Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 94 of 182
Found at i:30573790 original size:52 final size:52
Alignment explanation
Indices: 30573570--30573808 Score: 218
Period size: 52 Copynumber: 4.6 Consensus size: 52
30573560 TAAATGAAAA
* * * *
30573570 AAGGTCCGATAACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGAATTAT
1 AAGGTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * * *
30573622 GAGGTTTGATGACTAAGTGTCGTTGTGAGTATATGGAATCCTTTATGGATT-T
1 AAGGTTCGATGACTAAGTGTCATCGTGAGTATAT-GAATCCTTTACGGATTAT
* * *
30573674 AAAGGTCCGATGGCTAAGTGTCATCGTGAGTATATGGATCCTTTACGGATTA-
1 -AAGGTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * * *
30573726 AGAGG-TCTGATGACTCTA-TGTCATCGTGAGTATACGAATCCCTCATGGATTAT
1 A-AGGTTC-GATGACT-AAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* *
30573779 AAGGTTCGATGACCATA-TGTCATCATGAGT
1 AAGGTTCGATGACTA-AGTGTCATCGTGAGT
30573809 GTTAAATGAA
Statistics
Matches: 150, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
51 2 0.01
52 102 0.68
53 46 0.31
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (52 bp):
AAGGTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
Found at i:30575877 original size:15 final size:15
Alignment explanation
Indices: 30575839--30575877 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
30575829 GCACTAATGC
*
30575839 TGCGAGCACTGAAGT
1 TGCGAGCATTGAAGT
* *
30575854 TGTGAGCATTGATGT
1 TGCGAGCATTGAAGT
30575869 TGCGAGCAT
1 TGCGAGCAT
30575878 GGGTTGAGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.28
Consensus pattern (15 bp):
TGCGAGCATTGAAGT
Found at i:30579387 original size:24 final size:24
Alignment explanation
Indices: 30579341--30579387 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
30579331 AGGAAACACA
* * *
30579341 AAAAGAGAGAGAAAAGAACGAGAC
1 AAAAGAGAAAGAAAACAAAGAGAC
*
30579365 AAAAGAGAAAGAGAACAAAGAGA
1 AAAAGAGAAAGAAAACAAAGAGA
30579388 ATGATGTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.66, C:0.06, G:0.28, T:0.00
Consensus pattern (24 bp):
AAAAGAGAAAGAAAACAAAGAGAC
Found at i:30585204 original size:20 final size:21
Alignment explanation
Indices: 30585158--30585209 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
30585148 CAAAACCCCC
*
30585158 TTGGTATTGATATTTTTATAA
1 TTGGTATCGATATTTTTATAA
**
30585179 -AAGTATCGATATTTTTA-AA
1 TTGGTATCGATATTTTTATAA
30585198 TTGGTATCGATA
1 TTGGTATCGATA
30585210 CCAAATTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (21 bp):
TTGGTATCGATATTTTTATAA
Found at i:30595489 original size:21 final size:21
Alignment explanation
Indices: 30595465--30595506 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30595455 TGCTCTAGGA
30595465 CAAAAAGTATCAATACCTTTT
1 CAAAAAGTATCAATACCTTTT
*
30595486 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCAATACCTTTT
30595507 ATCAGGTACC
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:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (21 bp):
CAAAAAGTATCAATACCTTTT
Found at i:30596273 original size:34 final size:34
Alignment explanation
Indices: 30596235--30596301 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
30596225 AAAAAAAATT
* * * * *
30596235 AAAACCTAGTCCTAATGGAAACCTAAAGTATAAG
1 AAAACCTAATCCTAAAGAAAACATAAAATATAAG
30596269 AAAACCTAATCCTAAAGAAAACATAAAATATAA
1 AAAACCTAATCCTAAAGAAAACATAAAATATAA
30596302 ATCCCTACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.55, C:0.16, G:0.09, T:0.19
Consensus pattern (34 bp):
AAAACCTAATCCTAAAGAAAACATAAAATATAAG
Found at i:30596286 original size:17 final size:17
Alignment explanation
Indices: 30596235--30596290 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
30596225 AAAAAAAATT
* *
30596235 AAAACCTAGTCCTAATG
1 AAAACCTAATCCTAAAG
* **
30596252 GAAACCTAA-AGTATAAG
1 AAAACCTAATCCTA-AAG
30596269 AAAACCTAATCCTAAAG
1 AAAACCTAATCCTAAAG
30596286 AAAAC
1 AAAAC
30596291 ATAAAATATA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 2 0.07
17 25 0.86
18 2 0.07
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.18
Consensus pattern (17 bp):
AAAACCTAATCCTAAAG
Found at i:30610793 original size:18 final size:18
Alignment explanation
Indices: 30610770--30610819 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
30610760 TTATAAAAAA
* *
30610770 TTTCTTTCTTTTTTTCTT
1 TTTCTTTCTTTTTCTCAT
*
30610788 TTTCTTCCTTTTTCTCAT
1 TTTCTTTCTTTTTCTCAT
*
30610806 TTTGTTTCTTTTTC
1 TTTCTTTCTTTTTC
30610820 AAATGACTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTTTTCTCAT
Found at i:30619781 original size:13 final size:14
Alignment explanation
Indices: 30619763--30619792 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30619753 GTCAATGCAA
30619763 TCAGAA-TTAAATG
1 TCAGAAGTTAAATG
30619776 TCAGAAGTTAAATG
1 TCAGAAGTTAAATG
30619790 TCA
1 TCA
30619793 ATATACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (14 bp):
TCAGAAGTTAAATG
Found at i:30622393 original size:24 final size:24
Alignment explanation
Indices: 30622360--30622588 Score: 278
Period size: 24 Copynumber: 9.5 Consensus size: 24
30622350 GTTAAGTGCA
*
30622360 TTTACACTCGTCAGCTAATGTACG
1 TTTACGCTCGTCAGCTAATGTACG
* * *
30622384 TTTATGCTCGTCAGTTAATGTACA
1 TTTACGCTCGTCAGCTAATGTACG
* * *
30622408 TTTACACTCGTCAACTAATGTATG
1 TTTACGCTCGTCAGCTAATGTACG
* * * * *
30622432 CTTACACTTGTCAACTAATGTACA
1 TTTACGCTCGTCAGCTAATGTACG
*
30622456 TTTACGCTCGTCAGCTAATGTATG
1 TTTACGCTCGTCAGCTAATGTACG
*
30622480 TTTACGCTCTTCAGCTAATGTACG
1 TTTACGCTCGTCAGCTAATGTACG
30622504 TTTACGCTCGTCAGCTAATGTACG
1 TTTACGCTCGTCAGCTAATGTACG
* * * * *
30622528 TTTACACTCATCAACTAGTGTACA
1 TTTACGCTCGTCAGCTAATGTACG
*
30622552 TTTACGCTCGTCAGCTAGTGTACG
1 TTTACGCTCGTCAGCTAATGTACG
30622576 TTTACGCTCGTCA
1 TTTACGCTCGTCA
30622589 ACTATTCAGA
Statistics
Matches: 173, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 173 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTAATGTACG
Found at i:30622590 original size:48 final size:48
Alignment explanation
Indices: 30622358--30622592 Score: 308
Period size: 48 Copynumber: 4.9 Consensus size: 48
30622348 AAGTTAAGTG
* * **
30622358 CATTTACACTCGTCAGCTAATGTACGTTTATGCTCGTCAGTTAATGTA
1 CATTTACGCTCGTCAGCTAATGTACGTTTACGCTCGTCAACTAATGTA
* * * * * *
30622406 CATTTACACTCGTCAACTAATGTATGCTTACACTTGTCAACTAATGTA
1 CATTTACGCTCGTCAGCTAATGTACGTTTACGCTCGTCAACTAATGTA
* * *
30622454 CATTTACGCTCGTCAGCTAATGTATGTTTACGCTCTTCAGCTAATGTA
1 CATTTACGCTCGTCAGCTAATGTACGTTTACGCTCGTCAACTAATGTA
* * * *
30622502 CGTTTACGCTCGTCAGCTAATGTACGTTTACACTCATCAACTAGTGTA
1 CATTTACGCTCGTCAGCTAATGTACGTTTACGCTCGTCAACTAATGTA
*
30622550 CATTTACGCTCGTCAGCTAGTGTACGTTTACGCTCGTCAACTA
1 CATTTACGCTCGTCAGCTAATGTACGTTTACGCTCGTCAACTA
30622593 TTCAGATAAA
Statistics
Matches: 162, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 162 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (48 bp):
CATTTACGCTCGTCAGCTAATGTACGTTTACGCTCGTCAACTAATGTA
Found at i:30624105 original size:31 final size:29
Alignment explanation
Indices: 30624067--30624140 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
30624057 ACTACAAAAA
* *
30624067 TAGTCACTTTTGTTTGCCACAGGTTACATTT
1 TAGTCACTTATGTTTG--AAAGGTTACATTT
* *
30624098 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
30624127 TAGTCACTTATGTT
1 TAGTCACTTATGTT
30624141 AGTATTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:30626055 original size:14 final size:14
Alignment explanation
Indices: 30626014--30626055 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
30626004 TTTCACACCT
30626014 TGTGTGATATTATTC
1 TGTGTGATATTA-TC
30626029 TGTGTTG-TATTATC
1 TGTG-TGATATTATC
*
30626043 TGTGTGATTTTAT
1 TGTGTGATATTAT
30626056 TATATCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 11 0.46
15 9 0.38
16 2 0.08
ACGTcount: A:0.17, C:0.05, G:0.21, T:0.57
Consensus pattern (14 bp):
TGTGTGATATTATC
Found at i:30632140 original size:13 final size:13
Alignment explanation
Indices: 30632122--30632146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30632112 CCCAGTTTAT
30632122 CATTTTTAGCATG
1 CATTTTTAGCATG
30632135 CATTTTTAGCAT
1 CATTTTTAGCAT
30632147 TTTTAACTTA
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:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:30641369 original size:19 final size:21
Alignment explanation
Indices: 30641337--30641376 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
30641327 GCATATTAAG
30641337 TTAGTTTTTATTTTTA-GCAT
1 TTAGTTTTTATTTTTATGCAT
*
30641357 TTAG-TTTTGTTTTTATGCAT
1 TTAGTTTTTATTTTTATGCAT
30641377 ATCATATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.65
Consensus pattern (21 bp):
TTAGTTTTTATTTTTATGCAT
Found at i:30645166 original size:20 final size:19
Alignment explanation
Indices: 30645141--30645181 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
30645131 TAGCAATATT
30645141 TCTTTTTCTTTTCTCTTTTC
1 TCTTTTTCTTTTCT-TTTTC
30645161 TCTTTTTCTTTTCTTTTTC
1 TCTTTTTCTTTTCTTTTTC
30645180 TC
1 TC
30645182 ATTCAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TCTTTTTCTTTTCTTTTTC
Found at i:30645169 original size:8 final size:7
Alignment explanation
Indices: 30645141--30645181 Score: 61
Period size: 6 Copynumber: 6.3 Consensus size: 7
30645131 TAGCAATATT
30645141 TCTTTT-
1 TCTTTTC
30645147 TCTTTTC
1 TCTTTTC
30645154 TCTTTTC
1 TCTTTTC
30645161 TCTTTT-
1 TCTTTTC
30645167 TCTTTTC
1 TCTTTTC
30645174 T-TTTTC
1 TCTTTTC
30645180 TC
1 TC
30645182 ATTCAACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 18 0.56
7 14 0.44
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TCTTTTC
Found at i:30651953 original size:17 final size:18
Alignment explanation
Indices: 30651928--30651969 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
30651918 AAATAATCGG
*
30651928 TTGCATCAACACA-GCAA
1 TTGCGTCAACACAGGCAA
30651945 TTGCGTCAACACAGGCAA
1 TTGCGTCAACACAGGCAA
*
30651963 TTACGTC
1 TTGCGTC
30651970 GACGTCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (18 bp):
TTGCGTCAACACAGGCAA
Found at i:30659347 original size:12 final size:12
Alignment explanation
Indices: 30659312--30659349 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
30659302 TCAATTTTTG
30659312 CTTTTATTTT-T
1 CTTTTATTTTAT
30659323 CTATCTTATTTTAT
1 CT-T-TTATTTTAT
30659337 CTTTTATTTTAT
1 CTTTTATTTTAT
30659349 C
1 C
30659350 CTCTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 11 0.46
13 8 0.33
14 3 0.12
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (12 bp):
CTTTTATTTTAT
Found at i:30672260 original size:20 final size:20
Alignment explanation
Indices: 30672232--30672271 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30672222 ATGTATAAGG
* *
30672232 GTTCACATATGATATATATA
1 GTTCACATATAACATATATA
*
30672252 GTTCGCATATAACATATATA
1 GTTCACATATAACATATATA
30672272 TAGGGTTCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
GTTCACATATAACATATATA
Found at i:30672271 original size:22 final size:23
Alignment explanation
Indices: 30672231--30672303 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
30672221 CATGTATAAG
*
30672231 GGTTCACATAT--GATATATATA
1 GGTTCACATATAACATATATATA
*
30672252 -GTTCGCATATAACATATATATA
1 GGTTCACATATAACATATATATA
* *
30672274 GGGTTCACATGTAACATATTTATAA
1 -GGTTCACATATAACATATATAT-A
30672299 GGTTC
1 GGTTC
30672304 GCGTACTGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 9 0.21
22 9 0.21
24 23 0.55
25 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (23 bp):
GGTTCACATATAACATATATATA
Found at i:30672279 original size:24 final size:23
Alignment explanation
Indices: 30672243--30672305 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
30672233 TTCACATATG
30672243 ATATATATA-GTTCGCATATAAC
1 ATATATATAGGTTCGCATATAAC
* *
30672265 ATATATATAGGGTTCACATGTAAC
1 ATATATATA-GGTTCGCATATAAC
*
30672289 ATATTTATAAGGTTCGC
1 ATATATAT-AGGTTCGC
30672306 GTACTGTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 9 0.26
24 24 0.71
25 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (23 bp):
ATATATATAGGTTCGCATATAAC
Found at i:30672378 original size:47 final size:47
Alignment explanation
Indices: 30672299--30672404 Score: 113
Period size: 47 Copynumber: 2.3 Consensus size: 47
30672289 ATATTTATAA
* * * ** *
30672299 GGTTCGCGTACTGTTATCATGTAAGTTTGCATACTAAACATGTATTG
1 GGTTCGCCTACTGCTATCATGTAAGTTCGCATACTAAACATAAATAG
* * * * *
30672346 GGTTCGCCTATTGCTATCTTGTGAGTTCGCATAGTAGACATAAATAG
1 GGTTCGCCTACTGCTATCATGTAAGTTCGCATACTAAACATAAATAG
30672393 GGTTCGCCTACT
1 GGTTCGCCTACT
30672405 ACTAACCTGT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (47 bp):
GGTTCGCCTACTGCTATCATGTAAGTTCGCATACTAAACATAAATAG
Found at i:30675329 original size:16 final size:18
Alignment explanation
Indices: 30675294--30675338 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
30675284 AATTTACATT
30675294 AAATATTGATTTTTAACA
1 AAATATTGATTTTTAACA
*
30675312 AAATA-TGA-TTTTAGCA
1 AAATATTGATTTTTAACA
*
30675328 AAATTTTGATT
1 AAATATTGATT
30675339 GCGATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 11 0.48
17 6 0.26
18 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (18 bp):
AAATATTGATTTTTAACA
Found at i:30676659 original size:13 final size:13
Alignment explanation
Indices: 30676641--30676666 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30676631 TTTATTCGGA
30676641 TGGTTTTTATTTT
1 TGGTTTTTATTTT
30676654 TGGTTTTTATTTT
1 TGGTTTTTATTTT
30676667 AGTTAGGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.15, T:0.77
Consensus pattern (13 bp):
TGGTTTTTATTTT
Found at i:30679362 original size:16 final size:16
Alignment explanation
Indices: 30679341--30679371 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30679331 TTGATTCAAG
*
30679341 TCGTTTGTTTATTTTC
1 TCGTTTATTTATTTTC
30679357 TCGTTTATTTATTTT
1 TCGTTTATTTATTTT
30679372 AGTTATTTAA
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TCGTTTATTTATTTTC
Found at i:30687120 original size:24 final size:24
Alignment explanation
Indices: 30687093--30687139 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30687083 GCAAACATTT
* *
30687093 TTTCTTCTTT-TCTTTTCTCTTTTC
1 TTTCTT-TTTCTCATTTCCCTTTTC
30687117 TTTCTTTTTCTCATTTCCCTTTT
1 TTTCTTTTTCTCATTTCCCTTTT
30687140 TCAAGTGACT
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:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTCTTTTTCTCATTTCCCTTTTC
Found at i:30708740 original size:18 final size:18
Alignment explanation
Indices: 30708717--30708757 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
30708707 AGAAGAAGAA
* *
30708717 GAAGAAGAGGATCTTGAG
1 GAAGAAGAAGATCCTGAG
30708735 GAAGAAGAAGATCCTGAG
1 GAAGAAGAAGATCCTGAG
30708753 GAAGA
1 GAAGA
30708758 TCCTATGGAG
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:0.44, C:0.07, G:0.37, T:0.12
Consensus pattern (18 bp):
GAAGAAGAAGATCCTGAG
Found at i:30710059 original size:6 final size:6
Alignment explanation
Indices: 30710044--30710078 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
30710034 AAACATAAAT
30710044 GAAAAA -AAAAA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
30710079 AAAGAGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:30723018 original size:26 final size:26
Alignment explanation
Indices: 30722988--30723038 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
30722978 CCTAGGAATG
*
30722988 TCGCTGCATGAACATGTACAGAATTA
1 TCGCTACATGAACATGTACAGAATTA
* *
30723014 TCGCTACATGAACGTGTCCAGAATT
1 TCGCTACATGAACATGTACAGAATT
30723039 GCGCCTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (26 bp):
TCGCTACATGAACATGTACAGAATTA
Found at i:30723860 original size:16 final size:16
Alignment explanation
Indices: 30723839--30723869 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30723829 TTGTGGATCC
30723839 CATTTTAGCTTTATTA
1 CATTTTAGCTTTATTA
*
30723855 CATTTTATCTTTATT
1 CATTTTAGCTTTATT
30723870 TTCACATTAT
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:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (16 bp):
CATTTTAGCTTTATTA
Found at i:30725713 original size:107 final size:107
Alignment explanation
Indices: 30725527--30725739 Score: 345
Period size: 107 Copynumber: 2.0 Consensus size: 107
30725517 TCTCTGCACT
* * * * *
30725527 TGAAGTTGTGGCTGTAACTTTTGAGGTCTTGGCATAAGATGGAGAAAGTCAAGTGAAAGCTGTGG
1 TGAAGTTATGGCTGCAACTTCTGAGGTCTTGGCACAAGATGGAGAAAGTCAAGCGAAAGCTGTGG
*
30725592 ATGAAATTAATGAGGACCACAATCCTTGGGTGATAGTGGTCC
66 ATGAAATTAATGAGGACCACAATCCTTGGGCGATAGTGGTCC
* * *
30725634 TGAAGTTATGGTTGCAACTTCTGAGGTCTTGGCGCAAGATGGAGAAAGTCAGGCGAAAGCTGTGG
1 TGAAGTTATGGCTGCAACTTCTGAGGTCTTGGCACAAGATGGAGAAAGTCAAGCGAAAGCTGTGG
30725699 ATGAAATTAATGAGGACCACAATCCTTGGGCGATAGTGGTC
66 ATGAAATTAATGAGGACCACAATCCTTGGGCGATAGTGGTC
30725740 TATACTGGAC
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 97 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (107 bp):
TGAAGTTATGGCTGCAACTTCTGAGGTCTTGGCACAAGATGGAGAAAGTCAAGCGAAAGCTGTGG
ATGAAATTAATGAGGACCACAATCCTTGGGCGATAGTGGTCC
Found at i:30726303 original size:17 final size:17
Alignment explanation
Indices: 30726283--30726341 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
30726273 ATAATTGTGC
30726283 CTGCATTTTTATTGTCA
1 CTGCATTTTTATTGTCA
* *
30726300 CTGCATTTTT-TTATCG
1 CTGCATTTTTATTGTCA
* **
30726316 CTGCATCTACATTGTCA
1 CTGCATTTTTATTGTCA
*
30726333 TTGCATTTT
1 CTGCATTTT
30726342 CATATATATT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
16 11 0.35
17 20 0.65
ACGTcount: A:0.17, C:0.20, G:0.12, T:0.51
Consensus pattern (17 bp):
CTGCATTTTTATTGTCA
Found at i:30726319 original size:16 final size:17
Alignment explanation
Indices: 30726283--30726321 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
30726273 ATAATTGTGC
*
30726283 CTGCATTTTTATTGTCA
1 CTGCATTTTTATTATCA
*
30726300 CTGCATTTTT-TTATCG
1 CTGCATTTTTATTATCA
30726316 CTGCAT
1 CTGCAT
30726322 CTACATTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.15, C:0.21, G:0.13, T:0.51
Consensus pattern (17 bp):
CTGCATTTTTATTATCA
Found at i:30727256 original size:23 final size:23
Alignment explanation
Indices: 30727212--30727256 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30727202 AAAAAGAACA
* *
30727212 TATATTTTCTCCCTATTTTATTG
1 TATATTTTATCCCTATTATATTG
30727235 TATATTTTGATCCC-ATTATATT
1 TATATTTT-ATCCCTATTATATT
30727257 ATGTTTAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.22, C:0.16, G:0.04, T:0.58
Consensus pattern (23 bp):
TATATTTTATCCCTATTATATTG
Found at i:30728473 original size:16 final size:16
Alignment explanation
Indices: 30728452--30728482 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30728442 TTGTGGATCC
30728452 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
30728468 CATTTTATCTTTATT
1 CATTTTACCTTTATT
30728483 TTCACATTAT
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:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:30735267 original size:12 final size:12
Alignment explanation
Indices: 30735246--30735278 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30735236 ATTAATTTAG
30735246 TAATATTTAATAT
1 TAATATTTAAT-T
30735259 TAA-ATTTAATT
1 TAATATTTAATT
30735270 TAATATTTA
1 TAATATTTA
30735279 TCTTCATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 12 0.63
13 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:30745690 original size:11 final size:11
Alignment explanation
Indices: 30745674--30745698 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30745664 TCGTATTTCA
30745674 TTTTCTTTAAT
1 TTTTCTTTAAT
30745685 TTTTCTTTAAT
1 TTTTCTTTAAT
30745696 TTT
1 TTT
30745699 GGTTTATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCTTTAAT
Found at i:30752865 original size:19 final size:20
Alignment explanation
Indices: 30752841--30752879 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
30752831 CCTCTAGCAC
30752841 TAGGGTTTCACACA-TTTTT
1 TAGGGTTTCACACACTTTTT
30752860 TAGGGTTTCACACACTTTTT
1 TAGGGTTTCACACACTTTTT
30752880 CTTAGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (20 bp):
TAGGGTTTCACACACTTTTT
Found at i:30753316 original size:147 final size:147
Alignment explanation
Indices: 30753049--30753340 Score: 548
Period size: 147 Copynumber: 2.0 Consensus size: 147
30753039 ACTATGAGGA
*
30753049 ATTAATTCCATTTTGGTGAATTAGGGAGTAGAAGTATGGATAATTAATTGTTGCATAAATAAGGA
1 ATTAATTCCATTTTGGTGAATTAGGGAGTAGAAGTATGGATAATTAATTGTTGCATAAATAAAGA
* *
30753114 TTTTCAATCGAATTAGTTGTTTGGTAAAGGAAGAGCATGAAACAAAAACTGGGCCTAACAACCCT
66 TTTTCAATCGAATCAGTTGTTTGGTAAAGGAAGAGCATGAAACAAAAACTAGGCCTAACAACCCT
30753179 AGAAAGTCATTTAGGTG
131 AGAAAGTCATTTAGGTG
30753196 ATTAATTCCATTTTGGTGAATTAGGGAGTAGAAGTATGGATAATTAATTGTTGCATAAATAAAGA
1 ATTAATTCCATTTTGGTGAATTAGGGAGTAGAAGTATGGATAATTAATTGTTGCATAAATAAAGA
*
30753261 TTTTCAATCGGATCAGTTGTTTGGTAAAGGAAGAGCATGAAACAAAAACTAGGCCTAACAACCCT
66 TTTTCAATCGAATCAGTTGTTTGGTAAAGGAAGAGCATGAAACAAAAACTAGGCCTAACAACCCT
30753326 AGAAAGTCATTTAGG
131 AGAAAGTCATTTAGG
30753341 CGGGAATGAA
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 141 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (147 bp):
ATTAATTCCATTTTGGTGAATTAGGGAGTAGAAGTATGGATAATTAATTGTTGCATAAATAAAGA
TTTTCAATCGAATCAGTTGTTTGGTAAAGGAAGAGCATGAAACAAAAACTAGGCCTAACAACCCT
AGAAAGTCATTTAGGTG
Found at i:30754559 original size:22 final size:22
Alignment explanation
Indices: 30754523--30754565 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30754513 ACTTTGAAAG
*
30754523 ACCTACTCATGATTTATAATTC
1 ACCTACTCATGATTTAAAATTC
30754545 ACCTACATCAT-ATTTAAAATT
1 ACCTAC-TCATGATTTAAAATT
30754566 AGTTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (22 bp):
ACCTACTCATGATTTAAAATTC
Found at i:30755234 original size:195 final size:193
Alignment explanation
Indices: 30754865--30755234 Score: 460
Period size: 195 Copynumber: 1.9 Consensus size: 193
30754855 GAAAAGAAAT
* * * *
30754865 ATGGATCCTAAATGGATTACAGGCCCTACGATGGTTGAGATTTATGTAAAAGTGCATATTCTCAA
1 ATGGATCCTAAATGGATTACAGGCCCTACGATGCTAGAGATCTATGTAAAAGTGCATACTCTCAA
* * * * *
30754930 CAGCTCATGTGAGCAGCATCGTTAGGGAACAGTTATATGCATAGATACCGTATCGATGGCTGAGG
66 CAGCTCATGTGAGCAGCATCGTTAGGGAACAGTTATATACACAGACACCGCATCAATGGCTGAGG
* ** *
30754995 TACCGCATATGTTGCGAGTCCTCGACAACTCATGTGAGCAGCATCTTGACTCGGGAAAGAGAC
131 TACCACATACATTGCGAATCCTCGACAACTCATGTGAGCAGCATCTTGACTCGGGAAAGAGAC
* **
30755058 ATGGATCCTAAATGGATTATAGGCCCTACGATAGCTAG-GA-CTATGCT-TTA-TGCATACTCTC
1 ATGGATCCTAAATGGATTACAGGCCCTACGAT-GCTAGAGATCTATG-TAAAAGTGCATACTCTC
* * * *
30755119 GACAGCTCGTGTGAGCAGCATCTTTAGGGAACAGTTTATAGTACAGACAGGCACCGCATCAATGG
64 AACAGCTCATGTGAGCAGCATCGTTAGGGAACAG-TTATA-TAC--ACAGACACCGCATCAATGG
* *
30755184 CTGGGGTACCACATACATTGCGAATCCTCGACAGCTCATGTGAGCAGCATC
125 CTGAGGTACCACATACATTGCGAATCCTCGACAACTCATGTGAGCAGCATC
30755235 GAGTATTGGT
Statistics
Matches: 149, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
191 41 0.28
192 10 0.07
193 36 0.24
194 3 0.02
195 59 0.40
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (193 bp):
ATGGATCCTAAATGGATTACAGGCCCTACGATGCTAGAGATCTATGTAAAAGTGCATACTCTCAA
CAGCTCATGTGAGCAGCATCGTTAGGGAACAGTTATATACACAGACACCGCATCAATGGCTGAGG
TACCACATACATTGCGAATCCTCGACAACTCATGTGAGCAGCATCTTGACTCGGGAAAGAGAC
Found at i:30756286 original size:191 final size:191
Alignment explanation
Indices: 30755962--30756534 Score: 1146
Period size: 191 Copynumber: 3.0 Consensus size: 191
30755952 TGTAAGGTAA
30755962 AACTTCTTAGTTCTCTGGAGTTTTTAGTATTGATAGAAACATGACATGTTTCAATAGAAGTCATA
1 AACTTCTTAGTTCTCTGGAGTTTTTAGTATTGATAGAAACATGACATGTTTCAATAGAAGTCATA
30756027 CTTGTATCAGTAGTGTTATCTCAAGTATCGGTAGAAGTTTGCACTGTTCTTGAATTGTTTACTGA
66 CTTGTATCAGTAGTGTTATCTCAAGTATCGGTAGAAGTTTGCACTGTTCTTGAATTGTTTACTGA
30756092 CTTAAAACTATTGATATTTGTCCCTCAAGTACCGATAGAAGTATCCAAAAATCATGGAAAT
131 CTTAAAACTATTGATATTTGTCCCTCAAGTACCGATAGAAGTATCCAAAAATCATGGAAAT
30756153 AACTTCTTAGTTCTCTGGAGTTTTTAGTATTGATAGAAACATGACATGTTTCAATAGAAGTCATA
1 AACTTCTTAGTTCTCTGGAGTTTTTAGTATTGATAGAAACATGACATGTTTCAATAGAAGTCATA
30756218 CTTGTATCAGTAGTGTTATCTCAAGTATCGGTAGAAGTTTGCACTGTTCTTGAATTGTTTACTGA
66 CTTGTATCAGTAGTGTTATCTCAAGTATCGGTAGAAGTTTGCACTGTTCTTGAATTGTTTACTGA
30756283 CTTAAAACTATTGATATTTGTCCCTCAAGTACCGATAGAAGTATCCAAAAATCATGGAAAT
131 CTTAAAACTATTGATATTTGTCCCTCAAGTACCGATAGAAGTATCCAAAAATCATGGAAAT
30756344 AACTTCTTAGTTCTCTGGAGTTTTTAGTATTGATAGAAACATGACATGTTTCAATAGAAGTCATA
1 AACTTCTTAGTTCTCTGGAGTTTTTAGTATTGATAGAAACATGACATGTTTCAATAGAAGTCATA
30756409 CTTGTATCAGTAGTGTTATCTCAAGTATCGGTAGAAGTTTGCACTGTTCTTGAATTGTTTACTGA
66 CTTGTATCAGTAGTGTTATCTCAAGTATCGGTAGAAGTTTGCACTGTTCTTGAATTGTTTACTGA
30756474 CTTAAAACTATTGATATTTGTCCCTCAAGTACCGATAGAAGTATCCAAAAATCATGGAAAT
131 CTTAAAACTATTGATATTTGTCCCTCAAGTACCGATAGAAGTATCCAAAAATCATGGAAAT
30756535 GACCCTTTTG
Statistics
Matches: 382, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 382 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (191 bp):
AACTTCTTAGTTCTCTGGAGTTTTTAGTATTGATAGAAACATGACATGTTTCAATAGAAGTCATA
CTTGTATCAGTAGTGTTATCTCAAGTATCGGTAGAAGTTTGCACTGTTCTTGAATTGTTTACTGA
CTTAAAACTATTGATATTTGTCCCTCAAGTACCGATAGAAGTATCCAAAAATCATGGAAAT
Found at i:30756969 original size:42 final size:41
Alignment explanation
Indices: 30756903--30757480 Score: 515
Period size: 42 Copynumber: 13.8 Consensus size: 41
30756893 GGTGTTACAA
* * * * **
30756903 GACCTCTACAGTTGGGCCTTTAAATGCGACAAAAAGTAAAT
1 GACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
* * * *
30756944 AGACTTCTACACTTGGGCCTCTAAATGCGATGAAAAGTAAAAA
1 -GACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGT-AAAT
* * * *
30756987 GACCTCCACACCTGGGTCTCTAAATGTAATGACAAGTAAAT
1 GACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
30757028 GAACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
1 G-ACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
* * * *
30757070 GTACCTCCACACCTAGGCGTATAAATGCAATGAAAAGTAAAT
1 G-ACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
* * * *
30757112 GTACCTCCACACATGGGCTTCTAAATGCAAAGAAAAGCAAAT
1 G-ACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
*
30757154 GGACCTCCA-AGTCTGGGCCTCTAAATGCAATGAAAAGTAAAT
1 -GACCTCCACACT-TGGGCCTCTAAATGCAATGAAAAGTAAAT
* * ** * *
30757196 GAACCTCCATACCTATGCTTCTAAATGCAACGAAAAGTAAAT
1 G-ACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
* ** *
30757238 GGACCTCTACA-TCTACGCCTCTAAATGCAAGGAAAAGTAAAT
1 -GACCTCCACACT-TGGGCCTCTAAATGCAATGAAAAGTAAAT
*
30757280 GGACCTCTACA-TCTGGGCCTCTAAAT---ATGACAAAAGTAAAT
1 -GACCTCCACACT-TGGGCCTCTAAATGCAATG--AAAAGTAAAT
* * * * *
30757321 AAAACTCCACACTTGGACCTCTACATGCGATGAAAAGTAAAT
1 -GACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
* * **
30757363 GGACCTCCATAGC-TAGGCCTCTAAATGTGATGAAAAGTAAAT
1 -GACCTCCACA-CTTGGGCCTCTAAATGCAATGAAAAGTAAAT
*
30757405 GAACCTCCACA-TCTGGGCCTCTAAACGCAATGAAAAGTAAAT
1 G-ACCTCCACACT-TGGGCCTCTAAATGCAATGAAAAGTAAAT
*
30757447 GGACCTCCACACCTGGGCCTCTAAATGCAATGAA
1 -GACCTCCACACTTGGGCCTCTAAATGCAATGAA
30757481 TGCTTTCCTT
Statistics
Matches: 446, Mismatches: 70, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.00
41 35 0.08
42 398 0.89
43 8 0.02
44 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (41 bp):
GACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAAT
Found at i:30757135 original size:126 final size:126
Alignment explanation
Indices: 30756915--30757480 Score: 599
Period size: 126 Copynumber: 4.5 Consensus size: 126
30756905 CCTCTACAGT
* * ** * * * * *
30756915 TGGGCCTTTAAATGCGACAAAAAGTAAAT-AGACTTCTACACTTGGGCCTCTAAATGCGATGAAA
1 TGGGCCTCTAAATGCAATGAAAAGTAAATGA-ACCTCCACACCTAGGCCTCTAAATGCAATGAAA
** * * * * *
30756979 AGTAAAAAGACCTCCACACCTGGGTCTCTAAATGTAATGACAAGTAAATGAACCTCCACA-C
65 AGTAAATGGACCTCCACAGCTAGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACATC
* * *
30757040 TTGGGCCTCTAAATGCAATGAAAAGTAAATGTACCTCCACACCTAGGCGTATAAATGCAATGAAA
1 -TGGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTAAATGCAATGAAA
* * * * * *
30757105 AGTAAATGTACCTCCACA-CATGGGCTTCTAAATGCAAAGAAAAGCAAATGGACCTCCA-AGTC
65 AGTAAATGGACCTCCACAGC-TAGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACA-TC
* * * *
30757167 TGGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCATACCTATGCTTCTAAATGCAACGAAAA
1 TGGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTAAATGCAATGAAAA
* * * * * *
30757232 GTAAATGGACCTCTACATCTACGCCTCTAAATGCAAGGAAAAGTAAATGGACCTCTACATC
66 GTAAATGGACCTCCACAGCTAGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACATC
* * * * *
30757293 TGGGCCTCTAAAT---ATGACAAAAGTAAATAAAACTCCACA-CTTGGACCTCTACATGCGATGA
1 TGGGCCTCTAAATGCAATG--AAAAGTAAATGAACCTCCACACCTAGG-CCTCTAAATGCAATGA
* **
30757354 AAAGTAAATGGACCTCCATAGCTAGGCCTCTAAATGTGATGAAAAGTAAATGAACCTCCACATC
63 AAAGTAAATGGACCTCCACAGCTAGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACATC
* * *
30757418 TGGGCCTCTAAACGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAA
1 TGGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTAAATGCAATGAA
30757481 TGCTTTCCTT
Statistics
Matches: 366, Mismatches: 61, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
123 3 0.01
124 3 0.01
125 99 0.27
126 251 0.69
127 7 0.02
128 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (126 bp):
TGGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTAAATGCAATGAAAA
GTAAATGGACCTCCACAGCTAGGCCTCTAAATGCAATGAAAAGTAAATGAACCTCCACATC
Found at i:30757918 original size:21 final size:19
Alignment explanation
Indices: 30757886--30757932 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
30757876 TCTCTCTATC
30757886 TTTTCTTCTTTTTTGTTGTT
1 TTTTCTTCTTTTTTG-TGTT
30757906 TTTTCTCTCTTTTTTGTGTT
1 TTTTCT-TCTTTTTTGTGTT
30757926 TTTTCTT
1 TTTTCTT
30757933 GATTAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.62
21 9 0.35
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.79
Consensus pattern (19 bp):
TTTTCTTCTTTTTTGTGTT
Found at i:30760805 original size:18 final size:18
Alignment explanation
Indices: 30760782--30760817 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
30760772 TGGCATGAGA
30760782 GTGGTTCCAATCCTAATT
1 GTGGTTCCAATCCTAATT
30760800 GTGGTTCCAATCCTAATT
1 GTGGTTCCAATCCTAATT
30760818 TCCTTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (18 bp):
GTGGTTCCAATCCTAATT
Found at i:30763694 original size:23 final size:20
Alignment explanation
Indices: 30763645--30763694 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
30763635 ATGACATTAT
*
30763645 ACAATTAAATAAATTTATGC
1 ACAAATAAATAAATTTATGC
*
30763665 ACGAATAAATAAATCTAATATGC
1 ACAAATAAATAAAT-T--TATGC
30763688 ACAAATA
1 ACAAATA
30763695 CTGAAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 1 0.04
23 11 0.46
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (20 bp):
ACAAATAAATAAATTTATGC
Found at i:30765955 original size:144 final size:143
Alignment explanation
Indices: 30765678--30766097 Score: 445
Period size: 144 Copynumber: 2.9 Consensus size: 143
30765668 AAATTTCTTG
* * *
30765678 TTTTAAACAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAATTAAAAAAAGT
1 TTTTAAA-TAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTAGAAATAGTTAAAAAAA-T
30765743 CAAAATTTTATTTAAAAATTTAAACTTTTTCCTTTAAAATGACTAAAAAATATATTTTCATT-TT
64 CAAAATTTTATTTAAAAATTTAAACTTTTT--TTT-AAATGACTAAAAAA-ATATTTT--TTCTT
* *
30765807 TTTAAAATCT-AAACT-A-TT
123 TTAAAAATTTAAAACTAACTT
* *
30765825 TTTT--TTAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTAAAAAAATCA
1 TTTTAAATAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTAGAAATAGTTAAAAAAATCA
*
30765888 AAATTTTATTT-AAAATTTTAA-TTTTTTTCTAAATGACTAAAAAAATATTTTTTCTTTTAAAAA
66 AAATTTTATTTAAAAATTTAAACTTTTTTT-TAAATGACTAAAAAAATATTTTTTCTTTTAAAAA
**
30765951 TTT-AAACTTTCTT
130 TTTAAAACTAACTT
* ** *
30765964 TTTTAAAATAAA-CAC-ACTGTTCTTCAAA-ATCAAAATTTTTATTTAAAAATAGTT-AAAAAAT
1 TTTT-AAATAAATCACTACTTTTCTT-AAAGATCAAAGCTTTTATTTAGAAATAGTTAAAAAAAT
* * * * *
30766025 AAAAACTTTGTTTAAAAATTTAAACTTTTCTTTAAAATGACTAAAAATATATTTTTAT-TTTTAA
64 CAAAATTTTATTTAAAAATTTAAACTTTT-TTTTAAATGACTAAAAAAATATTTTT-TCTTTTAA
*
30766089 AAATCTAAA
127 AAATTTAAA
30766098 CTTTCTTTAT
Statistics
Matches: 239, Mismatches: 21, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
136 2 0.01
137 15 0.06
138 7 0.03
139 39 0.16
140 40 0.17
141 47 0.20
142 19 0.08
143 14 0.06
144 52 0.22
147 4 0.02
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (143 bp):
TTTTAAATAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTAGAAATAGTTAAAAAAATCA
AAATTTTATTTAAAAATTTAAACTTTTTTTTAAATGACTAAAAAAATATTTTTTCTTTTAAAAAT
TTAAAACTAACTT
Found at i:30766014 original size:140 final size:141
Alignment explanation
Indices: 30765661--30766105 Score: 518
Period size: 141 Copynumber: 3.1 Consensus size: 141
30765651 TTATTTTTGC
*
30765661 AAAATC-AAAATTTCTTGTTTTAAACA-AAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTT
1 AAAATCTAAACTTTCTT-TTTTAAA-ATAAA-CACTACTTTTCTTAAAGATCAAAGCTTTTATTT
* *
30765724 CGAAATAATTAAAAAAAGTCAAAATTTTATTTAAAAATTTAAACTTTTTCCTTTAAAATGACTAA
63 AGAAATAGTTAAAAAAA-TCAAAATTTTATTTAAAAATTTAAACTTTTT--TTT-AAATGACTAA
*
30765789 AAAATATATTTTCATTTTTTT
124 AAAA-ATATTTT--TTTTTTA
*
30765810 AAAATCTAAACTATT-TTTTTT-AAAT---CACTACTTTTCTTAAAGATCAAAGCTTTTATTTTG
1 AAAATCTAAACT-TTCTTTTTTAAAATAAACACTACTTTTCTTAAAGATCAAAGCTTTTATTTAG
*
30765870 AAATAGTTAAAAAAATCAAAATTTTATTT-AAAATTTTAA-TTTTTTTCTAAATGACTAAAAAAA
65 AAATAGTTAAAAAAATCAAAATTTTATTTAAAAATTTAAACTTTTTTT-TAAATGACTAAAAAAA
30765933 TATTTTTTCTTTTA
129 TATTTTTT-TTTTA
* * ** *
30765947 AAAATTTAAACTTTCTTTTTTAAAATAAACAC-ACTGTTCTTCAAA-ATCAAAATTTTTATTTAA
1 AAAATCTAAACTTTCTTTTTTAAAATAAACACTACTTTTCTT-AAAGATCAAAGCTTTTATTTAG
* * * * *
30766010 AAATAGTT-AAAAAATAAAAACTTTGTTTAAAAATTTAAACTTTTCTTTAAAATGACTAAAAATA
65 AAATAGTTAAAAAAATCAAAATTTTATTTAAAAATTTAAACTTTT-TTTTAAATGACTAAAAAAA
30766074 TATTTTTATTTTTA
129 TATTTTT-TTTTTA
30766088 AAAATCTAAACTTTCTTT
1 AAAATCTAAACTTTCTTT
30766106 ATTTTAAGAA
Statistics
Matches: 263, Mismatches: 18, Indels: 38
0.82 0.06 0.12
Matches are distributed among these distances:
136 4 0.02
137 21 0.08
138 11 0.04
139 33 0.13
140 40 0.15
141 58 0.22
142 13 0.05
143 14 0.05
144 48 0.18
147 1 0.00
148 2 0.01
149 10 0.04
150 6 0.02
151 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (141 bp):
AAAATCTAAACTTTCTTTTTTAAAATAAACACTACTTTTCTTAAAGATCAAAGCTTTTATTTAGA
AATAGTTAAAAAAATCAAAATTTTATTTAAAAATTTAAACTTTTTTTTAAATGACTAAAAAAATA
TTTTTTTTTTA
Found at i:30766109 original size:242 final size:244
Alignment explanation
Indices: 30765882--30766369 Score: 657
Period size: 242 Copynumber: 2.1 Consensus size: 244
30765872 ATAGTTAAAA
* *
30765882 AAATCAAAATTTTATTT-AAAATTTTAA-TTTTT-TTCTA-AATGACT-AAAAA-A-ATATTT-T
1 AAATCAAAACTTTATTTAAAAATTTAAACTTTTTCTTCTAGAATGACTGAAAAATAGATATTTAT
* *
30765939 TTCTTTT-AAAAATTTAAACTTTC-TT-TTTTAAAATAAACA-CACTGTTCTTCAAAATCAAAAT
66 TTCTTTTCAAAAATCTAAACTTTCTTTCTTTTAAAA-AAA-ATCACTGTTCTTAAAAATCAAAAT
30766000 TTTTATTTAAAAATAGTTAAAAAATAAAAACTTTGTTTAAAAATTT-AAA-CTTTTCTTTAAAAT
129 TTTTATTTAAAAATAGTTAAAAAATAAAAACTTTGTTTAAAAATTTAAAATCTTTTCTTTAAAAT
* * *
30766063 GACT-AAAAATATATTTTTATTTTTAAAAATCTAAACTTTCTTTATTTTAAG
194 GAATAAAAAATAAATTTTTATTTTT-AAAACCTAAACTTTCTTTATTTTAAG
* * *
30766114 AAATTAAAACTTTATTTAAAAATTTAAACTTTTTCTTTTAGAATGACTGAAAAATAGATTTTTAT
1 AAATCAAAACTTTATTTAAAAATTTAAACTTTTTCTTCTAGAATGACTGAAAAATAGATATTTAT
* * *
30766179 TTCTTTTCAAAAATCTAAATTTTCTTTCTTTTAAAAAAAATTACTTTTCTTAAAAATCAAAATTT
66 TTCTTTTCAAAAATCTAAACTTTCTTTCTTTTAAAAAAAATCACTGTTCTTAAAAATCAAAATTT
** * *
30766244 TTATTTCGAAATAGTTAAAAAATTAAAACTTTGTTTAAAAATTTAAAATTTTTTCTTTAAAATGA
131 TTATTTAAAAATAGTTAAAAAATAAAAACTTTGTTTAAAAATTTAAAATCTTTTCTTTAAAATGA
** *
30766309 ATAAAAAATAAATTTTTATTTTTAAAACCTAAACTTTCTTT-TTAAAAC
196 ATAAAAAATAAATTTTTATTTTTAAAACCTAAACTTTCTTTATTTTAAG
30766357 AAATCAAAACTTT
1 AAATCAAAACTTT
30766370 TCCCACAATC
Statistics
Matches: 220, Mismatches: 21, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
232 15 0.07
233 9 0.04
234 5 0.02
235 4 0.02
236 7 0.03
237 5 0.02
238 1 0.00
239 5 0.02
240 8 0.04
241 15 0.07
242 67 0.30
243 27 0.12
244 33 0.15
245 19 0.09
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (244 bp):
AAATCAAAACTTTATTTAAAAATTTAAACTTTTTCTTCTAGAATGACTGAAAAATAGATATTTAT
TTCTTTTCAAAAATCTAAACTTTCTTTCTTTTAAAAAAAATCACTGTTCTTAAAAATCAAAATTT
TTATTTAAAAATAGTTAAAAAATAAAAACTTTGTTTAAAAATTTAAAATCTTTTCTTTAAAATGA
ATAAAAAATAAATTTTTATTTTTAAAACCTAAACTTTCTTTATTTTAAG
Found at i:30766121 original size:24 final size:26
Alignment explanation
Indices: 30766078--30766131 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
30766068 AAAATATATT
*
30766078 TTTATTTTTAAAAATCT-AAACTTTC
1 TTTATTTTTAAAAATCTAAAACTTTA
30766103 TTTA-TTTTAAGAAAT-TAAAACTTTA
1 TTTATTTTTAA-AAATCTAAAACTTTA
30766128 TTTA
1 TTTA
30766132 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTATTTTTAAAAATCTAAAACTTTA
Found at i:30766124 original size:93 final size:99
Alignment explanation
Indices: 30766016--30766216 Score: 288
Period size: 93 Copynumber: 2.1 Consensus size: 99
30766006 TTAAAAATAG
* *
30766016 TTAAAAAATAAAAACTTTGTTTAAAAATTTAAAC-TTTTC-TTTAAAATGACT-AAAAATATATT
1 TTAAAAAATAAAAACTTTATTTAAAAATTTAAACTTTTTCTTTTAAAATGACTGAAAAATAGATT
30766078 TTTA-T-TTTT-AAAAATCTAAACTTTCTTTATT
66 TTTATTCTTTTCAAAAATCTAAACTTTCTTTATT
* * *
30766109 TTAAGAAATTAAAACTTTATTTAAAAATTTAAACTTTTTCTTTTAGAATGACTGAAAAATAGATT
1 TTAAAAAATAAAAACTTTATTTAAAAATTTAAACTTTTTCTTTTAAAATGACTGAAAAATAGATT
* *
30766174 TTTATTTCTTTTCAAAAATCTAAATTTTCTTTCTT
66 TTTA-TTCTTTTCAAAAATCTAAACTTTCTTTATT
30766209 TTAAAAAA
1 TTAAAAAA
30766217 AATTACTTTT
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
93 31 0.33
94 5 0.05
95 11 0.12
96 14 0.15
98 1 0.01
99 4 0.04
100 27 0.29
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (99 bp):
TTAAAAAATAAAAACTTTATTTAAAAATTTAAACTTTTTCTTTTAAAATGACTGAAAAATAGATT
TTTATTCTTTTCAAAAATCTAAACTTTCTTTATT
Found at i:30766142 original size:19 final size:21
Alignment explanation
Indices: 30766102--30766145 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
30766092 TCTAAACTTT
30766102 CTTTATTTTAAGAAATTAAAA
1 CTTTATTTTAAGAAATTAAAA
*
30766123 CTTTA-TTTAA-AAATTTAAA
1 CTTTATTTTAAGAAATTAAAA
30766142 CTTT
1 CTTT
30766146 TTCTTTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 5 0.23
21 5 0.23
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (21 bp):
CTTTATTTTAAGAAATTAAAA
Found at i:30768183 original size:48 final size:48
Alignment explanation
Indices: 30768112--30768206 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
30768102 CTTGGTGATC
30768112 AACATTTGAGGAAATATTCGAAAGGATGTACATGCTCATGCTTAACAA
1 AACATTTGAGGAAATATTCGAAAGGATGTACATGCTCATGCTTAACAA
30768160 AACATTTGAGGAAATATTCGAAAGGATGTACATGCTCATGCTTAACA
1 AACATTTGAGGAAATATTCGAAAGGATGTACATGCTCATGCTTAACA
30768207 GAAAGGAGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (48 bp):
AACATTTGAGGAAATATTCGAAAGGATGTACATGCTCATGCTTAACAA
Found at i:30772308 original size:15 final size:15
Alignment explanation
Indices: 30772290--30772327 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
30772280 TGAATTAAAT
30772290 GAATATACATTTGAA
1 GAATATACATTTGAA
30772305 GAATATACATTTGAA
1 GAATATACATTTGAA
30772320 GAAT-TACA
1 GAATATACA
30772328 AGATGTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (15 bp):
GAATATACATTTGAA
Found at i:30775104 original size:28 final size:28
Alignment explanation
Indices: 30775054--30775119 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 28
30775044 TACGTGTATG
*
30775054 TAGCACTTTATGTGCTTTTTGTTCTGAT-
1 TAGCACTTTATGTGCTTTCTGTTCT-ATA
*
30775082 TAGCACTTTGTGTG-TTCTCTGTTCTATAA
1 TAGCACTTTATGTGCTT-TCTGTTCTAT-A
30775111 TAGCACTTT
1 TAGCACTTT
30775120 CATGCTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 4 0.12
28 20 0.61
29 9 0.27
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (28 bp):
TAGCACTTTATGTGCTTTCTGTTCTATA
Found at i:30783584 original size:16 final size:16
Alignment explanation
Indices: 30783565--30783622 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
30783555 AGATACAAGT
30783565 TTTTATTTTTGTTATA
1 TTTTATTTTTGTTATA
* *
30783581 TTTTATTTTTCG-AATT
1 TTTTATTTTT-GTTATA
30783597 TTTTATTTATTGTT-TA
1 TTTTATTT-TTGTTATA
30783613 -TTTATTTTTG
1 TTTTATTTTTG
30783623 GTTAATAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.09
15 7 0.20
16 22 0.63
17 3 0.09
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (16 bp):
TTTTATTTTTGTTATA
Found at i:30786359 original size:23 final size:23
Alignment explanation
Indices: 30786324--30786368 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
30786314 CTAAGAAGAA
* *
30786324 TGTCGCGATAAAGCACTCCATTG
1 TGTCACGACAAAGCACTCCATTG
30786347 TGTCACGACAAAGCACTCCATT
1 TGTCACGACAAAGCACTCCATT
30786369 ATATCGCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (23 bp):
TGTCACGACAAAGCACTCCATTG
Found at i:30786378 original size:23 final size:23
Alignment explanation
Indices: 30786326--30786378 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
30786316 AAGAAGAATG
* * *
30786326 TCGCGATAAAGCACTCCATTGTG
1 TCGCGACAAAGCACTCCATTATA
*
30786349 TCACGACAAAGCACTCCATTATA
1 TCGCGACAAAGCACTCCATTATA
30786372 TCGCGAC
1 TCGCGAC
30786379 CAAGAGACAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (23 bp):
TCGCGACAAAGCACTCCATTATA
Found at i:30795786 original size:19 final size:19
Alignment explanation
Indices: 30795762--30795798 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30795752 TTACTATAAA
*
30795762 TATATATTTATAAATTGTT
1 TATATATATATAAATTGTT
*
30795781 TATATATATATACATTGT
1 TATATATATATAAATTGT
30795799 ATCAACTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (19 bp):
TATATATATATAAATTGTT
Found at i:30812103 original size:17 final size:18
Alignment explanation
Indices: 30812081--30812121 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
30812071 TTAGTTTTCA
30812081 TGCATTCTT-ATTGT-GCT
1 TGCATTCTTAATTGTCG-T
30812098 TGCATT-TTAATTGTCGT
1 TGCATTCTTAATTGTCGT
30812115 TGCATTC
1 TGCATTC
30812122 ATTTTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.10
17 18 0.86
18 1 0.05
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (18 bp):
TGCATTCTTAATTGTCGT
Found at i:30822038 original size:18 final size:18
Alignment explanation
Indices: 30822012--30822046 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30822002 TGAGTCTTTT
*
30822012 AACAAATAATTATCAATA
1 AACAAATAATCATCAATA
*
30822030 AACATATAATCATCAAT
1 AACAAATAATCATCAAT
30822047 CAAGTAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AACAAATAATCATCAATA
Found at i:30828690 original size:17 final size:17
Alignment explanation
Indices: 30828635--30828692 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
30828625 ACTTAATCAC
**
30828635 TTTAATATTAAATT-AA
1 TTTAATATTTTATTAAA
*
30828651 TATAATA-TTTATTAAGA
1 TTTAATATTTTATTAA-A
*
30828668 -TAAATATTTTATTAAA
1 TTTAATATTTTATTAAA
30828684 TTTAATATT
1 TTTAATATT
30828693 AAATCTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
15 4 0.12
16 12 0.38
17 16 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAATATTTTATTAAA
Found at i:30828745 original size:62 final size:59
Alignment explanation
Indices: 30828640--30828756 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
30828630 ATCACTTTAA
* * **
30828640 TATTAAATTAATATAATATTTATTAAGATAAATATTTTATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
* *
30828699 TATTAAAATAATAAAATGTTTATCTACAAGATAGATATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAAAATATTTAT-T--AAGATAAATATTAAATTAAATTTAATATTAA
30828757 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
60 1 0.02
62 28 0.57
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (59 bp):
TATTAAAATAATAAAATATTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:30828782 original size:20 final size:18
Alignment explanation
Indices: 30828733--30828783 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
30828723 TACAAGATAG
30828733 ATATTAAATTAA-ATTTA
1 ATATTAAATTAATATTTA
30828750 ATATTAAGA-TAATCACTTTA
1 ATATTAA-ATTAAT-A-TTTA
30828770 ATATTAAATTAATA
1 ATATTAAATTAATA
30828784 AAATAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 10 0.34
18 1 0.03
19 3 0.10
20 15 0.52
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATATTAAATTAATATTTA
Found at i:30836685 original size:18 final size:18
Alignment explanation
Indices: 30836664--30836719 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
30836654 TAAACCTTAC
* *
30836664 TTATTATACGAACCCATG
1 TTATTATGCGAACCTATG
*
30836682 TTATTATGCGAACTTATG
1 TTATTATGCGAACCTATG
30836700 TTATTATGCGAACCTATG
1 TTATTATGCGAACCTATG
30836718 TT
1 TT
30836720 GTATGAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (18 bp):
TTATTATGCGAACCTATG
Found at i:30837127 original size:3 final size:3
Alignment explanation
Indices: 30837119--30837153 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
30837109 AAAATTCCAA
*
30837119 AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
30837154 CCAAAATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:30838236 original size:7 final size:7
Alignment explanation
Indices: 30838216--30838288 Score: 60
Period size: 7 Copynumber: 10.7 Consensus size: 7
30838206 TTTCGAAAAA
30838216 GTCAACG
1 GTCAACG
* *
30838223 ATTAACG
1 GTCAACG
30838230 GTCAACG
1 GTCAACG
*
30838237 GTCAA-A
1 GTCAACG
*
30838243 GTCAATG
1 GTCAACG
30838250 GTCAACG
1 GTCAACG
**
30838257 GTCAAAT
1 GTCAACG
*
30838264 GTCAA-A
1 GTCAACG
30838270 GTCAACG
1 GTCAACG
30838277 GTCAACG
1 GTCAACG
*
30838284 ATCAA
1 GTCAA
30838289 AGTCAACAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 10 0.19
7 42 0.81
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:30838254 original size:20 final size:20
Alignment explanation
Indices: 30838229--30838281 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
30838219 AACGATTAAC
30838229 GGTCAACGGTCAAA-GTCAA
1 GGTCAACGGTCAAATGTCAA
30838248 TGGTCAACGGTCAAATGTCAA
1 -GGTCAACGGTCAAATGTCAA
*
30838269 AGTCAACGGTCAA
1 GGTCAACGGTCAA
30838282 CGATCAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (20 bp):
GGTCAACGGTCAAATGTCAA
Found at i:30838256 original size:27 final size:27
Alignment explanation
Indices: 30838213--30838294 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
30838203 GTTTTTCGAA
* * *
30838213 AAAGTCAACGATTAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTCAAAGGTC
* *
30838240 AAAGTCAATGGTCAACGGTCAAATGTC
1 AAAGTCAACGGTCAACGGTCAAAGGTC
*
30838267 AAAGTCAACGGTCAACGATCAAA-GTC
1 AAAGTCAACGGTCAACGGTCAAAGGTC
30838293 AA
1 AA
30838295 CAGTTTGAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.10
27 43 0.90
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (27 bp):
AAAGTCAACGGTCAACGGTCAAAGGTC
Found at i:30838288 original size:20 final size:20
Alignment explanation
Indices: 30838216--30838295 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
30838206 TTTCGAAAAA
* *
30838216 GTCAACGATTAACGGTCAACG
1 GTCAACG-TCAACAGTCAACG
* **
30838237 GTCAAAGTCAATGGTCAACG
1 GTCAACGTCAACAGTCAACG
*
30838257 GTCAAATGTCAA-AGTCAACG
1 GTC-AACGTCAACAGTCAACG
30838277 GTCAACGATCAA-AGTCAAC
1 GTCAACG-TCAACAGTCAAC
30838296 AGTTTGAGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.06
20 35 0.69
21 13 0.25
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
GTCAACGTCAACAGTCAACG
Found at i:30838339 original size:14 final size:15
Alignment explanation
Indices: 30838320--30838354 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30838310 TGAGTTGGAC
*
30838320 TTGGTTC-AATTGGT
1 TTGGTTCAAATGGGT
30838334 TTGGTTCAAATGGGT
1 TTGGTTCAAATGGGT
30838349 TTGGTT
1 TTGGTT
30838355 TGGTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.31, T:0.49
Consensus pattern (15 bp):
TTGGTTCAAATGGGT
Found at i:30838352 original size:20 final size:20
Alignment explanation
Indices: 30838329--30838388 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
30838319 CTTGGTTCAA
*
30838329 TTGGTTTGGTTCAAATGGGT
1 TTGGTTTGGTTTAAATGGGT
*
30838349 TTGGTTTGGTTTAAATGGAT
1 TTGGTTTGGTTTAAATGGGT
30838369 TTGGTTTGGTTTAAATGGGT
1 TTGGTTTGGTTTAAATGGGT
30838389 CAAAATTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (20 bp):
TTGGTTTGGTTTAAATGGGT
Found at i:30844272 original size:3 final size:3
Alignment explanation
Indices: 30844264--30844293 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
30844254 AAAATTCCAG
30844264 AAT AAT AAT AAT AAT AAT AAAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
30844294 CCAAAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30845377 original size:20 final size:20
Alignment explanation
Indices: 30845352--30845409 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
30845342 GTTTTTTGAA
30845352 AAAGTCAACGATCAACGGTC
1 AAAGTCAACGATCAACGGTC
* *
30845372 AAAGTCAAC-AGTCAATGCTC
1 AAAGTCAACGA-TCAACGGTC
*
30845392 AAAGTCAAAG-TCAACGGT
1 AAAGTCAACGATCAACGGT
30845410 TAACGGTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.23
20 24 0.77
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
AAAGTCAACGATCAACGGTC
Found at i:30845385 original size:13 final size:13
Alignment explanation
Indices: 30845363--30845406 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
30845353 AAGTCAACGA
*
30845363 TCAACGGTCAAAG
1 TCAACAGTCAAAG
*
30845376 TCAACAGTCAATG
1 TCAACAGTCAAAG
30845389 CTCAA-AGTCAAAG
1 -TCAACAGTCAAAG
30845402 TCAAC
1 TCAAC
30845407 GGTTAACGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (13 bp):
TCAACAGTCAAAG
Found at i:30845419 original size:26 final size:26
Alignment explanation
Indices: 30845354--30845406 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30845344 TTTTTGAAAA
* *
30845354 AGTCAACGATCAACGGTCAAAGTCAAC
1 AGTCAACGCTCAA-AGTCAAAGTCAAC
*
30845381 AGTCAATGCTCAAAGTCAAAGTCAAC
1 AGTCAACGCTCAAAGTCAAAGTCAAC
30845407 GGTTAACGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (26 bp):
AGTCAACGCTCAAAGTCAAAGTCAAC
Found at i:30845419 original size:40 final size:40
Alignment explanation
Indices: 30845352--30845439 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
30845342 GTTTTTTGAA
*
30845352 AAAGTCAACGATCAACGGTCAAAGTCAACAGTCAATGCTC
1 AAAGTCAAAGATCAACGGTCAAAGTCAACAGTCAATGCTC
* * * *
30845392 AAAGTCAAAG-TCAACGGTTAACGGTCAACTGTCAATGGTC
1 AAAGTCAAAGATCAACGGTCAA-AGTCAACAGTCAATGCTC
*
30845432 AAATTCAA
1 AAAGTCAA
30845440 TGGCTTAACT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (40 bp):
AAAGTCAAAGATCAACGGTCAAAGTCAACAGTCAATGCTC
Found at i:30845431 original size:14 final size:14
Alignment explanation
Indices: 30845375--30845442 Score: 52
Period size: 14 Copynumber: 5.1 Consensus size: 14
30845365 AACGGTCAAA
30845375 GTCAACAGTCAATG
1 GTCAACAGTCAATG
* *
30845389 CTCAA-AGTCAA-A
1 GTCAACAGTCAATG
* * *
30845401 GTCAACGGTTAACG
1 GTCAACAGTCAATG
*
30845415 GTCAACTGTCAATG
1 GTCAACAGTCAATG
*
30845429 GTCAA-ATTCAATG
1 GTCAACAGTCAATG
30845442 G
1 G
30845443 CTTAACTTGG
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
12 4 0.10
13 17 0.41
14 20 0.49
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (14 bp):
GTCAACAGTCAATG
Found at i:30845484 original size:14 final size:15
Alignment explanation
Indices: 30845465--30845499 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30845455 TGGGTTGGAC
*
30845465 TTGGTTC-AATTGGT
1 TTGGTTCAAATGGGT
30845479 TTGGTTCAAATGGGT
1 TTGGTTCAAATGGGT
30845494 TTGGTT
1 TTGGTT
30845500 TGGTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.31, T:0.49
Consensus pattern (15 bp):
TTGGTTCAAATGGGT
Found at i:30845541 original size:25 final size:20
Alignment explanation
Indices: 30845474--30845551 Score: 129
Period size: 20 Copynumber: 3.9 Consensus size: 20
30845464 CTTGGTTCAA
*
30845474 TTGGTTTGGTTCAAATGGGT
1 TTGGTTTGGTTTAAATGGGT
30845494 TTGGTTTGGTTTAAATGGGT
1 TTGGTTTGGTTTAAATGGGT
*
30845514 TTGGTTTGGTTTAAATGGAT
1 TTGGTTTGGTTTAAATGGGT
*
30845534 TTGATTTGGTTTAAATGG
1 TTGGTTTGGTTTAAATGG
30845552 ATCAAAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (20 bp):
TTGGTTTGGTTTAAATGGGT
Found at i:30845563 original size:21 final size:20
Alignment explanation
Indices: 30845518--30845563 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
30845508 ATGGGTTTGG
***
30845518 TTTGGTTTAAATGGATTTGA
1 TTTGGTTTAAATGGATAAAA
30845538 TTTGGTTTAAATGGATCAAAA
1 TTTGGTTTAAATGGAT-AAAA
30845559 TTTGG
1 TTTGG
30845564 GCTTAGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (20 bp):
TTTGGTTTAAATGGATAAAA
Found at i:30848883 original size:142 final size:142
Alignment explanation
Indices: 30848700--30848983 Score: 480
Period size: 142 Copynumber: 2.0 Consensus size: 142
30848690 ATGGCTATTG
* *
30848700 TTAAATGTGAATTCCTTACATATTTGCAGCTTTGATGGGTAAAAATGGGGTTTTGGCCTTTGTTT
1 TTAAATGTGAATTCCTTACATATTTGCAGCTTTGATGGGTAAAAATAGGGTTTTGGCCTTTGATT
* * *
30848765 G-ACGAAAAAGAGGTTGACAGATTCTTGGTCCAGATTGTAAACCATCATTAGCTTCAAGATTCCC
66 GAACGAAAAA-AAGCTGACAGATTCTTGGTCCAGATTGTAAACCATCATCAGCTTCAAGATTCCC
30848829 CAACGTCATATAA
130 CAACGTCATATAA
30848842 TTAAATGTGAATTCCTTACATATTTGCAGCTTTGATGGGTAAAAATAGGGTTTTGGCCTTTGATT
1 TTAAATGTGAATTCCTTACATATTTGCAGCTTTGATGGGTAAAAATAGGGTTTTGGCCTTTGATT
* *
30848907 GAAGGAAAAAAAGCTGACAGATTCTTGGTCCAGATTGTAAACCATCATCAGCTTCAAGATTCCCT
66 GAACGAAAAAAAGCTGACAGATTCTTGGTCCAGATTGTAAACCATCATCAGCTTCAAGATTCCCC
*
30848972 AATGTCATATAA
131 AACGTCATATAA
30848984 ACATTTAAAA
Statistics
Matches: 133, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
142 126 0.95
143 7 0.05
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (142 bp):
TTAAATGTGAATTCCTTACATATTTGCAGCTTTGATGGGTAAAAATAGGGTTTTGGCCTTTGATT
GAACGAAAAAAAGCTGACAGATTCTTGGTCCAGATTGTAAACCATCATCAGCTTCAAGATTCCCC
AACGTCATATAA
Found at i:30857193 original size:17 final size:18
Alignment explanation
Indices: 30857166--30857204 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
30857156 TATATGTCAG
30857166 AAATAATTAAAT-AAAAA
1 AAATAATTAAATGAAAAA
30857183 TAAAT-ATTAAATGAAAAA
1 -AAATAATTAAATGAAAAA
30857201 AAAT
1 AAAT
30857205 GAAGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATAATTAAATGAAAAA
Found at i:30861688 original size:19 final size:19
Alignment explanation
Indices: 30861666--30861711 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
30861656 AATAAAAATC
* *
30861666 TTTTTTAGAAAAGTTTGAA
1 TTTTTTAAAAAAATTTGAA
*
30861685 TTTTTTAAAAAAATTTGAT
1 TTTTTTAAAAAAATTTGAA
30861704 TTTTTTAA
1 TTTTTTAA
30861712 CTATTTCAAA
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:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (19 bp):
TTTTTTAAAAAAATTTGAA
Found at i:30861853 original size:51 final size:50
Alignment explanation
Indices: 30861785--30862008 Score: 136
Period size: 51 Copynumber: 4.4 Consensus size: 50
30861775 ATATTTTTAA
**
30861785 AAATAAAAATTTG-TTTTTTAGTTATTTTAAAGAAAAATTTTAAATTTTT
1 AAATAAAGTTTTGATTTTTTAGTTATTTTAAAGAAAAATTTTAAATTTTT
* * *
30861834 AAATAAAGTTTTGATTTTTTTAATTATTTCAAA-ATAAAAGTTTT-GATTTTT
1 AAATAAAGTTTTGA-TTTTTTAGTTATTTTAAAGA-AAAA-TTTTAAATTTTT
* ** * **** * *
30861885 AAGTAAAGTAGTGA-TTTTCA-TTAAAAAAAAGAAAGAAAATTTAGATTTTT
1 AAATAAAGTTTTGATTTTTTAGTTATTTTAAAG-AA-AAATTTTAAATTTTT
** * * *
30861935 AAAAAATAAAAATCT-ATTTTTAAGTTATTTTAAAGAAAAAGTTTAAATTTTT
1 ---AAATAAAGTTTTGATTTTTTAGTTATTTTAAAGAAAAATTTTAAATTTTT
*
30861987 AAACAAAGTTTTGATTATTTTA
1 AAATAAAGTTTTGATT-TTTTA
30862009 ACTATTTCGA
Statistics
Matches: 129, Mismatches: 31, Indels: 28
0.69 0.16 0.15
Matches are distributed among these distances:
48 6 0.05
49 28 0.22
50 15 0.12
51 41 0.32
52 18 0.14
53 14 0.11
54 7 0.05
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (50 bp):
AAATAAAGTTTTGATTTTTTAGTTATTTTAAAGAAAAATTTTAAATTTTT
Found at i:30862087 original size:153 final size:146
Alignment explanation
Indices: 30861674--30862085 Score: 506
Period size: 153 Copynumber: 2.8 Consensus size: 146
30861664 TCTTTTTTAG
* * **
30861674 AAAAGTTTGAATTTTTTAAAAAA-ATTTGATTTTTTTAACTATTTCAAAATAAAAGTTAGGATTT
1 AAAAGTTT-AAATTTTTAAAAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTTGATTT
* * * * * *
30861738 TTAAGTAAAATAGTTATTTTCTTT-AAAAAG-AGAGTTTATATTTTTAAAAATAAAAATTTGTTT
65 TTAAGTAAAGTAGTGATTTTCTTTAAAAAAGAAAAATTTATATTTTTAAAAATAAAAATCTATTT
*
30861801 TTTAGTTATTTTAAAGA
130 TTAAGTTATTTTAAAGA
* *
30861818 AAAATTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAATTATTTCAAAATAAAAGTTTTGATTT
1 AAAAGTTTAAATTTTTAAA-AAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTTGATTT
* *
30861883 TTAAGTAAAGTAGTGATTTTCATTAAAAAAAAGAAAGAAAATTTAGATTTTTAAAAAATAAAAAT
65 TTAAGTAAAGTAGTGATTTTC-TT-TAAAAAAG--A-AAAATTTATATTTTT-AAAAATAAAAAT
30861948 CTATTTTTAAGTTATTTTAAAGA
124 CTATTTTTAAGTTATTTTAAAGA
* *
30861971 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTATTTTAACTATTTCGAAATAAAAGTTTTGATTT
1 AAAAGTTTAAATTTTTAAA-AAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTTGATTT
* * * *
30862036 TGAAGTAAAGTAGTGATTTTGTTTTAATCAAAAGAAAACTTTTTATTTTT
65 TTAAGTAAAGTAGTGATTTT-CTTTAA--AAAAGAAAAATTTATATTTTT
30862086 TTTTAAAAAA
Statistics
Matches: 229, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
143 10 0.04
144 10 0.04
145 56 0.24
146 2 0.01
148 6 0.03
151 12 0.05
152 15 0.07
153 113 0.49
154 5 0.02
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (146 bp):
AAAAGTTTAAATTTTTAAAAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTTGATTTT
TAAGTAAAGTAGTGATTTTCTTTAAAAAAGAAAAATTTATATTTTTAAAAATAAAAATCTATTTT
TAAGTTATTTTAAAGA
Found at i:30862740 original size:45 final size:45
Alignment explanation
Indices: 30862676--30862768 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
30862666 TTTTATATTT
30862676 AAATTTAGGTTAGTTTTTAAGAGCTTATATACCATTTACCCTAGA
1 AAATTTAGGTTAGTTTTTAAGAGCTTATATACCATTTACCCTAGA
30862721 AAATTTAGGTTAGTTTTTAAGAGCTTATATACCATTTACCCTAGA
1 AAATTTAGGTTAGTTTTTAAGAGCTTATATACCATTTACCCTAGA
30862766 AAA
1 AAA
30862769 ATTATAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (45 bp):
AAATTTAGGTTAGTTTTTAAGAGCTTATATACCATTTACCCTAGA
Found at i:30863525 original size:237 final size:237
Alignment explanation
Indices: 30863110--30863578 Score: 780
Period size: 237 Copynumber: 2.0 Consensus size: 237
30863100 AAAATAATAA
* *
30863110 TAATGATAAAAGATCGAATAAGTTGTTGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
1 TAATGATAAAAGATCGAATAACTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
* * *
30863175 TTAGGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAATTA
66 TTAGGTTTTTTTAAGATTCTAAAATAAAATTAATTTTAAGAATTGAAGATATTTTACTAGAATTA
* * *
30863240 TTTAAGTATCTTTTAGGGTTCTCGTTAGAAGTAAAAATCTGTAATTTAAGTTTTAAATTAGATAA
131 TTTAAGTATCCTTTAGGGTTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATAA
*
30863305 GTTTGGTGAACACGTCTTAGTCAAGTTACAAGTAAATCGGAG
196 GTTTGGTGAACACATCTTAGTCAAGTTACAAGTAAATCGGAG
**
30863347 TAATGATAAAAGATC-ATATAACTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTATTT
1 TAATGATAAAAGATCGA-ATAACTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTA-AC
30863411 TTTTAGGTTTTTTTAAGATTCTAAAATAAAATTAATTTTAAGAATT-AAGATATTTTACTAGAAT
64 TTTTAGGTTTTTTTAAGATTCTAAAATAAAATTAATTTTAAGAATTGAAGATATTTTACTAGAAT
* * *
30863475 TATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAATTAGAT
129 TATTTAAGTATCCTTTAGGGTTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGAT
30863540 AAGTTTGGTGAACACATCTTAGTCAAGTTACAAGTAAAT
194 AAGTTTGGTGAACACATCTTAGTCAAGTTACAAGTAAAT
30863579 TAGAGGCATT
Statistics
Matches: 216, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
236 1 0.00
237 171 0.79
238 44 0.20
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.42
Consensus pattern (237 bp):
TAATGATAAAAGATCGAATAACTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
TTAGGTTTTTTTAAGATTCTAAAATAAAATTAATTTTAAGAATTGAAGATATTTTACTAGAATTA
TTTAAGTATCCTTTAGGGTTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATAA
GTTTGGTGAACACATCTTAGTCAAGTTACAAGTAAATCGGAG
Found at i:30896481 original size:21 final size:21
Alignment explanation
Indices: 30896430--30896482 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
30896420 TTATGCTAGT
*
30896430 TCTACCGATACAAGTATAACT
1 TCTACCGATACAAGTATAACA
* * *
30896451 TTTACTGATACAACT-TATACA
1 TCTACCGATACAAGTATA-ACA
30896472 TCTACCGATAC
1 TCTACCGATAC
30896483 TAAAAACTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (21 bp):
TCTACCGATACAAGTATAACA
Found at i:30907245 original size:16 final size:16
Alignment explanation
Indices: 30907224--30907254 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30907214 ATAATGTGAA
30907224 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
30907240 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
30907255 GCATCCACAA
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:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:30908070 original size:26 final size:26
Alignment explanation
Indices: 30908018--30908070 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30908008 TTTTGGGCGT
**
30908018 AATTCTGGACACGTTCATGCAGTGAC
1 AATTCTGGACACGTTCATGCAACGAC
* *
30908044 AATTCTGTACATGTTCATGCAACGAC
1 AATTCTGGACACGTTCATGCAACGAC
30908070 A
1 A
30908071 TTCCTAGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
AATTCTGGACACGTTCATGCAACGAC
Found at i:30908137 original size:38 final size:37
Alignment explanation
Indices: 30908079--30908157 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 37
30908069 CATTCCTAGG
*
30908079 TGCAATTGAAGAATACTTATGCAGCGATAGTTTTGGA
1 TGCAATTGAAGAATACTTATGCAGCGATAGTCTTGGA
* *
30908116 TGCAATATGAAGAATATTTATGCAGCGATAGTCTTGGG
1 TGCAAT-TGAAGAATACTTATGCAGCGATAGTCTTGGA
30908154 TGCA
1 TGCA
30908158 TTTCAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 6 0.16
38 32 0.84
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (37 bp):
TGCAATTGAAGAATACTTATGCAGCGATAGTCTTGGA
Found at i:30910559 original size:19 final size:18
Alignment explanation
Indices: 30910526--30910576 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
30910516 TTAGATCAAG
*
30910526 AAAAAAATACAAAAAAAGA
1 AAAAAAATA-GAAAAAAGA
30910545 AGGAAAAAA-AGAAAAAAGA
1 A--AAAAAATAGAAAAAAGA
30910564 AAAAAAATAGAAA
1 AAAAAAATAGAAA
30910577 GGGAGAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 6 0.21
18 5 0.18
19 10 0.36
20 1 0.04
21 6 0.21
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (18 bp):
AAAAAAATAGAAAAAAGA
Found at i:30911047 original size:41 final size:42
Alignment explanation
Indices: 30910954--30911299 Score: 437
Period size: 42 Copynumber: 8.5 Consensus size: 42
30910944 AAGGAAAGCA
*
30910954 TTCATTGCATTTAGAGGCCCAGGAGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
30910996 TTCATTGCATTCAAAGGTCCAGGTGTGGAGG-CC-TATTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCAT-TTACTT
* *
30911037 TTCATTGCATTTAGTGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
30911079 TTCATTGCA-TTA-ATGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGA-GGCCCAGGTGTGGAGGTCCATTTACTT
*
30911120 TTCATTGCATTTAGAGGCCTAGGTGTGGAGG-CCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCC-ATTTACTT
* * * * *
30911162 TTTATCGCATTCAGAGGCCCAAGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
30911204 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
30911246 TTCATTGCATTTATAGGCTCA-G-GT-----TCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
30911281 TTCATTGCAATTAGAGGCC
1 TTCATTGCATTTAGAGGCC
30911300 TAAACATAGA
Statistics
Matches: 270, Mismatches: 26, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
35 27 0.10
40 3 0.01
41 75 0.28
42 161 0.60
43 4 0.01
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:30911118 original size:83 final size:82
Alignment explanation
Indices: 30910954--30911299 Score: 449
Period size: 83 Copynumber: 4.2 Consensus size: 82
30910944 AAGGAAAGCA
* * *
30910954 TTCATTGCATTTAGAGGCCCAGGAGTGGAGGTCCATTTACTTTTCATTGCATTCAAAGGTCCAGG
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTTCATTGCATTC-AAGGCCCAGG
30911019 TGTGGAGGCC-TATTACTT
65 TGTGGAGGCCAT-TTACTT
*
30911037 TTCATTGCATTTAGTGGCCCAAGTGTGGAGGTCCATTTACTTTTCATTGCATT-AATGGCCCAGG
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTTCATTGCATTCAA-GGCCCAGG
30911101 TGTGGAGGTCCATTTACTT
65 TGTGGAGG-CCATTTACTT
* * * * *
30911120 TTCATTGCATTTAGAGGCCTAGGTGTGGAGG-CCTATTTACTTTTTATCGCATTCAGAGGCCCAA
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCC-ATTTACTTTTCATTGCATTCA-AGGCCCAG
30911184 GTGTGGAGGCCCATTTACTT
64 GTGTGGAGG-CCATTTACTT
* *
30911204 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTTCATTGCATTTATAGGCTCAGG
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTTCATTGCATTCA-AGGCCCAGG
30911269 T-T-----CCATTTACTT
65 TGTGGAGGCCATTTACTT
*
30911281 TTCATTGCAATTAGAGGCC
1 TTCATTGCATTTAGAGGCC
30911300 TAAACATAGA
Statistics
Matches: 236, Mismatches: 20, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
77 28 0.12
81 2 0.01
82 17 0.07
83 104 0.44
84 82 0.35
85 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (82 bp):
TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTTCATTGCATTCAAGGCCCAGGT
GTGGAGGCCATTTACTT
Found at i:30911675 original size:3 final size:3
Alignment explanation
Indices: 30911669--30912159 Score: 244
Period size: 3 Copynumber: 163.7 Consensus size: 3
30911659 CAAATTATTA
* * * *
30911669 TTG TTG TTG TTG TTG TTG TTG TTA TTG CTA TTG TTG TTG TTA TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * *
30911717 TTG TTG TTG CTG TTG TTG TTG CTG CTG TTG TTA TTG TTG CTA CTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * ** * *
30911765 TTG TTG CTA TTG TTG TTA CTG TTG TTG TTA CCG CTG TTG TTG TTG TTA
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * * * *
30911813 CTG TTG TTG TTG CTG CTG TTG TTA TTG TTG CTA CTG TTG TTG TTG CTA
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * * * *
30911861 TTA TTG TTG CTG TTG TTG TTG CTG CTG TTA TTG TTG CTA TTA TTG TTA
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * * * * *
30911909 TTG CTG TTG TTG CTG TTG TTG CTA TTG TTG TTG CTG CTA TTA CTA TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * * *
30911957 TTG ATA TTG TTA TTG TTG TCG TTG TTA TTG CTA CTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * * * *
30912005 TTG TTG CTA CTG TTA TTG CTG CTA TTG TTG CTA TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * *
30912053 TTG TTG TTG TTG TTG CTG TTG TTG TTG TTG TTG CTG CTA TTG CTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* * * * * * * * * * * *
30912101 CTA CTG TTG CTA TTG TTG TTG TTG TTC CTG GTA TTG TTG CTA CTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
30912149 TTG TTG TTG TT
1 TTG TTG TTG TT
30912160 AATGTTTTAT
Statistics
Matches: 359, Mismatches: 129, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 359 1.00
ACGTcount: A:0.07, C:0.09, G:0.26, T:0.57
Consensus pattern (3 bp):
TTG
Found at i:30911701 original size:30 final size:30
Alignment explanation
Indices: 30911667--30912159 Score: 287
Period size: 30 Copynumber: 16.9 Consensus size: 30
30911657 CCCAAATTAT
* * *
30911667 TATTGTTGTTGTTGTTGTTGTTGTTATTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* **
30911697 TATTGTTGTTGTTATTGTTGTTGTTGTTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* *
30911727 TGTTGTTGTTGCTGCTGTTGTTATTGTTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * * *
30911757 TACTGTTGTTG-T--TGCTATTGTTGTTAC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * * *
30911784 TGTTGTTGTTACCGCTGTTGTTGTTGTTAC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* *
30911814 TGTTGTTGTTGCTGCTGTTGTTATTGTTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * * *
30911844 TACTGTTGTTG-T--TGCTATTATTGTTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * * **
30911871 TGTTGTTGTTGCTGCTGTTATTGTTGCTAT
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * *
30911901 TATTGTTATTGCTGTTGTTGCTGTTGTTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* ** * *
30911931 TATTGTTGTTGCTGCTATTACTATTGTTGA
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * *
30911961 TATTGTTATTG-T--TGTCGTTGTTATTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
*
30911988 TA---CTGTTG-T--TGTTGTTGTTGTTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * * * * *
30912012 TACTGTTATTGCTGCTATTGTTGCTATTGT
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * * * *
30912042 TGTTGTTGTTGTTGTTGTTGTTGTTGCTGT
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * * * *
30912072 TGTTGTTGTTGTTGCTGCTATTGCTGTTGC
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * ** * ** *
30912102 TACTGTTGCTATTGTTGTTGTTGTTCCTGG
1 TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
* * *
30912132 TATTGTTGCTACTGTTGTTGTTGTTGTT
1 TATTGTTGTTGCTGCTGTTGTTGTTGTT
30912160 AATGTTTTAT
Statistics
Matches: 355, Mismatches: 96, Indels: 24
0.75 0.20 0.05
Matches are distributed among these distances:
24 20 0.06
27 55 0.15
28 2 0.01
29 3 0.01
30 275 0.77
ACGTcount: A:0.07, C:0.09, G:0.26, T:0.57
Consensus pattern (30 bp):
TATTGTTGTTGCTGCTGTTGTTGTTGTTGC
Found at i:30911817 original size:87 final size:87
Alignment explanation
Indices: 30911673--30912165 Score: 386
Period size: 87 Copynumber: 5.7 Consensus size: 87
30911663 TTATTATTGT
* * * * * ** * *
30911673 TGTTGTTGTTGTTGTTGTTATTGCTATTGTTGTTGTTATTGTTGTTGTTGTTGCTGTTGTTGTTG
1 TGTTGTTGTTGCTATTGTTGTTACTGTTGTTGTTACTGTTGTTGTTGTTGTTACTGTTGTTGTTG
30911738 CTGCTGTTGTTATTGTTGCTAC
66 CTGCTGTTGTTATTGTTGCTAC
* *
30911760 TGTTGTTGTTGCTATTGTTGTTACTGTTGTTGTTACCGCTGTTGTTGTTGTTACTGTTGTTGTTG
1 TGTTGTTGTTGCTATTGTTGTTACTGTTGTTGTTACTGTTGTTGTTGTTGTTACTGTTGTTGTTG
30911825 CTGCTGTTGTTATTGTTGCTAC
66 CTGCTGTTGTTATTGTTGCTAC
* * * * * * * * *
30911847 TGTTGTTGTTGCTATTATTGTTGCTGTTGTTGTTGCTGCTGTTATTGTTGCTATTATTGTTATTG
1 TGTTGTTGTTGCTATTGTTGTTACTGTTGTTGTTACTGTTGTTGTTGTTGTTACTGTTGTTGTTG
* * * *
30911912 CTGTTGTTGCTGTTGTTGCTAT
66 CTGCTGTTGTTATTGTTGCTAC
* ** * ** * * * * * **
30911934 TGTTGTTGCTGCTATTACTATTGTTGATATTGTTA---TTGTTGTCGTTGTTATTGCTACTGTTG
1 TGTTGTTGTTGCTATTGTTGTTACTGTTGTTGTTACTGTTGTTGTTGTTGTTACTGTTGTTGTTG
*
30911996 -T--TGTTGTTGTTGTTGCTAC
66 CTGCTGTTGTTATTGTTGCTAC
* * * * ** *
30912015 TGTTATTGCTGCTATTGTTGCTATTGTTGTTGTTGTTGTTGTTGTTGTTGTTGCTGTTGTTGTTG
1 TGTTGTTGTTGCTATTGTTGTTACTGTTGTTGTTACTGTTGTTGTTGTTGTTACTGTTGTTGTTG
* * * *
30912080 TTGTTGCTGCTATTGCTGTTGCTAC
66 CTGCTGTTGTTA-T--TGTTGCTAC
* * * * * * *
30912105 TGTTGCTATTGTTGTTGTTGTTCCTGGTATTGTTGCTACTGTTGTTGTTGTTGTTAATGTT
1 TGTTGTTGTTGCTATTGTTGTTACT-G--TTGTTGTTACTGTTGTTGTTGTTGTTACTGTT
30912166 TTATATCTAT
Statistics
Matches: 320, Mismatches: 74, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
81 42 0.13
83 1 0.00
84 39 0.12
85 1 0.00
87 183 0.57
88 1 0.00
90 25 0.08
91 1 0.00
93 27 0.08
ACGTcount: A:0.08, C:0.09, G:0.26, T:0.57
Consensus pattern (87 bp):
TGTTGTTGTTGCTATTGTTGTTACTGTTGTTGTTACTGTTGTTGTTGTTGTTACTGTTGTTGTTG
CTGCTGTTGTTATTGTTGCTAC
Found at i:30913058 original size:243 final size:237
Alignment explanation
Indices: 30912635--30913111 Score: 758
Period size: 243 Copynumber: 2.0 Consensus size: 237
30912625 AAAATAATAA
* *
30912635 TAATGATAAAAGATCGAATAAATTGTCGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
1 TAATGATAAAAGATCAAATAAATTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
* *
30912700 TTAGGGGTTTTTTAGAATTTTTAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAATT
66 TTA-GGGTTTTTTAGAATTCTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAATT
* * *
30912765 ATTTAAGTATCTTTTAGGGTTCTCGTTAGAAGTAAAAGTCTCTAATTTAAGTTTTAAATTTGATA
130 ATTTAAGTATCTTTTAGGGTTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATA
*
30912830 AGTTTGGTGAACACGTCTTAGTCAAGTTACAAGTAAATTTGAG
195 AGTTTGGTGAACACGTCTTAGTCAAGCTACAAGTAAATTTGAG
*
30912873 TAATGATAAAAGATCAAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAATTT
1 TAATGATAAAAGATCAAATAAATTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAA---
* *
30912938 TTTTCTTTTA-GGTTTTTTAGGATTCTAAAATATAATTAATTTTAAGAATTGAAGGTATTTTACT
63 ----CTTTTAGGGTTTTTTAGAATTCTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACT
* *
30913002 AGAATTATTTAAGTATCTTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTTAAAT
124 AGAATTATTTAAGTATCTTTTAGGGTTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAAT
30913067 TAGATAAGTTTGGTGAACACGTCTTAGTCAAGCTACAAGTAAATT
189 TAGATAAGTTTGGTGAACACGTCTTAGTCAAGCTACAAGTAAATT
30913112 GGAGGCATTT
Statistics
Matches: 219, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
238 59 0.27
243 154 0.70
245 6 0.03
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (237 bp):
TAATGATAAAAGATCAAATAAATTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
TTAGGGTTTTTTAGAATTCTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAATTA
TTTAAGTATCTTTTAGGGTTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATAA
GTTTGGTGAACACGTCTTAGTCAAGCTACAAGTAAATTTGAG
Found at i:30917315 original size:16 final size:16
Alignment explanation
Indices: 30917291--30917326 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30917281 GCTTCATCTT
* *
30917291 GCTTTGCATCCCGCTA
1 GCTTCGCATCCCACTA
30917307 GCTTCGCATCCCACTA
1 GCTTCGCATCCCACTA
30917323 GCTT
1 GCTT
30917327 TGTTACCTGC
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:0.14, C:0.39, G:0.17, T:0.31
Consensus pattern (16 bp):
GCTTCGCATCCCACTA
Found at i:30924878 original size:26 final size:25
Alignment explanation
Indices: 30924819--30924886 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
30924809 AAAATTAAAT
*
30924819 CCAATAACCTTTTTAAAACCCAAAC
1 CCAATAACCCTTTTAAAACCCAAAC
30924844 CCAATAACCCTTTTAAAACCCAAAC
1 CCAATAACCCTTTTAAAACCCAAAC
**
30924869 CTTATAAACCC-TTTAAAA
1 CCAAT-AACCCTTTTAAAA
30924887 TCTATTAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
25 34 0.87
26 5 0.13
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (25 bp):
CCAATAACCCTTTTAAAACCCAAAC
Found at i:30925014 original size:7 final size:7
Alignment explanation
Indices: 30925002--30925070 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
30924992 GTTCACCGAT
30925002 CGTTGAC
1 CGTTGAC
*
30925009 CGTTGAT
1 CGTTGAC
*
30925016 CATTGAC
1 CGTTGAC
* *
30925023 CATTGAT
1 CGTTGAC
*
30925030 CATTGA-
1 CGTTGAC
*
30925036 CTTTGAC
1 CGTTGAC
*
30925043 CTTTGAC
1 CGTTGAC
30925050 CGTTGAC
1 CGTTGAC
*
30925057 CTTTGAC
1 CGTTGAC
30925064 CGTTGAC
1 CGTTGAC
30925071 TTTAATCGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
6 5 0.09
7 48 0.91
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (7 bp):
CGTTGAC
Found at i:30925056 original size:34 final size:34
Alignment explanation
Indices: 30925004--30925083 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 34
30924994 TCACCGATCG
* *
30925004 TTGACCGTTGATCATTGACCATTGATCATTGACT
1 TTGACCGTTGACCATTGACCATTGACCATTGACT
* * * *
30925038 TTGACCTTTGACCGTTGACCTTTGACCGTTGACT
1 TTGACCGTTGACCATTGACCATTGACCATTGACT
* *
30925072 TTAATCGTTGAC
1 TTGACCGTTGAC
30925084 TCTTTCCGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (34 bp):
TTGACCGTTGACCATTGACCATTGACCATTGACT
Found at i:30925070 original size:14 final size:14
Alignment explanation
Indices: 30925004--30925088 Score: 75
Period size: 14 Copynumber: 6.1 Consensus size: 14
30924994 TCACCGATCG
* *
30925004 TTGACCGTTGATCA
1 TTGACCGTTGACCT
* * *
30925018 TTGACCATTGATCA
1 TTGACCGTTGACCT
*
30925032 TTGA-CTTTGACCT
1 TTGACCGTTGACCT
30925045 TTGACCGTTGACCT
1 TTGACCGTTGACCT
30925059 TTGACCGTTGA-CT
1 TTGACCGTTGACCT
* *
30925072 TTAATCGTTGACTCT
1 TTGACCGTTGAC-CT
30925087 TT
1 TT
30925089 CCGAAAAACC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
13 21 0.34
14 36 0.59
15 4 0.07
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (14 bp):
TTGACCGTTGACCT
Found at i:30926188 original size:3 final size:3
Alignment explanation
Indices: 30926138--30926173 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
30926128 ACAAATTTAC
30926138 ATT ATT -TT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30926174 AATTTTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:30929137 original size:20 final size:20
Alignment explanation
Indices: 30929108--30929151 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
30929098 GAAAGCTTTA
30929108 TTTAAGTATAATATTTAGAT
1 TTTAAGTATAATATTTAGAT
* * *
30929128 TTTAATTATATTATTTATAT
1 TTTAAGTATAATATTTAGAT
30929148 TTTA
1 TTTA
30929152 TTACCTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAAGTATAATATTTAGAT
Found at i:30931563 original size:35 final size:34
Alignment explanation
Indices: 30931524--30931769 Score: 159
Period size: 33 Copynumber: 7.3 Consensus size: 34
30931514 CATTCTAACA
*
30931524 TAAGACCATGGTTGGACCATGACAGTGTATATATG
1 TAAGACCATGGTTGGACCATGGCA-TGTATATATG
* * * * *
30931559 TAAGACCATAGCTAGG-CTATGGCAT-TCT-GATG
1 TAAGACCAT-GGTTGGACCATGGCATGTATATATG
*
30931591 ATAAGACCATGGTTGGACCATGACAATGTATATATG
1 -TAAGACCATGGTTGGACCATGGC-ATGTATATATG
* ** * * *
30931627 TAAGACCATAGCAGGGCTATGGCAT-TCTA-ATG
1 TAAGACCATGGTTGGACCATGGCATGTATATATG
*
30931659 ATAAGATCATGGTTGGACCATGGCAGTGTATATATG
1 -TAAGACCATGGTTGGACCATGGCA-TGTATATATG
* * * * *
30931695 TAAGACCATAGTTGGGCTATGGCAT-TCT-GATG
1 TAAGACCATGGTTGGACCATGGCATGTATATATG
* * *
30931727 ATAAGACCATAGTTGGACTATGGCAT-TCTA-ATG
1 -TAAGACCATGGTTGGACCATGGCATGTATATATG
30931760 TTAAGACCAT
1 -TAAGACCAT
30931770 AATTTGGTTA
Statistics
Matches: 165, Mismatches: 34, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
32 13 0.08
33 78 0.47
34 7 0.04
35 57 0.35
36 10 0.06
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (34 bp):
TAAGACCATGGTTGGACCATGGCATGTATATATG
Found at i:30931751 original size:68 final size:68
Alignment explanation
Indices: 30931523--30931744 Score: 372
Period size: 68 Copynumber: 3.3 Consensus size: 68
30931513 GCATTCTAAC
*
30931523 ATAAGACCATGGTTGGACCATGACAGTGTATATATGTAAGACCATAGCTAGGCTATGGCATTCTG
1 ATAAGACCATGGTTGGACCATGACAGTGTATATATGTAAGACCATAGCTGGGCTATGGCATTCTG
30931588 ATG
66 ATG
* * *
30931591 ATAAGACCATGGTTGGACCATGACAATGTATATATGTAAGACCATAGCAGGGCTATGGCATTCTA
1 ATAAGACCATGGTTGGACCATGACAGTGTATATATGTAAGACCATAGCTGGGCTATGGCATTCTG
30931656 ATG
66 ATG
* * *
30931659 ATAAGATCATGGTTGGACCATGGCAGTGTATATATGTAAGACCATAGTTGGGCTATGGCATTCTG
1 ATAAGACCATGGTTGGACCATGACAGTGTATATATGTAAGACCATAGCTGGGCTATGGCATTCTG
30931724 ATG
66 ATG
*
30931727 ATAAGACCATAGTTGGAC
1 ATAAGACCATGGTTGGAC
30931745 TATGGCATTC
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 142 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (68 bp):
ATAAGACCATGGTTGGACCATGACAGTGTATATATGTAAGACCATAGCTGGGCTATGGCATTCTG
ATG
Found at i:30931816 original size:33 final size:33
Alignment explanation
Indices: 30931559--30931848 Score: 219
Period size: 33 Copynumber: 8.7 Consensus size: 33
30931549 TGTATATATG
* * *
30931559 TAAGACCATAGCTAGGCTATGGCATTCTGATGA
1 TAAGACCATAGTTGGGCTATGGCATTCTAATGA
* * * * *
30931592 TAAGACCATGGTTGGACCATGACAATGTATATATG-
1 TAAGACCATAGTTGGGCTATGGC-AT-TCTA-ATGA
**
30931627 TAAGACCATAGCAGGGCTATGGCATTCTAATGA
1 TAAGACCATAGTTGGGCTATGGCATTCTAATGA
* * * * *
30931660 TAAGATCATGGTTGGACCATGGCAGTGTATATATG-
1 TAAGACCATAGTTGGGCTATGGCA-T-TCTA-ATGA
*
30931695 TAAGACCATAGTTGGGCTATGGCATTCTGATGA
1 TAAGACCATAGTTGGGCTATGGCATTCTAATGA
* *
30931728 TAAGACCATAGTTGGACTATGGCATTCTAATGT
1 TAAGACCATAGTTGGGCTATGGCATTCTAATGA
* * * *
30931761 TAAGACCATAATTTGGTTATGGCATTGTGAATG-
1 TAAGACCATAGTTGGGCTATGGCATTCT-AATGA
* * * * *
30931794 TAAGACCATTGTCGGGCCATGGCAATCCACATG-
1 TAAGACCATAGTTGGGCTATGGCATTCTA-ATGA
* *
30931827 TAAGACCTTAGTTGGACTATGG
1 TAAGACCATAGTTGGGCTATGG
30931849 TACAATACAA
Statistics
Matches: 197, Mismatches: 50, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
32 7 0.04
33 132 0.67
34 10 0.05
35 42 0.21
36 6 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCTATGGCATTCTAATGA
Found at i:30931831 original size:66 final size:65
Alignment explanation
Indices: 30931556--30931848 Score: 219
Period size: 68 Copynumber: 4.4 Consensus size: 65
30931546 CAGTGTATAT
** * * * * *
30931556 ATGTAAGACCATAGCTAGGCTATGGCATTCTGATGATAAGACCATGGTTGGACCATGACAATGTA
1 ATGTAAGACCATAATTGGGCTATGGCATTCTGATGATAAGACCATAGTCGGACCATGGCAA--TC
*
30931621 TA
64 CA
*** * * * * *
30931623 TATGTAAGACCATAGCAGGGCTATGGCATTCTAATGATAAGATCATGGTTGGACCATGGCAGTGT
1 -ATGTAAGACCATAATTGGGCTATGGCATTCTGATGATAAGACCATAGTCGGACCATGGCA--AT
**
30931688 ATA
63 CCA
* * * * *
30931691 TATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAGTTGGACTATGGCATTCT
1 -ATGTAAGACCATAATTGGGCTATGGCATTCTGATGATAAGACCATAGTCGGACCATGGCAATCC
30931756 A
65 A
* * * * *
30931757 ATGTTAAGACCATAATTTGGTTATGGCATTGTGAATG-TAAGACCATTGTCGGGCCATGGCAATC
1 ATG-TAAGACCATAATTGGGCTATGGCATTCTG-ATGATAAGACCATAGTCGGACCATGGCAATC
30931821 CA
64 CA
* * *
30931823 CATGTAAGACCTTAGTTGGACTATGG
1 -ATGTAAGACCATAATTGGGCTATGG
30931849 TACAATACAA
Statistics
Matches: 191, Mismatches: 29, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
65 3 0.02
66 68 0.36
67 6 0.03
68 114 0.60
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (65 bp):
ATGTAAGACCATAATTGGGCTATGGCATTCTGATGATAAGACCATAGTCGGACCATGGCAATCCA
Found at i:30934039 original size:7 final size:8
Alignment explanation
Indices: 30934020--30934045 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
30934010 AATAGCAGAA
30934020 AAAAAAGT
1 AAAAAAGT
30934028 AAAAAAGT
1 AAAAAAGT
30934036 AAAAAAGT
1 AAAAAAGT
30934044 AA
1 AA
30934046 TTGAGTCCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAAAAGT
Found at i:30937185 original size:12 final size:13
Alignment explanation
Indices: 30937170--30937201 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30937160 ACATAAAAAT
30937170 TAAAAAATTAT-A
1 TAAAAAATTATGA
30937182 TAAAAAATTATGA
1 TAAAAAATTATGA
30937195 -AAAAAAT
1 TAAAAAAT
30937202 AAAAACTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 18 0.95
13 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (13 bp):
TAAAAAATTATGA
Found at i:30937620 original size:18 final size:18
Alignment explanation
Indices: 30937599--30937642 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
30937589 TATTTTTAAA
*
30937599 TTTTAAATAGTTTTTATT
1 TTTTAAATAATTTTTATT
**
30937617 TTTTTCATAATTTTTATT
1 TTTTAAATAATTTTTATT
*
30937635 TTTAAAAT
1 TTTTAAAT
30937643 TACAATTTTT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTAAATAATTTTTATT
Found at i:30938404 original size:31 final size:31
Alignment explanation
Indices: 30938369--30938474 Score: 115
Period size: 33 Copynumber: 3.3 Consensus size: 31
30938359 AGGATATCTA
* *
30938369 AAATAATTTAATATGATGATAAATAATATTT
1 AAATAATTTAATATAATAATAAATAATATTT
*
30938400 AAATAATTTAATATAATAATACATAAAATATTCT
1 AAATAATTTAATATAATAATA-A-ATAATATT-T
* * *
30938434 -AACAATTTAATATAATAATATATAATATATA
1 AAATAATTTAATATAATAATAAATAATAT-TT
30938465 AAATAATTTA
1 AAATAATTTA
30938475 TTTTTTTCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
31 25 0.40
32 10 0.16
33 26 0.42
34 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (31 bp):
AAATAATTTAATATAATAATAAATAATATTT
Found at i:30940618 original size:21 final size:21
Alignment explanation
Indices: 30940592--30940635 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30940582 CAGACAAACG
30940592 AGCTACTTCACA-CTCCCAAGA
1 AGCTACTTCA-ATCTCCCAAGA
30940613 AGCTACTTCAATCTCCCAAGA
1 AGCTACTTCAATCTCCCAAGA
30940634 AG
1 AG
30940636 TAATGCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (21 bp):
AGCTACTTCAATCTCCCAAGA
Found at i:30940646 original size:21 final size:21
Alignment explanation
Indices: 30940604--30940643 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30940594 CTACTTCACA
* *
30940604 CTCCCAAGAAGCTACTTCAAT
1 CTCCCAAGAAGCTAATGCAAT
30940625 CTCCCAAGAAG-TAATGCAA
1 CTCCCAAGAAGCTAATGCAA
30940644 ATCACCCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.30, G:0.12, T:0.20
Consensus pattern (21 bp):
CTCCCAAGAAGCTAATGCAAT
Found at i:30955239 original size:26 final size:26
Alignment explanation
Indices: 30955203--30955255 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
30955193 AATATAATCG
30955203 GAGCATGCTTAGTATTTGCAAATTGT
1 GAGCATGCTTAGTATTTGCAAATTGT
*
30955229 GAGCGTGCTTAGTATTTGCAAATTGT
1 GAGCATGCTTAGTATTTGCAAATTGT
30955255 G
1 G
30955256 TTTCAGACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (26 bp):
GAGCATGCTTAGTATTTGCAAATTGT
Found at i:30971293 original size:169 final size:169
Alignment explanation
Indices: 30971014--30971329 Score: 623
Period size: 169 Copynumber: 1.9 Consensus size: 169
30971004 TGATCCTCTG
*
30971014 GCGCGATTGCAATTTGGTTGTTCCTAGAGTATCTATCAAGAAAACAAGAATAGGCCTTACCAGCT
1 GCGCGATTGCAATTTGGTTGTTCCTAGAGTATCTATCAAGAAAACAAGAATAGGCCTCACCAGCT
30971079 AGCCTATCCAACATTTGATCAATAAATGGGAGTGGGAAGTGATCCTTCTTTGTGGTCGTATTTAG
66 AGCCTATCCAACATTTGATCAATAAATGGGAGTGGGAAGTGATCCTTCTTTGTGGTCGTATTTAG
30971144 ATGACGGTAATCCATACACACTCGCCAACCTGTAGCAAT
131 ATGACGGTAATCCATACACACTCGCCAACCTGTAGCAAT
30971183 GCGCGATTGCAATTTGGTTGTTCCTAGAGTATCTATCAAGAAAACAAGAATAGGCCTCACCAGCT
1 GCGCGATTGCAATTTGGTTGTTCCTAGAGTATCTATCAAGAAAACAAGAATAGGCCTCACCAGCT
30971248 AGCCTATCCAACATTTGATCAATAAATGGGAGTGGGAAGTGATCCTTCTTTGTGGTCGTATTTAG
66 AGCCTATCCAACATTTGATCAATAAATGGGAGTGGGAAGTGATCCTTCTTTGTGGTCGTATTTAG
30971313 ATGACGGTAATCCATAC
131 ATGACGGTAATCCATAC
30971330 CACCGTGATG
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 146 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (169 bp):
GCGCGATTGCAATTTGGTTGTTCCTAGAGTATCTATCAAGAAAACAAGAATAGGCCTCACCAGCT
AGCCTATCCAACATTTGATCAATAAATGGGAGTGGGAAGTGATCCTTCTTTGTGGTCGTATTTAG
ATGACGGTAATCCATACACACTCGCCAACCTGTAGCAAT
Done.