Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 72 of 127
Found at i:13979371 original size:13 final size:13
Alignment explanation
Indices: 13979353--13979377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13979343 TTACCCAAAG
13979353 CCATTATTTTTTT
1 CCATTATTTTTTT
13979366 CCATTATTTTTT
1 CCATTATTTTTT
13979378 ATCTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
CCATTATTTTTTT
Found at i:13980069 original size:21 final size:23
Alignment explanation
Indices: 13980045--13980090 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
13980035 GCAGAACTTC
13980045 ATTTA-TCGG-TTTAGAGAGAGA
1 ATTTATTCGGTTTTAGAGAGAGA
*
13980066 ATTTATTTGGTTTTAGAGAGAGA
1 ATTTATTCGGTTTTAGAGAGAGA
13980089 AT
1 AT
13980091 GATGAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 3 0.14
23 14 0.64
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (23 bp):
ATTTATTCGGTTTTAGAGAGAGA
Found at i:13980412 original size:19 final size:19
Alignment explanation
Indices: 13980384--13980424 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
13980374 TACAATGTAA
* * *
13980384 ATATATATATGTTATATAT
1 ATATAAATATATTAAATAT
13980403 ATATAAATATATTAAATAT
1 ATATAAATATATTAAATAT
13980422 ATA
1 ATA
13980425 ATAATTAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATAAATATATTAAATAT
Found at i:13980741 original size:20 final size:19
Alignment explanation
Indices: 13980682--13980743 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
13980672 AATAATTATT
13980682 TAATAAATAT-ATAATAAAA
1 TAATAAATATAATAAT-AAA
13980701 TAATAAA-ATACATAAATAAA
1 TAATAAATATA-AT-AATAAA
*
13980721 TAATAAATTTAATAATCAAA
1 TAATAAATATAATAAT-AAA
13980741 TAA
1 TAA
13980744 ATTATTAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
18 2 0.05
19 10 0.27
20 20 0.54
21 5 0.14
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
TAATAAATATAATAATAAA
Found at i:13981570 original size:28 final size:28
Alignment explanation
Indices: 13981519--13981572 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
13981509 ATTAAATTAA
** *
13981519 AAAAAAAGAAAAAAAGTATAAGAAGGGT
1 AAAAAAAGAAAAAAAAAAGAAGAAGGGT
*
13981547 AAAAAAAGAAAAAAAAAAGGAGAAGG
1 AAAAAAAGAAAAAAAAAAGAAGAAGG
13981573 TTTGGTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (28 bp):
AAAAAAAGAAAAAAAAAAGAAGAAGGGT
Found at i:13983807 original size:19 final size:21
Alignment explanation
Indices: 13983769--13983820 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
13983759 AAGTTAACAT
13983769 TTAGGGTTTAAGATTTTAGGG
1 TTAGGGTTTAAGATTTTAGGG
*
13983790 TTAGGGTTT-AGA-TTTAGGT
1 TTAGGGTTTAAGATTTTAGGG
*
13983809 TTAGGGTCTAAG
1 TTAGGGTTTAAG
13983821 TTAAGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.50
20 5 0.18
21 9 0.32
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.42
Consensus pattern (21 bp):
TTAGGGTTTAAGATTTTAGGG
Found at i:13983841 original size:21 final size:20
Alignment explanation
Indices: 13983806--13983858 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
13983796 TTTAGATTTA
* *
13983806 GGTTTAGGGTCTAA-GTTAAG
1 GGTTTAAGGTTTAAGGTT-AG
13983826 GGTTTTAAGGTTTAAGGTTAG
1 GG-TTTAAGGTTTAAGGTTAG
13983847 GGTTT-AGGTTTA
1 GGTTTAAGGTTTA
13983859 GGGTAGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 7 0.24
20 5 0.17
21 14 0.48
22 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.42
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTAG
Found at i:13983852 original size:13 final size:13
Alignment explanation
Indices: 13983768--13983936 Score: 59
Period size: 13 Copynumber: 12.8 Consensus size: 13
13983758 TAAGTTAACA
*
13983768 TTTAGGGTTTAAGAT
1 TTTAGGGTTT-AG-G
13983783 TTTAGGG-TTAGGG
1 TTTAGGGTTTA-GG
*
13983796 TTTA-GATTTAGG
1 TTTAGGGTTTAGG
* *
13983808 TTTAGGGTCTAAG
1 TTTAGGGTTTAGG
*
13983821 TTAAGGGTTTTAAGG
1 TTTAGGG-TTT-AGG
*
13983836 TTTAAGG-TTAGGG
1 TTTAGGGTTTA-GG
13983849 TTTA-GGTTTAGG
1 TTTAGGGTTTAGG
* * *
13983861 -GTA-GGATTAGCTT
1 TTTAGGGTTTAG--G
* *
13983874 TTTAGGATTTTA-T
1 TTTAGG-GTTTAGG
*
13983887 TTTA-GGTTTATGA
1 TTTAGGGTTTA-GG
13983900 TTTAGGGTTTGAGG
1 TTTAGGGTTT-AGG
13983914 TTTAGGG-TTAGG
1 TTTAGGGTTTAGG
13983926 TTTTAGGGTTT
1 -TTTAGGGTTT
13983937 GGGAATTAAG
Statistics
Matches: 117, Mismatches: 19, Indels: 37
0.68 0.11 0.21
Matches are distributed among these distances:
11 12 0.10
12 16 0.14
13 48 0.41
14 22 0.19
15 16 0.14
16 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (13 bp):
TTTAGGGTTTAGG
Found at i:13984359 original size:141 final size:141
Alignment explanation
Indices: 13984099--13984362 Score: 438
Period size: 141 Copynumber: 1.9 Consensus size: 141
13984089 AACATGACCT
*
13984099 TGAAAAATAATCACAAACCAAGATATTATCAAACTTAATATCATAAACATGTAATGCGTGAAAAT
1 TGAAAAATAATCACAAACCAAGATATTATCAAACTTAATATCATAAACATGTAATGCATGAAAAT
* * **
13984164 TGGAGACCAAAATGGATTAAACATGAAAAAGCTTTGAATTTGGTTTGAAAGTTCCACTTAAAATC
66 TGAAGACCAAAATGGATTAAACATGAAAAAACTTTGAATTTGGCCTGAAAGTTCCACTTAAAATC
13984229 ATGAAAAAACA
131 ATGAAAAAACA
* * *
13984240 TGAAAAATAATCATAAACCAAGGTATTTTCAAACTTAATATCATAAACATGTAATGCATGAAAAT
1 TGAAAAATAATCACAAACCAAGATATTATCAAACTTAATATCATAAACATGTAATGCATGAAAAT
* *
13984305 TGAAGACCAAAATGGATTAAACATGAAAAAATTTTGAATTTGGCCTGAATGTTCCACT
66 TGAAGACCAAAATGGATTAAACATGAAAAAACTTTGAATTTGGCCTGAAAGTTCCACT
13984363 ATCTGTTCAT
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 113 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (141 bp):
TGAAAAATAATCACAAACCAAGATATTATCAAACTTAATATCATAAACATGTAATGCATGAAAAT
TGAAGACCAAAATGGATTAAACATGAAAAAACTTTGAATTTGGCCTGAAAGTTCCACTTAAAATC
ATGAAAAAACA
Found at i:13995657 original size:17 final size:17
Alignment explanation
Indices: 13995635--13995670 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
13995625 TTAATTAAAG
13995635 AATATAAAA-TAATATAA
1 AATATAAAATTAA-ATAA
13995652 AATATAAAATTAAATAA
1 AATATAAAATTAAATAA
13995669 AA
1 AA
13995671 CCTATGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATATAAAATTAAATAA
Found at i:13997217 original size:20 final size:19
Alignment explanation
Indices: 13997192--13997237 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
13997182 CATATTTTTA
13997192 TTTATTTAATAA-ATTAAAAT
1 TTTATTTAATAATA-T-AAAT
13997212 TTTATTTAATAATATAAAT
1 TTTATTTAATAATATAAAT
13997231 TTTATTT
1 TTTATTT
13997238 TATATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.44
20 13 0.52
21 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTTAATAATATAAAT
Found at i:13997230 original size:19 final size:20
Alignment explanation
Indices: 13997192--13997237 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
13997182 CATATTTTTA
13997192 TTTATTTAATAAATTAAAAT
1 TTTATTTAATAAATTAAAAT
13997212 TTTATTTAAT-AA-TATAAAT
1 TTTATTTAATAAATTA-AAAT
13997231 TTTATTT
1 TTTATTT
13997238 TATATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.08
19 13 0.52
20 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATTTAATAAATTAAAAT
Found at i:13997681 original size:21 final size:22
Alignment explanation
Indices: 13997621--13997681 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 22
13997611 TATATTCAAT
13997621 AAAAATAAGTTAATGTTTTTGATAC
1 AAAAAT-AG-TAAT-TTTTTGATAC
* * *
13997646 ATAAACTAATTATTTTTT-ATAC
1 A-AAAATAGTAATTTTTTGATAC
13997668 AAAAATAGTAATTT
1 AAAAATAGTAATTT
13997682 GAAGATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
21 10 0.34
22 5 0.17
23 5 0.17
24 3 0.10
25 2 0.07
26 4 0.14
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (22 bp):
AAAAATAGTAATTTTTTGATAC
Found at i:13999040 original size:12 final size:12
Alignment explanation
Indices: 13998976--13999039 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
13998966 GATTTTTTTT
*
13998976 AATAATAATAAT
1 AATAATAATAAA
*
13998988 AATAAAAATGGAAA
1 AATAATAAT--AAA
13999002 CAAT-ATAA-AAA
1 -AATAATAATAAA
13999013 TAATAATAATAAA
1 -AATAATAATAAA
13999026 AATAAGTAATAAA
1 AATAA-TAATAAA
13999039 A
1 A
13999040 TGTATGGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
11 6 0.14
12 17 0.40
13 11 0.26
14 5 0.12
15 3 0.07
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:13999324 original size:23 final size:27
Alignment explanation
Indices: 13999279--13999327 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 27
13999269 AATGATAACA
13999279 ATAATAAAATAATAATAATAAATTTTC
1 ATAATAAAATAATAATAATAAATTTTC
13999306 ATAA-AAAAT-ATAA-AA-AAATTTT
1 ATAATAAAATAATAATAATAAATTTT
13999328 AATTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.32
24 2 0.09
25 4 0.18
26 5 0.23
27 4 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
ATAATAAAATAATAATAATAAATTTTC
Found at i:13999450 original size:16 final size:15
Alignment explanation
Indices: 13999431--13999496 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
13999421 TTAAAAAATT
*
13999431 TAAACCCTTTAAACCC
1 TAAA-CCTTCAAACCC
13999447 TAAACCTTCCAAACCC
1 TAAACCTT-CAAACCC
* *
13999463 TAAA-ATTAAAACCC
1 TAAACCTTCAAACCC
*
13999477 TAAATCCTCCAAACCC
1 TAAA-CCTTCAAACCC
13999493 TAAA
1 TAAA
13999497 ACCTCAAGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
14 10 0.24
15 6 0.15
16 25 0.61
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCTTCAAACCC
Found at i:13999475 original size:30 final size:30
Alignment explanation
Indices: 13999441--13999497 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
13999431 TAAACCCTTT
13999441 AAACCCTAAA-CCTTCCAAACCCTAAAATTA
1 AAACCCTAAATCC-TCCAAACCCTAAAATTA
13999471 AAACCCTAAATCCTCCAAACCCTAAAA
1 AAACCCTAAATCCTCCAAACCCTAAAA
13999498 CCTCAAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (30 bp):
AAACCCTAAATCCTCCAAACCCTAAAATTA
Found at i:13999501 original size:16 final size:16
Alignment explanation
Indices: 13999441--13999501 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
13999431 TAAACCCTTT
13999441 AAACCCT-AAACCTTCC
1 AAACCCTAAAACC-TCC
**
13999457 AAACCCTAAAA--TTA
1 AAACCCTAAAACCTCC
*
13999471 AAACCCTAAATCCTCC
1 AAACCCTAAAACCTCC
13999487 AAACCCTAAAACCTC
1 AAACCCTAAAACCTC
13999502 AAGCTTCCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
14 11 0.31
16 22 0.61
17 3 0.08
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACCCTAAAACCTCC
Found at i:13999569 original size:22 final size:21
Alignment explanation
Indices: 13999544--13999591 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
13999534 CCCCAAACCT
13999544 CAAACCTCAAAACCCTAAAATC
1 CAAACCTC-AAACCCTAAAATC
* *
13999566 CAAAATCTCACACCCTAAAATC
1 C-AAACCTCAAACCCTAAAATC
13999588 CAAA
1 CAAA
13999592 ACCTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 14 0.61
23 6 0.26
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (21 bp):
CAAACCTCAAACCCTAAAATC
Found at i:13999870 original size:19 final size:20
Alignment explanation
Indices: 13999848--13999889 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
13999838 TCAATAACAA
13999848 TTATCTTC-TTCAAAGAATG
1 TTATCTTCTTTCAAAGAATG
*
13999867 TTATTTTCATTTTCAAAGAATG
1 TTATCTTC--TTTCAAAGAATG
13999889 T
1 T
13999890 CATAGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 7 0.37
22 12 0.63
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (20 bp):
TTATCTTCTTTCAAAGAATG
Found at i:14001088 original size:15 final size:14
Alignment explanation
Indices: 14001067--14001105 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
14001057 CAAGTAAAAA
14001067 TAAAAAAAAAGTTT
1 TAAAAAAAAAGTTT
14001081 TCAAAAAAAAAGTTT
1 T-AAAAAAAAAGTTT
14001096 TAAAACAAAA
1 TAAAA-AAAA
14001106 TAAAGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (14 bp):
TAAAAAAAAAGTTT
Found at i:14006520 original size:14 final size:12
Alignment explanation
Indices: 14006484--14006516 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14006474 CCAGATGTTT
14006484 AAAAAAAG-AAA
1 AAAAAAAGCAAA
14006495 AAAAAAAGCAAA
1 AAAAAAAGCAAA
14006507 AAAAGAAAGC
1 AAAA-AAAGC
14006517 CAAAGAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 7 0.35
13 5 0.25
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAGCAAA
Found at i:14008033 original size:22 final size:21
Alignment explanation
Indices: 14008005--14008093 Score: 92
Period size: 22 Copynumber: 4.1 Consensus size: 21
14007995 TGGTTGATTC
*
14008005 TTTAAGATCTCTGGACATAATT
1 TTTAAGACCTCTGGACATAA-T
14008027 TTTAAGACCTCTGGACATAAT
1 TTTAAGACCTCTGGACATAAT
*
14008048 TTTAAGACCTC-CGAGCATAAT
1 TTTAAGACCTCTGGA-CATAAT
* *
14008069 ATTTAAAACCTC-CGAGCATAAT
1 -TTTAAGACCTCTGGA-CATAAT
14008091 TTT
1 TTT
14008094 GACTTACAGT
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.03
21 21 0.34
22 39 0.63
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (21 bp):
TTTAAGACCTCTGGACATAAT
Found at i:14008052 original size:21 final size:21
Alignment explanation
Indices: 14008020--14008093 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 21
14008010 GATCTCTGGA
*
14008020 CATAATTTTTAAGACCTCTG-G
1 CATAA-TTTTAAGACCTCCGAG
14008041 ACATAATTTTAAGACCTCCGAG
1 -CATAATTTTAAGACCTCCGAG
*
14008063 CATAATATTTAAAACCTCCGAG
1 CATAAT-TTTAAGACCTCCGAG
14008085 CATAATTTT
1 CATAATTTT
14008094 GACTTACAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
21 22 0.46
22 26 0.54
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (21 bp):
CATAATTTTAAGACCTCCGAG
Found at i:14009765 original size:9 final size:8
Alignment explanation
Indices: 14009725--14009768 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
14009715 GATTCAATCT
14009725 TTTTTTTA
1 TTTTTTTA
14009733 TTTTTTTA
1 TTTTTTTA
14009741 -TTTTTTA
1 TTTTTTTA
* *
14009748 TATTATTA
1 TTTTTTTA
14009756 TTTTTGTTA
1 TTTTT-TTA
14009765 TTTT
1 TTTT
14009769 AAGTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 7 0.23
8 16 0.53
9 7 0.23
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:14009766 original size:15 final size:15
Alignment explanation
Indices: 14009726--14009760 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14009716 ATTCAATCTT
* *
14009726 TTTTTTATTTTTTTA
1 TTTTTTATATTATTA
14009741 TTTTTTATATTATTA
1 TTTTTTATATTATTA
14009756 TTTTT
1 TTTTT
14009761 GTTATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTATATTATTA
Found at i:14009878 original size:16 final size:16
Alignment explanation
Indices: 14009838--14009892 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
14009828 AATTATTTTT
14009838 AATAATAATAAAAATGGA
1 AATAATAATAAAAAT--A
*
14009856 AACAAT-AT-AAAA-A
1 AATAATAATAAAAATA
14009869 AATAATAATAAAAATA
1 AATAATAATAAAAATA
*
14009885 AGTAATAA
1 AATAATAA
14009893 AATATATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.19
14 2 0.06
15 4 0.13
16 12 0.39
17 2 0.06
18 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (16 bp):
AATAATAATAAAAATA
Found at i:14009896 original size:12 final size:12
Alignment explanation
Indices: 14009862--14009894 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14009852 TGGAAACAAT
14009862 ATAA-AAAAATA
1 ATAATAAAAATA
14009873 ATAATAAAAATA
1 ATAATAAAAATA
14009885 AGTAATAAAA
1 A-TAATAAAA
14009895 TATATGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 8 0.40
13 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
ATAATAAAAATA
Found at i:14010376 original size:14 final size:15
Alignment explanation
Indices: 14010357--14010410 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 15
14010347 TCCAAATCCC
*
14010357 AAACCCTAAAACT-A
1 AAACCCCAAAACTCA
*
14010371 AAACCCCAAATCTCA
1 AAACCCCAAAACTCA
14010386 AAACCCCAAAA-TCA
1 AAACCCCAAAACTCA
*
14010400 AAACCCTAAAA
1 AAACCCCAAAA
14010411 TCCAAAATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 24 0.69
15 11 0.31
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.11
Consensus pattern (15 bp):
AAACCCCAAAACTCA
Found at i:14010390 original size:15 final size:15
Alignment explanation
Indices: 14010348--14010405 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 15
14010338 CCTCAAGCTT
*
14010348 CCAAATC-CCAAACC
1 CCAAATCTCAAAACC
* *
14010362 CTAAAACT-AAAACC
1 CCAAATCTCAAAACC
14010376 CCAAATCTCAAAACC
1 CCAAATCTCAAAACC
*
14010391 CCAAA-ATCAAAACC
1 CCAAATCTCAAAACC
14010405 C
1 C
14010406 TAAAATCCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 25 0.69
15 11 0.31
ACGTcount: A:0.50, C:0.40, G:0.00, T:0.10
Consensus pattern (15 bp):
CCAAATCTCAAAACC
Found at i:14010402 original size:29 final size:28
Alignment explanation
Indices: 14010348--14010422 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
14010338 CCTCAAGCTT
* *
14010348 CCAAATCCCAAACCCTAAAACTAAAACC
1 CCAAATCCAAAACCCCAAAACTAAAACC
14010376 CCAAATCTCAAAACCCCAAAA-TCAAAACC
1 CCAAATC-CAAAACCCCAAAACT-AAAACC
* *
14010405 CTAAAATCCAAAATCCCA
1 C-CAAATCCAAAACCCCA
14010423 CACATTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.20
29 27 0.68
30 5 0.12
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (28 bp):
CCAAATCCAAAACCCCAAAACTAAAACC
Found at i:14010411 original size:14 final size:14
Alignment explanation
Indices: 14010357--14010422 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
14010347 TCCAAATCCC
*
14010357 AAACCCTAAAA-CTA
1 AAACCCCAAAATC-A
*
14010371 AAACCCCAAATCTCA
1 AAACCCCAAA-ATCA
14010386 AAACCCCAAAATCA
1 AAACCCCAAAATCA
*
14010400 AAACCCTAAAATCCA
1 AAACCCCAAAAT-CA
*
14010415 AAATCCCA
1 AAACCCCA
14010423 CACATTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
14 23 0.53
15 19 0.44
16 1 0.02
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (14 bp):
AAACCCCAAAATCA
Found at i:14019475 original size:28 final size:27
Alignment explanation
Indices: 14019444--14019508 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
14019434 ATAAAAAATA
* * *
14019444 TATATATTTTATTATTTATTTAATTATT
1 TATATATTTTATTAATAAATT-ATTATT
*
14019472 TATATATTATATTAATAAATTATTATT
1 TATATATTTTATTAATAAATTATTATT
14019499 TA-ATATTTTA
1 TATATATTTTA
14019509 ATTTAAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.22
27 8 0.25
28 17 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATATTTTATTAATAAATTATTATT
Found at i:14019509 original size:23 final size:24
Alignment explanation
Indices: 14019465--14019510 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
14019455 TTATTTATTT
*
14019465 AATTATTTATATATTATATTAATA
1 AATTATTTATATAATATATTAATA
* *
14019489 AATTA-TTATTTAATATTTTAAT
1 AATTATTTATATAATATATTAAT
14019511 TTAAGATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTATTTATATAATATATTAATA
Found at i:14019512 original size:13 final size:13
Alignment explanation
Indices: 14019456--14019529 Score: 57
Period size: 13 Copynumber: 6.0 Consensus size: 13
14019446 TATATTTTAT
*
14019456 TATTTATTTAAT-
1 TATTAATTTAATA
* * *
14019468 TATTTATATATTA
1 TATTAATTTAATA
*
14019481 TATTAA-TAAAT-
1 TATTAATTTAATA
14019492 TATT-ATTTAATA
1 TATTAATTTAATA
* *
14019504 TTTTAATTTAAGA
1 TATTAATTTAATA
14019517 TATTAATTTAATA
1 TATTAATTTAATA
14019530 AAAATATTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
10 1 0.02
11 8 0.17
12 15 0.32
13 23 0.49
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:14019573 original size:17 final size:18
Alignment explanation
Indices: 14019551--14019586 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14019541 TTTATGTATA
14019551 ATTAAAAT-ATAATTTAT
1 ATTAAAATAATAATTTAT
*
14019568 ATTAAAATAATATTTTAT
1 ATTAAAATAATAATTTAT
14019586 A
1 A
14019587 AATATTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAAATAATAATTTAT
Found at i:14020074 original size:32 final size:32
Alignment explanation
Indices: 14020038--14020100 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
14020028 CTTATCCACA
*
14020038 ACCCTAACCCAAGCTCTTGTAGAATCCAAGCC
1 ACCCTAACCCAAGCTCTGGTAGAATCCAAGCC
14020070 ACCCTAACCCAAGCTCTGGTAGAATCCAAGC
1 ACCCTAACCCAAGCTCTGGTAGAATCCAAGC
14020101 TAGCTTTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.37, G:0.14, T:0.17
Consensus pattern (32 bp):
ACCCTAACCCAAGCTCTGGTAGAATCCAAGCC
Found at i:14021223 original size:14 final size:16
Alignment explanation
Indices: 14021206--14021245 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14021196 AATATTTATC
14021206 AAATAGAAAA-G-GAA
1 AAATAGAAAATGAGAA
14021220 AAATAGAAAATGAGAA
1 AAATAGAAAATGAGAA
*
14021236 AAATATAAAA
1 AAATAGAAAA
14021246 ACATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 1 0.04
16 12 0.52
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (16 bp):
AAATAGAAAATGAGAA
Found at i:14021268 original size:9 final size:9
Alignment explanation
Indices: 14021234--14021278 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
14021224 AGAAAATGAG
14021234 AAAAATA-T
1 AAAAATATT
*
14021242 AAAAACATT
1 AAAAATATT
14021251 AAAAATATT
1 AAAAATATT
14021260 AAAAATATTT
1 AAAAATA-TT
*
14021270 GAAAATATT
1 AAAAATATT
14021279 TATCAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 6 0.19
9 18 0.56
10 8 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:14021274 original size:19 final size:18
Alignment explanation
Indices: 14021234--14021278 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
14021224 AGAAAATGAG
14021234 AAAAATA-TAAAAACATT
1 AAAAATATTAAAAACATT
*
14021251 AAAAATATTAAAAATATTT
1 AAAAATATTAAAAACA-TT
*
14021270 GAAAATATT
1 AAAAATATT
14021279 TATCAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.29
18 7 0.29
19 10 0.42
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAATATTAAAAACATT
Found at i:14021935 original size:23 final size:23
Alignment explanation
Indices: 14021899--14021944 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
14021889 GTTTTATAAT
14021899 AAAATATATTAAAAATTAGAAAAAC
1 AAAATATA-TAAAAATTA-AAAAAC
*
14021924 AAAATATA-AAAAGTTAAAAAA
1 AAAATATATAAAAATTAAAAAA
14021945 TATCTAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
25 8 0.40
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAATATATAAAAATTAAAAAAC
Found at i:14022064 original size:18 final size:17
Alignment explanation
Indices: 14022030--14022072 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
14022020 AAAATATATT
*
14022030 AAAAAAAAAACTTAAAC
1 AAAAAAAAAACTAAAAC
*
14022047 AAAATAAAAAAGTAAAAC
1 AAAA-AAAAAACTAAAAC
14022065 ATAAAAAA
1 A-AAAAAA
14022073 TTAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAACTAAAAC
Found at i:14022068 original size:15 final size:14
Alignment explanation
Indices: 14022047--14022087 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
14022037 AAACTTAAAC
14022047 AAAATAAAAAAGTA
1 AAAATAAAAAAGTA
*
14022061 AAACATAAAAAATTA
1 AAA-ATAAAAAAGTA
14022076 AAAATTAAAAAA
1 AAAA-TAAAAAA
14022088 AATCCACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAATAAAAAAGTA
Found at i:14022077 original size:23 final size:22
Alignment explanation
Indices: 14022027--14022079 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
14022017 AACAAAATAT
*
14022027 ATTAAAAAAAAAACTTAAACAA
1 ATTAAAAAAAAAACATAAACAA
*
14022049 AATAAAAAAGTAAAACATAAA-AA
1 ATTAAAAAA--AAAACATAAACAA
14022072 ATTAAAAA
1 ATTAAAAA
14022080 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 9 0.35
24 9 0.35
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (22 bp):
ATTAAAAAAAAAACATAAACAA
Found at i:14023198 original size:18 final size:17
Alignment explanation
Indices: 14023172--14023206 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14023162 GCTTTTATCC
14023172 TTTTTTTTTTTACAATT
1 TTTTTTTTTTTACAATT
*
14023189 TTTTTCTTTTTTTCAATT
1 TTTTT-TTTTTTACAATT
14023207 CGTTATTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTTTACAATT
Found at i:14024675 original size:18 final size:19
Alignment explanation
Indices: 14024643--14024679 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14024633 TTTTTTGATC
*
14024643 AATTTTTCAATCAAGTTTG
1 AATTTTCCAATCAAGTTTG
14024662 AATTTTCCAA-CAAGTTTG
1 AATTTTCCAATCAAGTTTG
14024680 GGTTTTCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (19 bp):
AATTTTCCAATCAAGTTTG
Found at i:14025481 original size:17 final size:18
Alignment explanation
Indices: 14025448--14025486 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
14025438 GTAAATTTTA
*
14025448 TATTTGATTATTGTATTT
1 TATTGGATTATTGTATTT
14025466 TATTGGATTA-TGTATTT
1 TATTGGATTATTGTATTT
14025483 TATT
1 TATT
14025487 TTGTATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (18 bp):
TATTGGATTATTGTATTT
Found at i:14029481 original size:14 final size:15
Alignment explanation
Indices: 14029464--14029516 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
14029454 TTTTAAAATT
14029464 TTATT-TTATTTTAC
1 TTATTATTATTTTAC
14029478 TTATTCATT-TTTTAC
1 TTATT-ATTATTTTAC
14029493 -TATTATTATTTT--
1 TTATTATTATTTTAC
14029505 TTATTATCTATT
1 TTATTAT-TATT
14029517 CTGCTTATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.26
14 17 0.50
15 6 0.18
16 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTATTATTTTAC
Found at i:14029516 original size:17 final size:17
Alignment explanation
Indices: 14029478--14029517 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
14029468 TTTATTTTAC
14029478 TTATTCATTTTTTACTA
1 TTATTCATTTTTTACTA
*
14029495 TTATT-ATTTTTTATTA
1 TTATTCATTTTTTACTA
14029511 TCTATTC
1 T-TATTC
14029518 TGCTTATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTCATTTTTTACTA
Found at i:14034871 original size:19 final size:18
Alignment explanation
Indices: 14034849--14034910 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 18
14034839 GAAAAAAGGC
14034849 AAAGCAAAAATGAAAAATA
1 AAAG-AAAAATGAAAAATA
* *
14034868 AAAG-AGAATGAAAAAGA
1 AAAGAAAAATGAAAAATA
14034885 AAA-AAATGAATGAAAAATGA
1 AAAGAAA--AATGAAAAAT-A
14034905 AAAGAA
1 AAAGAA
14034911 GGGAAAATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 15 0.44
19 13 0.38
20 4 0.12
21 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.10
Consensus pattern (18 bp):
AAAGAAAAATGAAAAATA
Found at i:14034879 original size:17 final size:18
Alignment explanation
Indices: 14034857--14034909 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
14034847 GCAAAGCAAA
14034857 AATGAAAAATAAAAGA-G
1 AATGAAAAATAAAAGATG
* *
14034874 AATGAAAAAGAAAAAAATG
1 AATGAAAAA-TAAAAGATG
14034893 AATGAAAAATGAAAAGA
1 AATGAAAAAT-AAAAGA
14034910 AGGGAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 9 0.31
18 5 0.17
19 15 0.52
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (18 bp):
AATGAAAAATAAAAGATG
Found at i:14036091 original size:64 final size:63
Alignment explanation
Indices: 14036019--14036187 Score: 162
Period size: 64 Copynumber: 2.7 Consensus size: 63
14036009 GTCTGATCAT
* * *
14036019 TTTTATTTTTGACTTAGGTTTAATCTAATCATTTTTATTTTCAACATTGGCTCAATCCAGTCA
1 TTTTATTTTTTACTTAGGTTTAATCTAATCATTTTCATTTTCAACATTGACTCAATCCAGTCA
* * * * * * *
14036082 TTTTCATTTTTTACTTTA-GTTCAGTTTGATCATTTTCATTTTCAACCTTGACTCAATTCGGTCA
1 TTTT-ATTTTTTAC-TTAGGTTTAATCTAATCATTTTCATTTTCAACATTGACTCAATCCAGTCA
* * * *
14036146 CTTTTATTTTTTAATTTGGTTTAAT-TCAGTCAATTTCATTTT
1 -TTTTATTTTTTACTTAGGTTTAATCT-AATCATTTTCATTTT
14036188 TTTACTTTGG
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
63 7 0.08
64 70 0.83
65 7 0.08
ACGTcount: A:0.22, C:0.15, G:0.09, T:0.53
Consensus pattern (63 bp):
TTTTATTTTTTACTTAGGTTTAATCTAATCATTTTCATTTTCAACATTGACTCAATCCAGTCA
Found at i:14036261 original size:33 final size:32
Alignment explanation
Indices: 14036143--14036303 Score: 128
Period size: 33 Copynumber: 4.9 Consensus size: 32
14036133 CTCAATTCGG
* ** * *
14036143 TCACTTTTATTTTTTAATTTGGTTTAATTC-A
1 TCACTTTCATTTTTTACCTTGGTTTAGTCCGA
* * *
14036174 GTCAATTTCATTTTTTTACTTTGGTTTAGT-CTA
1 -TCACTTTCA-TTTTTTACCTTGGTTTAGTCCGA
* * * *
14036207 GTCGCCTTCATTTCTTGACCTTGGCTTAGTCCGA
1 -TCACTTTCATTT-TTTACCTTGGTTTAGTCCGA
14036241 TCACTTGTCATTTTTTACCTTGGTTTAGTCCGA
1 TCACTT-TCATTTTTTACCTTGGTTTAGTCCGA
* * *
14036274 TTACTTTTATTTTTTATCTTGGTTTAGTCC
1 TCACTTTCATTTTTTACCTTGGTTTAGTCC
14036304 AGTCATCTTC
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
32 33 0.31
33 65 0.61
34 8 0.08
ACGTcount: A:0.16, C:0.17, G:0.13, T:0.53
Consensus pattern (32 bp):
TCACTTTCATTTTTTACCTTGGTTTAGTCCGA
Found at i:14036319 original size:33 final size:32
Alignment explanation
Indices: 14036142--14036355 Score: 121
Period size: 33 Copynumber: 6.5 Consensus size: 32
14036132 ACTCAATTCG
** ** * *
14036142 GTCACTTTTATTTTTTAATTTGGTTTAATTCA
1 GTCACTTCAATTTTTTACCTTGGTTTAGTCCA
* * * *
14036174 GTCAATTTCATTTTTTTACTTTGGTTTAGTCTA
1 GTC-ACTTCAATTTTTTACCTTGGTTTAGTCCA
* * *
14036207 GTCGCCTTC-ATTTCTTGACCTTGGCTTAGTCC-
1 GTC-ACTTCAATTT-TTTACCTTGGTTTAGTCCA
14036239 GATCACTTGTC-ATTTTTTACCTTGGTTTAGTCC-
1 G-TCAC-T-TCAATTTTTTACCTTGGTTTAGTCCA
* ** *
14036272 GATTACTTTTATTTTTTATCTTGGTTTAGTCCA
1 G-TCACTTCAATTTTTTACCTTGGTTTAGTCCA
* * * *
14036305 GTCATCTTCAATTTTTTAACCTTAGATCAGTCTA
1 GTCA-CTTCAATTTTTT-ACCTTGGTTTAGTCCA
14036339 GTCACCTTCAATTTTTT
1 GTCA-CTTCAATTTTTT
14036356 TGAATTTGGC
Statistics
Matches: 142, Mismatches: 31, Indels: 16
0.75 0.16 0.08
Matches are distributed among these distances:
31 1 0.01
32 32 0.23
33 76 0.54
34 33 0.23
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.51
Consensus pattern (32 bp):
GTCACTTCAATTTTTTACCTTGGTTTAGTCCA
Found at i:14036410 original size:32 final size:32
Alignment explanation
Indices: 14036374--14036435 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
14036364 GCTCATTCCG
14036374 ATCATTTTTAATTTTGACCTTGGTTCAATCCA
1 ATCATTTTTAATTTTGACCTTGGTTCAATCCA
*
14036406 ATCATTTTTATTTTTGACCTTGGTTCAATC
1 ATCATTTTTAATTTTGACCTTGGTTCAATC
14036436 TAGTCACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.50
Consensus pattern (32 bp):
ATCATTTTTAATTTTGACCTTGGTTCAATCCA
Found at i:14036447 original size:32 final size:32
Alignment explanation
Indices: 14036374--14036451 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
14036364 GCTCATTCCG
* *
14036374 ATCATTTTTAATTTTGACCTTGGTTCAATCCA
1 ATCACTTTTATTTTTGACCTTGGTTCAATCCA
* *
14036406 ATCATTTTTATTTTTGACCTTGGTTCAATCTA
1 ATCACTTTTATTTTTGACCTTGGTTCAATCCA
*
14036438 GTCACTTTTATTTT
1 ATCACTTTTATTTT
14036452 CAACTATGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.53
Consensus pattern (32 bp):
ATCACTTTTATTTTTGACCTTGGTTCAATCCA
Found at i:14036524 original size:34 final size:34
Alignment explanation
Indices: 14036458--14036551 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 34
14036448 TTTTCAACTA
* * *
14036458 TGGCTTAGTCTAATCATTTTCA-TTTTTGAACCC
1 TGGCTTAGTCCAATCATCTTCATTTTTTAAACCC
*
14036491 TGGCTTAGTCCAATTATCTTCATTTTTTAAACCC
1 TGGCTTAGTCCAATCATCTTCATTTTTTAAACCC
* * *
14036525 TAGCTTAGTTCAATCATCTTAATTTTT
1 TGGCTTAGTCCAATCATCTTCATTTTT
14036552 GACCTCAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 19 0.37
34 33 0.63
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (34 bp):
TGGCTTAGTCCAATCATCTTCATTTTTTAAACCC
Found at i:14036720 original size:33 final size:33
Alignment explanation
Indices: 14036678--14036766 Score: 162
Period size: 33 Copynumber: 2.7 Consensus size: 33
14036668 ACCAAGTCAT
14036678 CAAGTCATCATTTTTTTAACTTTTAGCTCAATC
1 CAAGTCATCATTTTTTTAACTTTTAGCTCAATC
14036711 CAAGTCATCATTTTTTTAACTTTTAGCTCAATC
1 CAAGTCATCATTTTTTTAACTTTTAGCTCAATC
*
14036744 CAAGTCATCA-TTTTCTAACTTTT
1 CAAGTCATCATTTTTTTAACTTTT
14036767 TTCAAGTCAT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 12 0.22
33 43 0.78
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (33 bp):
CAAGTCATCATTTTTTTAACTTTTAGCTCAATC
Found at i:14039221 original size:58 final size:58
Alignment explanation
Indices: 14039157--14039281 Score: 160
Period size: 58 Copynumber: 2.1 Consensus size: 58
14039147 TGTTGTTTCG
* * *
14039157 GTTTGGTTTACCTATATGTATTGGCTATTTCGGGTTGGTTTGTCTGCATATATTTCCT
1 GTTTGGTTTACCTATATGTATTGACTATTTCGGGTTGGGTTGCCTGCATATATTTCCT
* * * * * *
14039215 GTTTGGTTTACCTGTATGTGTTGACTATTTCGGTTTGGGTTGCCTGTATCTATTTGCT
1 GTTTGGTTTACCTATATGTATTGACTATTTCGGGTTGGGTTGCCTGCATATATTTCCT
14039273 GTTTTGGTT
1 G-TTTGGTT
14039282 GGGTTTATCT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
58 50 0.88
59 7 0.12
ACGTcount: A:0.11, C:0.13, G:0.25, T:0.51
Consensus pattern (58 bp):
GTTTGGTTTACCTATATGTATTGACTATTTCGGGTTGGGTTGCCTGCATATATTTCCT
Found at i:14039252 original size:32 final size:32
Alignment explanation
Indices: 14039215--14039377 Score: 182
Period size: 32 Copynumber: 5.1 Consensus size: 32
14039205 TATATTTCCT
* * *
14039215 GTTTGGTTTACCTGTATGTGTTGACTATTTCG
1 GTTTGGTTTACCTGTATATGTTGGCTGTTTCG
* * * * * *
14039247 GTTTGGGTTGCCTGTATCTATTTGCTGTTTTG
1 GTTTGGTTTACCTGTATATGTTGGCTGTTTCG
* * * *
14039279 GTTGGGTTTATCTGCATATATTGGCTGTTTCG
1 GTTTGGTTTACCTGTATATGTTGGCTGTTTCG
*
14039311 GTTTGGTTTACCTGTATATGTTGGCTGTCTCG
1 GTTTGGTTTACCTGTATATGTTGGCTGTTTCG
* *
14039343 GTTCGGTTTACCTGTATATGTTGGCTGTCTCG
1 GTTTGGTTTACCTGTATATGTTGGCTGTTTCG
14039375 GTT
1 GTT
14039378 CGGTGTTCCA
Statistics
Matches: 109, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 109 1.00
ACGTcount: A:0.10, C:0.14, G:0.28, T:0.48
Consensus pattern (32 bp):
GTTTGGTTTACCTGTATATGTTGGCTGTTTCG
Found at i:14039908 original size:3 final size:3
Alignment explanation
Indices: 14039900--14039926 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14039890 CTATAAAGAC
14039900 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
14039927 TTTTTAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14042418 original size:95 final size:98
Alignment explanation
Indices: 14042257--14042483 Score: 264
Period size: 95 Copynumber: 2.3 Consensus size: 98
14042247 TGTTTAAGAA
* * * *
14042257 TTAATCCAACCAAACGATTAGAGGATTTTAAATCTTGAATTATAAATTTTACCAAATGAGTGGAG
1 TTAATCCTACCAAACGATTAGAGGA-TTTAAATCTTAAATTATAAATTCTACCAAATGAGTAGAG
*
14042322 AATTTAACAAT-AA-ATTTTG-AAAAA-CAATTT
65 AATTTAACAATGAATATTTTGAAAAAAGAAATTT
* * ** * *
14042352 TTCAATCCTACCAAATGATTGGAGGATTTAAATCTTAAATTATGGATTCTACTAAATGATTAGAG
1 TT-AATCCTACCAAACGATTAGAGGATTTAAATCTTAAATTATAAATTCTACCAAATGAGTAGAG
* * *
14042417 AATTTCATAATGAATTTTTTGAAAAAAGTAAATTT
65 AATTTAACAATGAATATTTTGAAAAAAG-AAATTT
*
14042452 TTAATCCTACCAAACGATTAGAGAATTTAAAT
1 TTAATCCTACCAAACGATTAGAGGATTTAAAT
14042484 TTTTAAGTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
95 43 0.39
96 22 0.20
97 5 0.05
98 5 0.05
99 27 0.25
100 7 0.06
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (98 bp):
TTAATCCTACCAAACGATTAGAGGATTTAAATCTTAAATTATAAATTCTACCAAATGAGTAGAGA
ATTTAACAATGAATATTTTGAAAAAAGAAATTT
Found at i:14049940 original size:13 final size:14
Alignment explanation
Indices: 14049910--14049962 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 14
14049900 ACAATTAGAG
*
14049910 TTGCTTTCATGACA
1 TTGCATTCATGACA
*
14049924 TTGCGTTCATG-CA
1 TTGCATTCATGACA
*
14049937 TTGCATTCATAAACA
1 TTGCATTCAT-GACA
*
14049952 TTGTATTCATG
1 TTGCATTCATG
14049963 TAAATTGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 11 0.34
14 10 0.31
15 11 0.34
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (14 bp):
TTGCATTCATGACA
Found at i:14050392 original size:43 final size:43
Alignment explanation
Indices: 14050306--14050723 Score: 263
Period size: 43 Copynumber: 9.5 Consensus size: 43
14050296 ACCTTGGTTA
* *
14050306 AGAAGCCTTTTATAATCTTTT-AAAGTTATTAAGCCTCTGATGAG
1 AGAAGCCTTTTAT-AT-TTTTCAAAGTTGTTGAGCCTCTGATGAG
* *
14050350 AGAAGCCTTTTATATTTTTCAAAGTTGTTGAACCTCTAATGAG
1 AGAAGCCTTTTATATTTTTCAAAGTTGTTGAGCCTCTGATGAG
* * * * * * * *
14050393 ATAAGCCTTTTATATTTTTTAAAATTATTGAGTCTATGATAAA
1 AGAAGCCTTTTATATTTTTCAAAGTTGTTGAGCCTCTGATGAG
14050436 ATG-AGCC-TTTACTATATTTT-AAAGTTGTTGAGCCTCTGATGAG
1 A-GAAGCCTTTTA-TAT-TTTTCAAAGTTGTTGAGCCTCTGATGAG
*
14050479 ATG-AG-CTTTTCATATTTTTCAAGGTTGTT-AGGCCTC-GATGAG
1 A-GAAGCCTTTT-ATATTTTTCAAAGTTGTTGA-GCCTCTGATGAG
* *
14050521 ATG-AGCTTTTTAAAATTTTTCAAAGTTGTTGAGCC-CTTGATGAG
1 A-GAAGCCTTTT-ATATTTTTCAAAGTTGTTGAGCCTC-TGATGAG
* * * * *
14050565 A-AGAGCCTTTTATATTTTTCAAAAATTATTGAGCTTTTGATAAG
1 AGA-AGCCTTTTATATTTTTC-AAAGTTGTTGAGCCTCTGATGAG
* * * * *
14050609 ATG-AGCATTTTAAAATTTTTTGAAA-TTATTGAAG-CTCTAATGAG
1 A-GAAGCCTTTT-ATA-TTTTTCAAAGTTGTTG-AGCCTCTGATGAG
* *
14050653 AGAAGCCTTTTTATAATTTTTTTAAAAAGTTGTTGAGCCTCT-ATTTAG
1 AGAAGCC-TTTTAT-A--TTTTT-CAAAGTTGTTGAGCCTCTGA-TGAG
* *
14050701 AGGAGCCTTTTATGTTTTTCAAA
1 AGAAGCCTTTTATATTTTTCAAA
14050724 AAGTCCTAGA
Statistics
Matches: 297, Mismatches: 48, Indels: 59
0.74 0.12 0.15
Matches are distributed among these distances:
42 26 0.09
43 138 0.46
44 80 0.27
45 12 0.04
46 11 0.04
47 12 0.04
48 18 0.06
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (43 bp):
AGAAGCCTTTTATATTTTTCAAAGTTGTTGAGCCTCTGATGAG
Found at i:14050443 original size:86 final size:86
Alignment explanation
Indices: 14050308--14050679 Score: 294
Period size: 86 Copynumber: 4.3 Consensus size: 86
14050298 CTTGGTTAAG
* * * * *
14050308 AAGCCTTTTATAATCTTTTAAAGTTATTAAGCCTCTGATGAGA-GAAGCCTTTT-ATATTTTTCA
1 AAGCCTTTTAT-ATTTTTTAAAATTATTGAGCCT-TGATAAGATG-AGCCTTTTAAAATTTTTCA
14050371 AAGTTGTTGAACCTCTAATGAGAT
63 AAGTTGTTGAACCTCTAATGAGAT
* * **
14050395 AAGCCTTTTATATTTTTTAAAATTATTGAGTCTATGATAAAATGAGCC-TTTACTATATTTT-AA
1 AAGCCTTTTATATTTTTTAAAATTATTGAGCCT-TGATAAGATGAGCCTTTTAAAAT-TTTTCAA
* *
14050458 AGTTGTTGAGCCTCTGATGAGAT
64 AGTTGTTGAACCTCTAATGAGAT
* * ** * * * *
14050481 GAG-CTTTTCATATTTTTCAAGGTTGTT-AGGCCTCGATGAGATGAGCTTTTTAAAATTTTTCAA
1 AAGCCTTTT-ATATTTTTTAAAATTATTGA-GCCTTGATAAGATGAGCCTTTTAAAATTTTTCAA
* *
14050544 AGTTGTTGAGCC-CTTGATGAGA-
64 AGTTGTTGAACCTC-TAATGAGAT
* * * *
14050566 AGAGCCTTTTATATTTTTCAAAAATTATTGAGCTTTTGATAAGATGAGCATTTTAAAATTTTTTG
1 A-AGCCTTTTATATTTTT-TAAAATTATTGAGC-CTTGATAAGATGAGCCTTTTAAAA-TTTTTC
* * *
14050631 AAA-TTATTGAAGCTCTAATGAGAG
62 AAAGTTGTTGAACCTCTAATGAGAT
14050655 AAGCCTTTTTATAATTTTTTTAAAA
1 AAGCC-TTTTAT-A-TTTTTTAAAA
14050680 AGTTGTTGAG
Statistics
Matches: 229, Mismatches: 37, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
85 24 0.10
86 111 0.48
87 29 0.13
88 39 0.17
89 16 0.07
90 5 0.02
91 5 0.02
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (86 bp):
AAGCCTTTTATATTTTTTAAAATTATTGAGCCTTGATAAGATGAGCCTTTTAAAATTTTTCAAAG
TTGTTGAACCTCTAATGAGAT
Found at i:14050571 original size:129 final size:127
Alignment explanation
Indices: 14050309--14050582 Score: 290
Period size: 129 Copynumber: 2.1 Consensus size: 127
14050299 TTGGTTAAGA
14050309 AGCCTTTTATAATCTTTTAAAGTTATTAAGCCTCTGATGAGAGAAGCCTTTTATATTTTTCAAAG
1 AGCCTTTTAT-A--TTTTAAAGTTATTAAGCCTCTGATGAGAGAAGCCTTTTATATTTTTCAAAG
* * *
14050374 TTGTTGAACCTCTAATGAGATAAGCCTTTTATATTTTTTAAAATTATTGAGTCTATGATAAAATG
63 TTGTTGAACCTCTAATGAGATAAGCCTTTTAAATTTTTCAAAATTATTGAGCCTATGATAAAATG
* * *
14050439 AGCCTTTACTATATTTTAAAGTTGTTGAGCCTCTGATGAGATG-AG-CTTTTCATATTTTTCAAG
1 AGCCTTT--TATATTTTAAAGTTATTAAGCCTCTGATGAGA-GAAGCCTTTT-ATATTTTTCAAA
* * * * * *
14050502 GTTGTT-AGGCCTC-GATGAGATGAGCTTTTTAAAATTTTTCAAAGTTGTTGAGCCCT-TGATGA
62 GTTGTTGA-ACCTCTAATGAGATAAGCCTTTT-AAATTTTTCAAAATTATTGAG-CCTATGAT-A
*
14050564 GAA-G
123 AAATG
14050568 AGCCTTTTATATTTT
1 AGCCTTTTATATTTT
14050583 TCAAAAATTA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
127 8 0.07
128 20 0.16
129 78 0.63
130 13 0.11
131 1 0.01
132 3 0.02
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (127 bp):
AGCCTTTTATATTTTAAAGTTATTAAGCCTCTGATGAGAGAAGCCTTTTATATTTTTCAAAGTTG
TTGAACCTCTAATGAGATAAGCCTTTTAAATTTTTCAAAATTATTGAGCCTATGATAAAATG
Found at i:14053425 original size:86 final size:86
Alignment explanation
Indices: 14053276--14053434 Score: 203
Period size: 86 Copynumber: 1.8 Consensus size: 86
14053266 CTTACTACCA
* * * ** *
14053276 TAATTACAAAAATAGCTCTCATATTATGATTTACCAAAATTACTATAATATTCTCTAATCATAAT
1 TAATTACAAAAATACCCCTCATATTATAATTTACCAAAATTACTATAATACCCTCTAACCATAAT
*
14053341 TATGAAAATGCCATCTTATCC
66 TATAAAAATGCCATCTTATCC
** * *
14053362 TAATTACAAAAATACCCCTCATATTATAATTGT-TTAAAATTATTATAATACCCTTTAACCATAA
1 TAATTACAAAAATACCCCTCATATTATAATT-TACCAAAATTACTATAATACCCTCTAACCATAA
14053426 TTATAAAAA
65 TTATAAAAA
14053435 AAAAAATACC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 60 0.98
87 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.37
Consensus pattern (86 bp):
TAATTACAAAAATACCCCTCATATTATAATTTACCAAAATTACTATAATACCCTCTAACCATAAT
TATAAAAATGCCATCTTATCC
Found at i:14056933 original size:5 final size:5
Alignment explanation
Indices: 14056920--14056949 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
14056910 AAATTTTCTC
*
14056920 TTCCC TTCCT TTCCT TTCCT TTCCT TTCCT
1 TTCCT TTCCT TTCCT TTCCT TTCCT TTCCT
14056950 ATCATTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (5 bp):
TTCCT
Found at i:14063160 original size:129 final size:129
Alignment explanation
Indices: 14062944--14063194 Score: 331
Period size: 129 Copynumber: 1.9 Consensus size: 129
14062934 CATTGAACTT
* * * * *
14062944 TTTAAACTTTTACCTCTTGATCTTTTTAGTGTAGTTATAGAGCTTATAGGGGTTGCTATTTCTAC
1 TTTAAACTTCTACCCCTTAATCCTTTTAGTGTAGTTATAGAGCTTATAGGGGCTGCTATTTCTAC
* * ** *
14063009 AAAAATTTGTATAGAGACTAGGGTTTGTGATGTTAATGTTTTTTGTTTTCTACCCCTTCAACCC
66 AAAAATTTATAAAGAGACTAGGGTTTGTGATGTTAATGTTGCTAGTTTTCTACCCCTTCAACCC
* *
14063073 TTTAAACTTCTACCCCTTAATCCTTTTAGTGTAGTTATAGAGTTTATAGGGGCTGCTGTTTCTAC
1 TTTAAACTTCTACCCCTTAATCCTTTTAGTGTAGTTATAGAGCTTATAGGGGCTGCTATTTCTAC
*** * ** *
14063138 AAGTGTTTATAAAGGGGTTAGGGTTTGTGATGTTGATGTTGCTAGTTTTCTACCCCT
66 AAAAATTTATAAAGAGACTAGGGTTTGTGATGTTAATGTTGCTAGTTTTCTACCCCT
14063195 CAAATCTTTT
Statistics
Matches: 103, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
129 103 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (129 bp):
TTTAAACTTCTACCCCTTAATCCTTTTAGTGTAGTTATAGAGCTTATAGGGGCTGCTATTTCTAC
AAAAATTTATAAAGAGACTAGGGTTTGTGATGTTAATGTTGCTAGTTTTCTACCCCTTCAACCC
Found at i:14067544 original size:21 final size:20
Alignment explanation
Indices: 14067520--14067560 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
14067510 ATTCTAAAAC
14067520 TTTTAAAGAAAATTAAAAATTT
1 TTTTAAA-AAAA-TAAAAATTT
14067542 TTTTAAAAAAATAAAAATT
1 TTTTAAAAAAATAAAAATT
14067561 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TTTTAAAAAAATAAAAATTT
Found at i:14067772 original size:27 final size:26
Alignment explanation
Indices: 14067742--14067829 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
14067732 GAAATTTTTC
*
14067742 AAAATTTAGAAAATTTATAAAAAATAA
1 AAAATTTAGAAAATTT-TAAAAATTAA
*
14067769 AAAATTT-GAAATATTTTTATAAATTATA
1 AAAATTTAGAAA-A-TTTTAAAAATTA-A
* *
14067797 AAAATTATA-ATAATTTTAAAAATTCA
1 AAAATT-TAGAAAATTTTAAAAATTAA
14067823 AAAATTT
1 AAAATTT
14067830 TTTCATAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
25 1 0.02
26 11 0.22
27 25 0.49
28 11 0.22
29 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (26 bp):
AAAATTTAGAAAATTTTAAAAATTAA
Found at i:14068180 original size:18 final size:19
Alignment explanation
Indices: 14068159--14068199 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14068149 ATCTTCATCT
*
14068159 TTTTGA-ATTTTTTTAAAA
1 TTTTGAGATTTTTTAAAAA
14068177 TTTTGAGATTTTTTAAAAA
1 TTTTGAGATTTTTTAAAAA
14068196 TTTT
1 TTTT
14068200 AAAGTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTTGAGATTTTTTAAAAA
Found at i:14068199 original size:28 final size:26
Alignment explanation
Indices: 14068168--14068254 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
14068158 TTTTTGAATT
*
14068168 TTTTTAAAATTTTGAGATTTTTTAAAA
1 TTTTTAAAATTTTTA-ATTTTTTAAAA
* *
14068195 ATTTTAAAGTTTATTTAATTTTTTTAAAA
1 TTTTTAAA-ATT-TTTAA-TTTTTTAAAA
* *
14068224 TTTATAAAAATTTTTAATATTTTAAAA
1 TTT-TTAAAATTTTTAATTTTTTAAAA
14068251 TTTT
1 TTTT
14068255 GAGAATATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 1 0.02
27 19 0.39
28 8 0.16
29 17 0.35
30 4 0.08
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (26 bp):
TTTTTAAAATTTTTAATTTTTTAAAA
Found at i:14068237 original size:19 final size:17
Alignment explanation
Indices: 14068215--14068254 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
14068205 TTATTTAATT
14068215 TTTTTAAAATTTATAAAAA
1 TTTTTAAAATTT-T-AAAA
*
14068234 TTTTTAATATTTTAAAA
1 TTTTTAAAATTTTAAAA
14068251 TTTT
1 TTTT
14068255 GAGAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTAAAATTTTAAAA
Found at i:14068319 original size:21 final size:20
Alignment explanation
Indices: 14068295--14068344 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
14068285 TTTAAAAAAA
* *
14068295 TTTTAAAAATTATTTTAGATC
1 TTTTAAAAATT-TTATAAATC
*
14068316 TTTTAGAAAATTTTATAAATT
1 TTTTA-AAAATTTTATAAATC
14068337 TTTTAAAA
1 TTTTAAAA
14068345 TAATTTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 16 0.64
22 6 0.24
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTAAAAATTTTATAAATC
Found at i:14068370 original size:18 final size:18
Alignment explanation
Indices: 14068347--14068388 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
14068337 TTTTAAAATA
*
14068347 ATTTTTGAATTTTTAATT
1 ATTTTTGAATTTTTAAGT
*
14068365 ATTTTTGAATTTTTTAGT
1 ATTTTTGAATTTTTAAGT
14068383 ATTTTT
1 ATTTTT
14068389 AGATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (18 bp):
ATTTTTGAATTTTTAAGT
Found at i:14068378 original size:19 final size:19
Alignment explanation
Indices: 14068333--14068397 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 19
14068323 AAATTTTATA
*
14068333 AATTTTTTAAAATAATTTTTG
1 AATTTTTT--AATTATTTTTG
14068354 AA-TTTTTAATTATTTTTG
1 AATTTTTTAATTATTTTTG
*
14068372 AATTTTTT-AGTATTTTT-
1 AATTTTTTAATTATTTTTG
14068389 AGATTTTTT
1 A-ATTTTTT
14068398 TGAAATTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.03
18 27 0.68
19 5 0.12
20 5 0.12
21 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (19 bp):
AATTTTTTAATTATTTTTG
Found at i:14071503 original size:32 final size:30
Alignment explanation
Indices: 14071462--14071525 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 30
14071452 TGCAATATAG
14071462 ATAAAAATATATATTATTAATAATATAAA-AAA
1 ATAAAAATATATA-TATTAA-AAT-TAAATAAA
14071494 ATAAAAATATATATATTAAAATTAAATAAA
1 ATAAAAATATATATATTAAAATTAAATAAA
14071524 AT
1 AT
14071526 GATCTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 4 0.13
30 8 0.26
31 6 0.19
32 13 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (30 bp):
ATAAAAATATATATATTAAAATTAAATAAA
Found at i:14072229 original size:25 final size:25
Alignment explanation
Indices: 14072194--14072249 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
14072184 TAAAGCTACC
* *
14072194 AAAAATGTAAATTC-AAAAGCTTTT
1 AAAAATATAAATTCAAAAAACTTTT
14072218 GAAAAATATAAATTCAAAAAACTTTT
1 -AAAAATATAAATTCAAAAAACTTTT
14072244 AAAAAT
1 AAAAAT
14072250 TTTTGGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAAATATAAATTCAAAAAACTTTT
Found at i:14072295 original size:34 final size:34
Alignment explanation
Indices: 14072257--14072324 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
14072247 AATTTTTGGA
14072257 TTAAAAAATTTTGAAAATACAAAT-CCATAAACTT
1 TTAAAAAATTTTGAAAATACAAATACCA-AAACTT
* * *
14072291 TTAAAGACTTTTGAAAATATAAATACCAAAACTT
1 TTAAAAAATTTTGAAAATACAAATACCAAAACTT
14072325 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.32
Consensus pattern (34 bp):
TTAAAAAATTTTGAAAATACAAATACCAAAACTT
Found at i:14073310 original size:6 final size:6
Alignment explanation
Indices: 14073299--14073325 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14073289 TATGGTGTTG
14073299 TTGATT TTGATT TTGATT TTGATT TTG
1 TTGATT TTGATT TTGATT TTGATT TTG
14073326 TTTGATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.67
Consensus pattern (6 bp):
TTGATT
Found at i:14073932 original size:154 final size:154
Alignment explanation
Indices: 14073670--14074000 Score: 477
Period size: 154 Copynumber: 2.1 Consensus size: 154
14073660 CTTGTAGAAC
* * *
14073670 GCTAGCA-TTCTTATTGCAGAAAACAACCTTGTAAACAAAGGTCACATTCCTATTACAAAAAATA
1 GCTAGCATTTC-TATTGCAAAAAACAACCTTGTAAACAAAAGTCACATTCCAATTACAAAAAATA
* * * *
14073734 GCCTTGAAAATAGCTTTTACATAATGTTAGAATTGTAAAAATGACTACATCCATTTATACAATTA
65 GCCTTGAAAATAGCCTTTACATAATATCAGAATTGTAAAAATGACCACATCCATTTATACAATTA
*
14073799 TAATTCAAAATACAACCTACAAAAA
130 TAATCCAAAATACAACCTACAAAAA
* * * * *
14073824 GCTAGCATTTCTATTGTAAAAAATATCCTTGTAAACAAAAGTCACATTCCAATTGCAGAAAATAG
1 GCTAGCATTTCTATTGCAAAAAACAACCTTGTAAACAAAAGTCACATTCCAATTACAAAAAATAG
14073889 CCTTGAAAATAGCCTTTACATAATATCAGAATTGTAAAAATGACCACATCCATTTATACAATTAT
66 CCTTGAAAATAGCCTTTACATAATATCAGAATTGTAAAAATGACCACATCCATTTATACAATTAT
* * * *
14073954 AATCCAAAATACAGCTTGCAGAAA
131 AATCCAAAATACAACCTACAAAAA
14073978 GCTAGCATTGT-TATTGCAAAAAA
1 GCTAGCATT-TCTATTGCAAAAAA
14074001 ACAAAACCCA
Statistics
Matches: 157, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
154 153 0.97
155 4 0.03
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (154 bp):
GCTAGCATTTCTATTGCAAAAAACAACCTTGTAAACAAAAGTCACATTCCAATTACAAAAAATAG
CCTTGAAAATAGCCTTTACATAATATCAGAATTGTAAAAATGACCACATCCATTTATACAATTAT
AATCCAAAATACAACCTACAAAAA
Found at i:14076985 original size:36 final size:36
Alignment explanation
Indices: 14076908--14076991 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
14076898 ACTTCATTAG
* * * *
14076908 CACCAATGCTTTCTTCCAAATTAGTAGTATCATTTC
1 CACCATTGTTTTCTGCCAAATTAGCAGTATCATTTC
14076944 CACCATTGTTTTCTGCCAAATTAGCAGTATCATTTC
1 CACCATTGTTTTCTGCCAAATTAGCAGTATCATTTC
*
14076980 CACCATTATTTT
1 CACCATTGTTTT
14076992 TCATAGTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.40
Consensus pattern (36 bp):
CACCATTGTTTTCTGCCAAATTAGCAGTATCATTTC
Found at i:14078158 original size:20 final size:21
Alignment explanation
Indices: 14078122--14078173 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
14078112 CCTGAAATTA
14078122 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
14078144 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
14078165 AT-AAATATT
1 ATAAAATATT
14078174 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:14078164 original size:21 final size:22
Alignment explanation
Indices: 14078122--14078173 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
14078112 CCTGAAATTA
14078122 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
14078144 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
14078165 AT-AAATATT
1 ATAAAATATT
14078174 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:14079308 original size:6 final size:6
Alignment explanation
Indices: 14079297--14079324 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
14079287 TTATTTCTTC
14079297 TTTAAA TTTAAA TTTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA
14079325 TTAACGTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:14097483 original size:21 final size:21
Alignment explanation
Indices: 14097449--14097492 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14097439 GAACTATAGA
14097449 TTTTATCCAAATAATTTTAATT
1 TTTTATCCAAATAATTTT-ATT
*
14097471 TTTTAT-CAGATAATTTTATT
1 TTTTATCCAAATAATTTTATT
14097491 TT
1 TT
14097493 ATAAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATCCAAATAATTTTATT
Found at i:14099322 original size:16 final size:16
Alignment explanation
Indices: 14099290--14099331 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
14099280 CACATCCAAA
14099290 TTTTA-TTTTTTTCTT
1 TTTTAGTTTTTTTCTT
14099305 TTTTAGTCTTTTTT-TT
1 TTTTAGT-TTTTTTCTT
14099321 TTTTAGTTTTT
1 TTTTAGTTTTT
14099332 CTAAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.36
16 10 0.40
17 6 0.24
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.83
Consensus pattern (16 bp):
TTTTAGTTTTTTTCTT
Found at i:14099895 original size:18 final size:19
Alignment explanation
Indices: 14099874--14099909 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14099864 CTTTTTTTCA
14099874 TTTTTTAT-ATTTTAATTT
1 TTTTTTATCATTTTAATTT
*
14099892 TTTTTTATCTTTTTAATT
1 TTTTTTATCATTTTAATT
14099910 GGATGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTATCATTTTAATTT
Found at i:14103435 original size:13 final size:12
Alignment explanation
Indices: 14103408--14103460 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
14103398 TTTATTTTTT
*
14103408 TAAAAAATATAAA
1 TAAAAAAAAT-AA
*
14103421 TAAATAAAATTAA
1 TAAA-AAAAATAA
14103434 TAACAAAAAATAA
1 TAA-AAAAAATAA
14103447 TAAAAAGAAATAA
1 TAAAAA-AAATAA
14103460 T
1 T
14103461 TTTTGAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.09
13 26 0.76
14 5 0.15
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (12 bp):
TAAAAAAAATAA
Found at i:14105002 original size:16 final size:16
Alignment explanation
Indices: 14104981--14105030 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
14104971 CCTTGTTCTG
14104981 AAAAAACCAAAAAAAAAA
1 AAAAAACC--AAAAAAAA
*
14104999 AAAAAACCAAAAGAAA
1 AAAAAACCAAAAAAAA
*
14105015 CAAAAACCAACAAAAA
1 AAAAAACCAA-AAAAA
14105031 TGAAGAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 16 0.57
17 4 0.14
18 8 0.29
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAACCAAAAAAAA
Found at i:14105004 original size:18 final size:20
Alignment explanation
Indices: 14104981--14105020 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
14104971 CCTTGTTCTG
14104981 AAAAAACCAAAA-AAA-AAA
1 AAAAAACCAAAAGAAACAAA
14104999 AAAAAACCAAAAGAAACAAA
1 AAAAAACCAAAAGAAACAAA
14105019 AA
1 AA
14105021 CCAACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 3 0.15
20 5 0.25
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (20 bp):
AAAAAACCAAAAGAAACAAA
Found at i:14105329 original size:37 final size:34
Alignment explanation
Indices: 14105249--14105329 Score: 90
Period size: 37 Copynumber: 2.3 Consensus size: 34
14105239 TAATAGGATA
*
14105249 ATACATGCATTTCATCTCATCCATATTAATAAAT
1 ATACATGCATTCCATCTCATCCATATTAATAAAT
* * *
14105283 AGTATATGCATTCCATTTCATGCACATGTTAATAAAT
1 A-TACATGCATTCCATCTCAT-C-CATATTAATAAAT
14105320 GATACATGCA
1 -ATACATGCA
14105330 ACCCATGCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
34 1 0.03
35 16 0.42
36 1 0.03
37 19 0.50
38 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (34 bp):
ATACATGCATTCCATCTCATCCATATTAATAAAT
Found at i:14109094 original size:13 final size:13
Alignment explanation
Indices: 14109078--14109122 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
14109068 AAATGCCTTG
14109078 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
*
14109091 AAAAAAAGAATGAA
1 AAAAAAA-AAAGAA
*
14109105 GAAAAAGAAAAGAA
1 -AAAAAAAAAAGAA
14109119 AAAA
1 AAAA
14109123 GAAGTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 11 0.41
14 10 0.37
15 6 0.22
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:14109796 original size:23 final size:23
Alignment explanation
Indices: 14109766--14109839 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
14109756 GGGGGCATGC
*
14109766 AAAAAAAAGTAAAGAAAAAAGAA
1 AAAAAAAAGAAAAGAAAAAAGAA
* *
14109789 AAAAAAAAGAAAAGCAGAAAG--
1 AAAAAAAAGAAAAGAAAAAAGAA
* *
14109810 AGAAAAATGAAAAGAAAAAA-AA
1 AAAAAAAAGAAAAGAAAAAAGAA
*
14109832 TAAAAAAA
1 AAAAAAAA
14109840 TAATCTTTGA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
21 16 0.41
22 5 0.13
23 18 0.46
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.04
Consensus pattern (23 bp):
AAAAAAAAGAAAAGAAAAAAGAA
Found at i:14110383 original size:22 final size:25
Alignment explanation
Indices: 14110333--14110391 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 25
14110323 GAAAGGTGAA
14110333 AAAATGAGAAAATAAGAAAAAGGAAAG
1 AAAATGA-AAAATAAGAAAAAGG-AAG
14110360 AAAATGAAAAA-AA-AAAAAGG-AG
1 AAAATGAAAAATAAGAAAAAGGAAG
14110382 AAAATGAAAA
1 AAAATGAAAA
14110392 GAATAAGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.38
24 7 0.22
25 2 0.06
26 4 0.12
27 7 0.22
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.07
Consensus pattern (25 bp):
AAAATGAAAAATAAGAAAAAGGAAG
Found at i:14111902 original size:176 final size:173
Alignment explanation
Indices: 14111586--14111936 Score: 551
Period size: 176 Copynumber: 2.0 Consensus size: 173
14111576 TGTTTGCTTT
** * *
14111586 CTTTTCACTCTAATCATTTTTTTTGCCTGTTTATTTGTTGATTCTTACTTGATTCATTTTATTTC
1 CTTTTCACTCTAATCATTAGTTTTGCCTGTATATTTGTTGATTCTTACTTGATTCAGTTTATTTC
*
14111651 TTTACATTCATTAGTTTGGATCATTTTCTTAAATAATGTTTTGATTTTCTAAATTTTGCACCTAT
66 TTTACATTCATTAGTTTGGATCATTTTCTTAAATAATGTTTTGATTTTCTAAATTCTGCACCTAT
*
14111716 TTTGAAATTGAGTTTGTTGAGCTGATTTTTTTATTGAATCATG
131 TTTGAAATTGAGTTTGTTGAGCTGATTTCTTTATTGAATCATG
* *
14111759 CTTTTCACTCTAAGTCCTTAGTTTT-CTTGTATATTTGTTGATTCTTACTTGATTCAGTTTATTT
1 CTTTTCACTCTAA-TCATTAGTTTTGCCTGTATATTTGTTGATTCTTACTTGATTCAGTTTATTT
* * * *
14111823 CTTTACATTTTATTACTGTTTGGATCATTTTCTTAGATGATGTTTTGATTTTCTAGATTCTGCAC
65 CTTTACA-TTCATTA--GTTTGGATCATTTTCTTAAATAATGTTTTGATTTTCTAAATTCTGCAC
14111888 CTATTTTGAAATTGAGTTTGTTGAGCTGATTTCTTTATTGAATCATG
127 CTATTTTGAAATTGAGTTTGTTGAGCTGATTTCTTTATTGAATCATG
14111935 CT
1 CT
14111937 ATTTTCTTAT
Statistics
Matches: 162, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
173 56 0.35
174 14 0.09
176 92 0.57
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.54
Consensus pattern (173 bp):
CTTTTCACTCTAATCATTAGTTTTGCCTGTATATTTGTTGATTCTTACTTGATTCAGTTTATTTC
TTTACATTCATTAGTTTGGATCATTTTCTTAAATAATGTTTTGATTTTCTAAATTCTGCACCTAT
TTTGAAATTGAGTTTGTTGAGCTGATTTCTTTATTGAATCATG
Found at i:14113371 original size:11 final size:10
Alignment explanation
Indices: 14113355--14113396 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
14113345 ATGAAGAAGA
14113355 AAAAGAAAAAG
1 AAAA-AAAAAG
14113366 AAAAGAAAAA-
1 AAAA-AAAAAG
*
14113376 ACAAAAAAAG
1 AAAAAAAAAG
14113386 AAAAAAAAAG
1 AAAAAAAAAG
14113396 A
1 A
14113397 TGAATATGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 5 0.18
10 13 0.46
11 10 0.36
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:14115607 original size:45 final size:47
Alignment explanation
Indices: 14115551--14115662 Score: 122
Period size: 46 Copynumber: 2.4 Consensus size: 47
14115541 ATGATCTCTT
* * ** * *
14115551 ATTTCATTTTC-AAAGTTATTAAATC-TTTGTTTAAAGGGGTTTTTAA
1 ATTT-ATTTTCAAAAGTTATTAAAGCTTTTATTTAAAGAAGCTTTAAA
* *
14115597 ATTTATTTTCAAAACTT-TTTAAGCTTTTATTTAAAGAAGCTTTAAA
1 ATTTATTTTCAAAAGTTATTAAAGCTTTTATTTAAAGAAGCTTTAAA
14115643 ATTTATTTTCAAAAGTTATT
1 ATTTATTTTCAAAAGTTATT
14115663 GAGCATTTGC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
45 11 0.20
46 41 0.76
47 2 0.04
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (47 bp):
ATTTATTTTCAAAAGTTATTAAAGCTTTTATTTAAAGAAGCTTTAAA
Found at i:14117933 original size:24 final size:25
Alignment explanation
Indices: 14117906--14117952 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14117896 CTTTGAGAAG
* *
14117906 TTTAGGT-AAAGATTTTTTAAAATT
1 TTTAGGTGAAAAATTTTCTAAAATT
14117930 TTTAGGTGAAAAATTTTCTAAAA
1 TTTAGGTGAAAAATTTTCTAAAA
14117953 ATTGTCAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (25 bp):
TTTAGGTGAAAAATTTTCTAAAATT
Found at i:14118510 original size:3 final size:3
Alignment explanation
Indices: 14118504--14118549 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
14118494 ATTTTTTTAA
14118504 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
14118550 TTTTGAGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14119224 original size:16 final size:15
Alignment explanation
Indices: 14119194--14119232 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
14119184 AGAGAAAGGG
*
14119194 AGAAAAGAA-AATAA
1 AGAAAAAAAGAATAA
14119208 AGAAGAAAAAGAATAA
1 AGAA-AAAAAGAATAA
14119224 AGAAAAAAA
1 AGAAAAAAA
14119233 AAGAAAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (15 bp):
AGAAAAAAAGAATAA
Found at i:14119233 original size:16 final size:16
Alignment explanation
Indices: 14119203--14119233 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14119193 GAGAAAAGAA
*
14119203 AATAAAGAAGAAAAAG
1 AATAAAGAAAAAAAAG
14119219 AATAAAGAAAAAAAA
1 AATAAAGAAAAAAAA
14119234 AGAAAAGTTT
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:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (16 bp):
AATAAAGAAAAAAAAG
Found at i:14119828 original size:17 final size:16
Alignment explanation
Indices: 14119800--14119837 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
14119790 ATTTTTTAAC
14119800 TTAATCATTCATGAATT
1 TTAATCATTCAT-AATT
14119817 TATAAT-ATTCATAATT
1 T-TAATCATTCATAATT
14119833 TTAAT
1 TTAAT
14119838 TAATCGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 5 0.25
17 7 0.35
18 4 0.20
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (16 bp):
TTAATCATTCATAATT
Found at i:14120085 original size:21 final size:21
Alignment explanation
Indices: 14120061--14120101 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
14120051 CTTTATTAGC
14120061 TTTTT-TTCTTTTTTTTACTCA
1 TTTTTATT-TTTTTTTTACTCA
14120082 TTTTTAGTTTTTTTTTTACT
1 TTTTTA-TTTTTTTTTTACT
14120102 TTTTTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTTTTTTTACTCA
Found at i:14120113 original size:13 final size:12
Alignment explanation
Indices: 14120082--14120134 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
14120072 TTTTTACTCA
*
14120082 TTTTTAGTTTTT
1 TTTTTACTTTTT
14120094 TTTTTACTTTTT
1 TTTTTACTTTTT
**
14120106 TCTTTTAC-AATT
1 T-TTTTACTTTTT
*
14120118 TTTTCACTTTTT
1 TTTTTACTTTTT
14120130 TTTTT
1 TTTTT
14120135 TGTTTTTGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
11 5 0.16
12 21 0.66
13 6 0.19
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTACTTTTT
Found at i:14120758 original size:13 final size:13
Alignment explanation
Indices: 14120740--14120771 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14120730 ACAAATCAAT
14120740 TTCAAAATAATTA
1 TTCAAAATAATTA
14120753 TTCAAAATAATTA
1 TTCAAAATAATTA
*
14120766 TACAAA
1 TTCAAA
14120772 CATATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (13 bp):
TTCAAAATAATTA
Found at i:14121969 original size:23 final size:22
Alignment explanation
Indices: 14121941--14121984 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14121931 TTTTATAATC
*
14121941 AAATAACTATTTAATAAATTAAA
1 AAATAAATATTTAAT-AATTAAA
*
14121964 AAATAAATATTTTATAATTAA
1 AAATAAATATTTAATAATTAA
14121985 TATAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATAAATATTTAATAATTAAA
Found at i:14122289 original size:28 final size:29
Alignment explanation
Indices: 14122242--14122311 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
14122232 TTAACATGAA
*
14122242 TAATATGAATATATACGAATAGACACGAT
1 TAATATGAATATACACGAATAGACACGAT
* * *
14122271 TAATATG-ATATACATGAATAGATATGAT
1 TAATATGAATATACACGAATAGACACGAT
*
14122299 TAATATAAATATA
1 TAATATGAATATA
14122312 TATAAGTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 23 0.66
29 12 0.34
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (29 bp):
TAATATGAATATACACGAATAGACACGAT
Found at i:14123153 original size:21 final size:21
Alignment explanation
Indices: 14123102--14123158 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
14123092 ACTCTTGATT
* * *
14123102 TTAATCTCATTGCTATAATAA
1 TTAATCTCACTACCATAATAA
** *
14123123 AAAATTTCACTACCATAATAA
1 TTAATCTCACTACCATAATAA
*
14123144 TTAATCTCACCACCA
1 TTAATCTCACTACCA
14123159 CCATAGTTTT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAATCTCACTACCATAATAA
Found at i:14124377 original size:6 final size:6
Alignment explanation
Indices: 14124361--14124398 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
14124351 CTTTCTTGAC
14124361 AAAAT- AAAATA AAAATA AAAATA AATAA-A AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AA-AATA AAAATA AAA
14124399 CATTTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 7 0.23
6 21 0.70
7 2 0.07
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:14124383 original size:17 final size:18
Alignment explanation
Indices: 14124361--14124398 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
14124351 CTTTCTTGAC
*
14124361 AAAATAAA-ATAAAAATA
1 AAAATAAATAAAAAAATA
14124378 AAAATAAATAAAAAAATA
1 AAAATAAATAAAAAAATA
14124396 AAA
1 AAA
14124399 CATTTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAATAAATAAAAAAATA
Found at i:14125608 original size:27 final size:27
Alignment explanation
Indices: 14125570--14125623 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
14125560 GGTGAATTGG
14125570 ATTGTCACCAAATTCTTTCTAAAAAAC
1 ATTGTCACCAAATTCTTTCTAAAAAAC
14125597 ATTGTCACCAAATTCTTTCTAAAAAAC
1 ATTGTCACCAAATTCTTTCTAAAAAAC
14125624 TAACTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (27 bp):
ATTGTCACCAAATTCTTTCTAAAAAAC
Found at i:14126080 original size:7 final size:7
Alignment explanation
Indices: 14126031--14126081 Score: 52
Period size: 7 Copynumber: 7.1 Consensus size: 7
14126021 ATTTTGCTTT
*
14126031 TATTTTG
1 TATTTTA
14126038 TATTTTA
1 TATTTTA
14126045 TACTTTTTA
1 TA--TTTTA
14126054 TTATTTT-
1 -TATTTTA
14126061 TATTTT-
1 TATTTTA
14126067 TATTTTA
1 TATTTTA
14126074 TATTTTA
1 TATTTTA
14126081 T
1 T
14126082 GTATATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 12 0.31
7 16 0.41
8 4 0.10
9 5 0.13
10 2 0.05
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (7 bp):
TATTTTA
Found at i:14126220 original size:21 final size:21
Alignment explanation
Indices: 14126196--14126316 Score: 77
Period size: 21 Copynumber: 5.5 Consensus size: 21
14126186 TTAATATTTA
14126196 TATATTTTTTATTTATCTAGT
1 TATATTTTTTATTTATCTAGT
* *
14126217 TATA-TATTTATTTAT-TCATT
1 TATATTTTTTATTTATCT-AGT
* * *
14126237 TATATATTATAATTTATCTATTAT
1 TATAT-TTTTTATTTATCTA--GT
*
14126261 TATGATTTTTTTTATTTATCTTGT
1 TAT-A--TTTTTTATTTATCTAGT
*
14126285 AATATTTTTTATTTATCTTA-T
1 TATATTTTTTATTTATC-TAGT
14126306 TATTATTTTTT
1 TA-TATTTTTT
14126317 TCTTCTAATT
Statistics
Matches: 76, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
19 1 0.01
20 16 0.21
21 19 0.25
22 18 0.24
23 2 0.03
24 7 0.09
25 1 0.01
26 11 0.14
27 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
TATATTTTTTATTTATCTAGT
Found at i:14126221 original size:29 final size:28
Alignment explanation
Indices: 14126165--14126228 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
14126155 ATCTTTATTA
*
14126165 TTATTATTTCTTTCTTTTCTGTTAATAT
1 TTATTATTTCTTTATTTTCTGTTAATAT
14126193 TTATATATTT-TTTATTTATCTAGTTATATAT
1 TTAT-TATTTCTTTATTT-TCT-GTTA-ATAT
14126224 TTATT
1 TTATT
14126229 TATTCATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 10 0.32
29 8 0.26
30 5 0.16
31 8 0.26
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.67
Consensus pattern (28 bp):
TTATTATTTCTTTATTTTCTGTTAATAT
Found at i:14126352 original size:9 final size:9
Alignment explanation
Indices: 14126338--14126384 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
14126328 TCTATTAATA
14126338 TATTTTTTT
1 TATTTTTTT
14126347 TATTTTTATT
1 TATTTTT-TT
* *
14126357 TATTTATCT
1 TATTTTTTT
14126366 TATTTTTTT
1 TATTTTTTT
*
14126375 TCTTTTTTT
1 TATTTTTTT
14126384 T
1 T
14126385 TTGGGCTGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (9 bp):
TATTTTTTT
Found at i:14126368 original size:5 final size:4
Alignment explanation
Indices: 14126190--14126370 Score: 61
Period size: 4 Copynumber: 44.2 Consensus size: 4
14126180 TTTCTGTTAA
* * * * *
14126190 TATT TATA TATT T-TT TATT TATC TAGT TATA TATT TATT TATT CATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * * * *
14126237 TATA TATT ATAATT TATC TA-T TATT ATGATTT TTTT TATT TATCT TGTAA
1 TATT TATT -T-ATT TATT TATT TATT -T-A-TT TATT TATT TAT-T TAT-T
* * * *
14126287 TATT T-TT TATT TATCT TA-T TA-T TATT TTTT TCTT CTAAT TATC TATT
1 TATT TATT TATT TAT-T TATT TATT TATT TATT TATT -TATT TATT TATT
* * *
14126334 AATA TATT T-TT T-TT ATTTT TATT TATT TATCT TATT T
1 TATT TATT TATT TATT -TATT TATT TATT TAT-T TATT T
14126371 TTTTTCTTTT
Statistics
Matches: 129, Mismatches: 33, Indels: 30
0.67 0.17 0.16
Matches are distributed among these distances:
3 19 0.15
4 84 0.65
5 19 0.15
6 5 0.04
7 2 0.02
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (4 bp):
TATT
Found at i:14127250 original size:4 final size:4
Alignment explanation
Indices: 14127241--14127330 Score: 51
Period size: 4 Copynumber: 21.5 Consensus size: 4
14127231 ATTTTTATTA
* * * *
14127241 TTAT TTAT TTAT TTAT TTA- TTA- TTAT ATTAGGA TTGT TTA- ATAT TTTT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTA--T TTAT TTAT TTAT TTAT
*
14127289 TCTAT TTTT TTAT TTATT TTATT TTAT TTAT TTATT TTAT TT
1 T-TAT TTAT TTAT TTA-T TTA-T TTAT TTAT TTA-T TTAT TT
14127331 TCTCTAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
3 8 0.12
4 39 0.57
5 19 0.28
6 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:14127257 original size:18 final size:17
Alignment explanation
Indices: 14127234--14127330 Score: 69
Period size: 18 Copynumber: 5.7 Consensus size: 17
14127224 TTATATAATT
14127234 TTTATTATTATTTATTTA
1 TTTATT-TTATTTATTTA
14127252 TTTA-TTTA-TTA-TTA
1 TTTATTTTATTTATTTA
** * *
14127266 TATTAGGATTGTTTA-ATA
1 T-TTA-TTTTATTTATTTA
*
14127284 TTT-TTTCTATTTTTTTA
1 TTTATTT-TATTTATTTA
14127301 TTTATTTTATTTTATTTA
1 TTTATTTTA-TTTATTTA
14127319 TTTATTTTATTT
1 TTTATTTTATTT
14127331 TCTCTAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
14 4 0.06
15 7 0.11
16 7 0.11
17 15 0.24
18 29 0.47
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTATTTTATTTATTTA
Done.