534710 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
91534529 GGATGGTTGA
*
91534539 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
91534604 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
91534632 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
91534696 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
91534711 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:91539583 original size:12 final size:12
Alignment explanation
Indices: 91539564--91539600 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
91539554 AGTTGTTAAA
91539564 TTGTTAG-TAGT
1 TTGTTAGTTAGT
91539575 TTGGTTAGTTAGT
1 TT-GTTAGTTAGT
91539588 TTGTTAGTTAGT
1 TTGTTAGTTAGT
91539600 T
1 T
91539601 AAATATGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 2 0.08
12 16 0.67
13 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (12 bp):
TTGTTAGTTAGT
Found at i:91542862 original size:13 final size:13
Alignment explanation
Indices: 91542844--91542879 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
91542834 GTGTGTGGAG
91542844 AAGAAAAGAGAGA
1 AAGAAAAGAGAGA
*
91542857 AAGAAAGGAGAGA
1 AAGAAAAGAGAGA
91542870 AAGGAAAAGA
1 AA-GAAAAGA
91542880 AAAAAAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAGAGA
Found at i:91543509 original size:104 final size:103
Alignment explanation
Indices: 91543227--91543773 Score: 607
Period size: 104 Copynumber: 5.3 Consensus size: 103
91543217 ATAAATTGTT
* *
91543227 GTGTTTTGTGAGTTTTTAGTAATATAA-TTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTA
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTA
*
91543291 GTTTATGATTAGGTTATAAATTGTTAGTG--T--TTT-
66 ATTTATGATTAGGTTATAAATTGTTAGTGTTTAATTTA
* * ***** * * *
91543324 CTGTTTTGTTATTTTTTAGTAATGTAATTTCTTTTTTTTTAAAT-GTTATAGTTATTTATTTTGT
1 GTGTTTTGTGATTTTTTAGTAATGTAA--T-TTTTAAAAAAAATAATTTTA--TAGTTATTTTGT
* * *
91543388 TAGTAATTTATGGGATTACGTTATAAATTGTTAGTGTTTAGTTTT
61 TAGTAATTTAT--GATTAGGTTATAAATTGTTAGTGTTTAATTTA
* *
91543433 GAGTTTTGTGATTTTTTTAGTAATGTAATTTTTAAAAAAAATAATTTTATCGTTATTTTGTTAGT
1 GTGTTTTGTGA-TTTTTTAGTAATGTAATTTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGT
* *
91543498 AATTTATGATTATGTTATATAAATTGTTAGTATTTAATTTA
65 AATTTATGATTA-GGT-TATAAATTGTTAGTGTTTAATTTA
* * ***
91543539 GTGTTTTGTGATTCTTTAGTAATTTAAATTTTTTTTAAAAA-AA-TTTATAGTTATTTTGTTAGT
1 GTGTTTTGTGATTTTTTAGTAATGT-AATTTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGT
*
91543602 AATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
65 AATTTATGATTAGG-T-TATAAATTGTTAGTGTTTAATTTA
*
91543643 GTGTTTTGTGATTTTTTAGTAATGTAA--TTTAAAAAAAATAATTTTATAGTTATTTTTTTAGTA
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTA
* *
91543706 ATTTATGATTAGGTTAAATAAATTTTTAGTATTTAATTTA
66 ATTTATGATTAGGTT--ATAAATTGTTAGTGTTTAATTTA
91543746 GTGTTTTGTGATTTTTT--TAATGTAATTT
1 GTGTTTTGTGATTTTTTAGTAATGTAATTT
91543774 ATATATAATG
Statistics
Matches: 375, Mismatches: 50, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
97 23 0.06
100 4 0.01
101 25 0.07
102 24 0.06
103 74 0.20
104 105 0.28
105 15 0.04
106 65 0.17
107 8 0.02
108 8 0.02
109 8 0.02
110 16 0.04
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (103 bp):
GTGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTA
ATTTATGATTAGGTTATAAATTGTTAGTGTTTAATTTA
Found at i:91543751 original size:207 final size:208
Alignment explanation
Indices: 91543227--91543773 Score: 724
Period size: 207 Copynumber: 2.6 Consensus size: 208
91543217 ATAAATTGTT
* * *
91543227 GTGTTTTGTGAGTTTTTAGTAATATAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAG
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
* * * *
91543292 TTTATGATTAGGTT-ATAAATTGTTAG--TGT--TTT-CTGTTTTGTTATTTTTTAGTAATGTAA
66 TTTATGATTAGGTTAATAAATTGTTAGTATTTAATTTAGTGTTTTGTGATTCTTTAGTAATGTAA
****
91543351 TTTCTTTTTTTTTAAATGTTATAGTTATTTATTTTGTTAGTAATTTATGGGATTACGTTATAAAT
131 TTTCTTTTTAAAAAAATGTTATAG---TTTATTTTGTTAGTAATTTAT-GGATTACGTTATAAAT
*
91543416 TGTTAGTGTTTAGTTTT
192 TGTTAGTGTTTAGTTTA
* *
91543433 GAGTTTTGTGATTTTTTTAGTAATGTAATTTTTAAAAAAAATAATTTTATCGTTATTTTGTTAGT
1 GTGTTTTGTGA-TTTTTTAGTAATGTAA-TTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGT
* *
91543498 AATTTATGATTATGTTATATAAATTGTTAGTATTTAATTTAGTGTTTTGTGATTCTTTAGTAATT
64 AATTTATGATTAGGTTA-ATAAATTGTTAGTATTTAATTTAGTGTTTTGTGATTCTTTAGTAATG
*
91543563 TAAATTT-TTTTTAAAAAAAT-TTATAG-TTATTTTGTTAGTAATTTAT-GATTAGGTTATATAA
128 T-AATTTCTTTTTAAAAAAATGTTATAGTTTATTTTGTTAGTAATTTATGGATTACG-T-TATAA
91543624 ATTGTTAGTGTTTAGTTTA
190 ATTGTTAGTGTTTAGTTTA
*
91543643 GTGTTTTGTGATTTTTTAGTAATGTAA-TTTAAAAAAAATAATTTTATAGTTATTTTTTTAGTAA
1 GTGTTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
* *
91543707 TTTATGATTAGGTTAAATAAATTTTTAGTATTTAATTTAGTGTTTTGTGATT-TTT-TTAATGTA
66 TTTATGATTAGGTT-AATAAATTGTTAGTATTTAATTTAGTGTTTTGTGATTCTTTAGTAATGTA
91543770 ATTT
130 ATTT
91543774 ATATATAATG
Statistics
Matches: 304, Mismatches: 24, Indels: 28
0.85 0.07 0.08
Matches are distributed among these distances:
204 5 0.02
205 5 0.02
206 13 0.04
207 97 0.32
208 56 0.18
209 17 0.06
210 65 0.21
212 2 0.01
214 9 0.03
215 30 0.10
216 5 0.02
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (208 bp):
GTGTTTTGTGATTTTTTAGTAATGTAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
TTTATGATTAGGTTAATAAATTGTTAGTATTTAATTTAGTGTTTTGTGATTCTTTAGTAATGTAA
TTTCTTTTTAAAAAAATGTTATAGTTTATTTTGTTAGTAATTTATGGATTACGTTATAAATTGTT
AGTGTTTAGTTTA
Found at i:91545902 original size:46 final size:46
Alignment explanation
Indices: 91545843--91545939 Score: 137
Period size: 46 Copynumber: 2.1 Consensus size: 46
91545833 CCGACTTATA
*
91545843 TCCACCTCAGTACTCCACTCCTCCCGGTCC-GTATCCA-TCGCTGTAC
1 TCCACCTCAGTACTCCACTCCTCCCGG-CCTGTATCCACT-ACTGTAC
91545889 TCCACCATC-GTACTCCACTCCTCCCGGCCTGTATCCACTACTGTAC
1 TCCACC-TCAGTACTCCACTCCTCCCGGCCTGTATCCACTACTGTAC
91545935 TCCAC
1 TCCAC
91545940 TACTTTTGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
45 2 0.04
46 42 0.89
47 3 0.06
ACGTcount: A:0.16, C:0.46, G:0.11, T:0.26
Consensus pattern (46 bp):
TCCACCTCAGTACTCCACTCCTCCCGGCCTGTATCCACTACTGTAC
Found at i:91546225 original size:75 final size:73
Alignment explanation
Indices: 91546107--91546296 Score: 224
Period size: 75 Copynumber: 2.6 Consensus size: 73
91546097 TCAAACCATC
* * * * *
91546107 AATTTTAGGGG-GTTTTGTAATTT-AA-ATAACTTTATATTTATGTAATGAATTTTTTTCCATTT
1 AATTTTAGGGGTTTTTTGAAATTTAAATATAACTTTGTATTTATGTAATGAATTTTTTGCCACTT
91546169 TAGTTATT
66 TAGTTATT
* *
91546177 AATTTTAGGGGTTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTTGCCAC
1 AATTTTAGGGGTTTTTTGAAATTTAAATA-T-AACTTTGTATTTATGTAATGAATTTTTTGCCAC
91546242 TTTAGTTATT
64 TTTAGTTATT
**
91546252 AATTTTTAGGATTTTTTTTGAAATTTAAATAATAAACTTTGTATT
1 AA-TTTTAGG-GGTTTTTTGAAATTTAAAT-AT-AACTTTGTATT
91546297 ATTTACATAA
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
70 11 0.11
71 10 0.10
72 2 0.02
73 1 0.01
74 1 0.01
75 41 0.40
76 7 0.07
77 28 0.27
78 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.53
Consensus pattern (73 bp):
AATTTTAGGGGTTTTTTGAAATTTAAATATAACTTTGTATTTATGTAATGAATTTTTTGCCACTT
TAGTTATT
Found at i:91549507 original size:27 final size:27
Alignment explanation
Indices: 91549462--91549517 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
91549452 TTATAAGGTT
* * * * *
91549462 GGAGTCACCAGTGGTGCCTATCAGATA
1 GGAGCCACCAGTAGCGCCTACCAAATA
91549489 GGAGCCACCAGTAGCGCCTACCAAATA
1 GGAGCCACCAGTAGCGCCTACCAAATA
91549516 GG
1 GG
91549518 TATAACCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.16
Consensus pattern (27 bp):
GGAGCCACCAGTAGCGCCTACCAAATA
Found at i:91549572 original size:25 final size:25
Alignment explanation
Indices: 91549538--91549594 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
91549528 CCCATACCAC
*
91549538 ATTCGTACATATACACGGGTCATGT
1 ATTCGTACATATACACGAGTCATGT
91549563 ATTCGTACATATACACGAGTCATGT
1 ATTCGTACATATACACGAGTCATGT
91549588 ATT-GTAC
1 ATTCGTAC
91549595 TAGAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (25 bp):
ATTCGTACATATACACGAGTCATGT
Found at i:91549672 original size:21 final size:22
Alignment explanation
Indices: 91549643--91549683 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
91549633 CAATACTAAT
*
91549643 AAAATAATATT-TAAAAAAACA
1 AAAAAAATATTATAAAAAAACA
91549664 AAAAAAATATTATAAAAAAA
1 AAAAAAATATTATAAAAAAA
91549684 GGTGGTGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAAAATATTATAAAAAAACA
Found at i:91552232 original size:21 final size:22
Alignment explanation
Indices: 91552191--91552236 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
91552181 CAGTATGCTT
* *
91552191 ATCTTCAGGGGTATGTTGCGAC
1 ATCTTCAGGGCTATGTCGCGAC
91552213 ATCTTCA-GGCTATGTCGCGAC
1 ATCTTCAGGGCTATGTCGCGAC
91552234 ATC
1 ATC
91552237 GAAGGCAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (22 bp):
ATCTTCAGGGCTATGTCGCGAC
Found at i:91560548 original size:7 final size:7
Alignment explanation
Indices: 91560529--91560557 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
91560519 TATGTCGCAT
91560529 TTTAAAA
1 TTTAAAA
91560536 -TTAAAA
1 TTTAAAA
91560542 TTTAAAA
1 TTTAAAA
91560549 TTTAAAA
1 TTTAAAA
91560556 TT
1 TT
91560558 ATATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:91561276 original size:17 final size:16
Alignment explanation
Indices: 91561242--91561298 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
91561232 ATAGTAAAAG
* *
91561242 AAAGAATATAGGATGAA
1 AAAGAA-ATAGAAAGAA
91561259 AAAGAAATAGAAAGGAA
1 AAAGAAATAGAAA-GAA
*
91561276 AGAA-AAATGGAAAGAA
1 A-AAGAAATAGAAAGAA
91561292 AAAGAAA
1 AAAGAAA
91561299 GGAAAAATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 2 0.06
16 12 0.35
17 18 0.53
18 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAGAAATAGAAAGAA
Found at i:91562148 original size:6 final size:6
Alignment explanation
Indices: 91562137--91562174 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
91562127 TCTATACCTG
*
91562137 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ATTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
91562175 CTTTACGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ACTGTT
Found at i:91563160 original size:22 final size:22
Alignment explanation
Indices: 91563132--91563187 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
91563122 ACGGGTGATG
*
91563132 ACACGGGCGTGTCACA-TCATCC
1 ACACGGGCGTGTCACACT-AGCC
*
91563154 ACACGGGCGTGTTACACTAGCC
1 ACACGGGCGTGTCACACTAGCC
*
91563176 ACACGGACGTGT
1 ACACGGGCGTGT
91563188 GGCACTATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.27, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACACTAGCC
Found at i:91563193 original size:22 final size:22
Alignment explanation
Indices: 91563152--91563194 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
91563142 GTCACATCAT
* *
91563152 CCACACGGGCGTGTTACACTAG
1 CCACACGGACGTGTGACACTAG
*
91563174 CCACACGGACGTGTGGCACTA
1 CCACACGGACGTGTGACACTA
91563195 TTCAAAGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.16
Consensus pattern (22 bp):
CCACACGGACGTGTGACACTAG
Found at i:91565531 original size:21 final size:22
Alignment explanation
Indices: 91565479--91565531 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
91565469 AAATAAAGTC
*
91565479 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
91565500 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
91565522 CATGTATCAT
1 CATGTATCAT
91565532 CGTTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:91565840 original size:57 final size:58
Alignment explanation
Indices: 91565779--91565888 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 58
91565769 GATCCTTTTT
* *
91565779 ATGACATATGCTCTAAA-GAGCTT-GATCTGGATTACCCGTCCGGGCTAAATCCAATAC
1 ATGACATATGCTCGAAAGGA-CTTAGATCAGGATTACCCGTCCGGGCTAAATCCAATAC
* * * * *
91565836 ATGACATTTGCTCGAGAGGACTTATATCAGGATTACTCGTTCGGGCTAAATCC
1 ATGACATATGCTCGAAAGGACTTAGATCAGGATTACCCGTCCGGGCTAAATCC
91565889 TTTCTATCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
57 17 0.39
58 27 0.61
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (58 bp):
ATGACATATGCTCGAAAGGACTTAGATCAGGATTACCCGTCCGGGCTAAATCCAATAC
Found at i:91566177 original size:17 final size:18
Alignment explanation
Indices: 91566132--91566177 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
91566122 TATCATTTAG
91566132 CATTTATCGGGCATTATT
1 CATTTATCGGGCATTATT
* *
91566150 -ATTGATTGGGCATT-TT
1 CATTTATCGGGCATTATT
91566166 CATTTATCGGGC
1 CATTTATCGGGC
91566178 TGTAACGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (18 bp):
CATTTATCGGGCATTATT
Found at i:91574662 original size:25 final size:25
Alignment explanation
Indices: 91574619--91574667 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
91574609 GAAGGTCAGT
* **
91574619 ATGCTCTCACGTGTTATAAATCGGC
1 ATGCTCTCACGAGCCATAAATCGGC
91574644 ATGCTCTCACGAGCCATAAATCGG
1 ATGCTCTCACGAGCCATAAATCGG
91574668 TAACCCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (25 bp):
ATGCTCTCACGAGCCATAAATCGGC
Found at i:91577506 original size:28 final size:28
Alignment explanation
Indices: 91577441--91577539 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
91577431 CATGAGATTG
* * *
91577441 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
91577470 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* * *
91577498 GCACTAAGTGTGTGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
91577526 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
91577540 GGCTTATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.70
29 17 0.28
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:91580325 original size:16 final size:17
Alignment explanation
Indices: 91580304--91580336 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
91580294 TTAGATTGAG
91580304 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
*
91580320 AAAATTAATTTAGTTAA
1 AAAATTAATTTAATTAA
91580337 CTTAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:91580329 original size:4 final size:4
Alignment explanation
Indices: 91580306--91580358 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
91580296 AGATTGAGAA
* ** *
91580306 AATT ATTT AATT AAAA AATT AATTT AGTT AACTT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AA-TT AATT AA-TT AATT AATT AATT AATT
91580356 AAT
1 AAT
91580359 ATCTATTTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
4 32 0.82
5 7 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:91581611 original size:14 final size:14
Alignment explanation
Indices: 91581592--91581620 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91581582 TAGAAAAGGT
91581592 AAATATTTATCAAA
1 AAATATTTATCAAA
91581606 AAATATTTATCAAA
1 AAATATTTATCAAA
91581620 A
1 A
91581621 CGACGTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATTTATCAAA
Found at i:91584323 original size:61 final size:61
Alignment explanation
Indices: 91584195--91584315 Score: 145
Period size: 61 Copynumber: 2.0 Consensus size: 61
91584185 CAGCCTGGGG
* * * * * * *
91584195 CATGTGGTGTCTTTTAGGATGTGTGCGAGGCAAGGGCTCATGCACGGGTGAATCATACGGA
1 CATGTGATGGCTTTTAGGACGTGTGCGAGGCAAGAGCTCAGGCACGAGTGAATCACACGGA
* *
91584256 CATGTGATGGCTTTTAGGACGTGTGTGAGGCACA-AGTTCAGGCACGAGTGAATCACACGG
1 CATGTGATGGCTTTTAGGACGTGTGCGAGGCA-AGAGCTCAGGCACGAGTGAATCACACGG
91584316 GCGTGTGAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 49 0.98
62 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (61 bp):
CATGTGATGGCTTTTAGGACGTGTGCGAGGCAAGAGCTCAGGCACGAGTGAATCACACGGA
Found at i:91584814 original size:40 final size:40
Alignment explanation
Indices: 91584751--91584828 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
91584741 TGCGGTATTT
** *
91584751 TATGGTGTGTAGGGTTAGATGGGTCGATTATATCCCCATA
1 TATGGTGTACAGGGATAGATGGGTCGATTATATCCCCATA
* *
91584791 TATGGTGTACAGGGATAGGTGGGTCGATTTTATCCCCA
1 TATGGTGTACAGGGATAGATGGGTCGATTATATCCCCA
91584829 CATAGTGGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (40 bp):
TATGGTGTACAGGGATAGATGGGTCGATTATATCCCCATA
Found at i:91592839 original size:23 final size:23
Alignment explanation
Indices: 91592813--91592856 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
91592803 GACTTTTAAA
91592813 TCTTATTTGACAAA-ATTTCTAGG
1 TCTT-TTTGACAAACATTTCTAGG
* *
91592836 TCTTTTTTATAAACATTTCTA
1 TCTTTTTGACAAACATTTCTA
91592857 AAAAACAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.50
Consensus pattern (23 bp):
TCTTTTTGACAAACATTTCTAGG
Found at i:91594017 original size:33 final size:33
Alignment explanation
Indices: 91593975--91594044 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
91593965 TGTTAAACGA
91593975 CTGATCAATTTAGGTTTGACCATCTCAATCAAG
1 CTGATCAATTTAGGTTTGACCATCTCAATCAAG
**
91594008 CTGATCAATTTAGGTTTGATTATCTCAATCAAG
1 CTGATCAATTTAGGTTTGACCATCTCAATCAAG
91594041 CTGA
1 CTGA
91594045 CTTTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (33 bp):
CTGATCAATTTAGGTTTGACCATCTCAATCAAG
Found at i:91596529 original size:50 final size:50
Alignment explanation
Indices: 91596451--91596627 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
91596441 CCATGGCAAC
*
91596451 AAGTGATAAGTGATAGCTTCGGCAACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
91596501 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
91596551 AAGTGAGAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
91596601 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
91596628 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 92 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:91596641 original size:31 final size:31
Alignment explanation
Indices: 91596603--91596781 Score: 288
Period size: 31 Copynumber: 5.8 Consensus size: 31
91596593 ACAAATAACA
91596603 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
91596634 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
91596665 AGTGAAAAGTGGTAGCTCCGGCTACCCGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
91596696 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
91596727 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
91596758 AGTGAATAGTGGTAGCTTCGGCTA
1 AGTGAAAAGTGGTAGCTTCGGCTA
91596782 TATGTGACAA
Statistics
Matches: 137, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 1 0.01
31 134 0.98
32 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:91596855 original size:47 final size:46
Alignment explanation
Indices: 91596800--91596921 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 46
91596790 AAGTGATTTC
*
91596800 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCT-ACT
1 CGTATAAGACCATATCTGGGATATGGCATC--TGTGAGATATG-TGACT
*
91596848 -GTATAAGACCATATCTGGGGTATGGCAT-TGTGAGATATGTGACT
1 CGTATAAGACCATATCTGGGATATGGCATCTGTGAGATATGTGACT
* * *
91596892 CGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
91596922 ATTATCTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 13 0.20
45 25 0.38
47 27 0.41
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCTGTGAGATATGTGACT
Found at i:91597639 original size:23 final size:23
Alignment explanation
Indices: 91597609--91597659 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
91597599 ATGATATTTC
91597609 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
91597632 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
91597655 AAATA
1 AAATA
91597660 TGAAATAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (23 bp):
AAATACTTTGGTGAATAAAGCTT
Found at i:91606924 original size:25 final size:25
Alignment explanation
Indices: 91606890--91607050 Score: 180
Period size: 25 Copynumber: 6.4 Consensus size: 25
91606880 AACTCGAGAC
91606890 TTCTTTGGAAAGCCTTTGTGGCGAA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* *
91606915 TTCTCTGGAAAGCCTTTGTGGTGAA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* * *
91606940 TTCTCTAGAAAGCCTTTGTGGCGTA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* *
91606965 -TCATTTGGAAAACCTTTGTGGCAAA
1 TTC-TTTGGAAAGCCTTTGTGGCGAA
* *
91606990 TTCTTTGGAAAGCCCTTGTGGCGTA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* * *
91607015 TTATTTGGAAAGCCTTTATGGCTAA
1 TTCTTTGGAAAGCCTTTGTGGCGAA
* *
91607040 TTATCTGGAAA
1 TTCTTTGGAAA
91607051 TTCATTATGG
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
24 2 0.02
25 110 0.96
26 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (25 bp):
TTCTTTGGAAAGCCTTTGTGGCGAA
Found at i:91610322 original size:14 final size:14
Alignment explanation
Indices: 91610303--91610332 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91610293 AATTATCTTC
*
91610303 ATTTTAGAAAAGAT
1 ATTTTAAAAAAGAT
91610317 ATTTTAAAAAAGAT
1 ATTTTAAAAAAGAT
91610331 AT
1 AT
91610333 GTATCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (14 bp):
ATTTTAAAAAAGAT
Found at i:91611303 original size:134 final size:135
Alignment explanation
Indices: 91611093--91611367 Score: 439
Period size: 134 Copynumber: 2.0 Consensus size: 135
91611083 CCCTTGCCAA
*
91611093 AACTTCATTTCTTTTGTTTTGATTCAATGAACTTGGTCACAATTAACCAAGCTTACCACTCCCAT
1 AACTTCATTTCTTTTGTTTTGATTCAATGAACCTGGTCACAATTAACCAAGCTTACCACTCCCAT
** *
91611158 TGTTGTCTCTACCTCCTTCATTGTCCCATATT-CCTTTTTTTTTCATTTCTTTCACCTCTATTTT
66 TGTCATCTCTACCTCCTTCATTGTCCCATATTCCCTTTTTTTTTCATTTCTTTCACCTCCATTTT
91611222 CTCTC
131 CTCTC
* * * *
91611227 AACTTC-TTGTCTTTT-TTTGTGATTCAATGAACCTGGTCATAGTTAACCAAGCTTACTACTCCT
1 AACTTCATT-TCTTTTGTTT-TGATTCAATGAACCTGGTCACAATTAACCAAGCTTACCACTCCC
91611290 ATTGTCATCTCTACCTCCTTCATTGTCCCATATTCCCTTTTTTTTTCATTTCTTTCACCTCCATT
64 ATTGTCATCTCTACCTCCTTCATTGTCCCATATTCCCTTTTTTTTTCATTTCTTTCACCTCCATT
91611355 TTCTCTC
129 TTCTCTC
91611362 AACTTC
1 AACTTC
91611368 GAAAAAAGAA
Statistics
Matches: 130, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
133 5 0.04
134 83 0.64
135 42 0.32
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (135 bp):
AACTTCATTTCTTTTGTTTTGATTCAATGAACCTGGTCACAATTAACCAAGCTTACCACTCCCAT
TGTCATCTCTACCTCCTTCATTGTCCCATATTCCCTTTTTTTTTCATTTCTTTCACCTCCATTTT
CTCTC
Found at i:91613800 original size:25 final size:24
Alignment explanation
Indices: 91613772--91613829 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
91613762 TATCGATTAA
91613772 GATGCTCGCAG-GAACTATATAACAG
1 GATGCTCG-AGTGAACT-TATAACAG
**
91613797 GATGCTCGAGTGGGCTTATAACAG
1 GATGCTCGAGTGAACTTATAACAG
91613821 GATTGCTCG
1 GA-TGCTCG
91613830 TCCAAGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (24 bp):
GATGCTCGAGTGAACTTATAACAG
Found at i:91621415 original size:17 final size:18
Alignment explanation
Indices: 91621377--91621416 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
91621367 TGATAATTTT
*
91621377 GAAATTTCTTTTAAATTA
1 GAAATTGCTTTTAAATTA
*
91621395 GAAATTGCTTTTACA-TA
1 GAAATTGCTTTTAAATTA
91621412 GAAAT
1 GAAAT
91621417 GTTAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (18 bp):
GAAATTGCTTTTAAATTA
Found at i:91622086 original size:6 final size:6
Alignment explanation
Indices: 91622075--91622100 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
91622065 CCCCCATCAC
91622075 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
91622101 ATCAACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:91622251 original size:30 final size:30
Alignment explanation
Indices: 91622215--91622282 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
91622205 GGTTTTATTT
* *
91622215 TAGTCACTCAAT-TTTTGAAAAATGACAAAA
1 TAGTCACT-AATGTTATAAAAAATGACAAAA
*
91622245 TAGTCACTAATGTTATAAAAAATGATAAAA
1 TAGTCACTAATGTTATAAAAAATGACAAAA
91622275 TAGTCACT
1 TAGTCACT
91622283 GATTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 3 0.09
30 31 0.91
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (30 bp):
TAGTCACTAATGTTATAAAAAATGACAAAA
Found at i:91625086 original size:77 final size:77
Alignment explanation
Indices: 91624994--91625169 Score: 228
Period size: 77 Copynumber: 2.3 Consensus size: 77
91624984 TTTAGTGAGA
* * * *
91624994 ATTTTTTTATATGCATGTAGTATTTTTTATTTTATCTGTGTATGATTGTTGGTAAGGCTGGT-AG
1 ATTTTTTAATATGCATGTAGTATTTTTTAATTTATCTGTATATGATTGTTGGTAAGGATGGTCA-
91625058 CATGCTATTGACT
65 CATGCTATTGACT
* * * * *
91625071 ATTTTTTAATATGCATGTAGTGTTTTTTAATTTGTTTGTATATGATTGTTGGTAGGGATGGTCAT
1 ATTTTTTAATATGCATGTAGTATTTTTTAATTTATCTGTATATGATTGTTGGTAAGGATGGTCAC
* *
91625136 ATGTTGTTGACT
66 ATGCTATTGACT
*
91625148 ATTTTTTAATATGCATGCAGTA
1 ATTTTTTAATATGCATGTAGTA
91625170 ACTTTTTTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
77 84 0.99
78 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.21, T:0.51
Consensus pattern (77 bp):
ATTTTTTAATATGCATGTAGTATTTTTTAATTTATCTGTATATGATTGTTGGTAAGGATGGTCAC
ATGCTATTGACT
Found at i:91625937 original size:20 final size:21
Alignment explanation
Indices: 91625899--91625955 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
91625889 AGCAGGAGGC
* *
91625899 TGCCCTAACTCAGCTACAA-A
1 TGCCCTAACTCATCAACAATA
*
91625919 CTGCCC-GACTCATCAACAATA
1 -TGCCCTAACTCATCAACAATA
91625940 TGCCCTAACTCATCAA
1 TGCCCTAACTCATCAA
91625956 AAAAGATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.33, C:0.37, G:0.09, T:0.21
Consensus pattern (21 bp):
TGCCCTAACTCATCAACAATA
Found at i:91625952 original size:21 final size:21
Alignment explanation
Indices: 91625898--91625955 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
91625888 CAGCAGGAGG
* *
91625898 CTGCCCTAACTCAGCTACAAA
1 CTGCCCTAACTCATCAACAAA
*
91625919 CTGCCC-GACTCATCAACAATA
1 CTGCCCTAACTCATCAACAA-A
91625940 -TGCCCTAACTCATCAA
1 CTGCCCTAACTCATCAA
91625956 AAAAGATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.33, C:0.38, G:0.09, T:0.21
Consensus pattern (21 bp):
CTGCCCTAACTCATCAACAAA
Found at i:91626749 original size:63 final size:63
Alignment explanation
Indices: 91626679--91626813 Score: 216
Period size: 63 Copynumber: 2.1 Consensus size: 63
91626669 ATACTAGCAG
* * **
91626679 CCATGTATAACAACATAAGGAACAATATGCCAACAACAACATTACAAAACATAAGCTGGTTTT
1 CCATGTATAACAACATAAGCAACAATATACCAACAACAACATTACAAAACATAAGCTGGTTAA
* *
91626742 CCATGTATAACAACATAAGCAACAATATACCAGCAACAATATTACAAAACATAAGCTGGTTAA
1 CCATGTATAACAACATAAGCAACAATATACCAACAACAACATTACAAAACATAAGCTGGTTAA
91626805 CCATGTATA
1 CCATGTATA
91626814 CCAGCAGCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.47, C:0.21, G:0.10, T:0.22
Consensus pattern (63 bp):
CCATGTATAACAACATAAGCAACAATATACCAACAACAACATTACAAAACATAAGCTGGTTAA
Found at i:91629230 original size:23 final size:22
Alignment explanation
Indices: 91629203--91629255 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
91629193 CAAATAGTTG
91629203 CTTATTTTAAATATTGA-TTTCTA
1 CTTATTTTAAA-ATT-ACTTTCTA
*
91629226 CTTATCTTTTAAATTACTTTCTA
1 CTTAT-TTTAAAATTACTTTCTA
*
91629249 TTTATTT
1 CTTATTT
91629256 AAGAGTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.12
23 18 0.69
24 5 0.19
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.60
Consensus pattern (22 bp):
CTTATTTTAAAATTACTTTCTA
Found at i:91629366 original size:37 final size:35
Alignment explanation
Indices: 91629297--91629374 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 35
91629287 ATATTTGTTT
* * *
91629297 AATTCTAGTCTTGTTTCTTTGTTCAAAAATAAAATAA
1 AATTCTAGTCTTGTTTC-TAGTCCAAAAAT-AAAGAA
91629334 AATTCTAGTCTTGTTTC-AGTCCGAAAATATAAAGAA
1 AATTCTAGTCTTGTTTCTAGTCC-AAAA-ATAAAGAA
91629370 AATTC
1 AATTC
91629375 AGGGAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 3 0.08
36 14 0.39
37 19 0.53
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (35 bp):
AATTCTAGTCTTGTTTCTAGTCCAAAAATAAAGAA
Found at i:91642426 original size:12 final size:12
Alignment explanation
Indices: 91642409--91642433 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
91642399 CATTTTAGTT
91642409 TCTCTCATTGTA
1 TCTCTCATTGTA
91642421 TCTCTCATTGTA
1 TCTCTCATTGTA
91642433 T
1 T
91642434 TATCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.52
Consensus pattern (12 bp):
TCTCTCATTGTA
Found at i:91644405 original size:20 final size:20
Alignment explanation
Indices: 91644382--91644429 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
91644372 TAAATTCTAA
*
91644382 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
91644402 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
91644422 AAA-ATAAA
1 AAAGATAAA
91644430 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:91646889 original size:26 final size:24
Alignment explanation
Indices: 91646845--91646904 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
91646835 ATTTGTTTTA
*
91646845 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
91646869 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
91646895 TTTTTTATTT
1 ATATTTATTT
91646905 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:91647085 original size:21 final size:20
Alignment explanation
Indices: 91647055--91647095 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
91647045 ATTTTGTCTG
*
91647055 GGCCCAGCCCGAACCTAACCC
1 GGCCCAGCCCG-ACCCAACCC
*
91647076 GGCCCGGCCCGACCCAACCC
1 GGCCCAGCCCGACCCAACCC
91647096 ATGATCACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.56, G:0.22, T:0.02
Consensus pattern (20 bp):
GGCCCAGCCCGACCCAACCC
Found at i:91647360 original size:23 final size:23
Alignment explanation
Indices: 91647334--91647378 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
91647324 GATTAACATA
91647334 ATAGAAAAGAAA-AGAAGGAGAAG
1 ATAGAAAAGAAAGA-AAGGAGAAG
*
91647357 ATAGAAGAGAAAGAAAGGAGAA
1 ATAGAAAAGAAAGAAAGGAGAA
91647379 AAAATGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.04
Consensus pattern (23 bp):
ATAGAAAAGAAAGAAAGGAGAAG
Found at i:91651995 original size:17 final size:17
Alignment explanation
Indices: 91651955--91651988 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
91651945 TTATATAAAA
* *
91651955 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
91651972 TTATAATTATTATGATT
1 TTATAATTATTATGATT
91651989 ATTTAATGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:91652523 original size:18 final size:18
Alignment explanation
Indices: 91652488--91652523 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
91652478 CGAAACAGGG
*
91652488 GAAAGAAAAGAAGAAAAA
1 GAAAGAAAAAAAGAAAAA
91652506 GAAAGAAAAAAAGGAAAA
1 GAAAGAAAAAAA-GAAAA
91652524 TATAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAAAAGAAAAA
Found at i:91656807 original size:79 final size:80
Alignment explanation
Indices: 91656707--91656889 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
91656697 TACTCGTTCA
* *
91656707 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTC-GGATCTTAACCCGG
* *
91656770 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* * **
91656787 AATGCTTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGAT
*
91656851 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
91656866 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
91656890 CATCATTCGG
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 27 0.31
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:91656889 original size:40 final size:40
Alignment explanation
Indices: 91656686--91656889 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
91656676 CGGAATTTAA
** *
91656686 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
91656726 CCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
91656766 CCGGATTTAGTAACTCGCACCAATGCTTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
91656805 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
91656845 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
91656885 CCGGA
1 CCGGA
91656890 CATCATTCGG
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:91672342 original size:13 final size:13
Alignment explanation
Indices: 91672324--91672348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91672314 AGTAAGTGAT
91672324 TTTGATGATTTTC
1 TTTGATGATTTTC
91672337 TTTGATGATTTT
1 TTTGATGATTTT
91672349 TGCACTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTGATGATTTTC
Found at i:91673127 original size:46 final size:44
Alignment explanation
Indices: 91673055--91673169 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 44
91673045 TTTGTACTCT
91673055 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT--GCC
* *
91673101 AGTGTAAGACATGTCTGGGACTTGCATCGGCTATGAGATGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCC
91673145 AGTGTAAGATCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
91673170 GCATTAGCAC
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
44 12 0.19
45 16 0.25
46 36 0.56
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCC
Found at i:91673315 original size:47 final size:48
Alignment explanation
Indices: 91673246--91673363 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 48
91673236 CGATAGTCAG
91673246 TGTAAGACCATGTCTTGG--ACATGGCATCGACTTAATGGATGAGCCAA
1 TGTAAGACCATGTC-TGGACACATGGCATCGACTTAATGGATGAGCCAA
*
91673293 TGTAAGACCATGTCTGGAACATGGCCACATGGCATCGACTTAATGGATGAGCCAG
1 TGTAAGACCATGTCTGG---A----CACATGGCATCGACTTAATGGATGAGCCAA
91673348 TGTAAGACCATGTCTG
1 TGTAAGACCATGTCTG
91673364 AGATGTGGCA
Statistics
Matches: 61, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
46 3 0.05
47 14 0.23
55 44 0.72
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGACACATGGCATCGACTTAATGGATGAGCCAA
Found at i:91673315 original size:146 final size:140
Alignment explanation
Indices: 91673053--91673317 Score: 345
Period size: 146 Copynumber: 1.9 Consensus size: 140
91673043 CATTTGTACT
91673053 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
* * * * * *
91673118 GGACTTGCATCGGCTATGAGATGTGCCAGTGTAAGATCATGTCTGGGACATGGCATTAGCACAGA
66 GGACTGGCATCGACTATGAGATGAGCCAATGTAAGACCATGTCTGGAACATGGCATTAGCACAGA
91673183 TATATGAGAG
131 TATATGAGAG
* ** *
91673193 CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCG-ATAGTCAGTGTAAGACCAT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GTA-AGCCAGTGTAAGA-CAT
*
91673257 GTCTTGGACATGGCATCGACTTAATG-GATGAGCCAATGTAAGACCATGTCTGGAACATGGC
61 GTCTGGGAC-TGGCATCGAC-T-ATGAGATGAGCCAATGTAAGACCATGTCTGGAACATGGC
91673318 CACATGGCAT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
140 11 0.10
141 14 0.13
142 14 0.13
143 13 0.12
144 11 0.10
145 8 0.08
146 32 0.30
147 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (140 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
GGACTGGCATCGACTATGAGATGAGCCAATGTAAGACCATGTCTGGAACATGGCATTAGCACAGA
TATATGAGAG
Found at i:91677304 original size:46 final size:46
Alignment explanation
Indices: 91677172--91677373 Score: 207
Period size: 46 Copynumber: 4.3 Consensus size: 46
91677162 TTTGTGCGCT
*
91677172 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-AGATGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-AGAGATGTAAGCC
* * * *
91677218 AGTGTAAGACATGACAGGGACATGCATCGGCCTCGTGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGATGTAAGCC
*
91677264 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTA-GAGATGTAAGCC
* * * *
91677308 AGTGTAAGACCATGTCTAGGACATGGAATCGGCAC-AGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTAGAGATGT-A-AGCC
91677358 AGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTC
91677374 CTTACATGTC
Statistics
Matches: 131, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 86 0.66
47 1 0.01
48 1 0.01
50 17 0.13
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGATGTAAGCC
Done.