Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 19 of 144
Found at i:5405348 original size:30 final size:30
Alignment explanation
Indices: 5405273--5405348 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
5405263 ACTTATTATA
**
5405273 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTAAGTTATTATTTTAAAGGCAT
** *
5405303 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTAAGTTATTATTTTAAAGGCAT
*
5405333 TTGCTT-GTTAAGTTAT
1 TTG-TTAATTAAGTTAT
5405349 ATCTATATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 39 0.95
31 2 0.05
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTAAGTTATTATTTTAAAGGCAT
Found at i:5408271 original size:16 final size:16
Alignment explanation
Indices: 5408247--5408279 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
5408237 TCTTGAAAAG
5408247 AAAAAAGAAT-TCTTT
1 AAAAAAGAATGTCTTT
5408262 AAAAATAGAATGTCTTT
1 AAAAA-AGAATGTCTTT
5408279 A
1 A
5408280 CAGTTTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (16 bp):
AAAAAAGAATGTCTTT
Found at i:5412956 original size:20 final size:21
Alignment explanation
Indices: 5412918--5412957 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
5412908 CGAGAAAGCA
5412918 TATAACTACAATAAATAATTT
1 TATAACTACAATAAATAATTT
*
5412939 TATAACTAC-ATTAATAATT
1 TATAACTACAATAAATAATT
5412958 GGAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAACTACAATAAATAATTT
Found at i:5437465 original size:12 final size:12
Alignment explanation
Indices: 5437448--5437481 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
5437438 CATGTTGTAT
5437448 TAAGATTACCCC
1 TAAGATTACCCC
5437460 TAAGATTACCCC
1 TAAGATTACCCC
*
5437472 TAATATTACC
1 TAAGATTACC
5437482 AAATTTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (12 bp):
TAAGATTACCCC
Found at i:5445311 original size:17 final size:17
Alignment explanation
Indices: 5445298--5445333 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
5445288 CATAAAAATG
5445298 ATTA-AAAAATAAAAAA
1 ATTATAAAAATAAAAAA
5445314 ATTATAAAAATAGAAAAA
1 ATTATAAAAATA-AAAAA
5445332 AT
1 AT
5445334 CAAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 7 0.39
18 7 0.39
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
ATTATAAAAATAAAAAA
Found at i:5445315 original size:19 final size:18
Alignment explanation
Indices: 5445291--5445333 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
5445281 TTTTTCCCAT
5445291 AAAAATGATTAAAAAATA-A
1 AAAAATGA-T-AAAAATAGA
*
5445310 AAAAATTATAAAAATAGA
1 AAAAATGATAAAAATAGA
5445328 AAAAAT
1 AAAAAT
5445334 CAAAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 8 0.36
19 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAATGATAAAAATAGA
Found at i:5445409 original size:9 final size:9
Alignment explanation
Indices: 5445396--5445449 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
5445386 GTCAATATTG
5445396 TAAAAA-TA
1 TAAAAATTA
*
5445404 TAAAAATTC
1 TAAAAATTA
5445413 TAATAAATTA
1 TAA-AAATTA
5445423 TAAAAATTTA
1 TAAAAA-TTA
*
5445433 TAAAACTTA
1 TAAAAATTA
5445442 TTAAAAAT
1 -TAAAAAT
5445450 ATTTAAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 6 0.16
9 10 0.26
10 22 0.58
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:5446006 original size:28 final size:28
Alignment explanation
Indices: 5445974--5446028 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
5445964 TTTATTATTT
5445974 TTTTATAA-GTTTATAGCAATTTTAATAC
1 TTTTATAATGTTTATAG-AATTTTAATAC
*
5446002 TTTTATAATTTTTATAGAATTTTAATA
1 TTTTATAATGTTTATAGAATTTTAATA
5446029 AGTTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTTATAATGTTTATAGAATTTTAATAC
Found at i:5446056 original size:21 final size:21
Alignment explanation
Indices: 5446002--5446047 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
5445992 ATTTTAATAC
*
5446002 TTTT-ATAA-TTTTTATAGAA
1 TTTTAATAAGTTTTTATAAAA
5446021 TTTTAATAAGTTTTTATAAAA
1 TTTTAATAAGTTTTTATAAAA
5446042 TTTTAA
1 TTTTAA
5446048 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 16 0.67
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTAATAAGTTTTTATAAAA
Found at i:5458323 original size:89 final size:89
Alignment explanation
Indices: 5458185--5458361 Score: 336
Period size: 89 Copynumber: 2.0 Consensus size: 89
5458175 TCCAACCGTA
*
5458185 GGCCTCTCAAGCTTTCTTCATCCGGTAGGAAGTTTAGAGGTGTACGGCAAAGACCTTGGGGGAAA
1 GGCCTCTCAAGCTTTCTTCATCCGGTAGGAAGTTTAGAGGTGTACGGCAAAGACCATGGGGGAAA
*
5458250 TGGGCTGCGGAGATTCGAGATCCC
66 TGGGCAGCGGAGATTCGAGATCCC
5458274 GGCCTCTCAAGCTTTCTTCATCCGGTAGGAAGTTTAGAGGTGTACGGCAAAGACCATGGGGGAAA
1 GGCCTCTCAAGCTTTCTTCATCCGGTAGGAAGTTTAGAGGTGTACGGCAAAGACCATGGGGGAAA
5458339 TGGGCAGCGGAGATTCGAGATCC
66 TGGGCAGCGGAGATTCGAGATCC
5458362 AGCCCGCCGC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.23
Consensus pattern (89 bp):
GGCCTCTCAAGCTTTCTTCATCCGGTAGGAAGTTTAGAGGTGTACGGCAAAGACCATGGGGGAAA
TGGGCAGCGGAGATTCGAGATCCC
Found at i:5470140 original size:3 final size:3
Alignment explanation
Indices: 5470132--5470165 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
5470122 ATAAAGAATG
5470132 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5470166 GGATTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5470210 original size:5 final size:6
Alignment explanation
Indices: 5470191--5470229 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
5470181 TTTGGAATTC
*
5470191 AAATAA AAATAA AAATAA AACATTAC AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA A
5470230 CTAAATTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 23 0.79
7 2 0.07
8 4 0.14
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:5479817 original size:40 final size:40
Alignment explanation
Indices: 5479762--5479896 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 40
5479752 ACCACTTTAG
* *
5479762 CACCCAGTGCCTCATCAAATAATTTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
* ** * * * *
5479802 CACCCAGTGTCTCATCGGTTAAACCG-A--AGTAAGTTGG
1 CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
*
5479839 CACCCAGTGCCTCATCGAATAAATCTGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAAT-AATCTGAAGTAGTAAATTGA
*
5479880 CA-CCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
5479897 CTCGAAGTCG
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
37 25 0.34
38 4 0.05
39 2 0.03
40 33 0.45
41 9 0.12
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
Found at i:5515381 original size:7 final size:7
Alignment explanation
Indices: 5515369--5515394 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5515359 ATTTTAATAA
5515369 TATTTAC
1 TATTTAC
5515376 TATTTAC
1 TATTTAC
5515383 TATTTAC
1 TATTTAC
5515390 TATTT
1 TATTT
5515395 CAATCCTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTTAC
Found at i:5522658 original size:23 final size:23
Alignment explanation
Indices: 5522619--5522662 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
5522609 TTGAGATATG
5522619 GTTAATATTTTGTTTTATTTTGT
1 GTTAATATTTTGTTTTATTTTGT
5522642 GTTAAT-TTTTGTATTTATTTT
1 GTTAATATTTTGT-TTTATTTT
5522663 TGAATGGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.70
Consensus pattern (23 bp):
GTTAATATTTTGTTTTATTTTGT
Found at i:5538590 original size:18 final size:18
Alignment explanation
Indices: 5538567--5538612 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
5538557 GCACCCACAA
5538567 TATTGTTGGCCATATTAC
1 TATTGTTGGCCATATTAC
5538585 TATTGTTGGCCATATTAC
1 TATTGTTGGCCATATTAC
5538603 TATTGTTGGC
1 TATTGTTGGC
5538613 GTTGTTGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (18 bp):
TATTGTTGGCCATATTAC
Found at i:5540988 original size:2 final size:2
Alignment explanation
Indices: 5540981--5541007 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5540971 TGAATGACTC
5540981 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
5541008 ACACACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:5541012 original size:2 final size:2
Alignment explanation
Indices: 5541007--5541046 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
5540997 CTCTCTCTCT
* *
5541007 CA CA CA CA CA CA CA CA CA CA CA CA CA CA AA CA CA AA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
5541047 AACATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5552853 original size:15 final size:17
Alignment explanation
Indices: 5552833--5552872 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
5552823 AATTCTTTAC
5552833 AAATTATAAAAAT-AT-
1 AAATTATAAAAATAATA
*
5552848 AAATTATTAAAATAATA
1 AAATTATAAAAATAATA
5552865 AAATTATA
1 AAATTATA
5552873 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTATAAAAATAATA
Found at i:5552894 original size:22 final size:22
Alignment explanation
Indices: 5552833--5552894 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
5552823 AATTCTTTAC
5552833 AAATTATAAAAATATAAATTATTA
1 AAATTATAAAAATAT--ATTATTA
* * *
5552857 AAATAATAAAATTATATTTTTA
1 AAATTATAAAAATATATTATTA
**
5552879 CTATTATAAAAATATA
1 AAATTATAAAAATATA
5552895 CAACCTAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
22 18 0.58
24 13 0.42
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTATAAAAATATATTATTA
Found at i:5560612 original size:20 final size:20
Alignment explanation
Indices: 5560587--5560636 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
5560577 TGGCTTAAAA
5560587 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
5560607 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
5560624 GTGGTAGTGGATT
1 TTGGTAGTGGATT
5560637 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:5565251 original size:20 final size:20
Alignment explanation
Indices: 5565226--5565275 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
5565216 TGGCTTAAAA
5565226 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
5565246 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
5565263 GTGGTAGTGGATT
1 TTGGTAGTGGATT
5565276 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:5576035 original size:3 final size:3
Alignment explanation
Indices: 5576027--5576065 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
5576017 ATCTGACCCC
5576027 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
5576066 CAAGAGTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:5592411 original size:2 final size:2
Alignment explanation
Indices: 5592404--5592434 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5592394 AAATTAGGGG
5592404 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
5592435 CAGAAAACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5593561 original size:29 final size:30
Alignment explanation
Indices: 5593492--5593585 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
5593482 ATTTTAAAAT
*
5593492 TATACAT-AAATTTTAATTTAATCCGTAATTA
1 TATACATGAAATTTTAATTTAGT--GTAATTA
*
5593523 TATATATG-AATTTTAATTTAGTGTAATTA
1 TATACATGAAATTTTAATTTAGTGTAATTA
* * * *
5593552 TATACGTGAAACTTTAATTGTAGTTTAAATA
1 TATACATGAAATTTTAATT-TAGTGTAATTA
5593583 TAT
1 TAT
5593586 GCTTGAAACT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 13 0.25
30 9 0.17
31 31 0.58
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (30 bp):
TATACATGAAATTTTAATTTAGTGTAATTA
Found at i:5593593 original size:31 final size:30
Alignment explanation
Indices: 5593517--5593615 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 30
5593507 ATTTAATCCG
** * *
5593517 TAATTATATATATG-AATTTTAATTTAGTG
1 TAATTATATACGTGAAACTTTAATTTAGTT
5593546 TAATTATATACGTGAAACTTTAATTGTAGTT
1 TAATTATATACGTGAAACTTTAATT-TAGTT
* * * * *
5593577 TAAATATATGCTTGAAACTTAAATTTTAATT
1 TAATTATATACGTGAAACTTTAA-TTTAGTT
5593608 TAATTATA
1 TAATTATA
5593616 CACAGTTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 12 0.21
30 9 0.16
31 34 0.60
32 2 0.04
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.47
Consensus pattern (30 bp):
TAATTATATACGTGAAACTTTAATTTAGTT
Found at i:5596911 original size:47 final size:47
Alignment explanation
Indices: 5596859--5596951 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
5596849 CTCCCCTAAG
*
5596859 AAAGATAAATTTTTTATTTAATCATTTAAAAATTATAAAAATAGAAA
1 AAAGATAAATTTTTAATTTAATCATTTAAAAATTATAAAAATAGAAA
5596906 AAAGATAAATTTTTAATTTAATCATTTAAAAATTATAAAAATAGAA
1 AAAGATAAATTTTTAATTTAATCATTTAAAAATTATAAAAATAGAA
5596952 TCTATTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (47 bp):
AAAGATAAATTTTTAATTTAATCATTTAAAAATTATAAAAATAGAAA
Found at i:5599532 original size:37 final size:37
Alignment explanation
Indices: 5599490--5599595 Score: 194
Period size: 37 Copynumber: 2.9 Consensus size: 37
5599480 AATAAATATA
*
5599490 TATTTTTTATTTTTTAATTTTAAAATACTTTTAAAAT
1 TATTTTTTATTTTTTATTTTTAAAATACTTTTAAAAT
5599527 TATTTTTTATTTTTTATTTTTAAAATACTTTTAAAAT
1 TATTTTTTATTTTTTATTTTTAAAATACTTTTAAAAT
*
5599564 TATTTTTTATTTTTTATTTTTAAAATATTTTT
1 TATTTTTTATTTTTTATTTTTAAAATACTTTT
5599596 TTAATATTTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (37 bp):
TATTTTTTATTTTTTATTTTTAAAATACTTTTAAAAT
Found at i:5599589 original size:26 final size:27
Alignment explanation
Indices: 5599555--5599615 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
5599545 TTTAAAATAC
* *
5599555 TTTTAAAATTA-TTTTTTATTTTTTAT
1 TTTTAAAATTATTTTTTTAATATTTAT
5599581 TTTTAAAA-TATTTTTTTAATATTTAT
1 TTTTAAAATTATTTTTTTAATATTTAT
5599607 TTTTAAAAT
1 TTTTAAAAT
5599616 GGGCGGGCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTAAAATTATTTTTTTAATATTTAT
Found at i:5599596 original size:13 final size:13
Alignment explanation
Indices: 5599539--5599615 Score: 63
Period size: 13 Copynumber: 6.1 Consensus size: 13
5599529 TTTTTTATTT
5599539 TTTATTTTTAAAA
1 TTTATTTTTAAAA
*
5599552 --TACTTTTAAAA
1 TTTATTTTTAAAA
***
5599563 -TTATTTTTTATTT
1 TTTA-TTTTTAAAA
5599576 TTTATTTTTAAAA
1 TTTATTTTTAAAA
*
5599589 TATT-TTTTTAATA
1 T-TTATTTTTAAAA
5599602 TTTATTTTTAAAA
1 TTTATTTTTAAAA
5599615 T
1 T
5599616 GGGCGGGCCG
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
11 10 0.20
12 4 0.08
13 30 0.61
14 5 0.10
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATTTTTAAAA
Found at i:5599718 original size:15 final size:15
Alignment explanation
Indices: 5599698--5599737 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
5599688 TTTCGGGCCG
5599698 AGCCCGGCCCGACCC
1 AGCCCGGCCCGACCC
5599713 AGCCCGGCCCGACCC
1 AGCCCGGCCCGACCC
*
5599728 AGCCCAGCCC
1 AGCCCGGCCC
5599738 ATGGACAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.60, G:0.25, T:0.00
Consensus pattern (15 bp):
AGCCCGGCCCGACCC
Found at i:5600296 original size:23 final size:23
Alignment explanation
Indices: 5600270--5600315 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
5600260 AAAGTATTTT
5600270 TAAAAT-AGTAAAATAAAAATATA
1 TAAAATGA-TAAAATAAAAATATA
*
5600293 TAAAATGCATAAATTAAAAATAT
1 TAAAATG-ATAAAATAAAAATAT
5600316 CAAAATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 13 0.65
25 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAAATGATAAAATAAAAATATA
Found at i:5603507 original size:89 final size:91
Alignment explanation
Indices: 5603353--5603518 Score: 212
Period size: 89 Copynumber: 1.8 Consensus size: 91
5603343 TCAATAAATG
* * * *
5603353 TATTTTCATAAAATATCTAATATAATATTTATATTTTAAAAATGTTTAAGGTAGTATTTAAACTA
1 TATTTTCATAAAATATCTAATATAATACTTATACTTTAAAAATGTTCAAGGTAGTACTTAAACTA
5603418 TCAATATATATTTTATTTTTAATTTA
66 TCAATATATATTTTATTTTTAATTTA
* * * *
5603444 TATTTTCATAAAATATC-AAT-TAGTACTTGTACTTTGAAAATGTTCAATGT-GATACTTAAACT
1 TATTTTCATAAAATATCTAATATAATACTTATACTTTAAAAATGTTCAAGGTAG-TACTTAAACT
* *
5603506 ATCGATATGTATT
65 ATCAATATATATT
5603519 AGTATTAATA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
88 1 0.02
89 43 0.67
90 3 0.05
91 17 0.27
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (91 bp):
TATTTTCATAAAATATCTAATATAATACTTATACTTTAAAAATGTTCAAGGTAGTACTTAAACTA
TCAATATATATTTTATTTTTAATTTA
Found at i:5606473 original size:16 final size:16
Alignment explanation
Indices: 5606452--5606502 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
5606442 TTCGCTGTAT
5606452 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
5606468 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
5606484 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
5606500 TGG
1 TGG
5606503 CAAATCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:5606816 original size:61 final size:61
Alignment explanation
Indices: 5606749--5606938 Score: 203
Period size: 61 Copynumber: 3.1 Consensus size: 61
5606739 TGTTATAATT
5606749 AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
* * * * * * * * * *
5606810 ACAATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATT
1 AAAATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATC
5606869 AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
*
5606930 ATAATATAT
1 AAAATATAT
5606939 GATACTATAA
Statistics
Matches: 98, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 24 0.24
61 38 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (61 bp):
AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
Found at i:5606866 original size:120 final size:120
Alignment explanation
Indices: 5606719--5606948 Score: 442
Period size: 120 Copynumber: 1.9 Consensus size: 120
5606709 ATCATATTTA
*
5606719 AACATAATTATTATTAAATATGTTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
5606784 TATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAAATATAAATT
5606839 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
5606904 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 TATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAA
5606949 TTTACTCAAA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 108 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAAATATAAATT
Found at i:5606884 original size:14 final size:15
Alignment explanation
Indices: 5606835--5606886 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
5606825 ATAAAATATA
5606835 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
5606850 TATTAAATATATTAT
1 AATTAAATATATTAT
5606865 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
5606878 AATTTAATA
1 AATTAAATA
5606887 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:5606937 original size:59 final size:59
Alignment explanation
Indices: 5606754--5606937 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 59
5606744 TAATTAAAAT
*
5606754 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCACA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
5606813 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
5606872 AT-
57 ATA
5606874 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
5606933 ATATA
1 ATATA
5606938 TGATACTATA
Statistics
Matches: 94, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 6 0.06
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:5645954 original size:37 final size:37
Alignment explanation
Indices: 5645904--5645979 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
5645894 AATAGGACCA
5645904 AAATATTATAAATAGATAATGTTATTAATTATTTTAT
1 AAATATTATAAATAGATAATGTTATTAATTATTTTAT
5645941 AAATATTATAAATAGATAATGTTATTAATTATTTTAT
1 AAATATTATAAATAGATAATGTTATTAATTATTTTAT
5645978 AA
1 AA
5645980 TAAAAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (37 bp):
AAATATTATAAATAGATAATGTTATTAATTATTTTAT
Found at i:5646890 original size:16 final size:16
Alignment explanation
Indices: 5646869--5646902 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
5646859 CCATTTGATA
5646869 ATCATTTTAAATTTTT
1 ATCATTTTAAATTTTT
5646885 ATCATTTTAAATTTTT
1 ATCATTTTAAATTTTT
5646901 AT
1 AT
5646903 TTTCAACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
ATCATTTTAAATTTTT
Found at i:5647213 original size:13 final size:13
Alignment explanation
Indices: 5647195--5647219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5647185 AACAATTTTT
5647195 TAATATAAATTTC
1 TAATATAAATTTC
5647208 TAATATAAATTT
1 TAATATAAATTT
5647220 AGTACTTAAT
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATATAAATTTC
Found at i:5648003 original size:16 final size:17
Alignment explanation
Indices: 5647982--5648016 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5647972 AAGCTTTAAA
*
5647982 ATGTTGGA-ACTTACCT
1 ATGTTGGACACATACCT
5647998 ATGTTGGACACATACCT
1 ATGTTGGACACATACCT
5648015 AT
1 AT
5648017 ATTAGACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (17 bp):
ATGTTGGACACATACCT
Found at i:5685029 original size:30 final size:30
Alignment explanation
Indices: 5684967--5685029 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
5684957 AACTTGTTTA
* *
5684967 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAGAAGCAT
*
5684997 TTGTTAATTTTATTATTATTTTAGAAGTAT
1 TTGTTAATTTTATTATTATTTTAGAAGCAT
5685027 TTG
1 TTG
5685030 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAGAAGCAT
Found at i:5685187 original size:12 final size:11
Alignment explanation
Indices: 5685156--5685183 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5685146 TATATATATT
5685156 TAAAAATTATA
1 TAAAAATTATA
5685167 TAAAAATTATA
1 TAAAAATTATA
5685178 TAAAAA
1 TAAAAA
5685184 ATTAATACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:5696676 original size:14 final size:14
Alignment explanation
Indices: 5696657--5696683 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5696647 TAAAAAAAGG
5696657 TTTTTTTATTTATA
1 TTTTTTTATTTATA
5696671 TTTTTTTATTTAT
1 TTTTTTTATTTAT
5696684 TGTGTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTATTTATA
Found at i:5697087 original size:11 final size:11
Alignment explanation
Indices: 5697065--5697102 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
5697055 CTTAAATAAG
5697065 ATTT-TTTT-A
1 ATTTATTTTCA
5697074 ATTTATTTTCA
1 ATTTATTTTCA
5697085 ATTTATTTTCA
1 ATTTATTTTCA
5697096 ATTTATT
1 ATTTATT
5697103 GGGAAAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 19 0.70
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTATTTTCA
Found at i:5697570 original size:13 final size:13
Alignment explanation
Indices: 5697552--5697576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5697542 TATTTTAATA
5697552 TTATTTTGTGTGT
1 TTATTTTGTGTGT
5697565 TTATTTTGTGTG
1 TTATTTTGTGTG
5697577 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:5697995 original size:12 final size:12
Alignment explanation
Indices: 5697978--5698012 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5697968 TGAAGTTCGA
5697978 ATATATGTATAT
1 ATATATGTATAT
5697990 ATATATGTATAT
1 ATATATGTATAT
*
5698002 CTAT-TGTATAT
1 ATATATGTATAT
5698013 TTGATGAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (12 bp):
ATATATGTATAT
Found at i:5698020 original size:114 final size:114
Alignment explanation
Indices: 5697871--5698228 Score: 648
Period size: 114 Copynumber: 3.1 Consensus size: 114
5697861 AAAAGATGAA
5697871 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATT
5697936 AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATG
66 AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATG
5697985 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATT
5698050 AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATG
66 AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATG
* * * *
5698099 TAAATATATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATT
5698164 AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCG-A-ATATG
66 AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATG
5698211 TATATATGAATATGTATA
1 TATATAT--ATATGTATA
5698229 AGATCTTGAG
Statistics
Matches: 237, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
112 11 0.05
113 1 0.00
114 225 0.95
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (114 bp):
TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATT
AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATG
Found at i:5698745 original size:41 final size:41
Alignment explanation
Indices: 5698696--5698799 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
5698686 GACTTTAAGT
*
5698696 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
5698737 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
5698778 TTAGCAGGTTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
5698800 ATATGTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:5700477 original size:7 final size:7
Alignment explanation
Indices: 5700465--5700494 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
5700455 AGGGGGTTAG
5700465 TACCATA
1 TACCATA
5700472 TACCATA
1 TACCATA
5700479 TACCATA
1 TACCATA
5700486 TACCATA
1 TACCATA
5700493 TA
1 TA
5700495 TCACAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (7 bp):
TACCATA
Found at i:5702921 original size:56 final size:57
Alignment explanation
Indices: 5702858--5702968 Score: 206
Period size: 57 Copynumber: 2.0 Consensus size: 57
5702848 TTTTGGCATA
*
5702858 ATAACCTTTTTAGT-CTCCAACTTTAGAAGAAAATTTATTTGAGTATTTTCATTTTT
1 ATAACCTTTTTAGTCCTCCAACTTTAGAAGAAAATTTATTTGAGTATTTTAATTTTT
5702914 ATAACCTTTTTAGTCCTCCAACTTTAGAAGAAAATTTATTTGAGTATTTTAATTT
1 ATAACCTTTTTAGTCCTCCAACTTTAGAAGAAAATTTATTTGAGTATTTTAATTT
5702969 ATAGTTTTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 14 0.26
57 39 0.74
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.47
Consensus pattern (57 bp):
ATAACCTTTTTAGTCCTCCAACTTTAGAAGAAAATTTATTTGAGTATTTTAATTTTT
Found at i:5706920 original size:21 final size:21
Alignment explanation
Indices: 5706894--5706945 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
5706884 TATTGTTGCT
* *
5706894 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAATAACC
*
5706915 AATCTCACCGCTACAATAACT
1 AATCTCACCGCTACAATAACC
5706936 AATCTCACCG
1 AATCTCACCG
5706946 TCACCGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:5708147 original size:29 final size:28
Alignment explanation
Indices: 5708115--5708183 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
5708105 AACCCAAAAT
5708115 ATAAAAT-TTTAAAAATTATATTTAATACA
1 ATAAAATATTT-AAAATTAT-TTTAATACA
** *
5708144 ATAAAATATTTATTATTATTTTAATATA
1 ATAAAATATTTAAAATTATTTTAATACA
*
5708172 ATAAAACATTTA
1 ATAAAATATTTA
5708184 TTATATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.54
29 13 0.37
30 3 0.09
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATAAAATATTTAAAATTATTTTAATACA
Found at i:5708175 original size:28 final size:28
Alignment explanation
Indices: 5708129--5708191 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
5708119 AATTTTAAAA
*
5708129 ATTATATTTAATACAATAAAATATTTATT
1 ATTAT-TTTAATACAATAAAACATTTATT
*
5708158 ATTATTTTAATATAATAAAACATTTATT
1 ATTATTTTAATACAATAAAACATTTATT
5708186 A-TATTT
1 ATTATTT
5708192 ATGGTGATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 5 0.16
28 22 0.69
29 5 0.16
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTATTTTAATACAATAAAACATTTATT
Found at i:5708323 original size:24 final size:26
Alignment explanation
Indices: 5708280--5708328 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
5708270 ATTATTTTAA
*
5708280 AAAAATTTATAAATAAAAATTAATCT
1 AAAAATTTATAAATAAAAATGAATCT
*
5708306 AAAAA-TT-TAAATATAAATGAATC
1 AAAAATTTATAAATAAAAATGAATC
5708329 AGGTCAGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 2 0.10
26 5 0.24
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
AAAAATTTATAAATAAAAATGAATCT
Found at i:5722006 original size:18 final size:15
Alignment explanation
Indices: 5721974--5722024 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 15
5721964 TTTTCATTTC
5721974 AAAATGTTA-TTAATTT
1 AAAAT-TTATTTAA-TT
5721990 AAAATTTTTATTTAATT
1 AAAA--TTTATTTAATT
5722007 -AAATTTATTTAATT
1 AAAATTTATTTAATT
5722021 AAAA
1 AAAA
5722025 ACCTATTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 11 0.35
15 3 0.10
16 7 0.23
17 5 0.16
18 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AAAATTTATTTAATT
Found at i:5722015 original size:14 final size:14
Alignment explanation
Indices: 5721996--5722023 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5721986 ATTTAAAATT
5721996 TTTATTTAATTAAA
1 TTTATTTAATTAAA
5722010 TTTATTTAATTAAA
1 TTTATTTAATTAAA
5722024 AACCTATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTTAATTAAA
Found at i:5737608 original size:28 final size:28
Alignment explanation
Indices: 5737571--5737683 Score: 201
Period size: 28 Copynumber: 4.0 Consensus size: 28
5737561 ATTAAAATGT
5737571 TATAACTTTTTTTTATTTACCAAAATATA
1 TATAA-TTTTTTTTATTTACCAAAATATA
5737600 TATAATTTTTTTTATTTACCAAAATATA
1 TATAATTTTTTTTATTTACCAAAATATA
5737628 TATAA-TTTTTTTATTTACCAAAATATA
1 TATAATTTTTTTTATTTACCAAAATATA
*
5737655 TATATTTTTTTTTATTTACCAAAATATA
1 TATAATTTTTTTTATTTACCAAAATATA
5737683 T
1 T
5737684 CAAAAAAACT
Statistics
Matches: 82, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
27 26 0.32
28 51 0.62
29 5 0.06
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (28 bp):
TATAATTTTTTTTATTTACCAAAATATA
Found at i:5737649 original size:55 final size:55
Alignment explanation
Indices: 5737578--5737683 Score: 203
Period size: 55 Copynumber: 1.9 Consensus size: 55
5737568 TGTTATAACT
5737578 TTTTTTTATTTACCAAAATATATATAATTTTTTTTATTTACCAAAATATATATAA
1 TTTTTTTATTTACCAAAATATATATAATTTTTTTTATTTACCAAAATATATATAA
*
5737633 TTTTTTTATTTACCAAAATATATATATTTTTTTTTATTTACCAAAATATAT
1 TTTTTTTATTTACCAAAATATATATAATTTTTTTTATTTACCAAAATATAT
5737684 CAAAAAAACT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55
Consensus pattern (55 bp):
TTTTTTTATTTACCAAAATATATATAATTTTTTTTATTTACCAAAATATATATAA
Found at i:5737705 original size:16 final size:17
Alignment explanation
Indices: 5737684--5737720 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
5737674 CAAAATATAT
*
5737684 CAAAAAAACTA-AAAAA
1 CAAAAAAAATAGAAAAA
5737700 CAAAAAAAATAGAAAAA
1 CAAAAAAAATAGAAAAA
5737717 -AAAA
1 CAAAA
5737721 CTTGAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.05
Consensus pattern (17 bp):
CAAAAAAAATAGAAAAA
Found at i:5737894 original size:18 final size:17
Alignment explanation
Indices: 5737871--5737981 Score: 75
Period size: 18 Copynumber: 6.2 Consensus size: 17
5737861 GAAGGAGAGG
5737871 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
5737889 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
5737906 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
5737922 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
5737940 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
5737960 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
5737978 GGAA
1 GGAA
5737982 ATGAGAAGAG
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
15 9 0.12
16 4 0.05
17 6 0.08
18 24 0.32
19 20 0.27
20 12 0.16
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:5737904 original size:10 final size:10
Alignment explanation
Indices: 5737873--5737944 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
5737863 AGGAGAGGGG
*
5737873 AAGAAGAAGA
1 AAGAAAAAGA
5737883 AAGAAAGGAAGA
1 AAGAAA--AAGA
5737895 AAGAAAAAGA
1 AAGAAAAAGA
* *
5737905 AGGAAAAGGA
1 AAGAAAAAGA
5737915 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
5737929 AAGAAAAAGA
1 AAGAAAAAGA
*
5737939 AGGAAA
1 AAGAAA
5737945 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:5737910 original size:14 final size:13
Alignment explanation
Indices: 5737876--5737949 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
5737866 AGAGGGGAAG
5737876 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
5737888 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
5737901 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
5737917 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
5737935 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
5737949 A
1 A
5737950 GGAAAGGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:5737931 original size:28 final size:28
Alignment explanation
Indices: 5737876--5737955 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
5737866 AGAGGGGAAG
5737876 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
5737901 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
5737935 AAGAAGGAAAGAAAAGGAAAG
1 AAGAAGGAAAGAAAAGGAAAG
5737956 GGGAGGAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 3 0.07
28 8 0.17
29 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 6 0.13
34 17 0.37
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:5737949 original size:38 final size:38
Alignment explanation
Indices: 5737891--5737982 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 38
5737881 GAAAGAAAGG
5737891 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
5737925 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
5737963 AAGAAAGAAAAATAAGGAAA
1 AAGAAAGAAAAAGAAGGAAA
5737983 TGAGAAGAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
34 15 0.29
35 1 0.02
38 36 0.69
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:5737951 original size:10 final size:10
Alignment explanation
Indices: 5737893--5737955 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
5737883 AAGAAAGGAA
*
5737893 GAAAGAAAAA
1 GAAAGAAAAG
*
5737903 GAAGGAAAAG
1 GAAAGAAAAG
* *
5737913 GAAAGGAGAG
1 GAAAGAAAAG
5737923 GAAAG-AAA-
1 GAAAGAAAAG
5737931 GAAA-AAGAAG
1 GAAAGAA-AAG
5737941 GAAAGAAAAG
1 GAAAGAAAAG
5737951 GAAAG
1 GAAAG
5737956 GGGAGGAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 5 0.12
9 4 0.09
10 32 0.74
11 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:5738746 original size:19 final size:20
Alignment explanation
Indices: 5738713--5738764 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
5738703 AAAATAGATA
**
5738713 TAATATTTTGGTATTTTT-T
1 TAATATTTTATTATTTTTGT
5738732 TAATATTTTATTATTTTTGT
1 TAATATTTTATTATTTTTGT
*
5738752 T-ATGTTTTATTAT
1 TAATATTTTATTAT
5738765 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 27 0.93
20 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (20 bp):
TAATATTTTATTATTTTTGT
Found at i:5738836 original size:26 final size:26
Alignment explanation
Indices: 5738800--5738865 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
5738790 AAATAAAAAA
5738800 TTACCAAAATAT-TATAATTTTTTTAC
1 TTACCAAAATATATATAA-TTTTTTAC
* *
5738826 TTACGAAAATATATATAATTTTTTAT
1 TTACCAAAATATATATAATTTTTTAC
5738852 TTACCAAAATATAT
1 TTACCAAAATATAT
5738866 CAAAAAAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 31 0.86
27 5 0.14
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (26 bp):
TTACCAAAATATATATAATTTTTTAC
Found at i:5740213 original size:17 final size:17
Alignment explanation
Indices: 5740191--5740226 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5740181 ATGGGGTAAG
5740191 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
5740208 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
5740225 AT
1 AT
5740227 TACATCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:5743627 original size:18 final size:18
Alignment explanation
Indices: 5743601--5743638 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5743591 ATCCCAATGA
* *
5743601 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
5743619 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
5743637 TC
1 TC
5743639 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:5743645 original size:18 final size:18
Alignment explanation
Indices: 5743604--5743645 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5743594 CCAATGATCG
* *
5743604 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
5743622 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
5743640 CCACCA
1 CCACCA
5743646 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:5744809 original size:10 final size:10
Alignment explanation
Indices: 5744793--5744827 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
5744783 TCAGTTCAGG
5744793 TTTTTTTT-T
1 TTTTTTTTAT
*
5744802 TATTTTTTAT
1 TTTTTTTTAT
5744812 TTTTTTTTAT
1 TTTTTTTTAT
5744822 TTTTTT
1 TTTTTT
5744828 GATATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:5744816 original size:17 final size:17
Alignment explanation
Indices: 5744794--5744826 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5744784 CAGTTCAGGT
5744794 TTTTTTTTTATTTTTTA
1 TTTTTTTTTATTTTTTA
5744811 TTTTTTTTTATTTTTT
1 TTTTTTTTTATTTTTT
5744827 TGATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTTTTTATTTTTTA
Found at i:5744861 original size:27 final size:27
Alignment explanation
Indices: 5744829--5744891 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
5744819 TATTTTTTTG
*
5744829 ATATATTTTGATAAATAAAAAAATTAT
1 ATATATTTTAATAAATAAAAAAATTAT
5744856 ATATATTTTAATAAATAAAAAAATTAT
1 ATATATTTTAATAAATAAAAAAATTAT
*
5744883 A-ACATTTTA
1 ATATATTTTA
5744892 GTAATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
ATATATTTTAATAAATAAAAAAATTAT
Found at i:5747537 original size:18 final size:17
Alignment explanation
Indices: 5747514--5747565 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
5747504 ACTAATTTTT
5747514 AAAATTATTATTTACATA
1 AAAATTATTATTTACA-A
*
5747532 AAAATTA-TATTTTCAA
1 AAAATTATTATTTACAA
* *
5747548 AAAGTTATTCTTTA-AA
1 AAAATTATTATTTACAA
5747564 AA
1 AA
5747566 TTATTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 11 0.38
17 11 0.38
18 7 0.24
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAATTATTATTTACAA
Found at i:5753209 original size:19 final size:17
Alignment explanation
Indices: 5753177--5753211 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
5753167 CAATCGTCAT
5753177 TTTAAAATTTTTAAATA
1 TTTAAAATTTTTAAATA
5753194 TTTAATAATATTTTAAAT
1 TTTAA-AAT-TTTTAAAT
5753212 GATGGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAAATTTTTAAATA
Found at i:5755328 original size:31 final size:30
Alignment explanation
Indices: 5755287--5755350 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
5755277 AGTCATAATT
*
5755287 AATAATTAAATCAAAAT-TTTAAAATCTAAAA
1 AATAAATAAATCAAAATCTTTAAAA--TAAAA
* *
5755318 AATAAATAAATTAAATTCTTTAAAATAAAA
1 AATAAATAAATCAAAATCTTTAAAATAAAA
5755348 AAT
1 AAT
5755351 TAAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 14 0.48
32 7 0.24
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (30 bp):
AATAAATAAATCAAAATCTTTAAAATAAAA
Found at i:5755331 original size:23 final size:22
Alignment explanation
Indices: 5755305--5755355 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
5755295 AATCAAAATT
5755305 TTAAAATCTAAAAAATAAATAAA
1 TTAAAATCTAAAAAATAAA-AAA
* **
5755328 TTAAATTCTTTAAAATAAAAAA
1 TTAAAATCTAAAAAATAAAAAA
5755350 TTAAAA
1 TTAAAA
5755356 AAAAACTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
TTAAAATCTAAAAAATAAAAAA
Found at i:5755764 original size:17 final size:17
Alignment explanation
Indices: 5755704--5755767 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
5755694 ATTAAATCAA
5755704 TTTTAATTTTTTGTAAT
1 TTTTAATTTTTTGTAAT
* *
5755721 TTTCAATATTTTTATATAT
1 TTTTAAT-TTTTTGTA-AT
* *
5755740 TCTT-ATTTTTTGGAAT
1 TTTTAATTTTTTGTAAT
5755756 TTTTAATTTTTT
1 TTTTAATTTTTT
5755768 AATTAATTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
16 5 0.14
17 19 0.51
18 9 0.24
19 4 0.11
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTAATTTTTTGTAAT
Found at i:5758627 original size:29 final size:30
Alignment explanation
Indices: 5758593--5758659 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
5758583 TGAATATTTC
5758593 ATGTATAAAATTACACA-AAATTAAAGTTT
1 ATGTATAAAATTACACATAAATTAAAGTTT
* *
5758622 TTGTATAAAATTGCACATTAAATTAAAGTTT
1 ATGTATAAAATTACACA-TAAATTAAAGTTT
5758653 ATGTATA
1 ATGTATA
5758660 GTTTTGAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.45
31 18 0.55
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (30 bp):
ATGTATAAAATTACACATAAATTAAAGTTT
Found at i:5764035 original size:21 final size:21
Alignment explanation
Indices: 5764011--5764052 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5764001 CCATTTCTAT
* *
5764011 AACAATTTCATTTATTTATTA
1 AACAATTCCATTTATCTATTA
*
5764032 AACAATTCCGTTTATCTATTA
1 AACAATTCCATTTATCTATTA
5764053 GATTGGAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (21 bp):
AACAATTCCATTTATCTATTA
Found at i:5782443 original size:3 final size:3
Alignment explanation
Indices: 5782435--5782480 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
5782425 CTTTATACCT
5782435 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5782481 ACAGAAACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5784071 original size:22 final size:24
Alignment explanation
Indices: 5784028--5784071 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
5784018 TTATATAAAT
* *
5784028 TTAAATATATGTTTATAGTAACAA
1 TTAAATATATGATTATACTAACAA
5784052 TTAAATATAT-ATTAT-CTAAC
1 TTAAATATATGATTATACTAAC
5784072 TCAAACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 4 0.22
24 10 0.56
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (24 bp):
TTAAATATATGATTATACTAACAA
Found at i:5786689 original size:17 final size:16
Alignment explanation
Indices: 5786667--5786718 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
5786657 TCTTGTTCAA
*
5786667 TTATTTAAATATTTGAT
1 TTATTTAATTATTT-AT
*
5786684 TTATTTAATTATTTTT
1 TTATTTAATTATTTAT
5786700 TTATCTTAATTATTTAT
1 TTAT-TTAATTATTTAT
5786717 TT
1 TT
5786719 TAATTTTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 5 0.16
17 26 0.84
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TTATTTAATTATTTAT
Found at i:5786956 original size:20 final size:20
Alignment explanation
Indices: 5786931--5786980 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
5786921 TGGCTTAAAA
5786931 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
5786951 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
5786968 GTGGTAGTGGATT
1 TTGGTAGTGGATT
5786981 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:5794304 original size:45 final size:45
Alignment explanation
Indices: 5794251--5794388 Score: 131
Period size: 45 Copynumber: 3.0 Consensus size: 45
5794241 GACACATAGG
*
5794251 AAAATCTCGCAAATGGAATCTGCCTCTGGTTGTGGGTATACAACA
1 AAAATCTCGCAGATGGAATCTGCCTCTGGTTGTGGGTATACAACA
* * *
5794296 AAAATCTCGCAGATGAAATCTGCC-CTTGGCTGTGGAT-TGCACAACA
1 AAAATCTCGCAGATGGAATCTGCCTC-TGGTTGTGGGTAT--ACAACA
* * * *
5794342 ATTAAA--TCACAGATGGAATCTGCTTTTGGTTGTGGGTACACAACA
1 A--AAATCTCGCAGATGGAATCTGCCTCTGGTTGTGGGTATACAACA
5794387 AA
1 AA
5794389 TTTGCAATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 38 0.51
46 31 0.41
48 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (45 bp):
AAAATCTCGCAGATGGAATCTGCCTCTGGTTGTGGGTATACAACA
Found at i:5795883 original size:26 final size:26
Alignment explanation
Indices: 5795847--5795901 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
5795837 TTTTTACCTA
5795847 TTAGAAATGGGAGCTTTATAATGTTT
1 TTAGAAATGGGAGCTTTATAATGTTT
5795873 TTAGAAATGGGAGCTTTATAATGTTT
1 TTAGAAATGGGAGCTTTATAATGTTT
5795899 TTA
1 TTA
5795902 CTTTTTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.44
Consensus pattern (26 bp):
TTAGAAATGGGAGCTTTATAATGTTT
Found at i:5802413 original size:46 final size:46
Alignment explanation
Indices: 5802360--5802545 Score: 248
Period size: 46 Copynumber: 4.0 Consensus size: 46
5802350 CCATGGCAAA
* * * *
5802360 TTGTGAAAAGTAGATATGGTGTTTCAGTGAAGAAAACTATACTAAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
* * *
5802406 TTGTGAAAAGTAGGTATGATGTTTCAGTGAGGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
* *
5802452 TTGTGAAAAGTAGGTATGGTATTTC-GATAAAGAAAACCATACTGCG
1 TTGTGAAAAGTAGGTATGGTATTTCAG-TGAAGAAAACCATACTGAG
* * *
5802498 TTATGAAAAGTAGGTATGGTATTTCAGTGGAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
5802544 TT
1 TT
5802546 ATAGCATTGT
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 121 0.98
47 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAG
Found at i:5805180 original size:46 final size:46
Alignment explanation
Indices: 5805107--5805292 Score: 248
Period size: 46 Copynumber: 4.0 Consensus size: 46
5805097 ACAATGCTAT
* * * * *
5805107 AACTCAGTATAGTTTCCTCCACTGAAATACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
5805153 AACTCAGTATGGTTTTCTTTA-TCGAAATACCATACTTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAACACCATACCTACTTTTCAC
* *
5805199 AACTCAATATGGTTTTCCTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
5805245 AACTTAGTATGGTTTTCTTCACTGAAACACCATATCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
5805291 AA
1 AA
5805293 TTTGCCATGG
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 121 0.98
47 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:5814213 original size:30 final size:31
Alignment explanation
Indices: 5814150--5814215 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
5814140 AAATATATGG
* * *
5814150 ACTAAAATTGACCAATTTAAAAAGTACAGGA
1 ACTAAAATTAACCAAATTAAAAACTACAGGA
* *
5814181 ACTAAAATTAATCAAATT-AAAACTATAGGA
1 ACTAAAATTAACCAAATTAAAAACTACAGGA
5814211 ACTAA
1 ACTAA
5814216 TTCAACAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (31 bp):
ACTAAAATTAACCAAATTAAAAACTACAGGA
Found at i:5818217 original size:29 final size:28
Alignment explanation
Indices: 5818184--5818247 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
5818174 AGTCCCTTTT
* *
5818184 ATTTTATTTTTCTTTCAATTTCGCCCTAC
1 ATTTTATTTTTATTTCAATTTAGCCC-AC
* *
5818213 ATTTTCATTTTTATTTCGATTTAGCCCAT
1 ATTTT-ATTTTTATTTCAATTTAGCCCAC
5818242 ATTTTA
1 ATTTTA
5818248 GCAATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 11 0.37
30 18 0.60
ACGTcount: A:0.20, C:0.19, G:0.05, T:0.56
Consensus pattern (28 bp):
ATTTTATTTTTATTTCAATTTAGCCCAC
Found at i:5819272 original size:11 final size:10
Alignment explanation
Indices: 5819251--5819282 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
5819241 TAGGATCGTA
5819251 TTTTTAATTT
1 TTTTTAATTT
5819261 TTTTTAAGTTT
1 TTTTTAA-TTT
5819272 TTTTTAATTT
1 TTTTTAATTT
5819282 T
1 T
5819283 CGACATCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:5824420 original size:235 final size:235
Alignment explanation
Indices: 5824004--5824459 Score: 849
Period size: 235 Copynumber: 1.9 Consensus size: 235
5823994 GTAGCAGAGA
* *
5824004 TAAGGACCCCCCTTGAATGGGTTTGGAAACAAATGGTGAAAGGAGGACGCATCAAGCAAGATTCA
1 TAAGGACCCCCCTTGAATGGGTTTGGAAACAAATGGTAAAAGGAGGACGCATCAAACAAGATTCA
*
5824069 ATAGAAAGGCCTGAAGGAGCAAGTAAGTTTTGTGAGTTCCACGCAGAAGAAGGCCACGACATCCA
66 ATAGAAAGGCCTGAAGGAGCAAGTAAGTTTGGTGAGTTCCACGCAGAAGAAGGCCACGACATCCA
* *
5824134 AAAATGTACCGAATTCAGAACCATGGTGCAAAACTTAATGGATAACAAAGAGTTGGAGTTTTACG
131 AAAATGTACCGAATTCAGAACCATGGTGCAAAACTTAATGGATAACAAAGAGTTGAAATTTTACG
5824199 AAGAGATTAATGGACTAGAAGAAGGATCCACGGGGAAAGT
196 AAGAGATTAATGGACTAGAAGAAGGATCCACGGGGAAAGT
5824239 TAAGGACCCCCCTTGAATGGGTTTGGAAACAAATGGTAAAAGGAGGACGCATCAAACAAGATTCA
1 TAAGGACCCCCCTTGAATGGGTTTGGAAACAAATGGTAAAAGGAGGACGCATCAAACAAGATTCA
5824304 ATAGAAAGGCCTGAAGGAGCAAGTAAGTTTGGTGAGTTCCACGCAGAAGAAGGCCACGACATCCA
66 ATAGAAAGGCCTGAAGGAGCAAGTAAGTTTGGTGAGTTCCACGCAGAAGAAGGCCACGACATCCA
* *
5824369 AAAATGTACCGAATTCAGAACCATGGTGCAAAACTTAATGGATAGCAAAGAGTTGAAATTTTATG
131 AAAATGTACCGAATTCAGAACCATGGTGCAAAACTTAATGGATAACAAAGAGTTGAAATTTTACG
5824434 AAGAGATTAATGGACTAGAAGAAGGA
196 AAGAGATTAATGGACTAGAAGAAGGA
5824460 GAAGTTTATG
Statistics
Matches: 214, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
235 214 1.00
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (235 bp):
TAAGGACCCCCCTTGAATGGGTTTGGAAACAAATGGTAAAAGGAGGACGCATCAAACAAGATTCA
ATAGAAAGGCCTGAAGGAGCAAGTAAGTTTGGTGAGTTCCACGCAGAAGAAGGCCACGACATCCA
AAAATGTACCGAATTCAGAACCATGGTGCAAAACTTAATGGATAACAAAGAGTTGAAATTTTACG
AAGAGATTAATGGACTAGAAGAAGGATCCACGGGGAAAGT
Found at i:5831202 original size:85 final size:85
Alignment explanation
Indices: 5831069--5831226 Score: 194
Period size: 85 Copynumber: 1.9 Consensus size: 85
5831059 ATAGTAATCC
** * *
5831069 TATCTCCCTGAGATTACAGCGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGA-AGTTACAGT
1 TATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAAGATCCTATCTCCCTGAGA-TTACAGT
*
5831133 AGAGTAGATCGTGTCCGATCT
65 AGAGCAGATCGTGTCCGATCT
** **
5831154 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA-ATCCTATCTCCCTGAGATTACAGT
1 TATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAAAGATCCTATCTCCCTGAGATTACAGT
*
5831218 GGAGCAGAT
65 AGAGCAGAT
5831227 TAAAATGAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
85 55 0.90
86 6 0.10
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAAGATCCTATCTCCCTGAGATTACAGTA
GAGCAGATCGTGTCCGATCT
Found at i:5831250 original size:129 final size:129
Alignment explanation
Indices: 5831017--5831301 Score: 444
Period size: 129 Copynumber: 2.2 Consensus size: 129
5831007 CCGAAGAATT
*
5831017 TCAGATCTTATCTCCCTGAGATTACTGCGGAGCAGATGGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGATAGTAATCCTATCTCCCTGAGA
** * *
5831082 TTACAGCGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGCGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGTG
* * *
5831146 TCCGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGATAGTAATCCTATCTCCCTGAGA
* * *
5831211 TTACAGTGGAGCAGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGTG
66 TTACAGCGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGTG
* * *
5831275 TCAGGTATTATTTCCCTGAGATTACAG
1 TCAGATCTTATCTCCCTGAGATTACAG
5831302 TGGAATAGAC
Statistics
Matches: 141, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 141 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGCGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGTG
Found at i:5831297 original size:85 final size:85
Alignment explanation
Indices: 5831198--5831485 Score: 257
Period size: 85 Copynumber: 3.3 Consensus size: 85
5831188 CTAGTAATCC
5831198 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-TGAAGGATCTTATCTCTCTGAAGTTACAGC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACT-AAGGATCTTATCTCTCTGAAGTTACAGC
* *
5831262 AGAGTAAATCGTGTCAGGTAT
65 AGAGTAGATCGAGTCAGGTAT
* ** ** * *
5831283 TATTTCCCTGAGATTACAGTGGAATAGACCGAATAATTTCA-GATCTTATCT-TCCTG-AGATTA
1 TATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-CTAAGGATCTTATCTCT-CTGAAG-TTA
* * *
5831345 CAGCGGAGCAGATTGAAGAT-A-GTAAT
61 CAGCAGAGTAGATCG-AG-TCAGGT-AT
* *
5831371 CCTATCTCCCTGATATTACAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAG
1 --TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAG
* * *
5831436 TAGAGTAGATCGCA-CCAGGTCT
64 CAGAGTAGATCG-AGTCAGGTAT
*
5831458 TATCTCCTTGAGATTACAGTGGAGCAGA
1 TATCTCCCTGAGATTACAGTGGAGCAGA
5831486 CCGAATAATT
Statistics
Matches: 157, Mismatches: 30, Indels: 32
0.72 0.14 0.15
Matches are distributed among these distances:
85 50 0.32
86 5 0.03
87 35 0.22
88 37 0.24
89 7 0.04
90 23 0.15
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (85 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGCA
GAGTAGATCGAGTCAGGTAT
Found at i:5831357 original size:175 final size:175
Alignment explanation
Indices: 5831149--5831580 Score: 697
Period size: 175 Copynumber: 2.5 Consensus size: 175
5831139 GATCGTGTCC
5831149 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* ***
5831214 CAGTGGAGCAGATTAAAA-TGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGTGTCA
66 CAGTGGAGCGGATTAAAACT-AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGCACCA
* *
5831278 GGTATTATTTCCCTGAGATTACAGTGGAATAGACCGAATAATTTCA
130 GGTATTATCTCCCTGAGATTACAGTGGAACAGACCGAATAATTTCA
* * *
5831324 GATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* *
5831389 CAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAG
66 CAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGCACCAG
* * *
5831454 GTCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAATAATTTCA
131 GTATTATCTCCCTGAGATTACAGTGGAACAGACCGAATAATTTCA
5831499 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG-TTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* *
5831563 CAATGGAGTGGATTAAAA
66 CAGTGGAGCGGATTAAAA
5831581 AAAAAGATCT
Statistics
Matches: 237, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
174 19 0.08
175 217 0.92
176 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (175 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAACTAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAAATCGCACCAG
GTATTATCTCCCTGAGATTACAGTGGAACAGACCGAATAATTTCA
Found at i:5831522 original size:46 final size:45
Alignment explanation
Indices: 5830976--5831531 Score: 201
Period size: 44 Copynumber: 12.7 Consensus size: 45
5830966 ATTATACAGG
* * * *
5830976 TCTTATTTCCTTGAGACTACAGTGGAACAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA-AATTTCAGA
* * ** * *
5831022 TCTTATCTCCCTGAGATTACTGCGGAGCAGATGGAAGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAAT-TTCAGA
* * ** ** ***
5831066 TCCTATCTCCCTGAGATTACAGCGGAGTGGA-TTAAAATAAAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAATTTCAGA
* * * * * *
5831110 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG----TGTCCGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAAATTTCAGA
* ** ** *
5831151 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAAT-TTCAGA
* ** **
5831195 TCCTATCTCCCTGAGATTACAGTGGAGCAGA-TTAAAA-TGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAATTTCA-GA
* ** * * * * *
5831239 TCTTATCTCTCTGA-AGTTACAGCAGAGTAAATCG----TGTCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAAATTTCAGA
* * **
5831280 TATTATTTCCCTGAGATTACAGTGGAATAGACCGAATAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA-AATTTCAGA
* * ** * *
5831326 TCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAAT-TTCAGA
* * * ** * *
5831370 TCCTATCTCCCTGATATTACAGTGGAGCGGA-TTAAAA-CTAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAATTTCA-GA
* * * * * * *
5831414 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG--CA--CCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCGAAAATTTCAGA
*
5831455 TCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAATAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAA-AATTTCAGA
*
5831501 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA
5831532 TTGAAGCTAG
Statistics
Matches: 371, Mismatches: 104, Indels: 70
0.68 0.19 0.13
Matches are distributed among these distances:
41 84 0.23
42 7 0.02
43 16 0.04
44 160 0.43
45 7 0.02
46 97 0.26
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAATTTCAGA
Found at i:5833083 original size:29 final size:28
Alignment explanation
Indices: 5833050--5833113 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
5833040 AGTCCCTTTT
* *
5833050 ATTTTATTTTTCTTTCAATTTCGCCCTAC
1 ATTTTATTTTTATTTCAATTTAGCCC-AC
* *
5833079 ATTTTCATTTTTATTTCGATTTAGCCCAT
1 ATTTT-ATTTTTATTTCAATTTAGCCCAC
5833108 ATTTTA
1 ATTTTA
5833114 GCAATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 11 0.37
30 18 0.60
ACGTcount: A:0.20, C:0.19, G:0.05, T:0.56
Consensus pattern (28 bp):
ATTTTATTTTTATTTCAATTTAGCCCAC
Found at i:5834136 original size:11 final size:11
Alignment explanation
Indices: 5834120--5834154 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
5834110 AAGGATCGTA
5834120 TTTTAAAATTT
1 TTTTAAAATTT
**
5834131 TTTTAAGTTTT
1 TTTTAAAATTT
5834142 TTTTAAAATTT
1 TTTTAAAATTT
5834153 TT
1 TT
5834155 GACATCAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:5836990 original size:22 final size:22
Alignment explanation
Indices: 5836965--5837008 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5836955 AGAAATAAGT
5836965 TGTTTGACATACTAAAAATTAA
1 TGTTTGACATACTAAAAATTAA
5836987 TGTTTGACATACTAAAAATTAA
1 TGTTTGACATACTAAAAATTAA
5837009 AGTGGACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
TGTTTGACATACTAAAAATTAA
Found at i:5837016 original size:21 final size:22
Alignment explanation
Indices: 5836970--5837016 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
5836960 TAAGTTGTTT
* *
5836970 GACATACTAAAAATTAATGTTT
1 GACATACTAAAAATTAAAGTTG
5836992 GACATACTAAAAATTAAAG-TG
1 GACATACTAAAAATTAAAGTTG
5837013 GACA
1 GACA
5837017 CTTCGATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.28
Consensus pattern (22 bp):
GACATACTAAAAATTAAAGTTG
Found at i:5843938 original size:30 final size:30
Alignment explanation
Indices: 5843871--5843943 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
5843861 GAGAGGGATA
* **
5843871 TTTTATTTAATATTAATATAATTATTTTTAT
1 TTTTA-TTAATATTAATATAATAATTTAAAT
5843902 TTTTATTAATATTAATATAA-AATTTAAAT
1 TTTTATTAATATTAATATAATAATTTAAAT
5843931 TTATTATT-ATATT
1 TT-TTATTAATATT
5843944 TTTTGAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.34
30 20 0.53
31 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTATTAATATTAATATAATAATTTAAAT
Found at i:5844832 original size:21 final size:21
Alignment explanation
Indices: 5844806--5844845 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5844796 CATTATTTTT
5844806 ATTT-AATATTATTAATATAAA
1 ATTTAAAT-TTATTAATATAAA
*
5844827 ATTTAAATTTATTATTATA
1 ATTTAAATTTATTAATATA
5844846 TCTTTCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAAATTTATTAATATAAA
Found at i:5845184 original size:19 final size:21
Alignment explanation
Indices: 5845150--5845192 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
5845140 AACTATTTTA
5845150 ATTTCATAATGCTTTATT-TG
1 ATTTCATAATGCTTTATTCTG
*
5845170 ATTTC-TAATGTTTTATTCTG
1 ATTTCATAATGCTTTATTCTG
5845190 ATT
1 ATT
5845193 CCGTGGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (21 bp):
ATTTCATAATGCTTTATTCTG
Found at i:5867468 original size:21 final size:21
Alignment explanation
Indices: 5867442--5867482 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5867432 AGACGAGCAA
* *
5867442 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5867463 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5867483 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5869215 original size:159 final size:160
Alignment explanation
Indices: 5868954--5869271 Score: 595
Period size: 159 Copynumber: 2.0 Consensus size: 160
5868944 TAGAAAAAGG
5868954 ATGTAAAATGGGTTATAAAACCCGAAATGAAAAACGGAAATAGGGGGTTTTTTTTTCTTTGGGTT
1 ATGTAAAATGGGTTATAAAACCCGAAATGAAAAACGGAAATAGGGGGTTTTTTTTTCTTTGGGTT
*
5869019 CTTCTTCTTTTTTTTTTGTTTGTTTTTTTTGGCATTTGAATAC-AAAAAAAATAGAAGTTAGAGT
66 CTTCTTCTTTTTTTTTTGTTTGTTTTTTTTGGCATTTGAATACAAAAAAAAACAGAAGTTAGAGT
5869083 TTAAAAAAAATACATAGATCTCAGTACTTA
131 TTAAAAAAAATACATAGATCTCAGTACTTA
5869113 ATGTAAAATGGGTTATAAAACCCGAAATGAAAAACGGAAATAGGGGG-TTTTTTTTCTTTGGGTT
1 ATGTAAAATGGGTTATAAAACCCGAAATGAAAAACGGAAATAGGGGGTTTTTTTTTCTTTGGGTT
5869177 CTTCTTCTTTTTTTTTTGTTTGTTTTTTTTTGGCATTTGAATACAAAAAAAAAACAGAAGTTAGA
66 CTTCTTCTTTTTTTTTTGTTTG-TTTTTTTTGGCATTTGAATAC-AAAAAAAAACAGAAGTTAGA
5869242 GTTTAAAAAAAATACATAGATCTCAGTACT
129 GTTTAAAAAAAATACATAGATCTCAGTACT
5869272 GAGATAGCAA
Statistics
Matches: 155, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
158 39 0.25
159 68 0.44
161 48 0.31
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (160 bp):
ATGTAAAATGGGTTATAAAACCCGAAATGAAAAACGGAAATAGGGGGTTTTTTTTTCTTTGGGTT
CTTCTTCTTTTTTTTTTGTTTGTTTTTTTTGGCATTTGAATACAAAAAAAAACAGAAGTTAGAGT
TTAAAAAAAATACATAGATCTCAGTACTTA
Found at i:5870045 original size:23 final size:23
Alignment explanation
Indices: 5870001--5870046 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5869991 TATATACCAT
*
5870001 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
5870024 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
5870047 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:5883773 original size:34 final size:33
Alignment explanation
Indices: 5883677--5883783 Score: 117
Period size: 34 Copynumber: 3.2 Consensus size: 33
5883667 GTTTAGGATT
* *
5883677 TTTTTAAAAAA-TAATTAAATTAAGTTTTTAGGG
1 TTTTAAAAAAATTAATTAAATTAAG-GTTTAGGG
* * *
5883710 TTTTAAATAAATTAATTAAATTAAAGTTTATGG
1 TTTTAAAAAAATTAATTAAATTAAGGTTTAGGG
* **
5883743 TTTTAAAGAAAATTAATTAAATTATGGTTTAGTT
1 TTTTAAA-AAAATTAATTAAATTAAGGTTTAGGG
5883777 TTTTAAA
1 TTTTAAA
5883784 TAATTTTGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
33 22 0.36
34 39 0.64
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (33 bp):
TTTTAAAAAAATTAATTAAATTAAGGTTTAGGG
Found at i:5884119 original size:125 final size:126
Alignment explanation
Indices: 5883839--5884226 Score: 409
Period size: 125 Copynumber: 3.1 Consensus size: 126
5883829 TTTTGTTTTT
* * *
5883839 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCA-AAA-AAGATAATGTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTT-ATAAACAA-ATAGTGTAAA
* * * * * * * * * * *
5883902 AGACACTTTAAGGAGGATGCACTGTCAGAAAAATTATTGAAAAAAGCTCCCACGT-GAACG--C
64 AAACGCTTCAAGCAAGATACACCGTAAGCAAAATTACTGAAAAAAGCTCCCACATAG-ACGCTC
* *
5883963 ----TCTACAGTAGGTCCTGAAAAAATAATTTTGAGAAGACAGTTATGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTATAAACAAATAGTGTAAAAA
* * *
5884024 ACGCTTCAAGCAAGATACACCGTGAGCAAAATTACTG-AAAAAGCTCCTATATAGACGCTC
66 ACGCTTCAAGCAAGATACACCGTAAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
* * * *
5884084 TTTTTCTACAGTAGTTCCTTAAAAAATAATTTTGAGAAGACGGTTCTAAACATATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTATAAACAAATAGTGTAAAAA
* * * * * *
5884149 ACGCTTCAAGTAGGATGCACTGTAAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAAGATACACCGTAAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
*
5884210 TTTTTCTACAATAGTTC
1 TTTTTCTACAGTAGTTC
5884227 ATGTTTGGCC
Statistics
Matches: 220, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
119 16 0.07
120 79 0.36
121 3 0.01
125 87 0.40
126 35 0.16
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.27
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTATAAACAAATAGTGTAAAAA
ACGCTTCAAGCAAGATACACCGTAAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTC
Found at i:5888197 original size:314 final size:314
Alignment explanation
Indices: 5887623--5888253 Score: 1109
Period size: 314 Copynumber: 2.0 Consensus size: 314
5887613 TGCCTGAGCA
* *
5887623 TATCGTATTCTTTTTACTTTAGTCGAATCATTCCCCAGCTCTAAGAATGTGTTTCGTAACCAACC
1 TATCGTATTCTTTCTACTTTAGTCGAATCATTCCCCAACTCTAAGAATGTGTTTCGTAACCAACC
* *
5887688 TATCTCAATTCGACCACTGTAATTATTATCTAGAATCGCATCCAAAGGATCGTAACATATGGCTC
66 TATCTCAATTCGACCACTATAATTATTATCTAGAATCGCATCCAAAAGATCGTAACATATGGCTC
5887753 CCCAATCAGCAAATTGAATGAACGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
131 CCCAATCAGCAAATTGAATGAACGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
*
5887818 TGCACGTCCTCCAAAGTGATGGTACACTCACCGCATAGAAGATGAAGTGTGTGCATCTTGGGTCT
196 TGCACGTCCTCCAAAGTGATGGTACACTCACCGCATAGAAGATGAAGTGTGTGCATCTCGGGTCT
*
5887883 CCACCTTTCTATCAACGTGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
261 CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
*
5887937 TATCGTATTCTTTCTACTTTAGTCGAATCATTCCCCAACTCTAAGAATGTGTTTCGTAACCAGCC
1 TATCGTATTCTTTCTACTTTAGTCGAATCATTCCCCAACTCTAAGAATGTGTTTCGTAACCAACC
* *
5888002 TATCTCGATTCGACCTCTATAATTATTATCTAGAATCGCATCCAAAAGATCGTAACATATGGCTC
66 TATCTCAATTCGACCACTATAATTATTATCTAGAATCGCATCCAAAAGATCGTAACATATGGCTC
* * * * *
5888067 CCCAATCAGCAGATTGAATGGATGCGGTGTGTGCGAACTCATCCACCGGTAGTCTCAATTGTAAC
131 CCCAATCAGCAAATTGAATGAACGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
* * *
5888132 TGCATGTCTTCCAAAGTGATGGTACACTCTCCGCATAGAAGATGAAGTGTGTGCATCTCGGGTCT
196 TGCACGTCCTCCAAAGTGATGGTACACTCACCGCATAGAAGATGAAGTGTGTGCATCTCGGGTCT
5888197 CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
261 CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
5888251 TAT
1 TAT
5888254 AGTTGCCACG
Statistics
Matches: 300, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
314 300 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (314 bp):
TATCGTATTCTTTCTACTTTAGTCGAATCATTCCCCAACTCTAAGAATGTGTTTCGTAACCAACC
TATCTCAATTCGACCACTATAATTATTATCTAGAATCGCATCCAAAAGATCGTAACATATGGCTC
CCCAATCAGCAAATTGAATGAACGCGGTGAGTGCGAACTCATCCACCGGTAGTCCCAATTGTAAC
TGCACGTCCTCCAAAGTGATGGTACACTCACCGCATAGAAGATGAAGTGTGTGCATCTCGGGTCT
CCACCTTTCTATCAACGCGCTAATGAGTTTCGGGTCCAACTTGCACCCTCGGCC
Found at i:5888631 original size:11 final size:11
Alignment explanation
Indices: 5888605--5888644 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
5888595 ATAGAGCTTT
5888605 GAGAAATTTAGA
1 GAGAAATTT-GA
5888617 GAGAAATTTGA
1 GAGAAATTTGA
*
5888628 GAGAAAATTGA
1 GAGAAATTTGA
5888639 -AGAAAT
1 GAGAAAT
5888645 AATGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.23
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:5891459 original size:17 final size:17
Alignment explanation
Indices: 5891437--5891470 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5891427 ATCCACTAAT
*
5891437 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
5891454 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
5891471 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:5894409 original size:49 final size:49
Alignment explanation
Indices: 5894312--5894467 Score: 278
Period size: 49 Copynumber: 3.2 Consensus size: 49
5894302 GTTTATATTA
5894312 ATGTAATAAAATACAAAATAGTTTA-TTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
5894360 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGAGATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
5894409 ATGTAATAAAATACTAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
5894458 ATGTAATAAA
1 ATGTAATAAA
5894468 GTATCTTGCT
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
48 25 0.24
49 78 0.76
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:5897673 original size:22 final size:24
Alignment explanation
Indices: 5897639--5897682 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
5897629 TTTTCTTTTT
5897639 AATTATACATTAA-TA-AAAATAA
1 AATTATACATTAACTACAAAATAA
**
5897661 AATTATATTTTAACTACAAAAT
1 AATTATACATTAACTACAAAAT
5897683 TATAAACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 2 0.11
24 5 0.28
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTATACATTAACTACAAAATAA
Found at i:5897734 original size:29 final size:28
Alignment explanation
Indices: 5897701--5897755 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
5897691 TAGAGATTAT
5897701 TAAAA-TGATGAATTACAATTTTATTATCA
1 TAAAAGTGAT-AATT-CAATTTTATTATCA
* *
5897730 TAAAAGTTATAATTTAATTTTATTAT
1 TAAAAGTGATAATTCAATTTTATTAT
5897756 ACCTCTATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 9 0.39
30 3 0.13
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (28 bp):
TAAAAGTGATAATTCAATTTTATTATCA
Found at i:5898981 original size:28 final size:30
Alignment explanation
Indices: 5898950--5899013 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 30
5898940 AAATGATAAG
* *
5898950 AAATTATAAATATT-TTAAAATTA-ATTAA
1 AAATTATAAAAATTATAAAAATTATATTAA
5898978 AAATTATAAAAATTATAAAAATTATATTAA
1 AAATTATAAAAATTATAAAAATTATATTAA
5899008 AGAATT
1 A-AATT
5899014 CAAATATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 13 0.42
29 8 0.26
30 6 0.19
31 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
AAATTATAAAAATTATAAAAATTATATTAA
Found at i:5898987 original size:9 final size:9
Alignment explanation
Indices: 5898930--5899003 Score: 78
Period size: 9 Copynumber: 7.9 Consensus size: 9
5898920 AGTTACTTAT
5898930 AAATTACTAA
1 AAATTA-TAA
*
5898940 AAATGATAA
1 AAATTATAA
5898949 GAAATTATAA
1 -AAATTATAA
* *
5898959 ATATT-TTA
1 AAATTATAA
5898967 AAATTAATTAA
1 AAATT-A-TAA
5898978 AAATTATAA
1 AAATTATAA
5898987 AAATTATAA
1 AAATTATAA
5898996 AAATTATA
1 AAATTATA
5899004 TTAAAGAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
8 6 0.11
9 27 0.50
10 14 0.26
11 7 0.13
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:5900276 original size:38 final size:38
Alignment explanation
Indices: 5900156--5900277 Score: 145
Period size: 38 Copynumber: 3.2 Consensus size: 38
5900146 TATCATGTAA
* **
5900156 AATAGTAGACATGTTTAACATGTATTCAGTTCAACAGT
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGT
** * **
5900194 AGCATTAGACATGCTTAACATGTATTTGGTTCAACAAC
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGT
* *
5900232 AATAGTAAACATGCTTAACATGTATTTGGTTTAACAGT
1 AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGT
*
5900270 ATTAGTAG
1 AATAGTAG
5900278 GCAAGTTGAA
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (38 bp):
AATAGTAGACATGCTTAACATGTATTTGGTTCAACAGT
Done.