Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 26 of 160
Found at i:6764513 original size:84 final size:80
Alignment explanation
Indices: 6764357--6764579 Score: 209
Period size: 80 Copynumber: 2.7 Consensus size: 80
6764347 TGATATAAAC
* * * * * *
6764357 GCACACAACTACTAAAAATTAAGGTCT-TTTTCAACACAAAAGCATACAATTTTAAAAATTAAAG
1 GCACACAACT-TTAAAAATTAAGGGCTCATTT-AACATAAAGGCACACAATTTTAAAAATTAAAG
6764421 ACTCTTTCAACATGAAGGAAG
64 ACTCTTTC-A-AT--AGGAAG
* * *
6764442 GCACATAACTTTAAAAATTAAGGGCTCCTTTAACATAAAGGCACACGATTTTAAAAATTAAAGGT
1 GCACACAACTTTAAAAATTAAGGGCTCATTTAACATAAAGGCACACAATTTTAAAAATTAAA-G-
*
6764507 A-T-TTTCAATATGAAG
64 ACTCTTTCAATAGGAAG
* * * * * *
6764522 GCACACGACTTTAAAAATTAAAGGCTCATTCAACATGAAGGCACATAACTTTAAAAAT
1 GCACACAACTTTAAAAATTAAGGGCTCATTTAACATAAAGGCACACAATTTTAAAAAT
6764580 ATATGTAATG
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
80 54 0.46
82 2 0.02
83 1 0.01
84 45 0.38
85 14 0.12
86 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (80 bp):
GCACACAACTTTAAAAATTAAGGGCTCATTTAACATAAAGGCACACAATTTTAAAAATTAAAGAC
TCTTTCAATAGGAAG
Found at i:6777377 original size:4 final size:4
Alignment explanation
Indices: 6777368--6777465 Score: 83
Period size: 4 Copynumber: 23.5 Consensus size: 4
6777358 AAAAAAATAA
* * * *
6777368 AAAT AAAT AAAT AAGT AAAT AGGAT AAAT AAGAT AAAAT ACAT ACAT AAAT
1 AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AA-AT -AAAT AAAT AAAT AAAT
*
6777419 ACAAT AAA- AAAT AAA- AACAT GAAAC AAAT AAAT AAAT AAAT AAAT AA
1 A-AAT AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT AAAT AAAT AAAT AA
6777466 TACATAGAAC
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
3 5 0.06
4 57 0.73
5 12 0.15
6 4 0.05
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:6778784 original size:2 final size:2
Alignment explanation
Indices: 6778735--6778769 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6778725 TATGTGTGTG
6778735 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6778770 TACCTCCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6779128 original size:13 final size:13
Alignment explanation
Indices: 6779110--6779158 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
6779100 TAAAAAATTT
6779110 TAAATTTAAAAAA
1 TAAATTTAAAAAA
* **
6779123 TAAATTTATATATC
1 TAAATTTA-AAAAA
6779137 TAAA-TTAAAAAA
1 TAAATTTAAAAAA
6779149 TAAATTTAAA
1 TAAATTTAAA
6779159 TTTATATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
12 6 0.21
13 16 0.57
14 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATTTAAAAAA
Found at i:6779457 original size:87 final size:87
Alignment explanation
Indices: 6779280--6779458 Score: 211
Period size: 86 Copynumber: 2.1 Consensus size: 87
6779270 TATGAATATC
* *
6779280 GGATTATACATGTATTTTTGTGCCAATAAGTAAATAATAAGACAAAGTATGATAAGAATGAAAAA
1 GGATTATACATGTATTTTTATGCCAACAAGTAAATAATAAGACAAAGTATGATAAGAATGAAAAA
* *
6779345 AAAAATAAGAAAAGAAAGGATT
66 AAAAATAAGAAAAGAAAGAAGT
* * * * * *
6779367 GGATTATATATGTA-TTTTATGCCAACAAGTAGATAATAGGATAAAGTATGATAGGTATGAAAAA
1 GGATTATACATGTATTTTTATGCCAACAAGTAAATAATAAGACAAAGTATGATAAGAATGAAAAA
*
6779431 ATAAGAA-AAGAAATGGAAA-AAGT
66 A-AA-AATAAGAAA-AGAAAGAAGT
6779454 GGATT
1 GGATT
6779459 TTAAAATTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
86 44 0.56
87 28 0.36
88 6 0.08
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (87 bp):
GGATTATACATGTATTTTTATGCCAACAAGTAAATAATAAGACAAAGTATGATAAGAATGAAAAA
AAAAATAAGAAAAGAAAGAAGT
Found at i:6781619 original size:3 final size:3
Alignment explanation
Indices: 6781613--6781649 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
6781603 ATAATAATAA
*
6781613 TAT TAT TAT TAAT TAA TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
6781650 ATCATATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6785656 original size:3 final size:3
Alignment explanation
Indices: 6785644--6785672 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6785634 CTATTAAACG
6785644 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6785673 GAGCTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6786988 original size:16 final size:16
Alignment explanation
Indices: 6786967--6786999 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6786957 TGAAAAAGCC
6786967 GTTTATCTGTATATAA
1 GTTTATCTGTATATAA
*
6786983 GTTTATCTGTATTTAA
1 GTTTATCTGTATATAA
6786999 G
1 G
6787000 ATTAAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (16 bp):
GTTTATCTGTATATAA
Found at i:6787835 original size:197 final size:197
Alignment explanation
Indices: 6787469--6787858 Score: 620
Period size: 197 Copynumber: 2.0 Consensus size: 197
6787459 GGGAAAATTG
* *
6787469 CCTTATTTTTAAATTTGACCTAAATAAAAAATTATAAAATAGACGTTAACTTTTTTAAAAGTATG
1 CCTTATTTTCAAATTTGACCTAAATAAAAAATTAAAAAATAGACGTTAACTTTTTTAAAAGTATG
*****
6787534 TCTGGATGTAACTAAAATTCAGTTGTAGGTTTTTATACAGAAAATTTTTTTTATATTACAATTAA
66 TCTGGATGTAACTAAAATTCAGTTGTAGGTTTTTATACAGAAAATAAAAATTATATTACAATTAA
*
6787599 GGCATTTGGTATAAAGAAATATCTTAAATAATCTTTTTTTTTATTTTAATAAATAGATTATTTAT
131 GGCATTTAGTATAAAGAAATATCTTAAATAATCTTTTTTTTTATTTTAATAAATAGATTATTTAT
6787664 TA
196 TA
* * *
6787666 CCTTATTTTCAAATTTGACCTGAATAAAAAATTAAAAAATAGACTTTACCTTTTTTAAAAGTATG
1 CCTTATTTTCAAATTTGACCTAAATAAAAAATTAAAAAATAGACGTTAACTTTTTTAAAAGTATG
* * * *
6787731 TTTGGATGTAACTGAAATTCAGTTGTAGGTTTTTGTATAGAAAA-AAAAATTATATTACAATTAA
66 TCTGGATGTAACTAAAATTCAGTTGTAGGTTTTTATACAGAAAATAAAAATTATATTACAATTAA
* *
6787795 GGCATTTAGTATAGAGAAATGTCTTAAATAATCTTTTTTTTTATTTTAATAAATAGATTATTTA
131 GGCATTTAGTATAAAGAAATATCTTAAATAATCTTTTTTTTTATTTTAATAAATAGATTATTTA
6787859 AGGTATTTCT
Statistics
Matches: 176, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
196 76 0.43
197 100 0.57
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (197 bp):
CCTTATTTTCAAATTTGACCTAAATAAAAAATTAAAAAATAGACGTTAACTTTTTTAAAAGTATG
TCTGGATGTAACTAAAATTCAGTTGTAGGTTTTTATACAGAAAATAAAAATTATATTACAATTAA
GGCATTTAGTATAAAGAAATATCTTAAATAATCTTTTTTTTTATTTTAATAAATAGATTATTTAT
TA
Found at i:6789231 original size:14 final size:13
Alignment explanation
Indices: 6789184--6789246 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
6789174 CATAAATTTT
6789184 TGAAACCCT-AAA
1 TGAAACCCTAAAA
*
6789196 TGAAACCCCAAAA
1 TGAAACCCTAAAA
* *
6789209 TGGAACCTTAAAA
1 TGAAACCCTAAAA
*
6789222 TTGAAA-CCTTAAA
1 -TGAAACCCTAAAA
*
6789235 TGAAAACCTAAA
1 TGAAACCCTAAA
6789247 CTTTAGGTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
12 13 0.32
13 23 0.57
14 4 0.10
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.19
Consensus pattern (13 bp):
TGAAACCCTAAAA
Found at i:6789235 original size:13 final size:12
Alignment explanation
Indices: 6789184--6789246 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
6789174 CATAAATTTT
6789184 TGAAACCCTAAA
1 TGAAACCCTAAA
*
6789196 TGAAACCCCAAAA
1 TGAAA-CCCTAAA
* *
6789209 TGGAACCTTAAAA
1 TGAAACCCT-AAA
*
6789222 TTGAAACCTTAAA
1 -TGAAACCCTAAA
*
6789235 TGAAAACCTAAA
1 TGAAACCCTAAA
6789247 CTTTAGGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 17 0.41
13 16 0.39
14 8 0.20
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.19
Consensus pattern (12 bp):
TGAAACCCTAAA
Found at i:6789932 original size:14 final size:16
Alignment explanation
Indices: 6789908--6789953 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 16
6789898 ATTTTTACAA
*
6789908 TATTTTAAAAAAAT-G
1 TATTTTTAAAAAATAG
6789923 -ATTTTTAAAAAATAG
1 TATTTTTAAAAAATAG
6789938 TATTTCTTAAAAAATA
1 TATTT-TTAAAAAATA
6789954 ACGAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 12 0.44
15 1 0.04
16 4 0.15
17 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (16 bp):
TATTTTTAAAAAATAG
Found at i:6794731 original size:22 final size:20
Alignment explanation
Indices: 6794694--6794734 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
6794684 ACCATTGGTC
6794694 ATTAAATAAAATATAAAATT
1 ATTAAATAAAATATAAAATT
*
6794714 ATTAAATGTAAATAATAAAAT
1 ATTAAAT-AAAAT-ATAAAAT
6794735 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
ATTAAATAAAATATAAAATT
Found at i:6796413 original size:3 final size:3
Alignment explanation
Indices: 6796405--6796432 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6796395 TGGGCTTGAT
6796405 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6796433 GTAAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:6798714 original size:13 final size:13
Alignment explanation
Indices: 6798696--6798726 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6798686 TATATAAAAT
6798696 TATAATAAAATAA
1 TATAATAAAATAA
*
6798709 TATAATAAAATAT
1 TATAATAAAATAA
6798722 TATAA
1 TATAA
6798727 ATAAGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TATAATAAAATAA
Found at i:6799268 original size:11 final size:11
Alignment explanation
Indices: 6799254--6799332 Score: 56
Period size: 11 Copynumber: 7.1 Consensus size: 11
6799244 GTTAAACATG
6799254 ATATAAAAATT
1 ATATAAAAATT
6799265 ATATAAAAA-T
1 ATATAAAAATT
*
6799275 ATA-AAAATAAT
1 ATATAAAA-ATT
*
6799286 ATGATTTAAAATT
1 AT-A-TAAAAATT
*
6799299 TTAATAAAAATT
1 AT-ATAAAAATT
*
6799311 ATATATAAATT
1 ATATAAAAATT
*
6799322 -TATTAAAATT
1 ATATAAAAATT
6799332 A
1 A
6799333 AAAGAAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 4 0.08
10 13 0.25
11 20 0.38
12 9 0.17
13 4 0.08
14 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (11 bp):
ATATAAAAATT
Found at i:6807172 original size:2 final size:2
Alignment explanation
Indices: 6807165--6807192 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6807155 CAGTGTTTAG
6807165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6807193 TTGATATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6807989 original size:5 final size:5
Alignment explanation
Indices: 6807975--6808009 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
6807965 TTAGATGAAG
*
6807975 AAAAT GAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
6808010 TTCAACTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:6818483 original size:16 final size:14
Alignment explanation
Indices: 6818450--6818535 Score: 65
Period size: 14 Copynumber: 6.2 Consensus size: 14
6818440 AACTTTGATA
6818450 TATTAAT-TTAAAT
1 TATTAATATTAAAT
6818463 TATTAATATTATAATT
1 TATTAATATTA-AA-T
6818479 TATTAATA-TAAAT
1 TATTAATATTAAAT
* *
6818492 GA-TAAT-CTAATAT
1 TATTAATATTAA-AT
* *
6818505 TATTAATATGATAT
1 TATTAATATTAAAT
6818519 TATTAATAATT-AAT
1 TATTAAT-ATTAAAT
6818533 TAT
1 TAT
6818536 ATATAATAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
12 7 0.12
13 12 0.21
14 23 0.40
15 7 0.12
16 9 0.16
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:6819361 original size:14 final size:14
Alignment explanation
Indices: 6819342--6819372 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6819332 AGAATGGCAT
*
6819342 GCCCTTTTACTATA
1 GCCCTTTAACTATA
6819356 GCCCTTTAACTATA
1 GCCCTTTAACTATA
6819370 GCC
1 GCC
6819373 AACGAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (14 bp):
GCCCTTTAACTATA
Found at i:6820091 original size:17 final size:17
Alignment explanation
Indices: 6820071--6820109 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6820061 TGTTTTGTTG
6820071 TATTTATAATTTTAT-GT
1 TATTTAT-ATTTTATAGT
*
6820088 TATTTATATTTTTTAGT
1 TATTTATATTTTATAGT
6820105 TATTT
1 TATTT
6820110 TAAATTATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (17 bp):
TATTTATATTTTATAGT
Found at i:6830118 original size:14 final size:13
Alignment explanation
Indices: 6830094--6830133 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
6830084 TATTATTTTT
*
6830094 AATATAAATATAA
1 AATATATATATAA
6830107 AAT-TATATATATA
1 AATATATATATA-A
6830120 AATATATATATAA
1 AATATATATATAA
6830133 A
1 A
6830134 TAATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.29
13 9 0.38
14 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATATATAA
Found at i:6830134 original size:12 final size:12
Alignment explanation
Indices: 6830094--6830135 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
6830084 TATTATTTTT
*
6830094 AATATAAATATAA
1 AATATATATAT-A
6830107 AATTATATATATA
1 AA-TATATATATA
6830120 AATATATATATA
1 AATATATATATA
6830132 AATA
1 AATA
6830136 ATTAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 14 0.52
13 5 0.19
14 8 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATATATA
Found at i:6831680 original size:14 final size:13
Alignment explanation
Indices: 6831655--6831710 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 13
6831645 GAAGACTTGT
*
6831655 TAATTTTTATTTA
1 TAATTATTATTTA
6831668 TATATTATTATTTA
1 TA-ATTATTATTTA
6831682 TAATTATTAAGTTTTA
1 TAATTATT-A--TTTA
6831698 TAATTATTTATTT
1 TAATTA-TTATTT
6831711 TATGATAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
13 8 0.22
14 16 0.43
16 11 0.30
17 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
TAATTATTATTTA
Found at i:6831729 original size:31 final size:31
Alignment explanation
Indices: 6831662--6831729 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
6831652 TGTTAATTTT
*
6831662 TATTTATATATTATTATTTATAATTATTAAG
1 TATTTATATATTATTATTTATAATAATTAAG
*
6831693 T-TTTATA-ATTATTTATTTTATGATAATTAA-
1 TATTTATATATTA-TTA-TTTATAATAATTAAG
6831723 TATTTAT
1 TATTTAT
6831730 TATAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 4 0.12
30 10 0.31
31 18 0.56
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (31 bp):
TATTTATATATTATTATTTATAATAATTAAG
Found at i:6831734 original size:16 final size:15
Alignment explanation
Indices: 6831678--6831734 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
6831668 TATATTATTA
*
6831678 TTTATAATTATTAAGT
1 TTTATAATAATTAA-T
* *
6831694 TTTATAATTATTTAT
1 TTTATAATAATTAAT
*
6831709 TTTATGATAATTAAT
1 TTTATAATAATTAAT
*
6831724 ATTTATTATAA
1 -TTTATAATAA
6831735 AATTTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 13 0.37
16 22 0.63
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TTTATAATAATTAAT
Found at i:6836091 original size:91 final size:91
Alignment explanation
Indices: 6835985--6836165 Score: 256
Period size: 91 Copynumber: 2.0 Consensus size: 91
6835975 ATTCTTATAT
* ** * *
6835985 TTCTTTTTCTAATTATTCAAATTTTCAATTTAAGATAAA-AAATAACGATAAAATAAGCCTTAGT
1 TTCTTTTCCTAATTATTCAAATTTTCAATTTAAGA-AAAGAAATAAAAATAAAATAAGCCTAAGA
*
6836049 AACTAGTGTAAAACATTACCTCAGCTA
65 AACTAGCGTAAAACATTACCTCAGCTA
* * **
6836076 TTCTTTTCCTTATTATTCAAATTTTCAATTTAGGAAAAGAAATAAAAATCGAATAAGCCTAAGAA
1 TTCTTTTCCTAATTATTCAAATTTTCAATTTAAGAAAAGAAATAAAAATAAAATAAGCCTAAGAA
6836141 ACTAGCGTAAAACATTACCTCAGCT
66 ACTAGCGTAAAACATTACCTCAGCT
6836166 CTAGACTGCC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 3 0.04
91 76 0.96
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.34
Consensus pattern (91 bp):
TTCTTTTCCTAATTATTCAAATTTTCAATTTAAGAAAAGAAATAAAAATAAAATAAGCCTAAGAA
ACTAGCGTAAAACATTACCTCAGCTA
Found at i:6837725 original size:422 final size:426
Alignment explanation
Indices: 6836921--6837771 Score: 1592
Period size: 422 Copynumber: 2.0 Consensus size: 426
6836911 TGGAAAGATC
6836921 TACAATTATTAAAAAAATACAGTATTTTCTTTATAATTAGGATAAACAATTATTAGAAAATGTAA
1 TACAATTATTAAAAAAATACAGTATTTTCTTTATAATTAGGATAAACAATTATTAGAAAATGTAA
6836986 ATTTTTAAATCAGTATTAAAAAATATTCTTGATGTTTTTCTAATATCTATTTTTTTAAGTATTTG
66 ATTTTTAAATCAGTATTAAAAAATATTCTTGATG-TTTTCTAATATCTATTTTTTTAAGTATTTG
6837051 ATTATTGAGTATTTACGAAAATTAAATCAATAAATAAAAGAGGTTAGAACACTAATGTATTAATA
130 ATTATTGAGTATTTACGAAAATTAAATCAATAAATAAAAGAGGTTAGAACACTAATGTATTAATA
6837116 TTGGATTACCCGACTAAGCCCAGGCTCACCCTTTTTATTTTTAAAGTCTATAAACAATTTTTTAT
195 TTGGATTACCCGACTAAGCCCAGGCTCACCCTTTTTATTTTTAAAGTCTATAAACAA-TTTTTAT
6837181 TTCCCTATTCTCCATTATTTTTTATTTTTTTATATATTTAATGATCATTTTTCAAAAGCAATAAA
259 TTCCCTATTCTCCATTATTTTTTATTTTTTTATATATTTAATGATCATTTTTCAAAAGCAATAAA
6837246 ATATACTTGAATATATTAAATATCATGATAATAGTAAGATTAAAAAATAAAAAGAAAATATTTAA
324 ATATACTTGAATATATTAAATATCATGATAATAGTAAGATTAAAAAATAAAAAGAAAATATTTAA
6837311 ACAATATTTAGTAGATTTTTTTTATTAGTAAAATTCGA
389 ACAATATTTAGTAGATTTTTTTTATTAGTAAAATTCGA
6837349 TACAATTATTAAAAAAATACAGTATTTTCTTTATAATTAGGATAAACAATTATTAGAAAATGTAA
1 TACAATTATTAAAAAAATACAGTATTTTCTTTATAATTAGGATAAACAATTATTAGAAAATGTAA
6837414 ATTTTTAAATCAGTATT-AAAAATATTCTTGATG-TTTCTAATATCTATTTTTTTAAGTATTTGA
66 ATTTTTAAATCAGTATTAAAAAATATTCTTGATGTTTTCTAATATCTATTTTTTTAAGTATTTGA
6837477 TTATTTGAGTATTTACGAAAATTAAATCAATAAATAAAAGAGGTTAGAACACTAATGTATTAATA
131 TTA-TTGAGTATTTACGAAAATTAAATCAATAAATAAAAGAGGTTAGAACACTAATGTATTAATA
6837542 TTTGGATTACCCGACTAAGCCCAGGCTCACCCTTTTTATTTTT-AAGTCTATAAACAA-TTTTA-
195 -TTGGATTACCCGACTAAGCCCAGGCTCACCCTTTTTATTTTTAAAGTCTATAAACAATTTTTAT
6837604 TT-CCTATTCTCCATTATTTTTTA-TTTTTTATATATTTAATTGGATCATTTTTCAAAAGCAAT-
259 TTCCCTATTCTCCATTATTTTTTATTTTTTTATATATTTAA-T-GATCATTTTTCAAAAGCAATA
6837666 AAATATACTTGAATATATTAAATATCATGATAATAGTAAGATTAAAAAATAAAAAGAAAATATTT
322 AAATATACTTGAATATATTAAATATCATGATAATAGTAAGATTAAAAAATAAAAAGAAAATATTT
6837731 AAACAATATTTAGTAGATTTTTTTTATTAGTAAAATTCGA
387 AAACAATATTTAGTAGATTTTTTTTATTAGTAAAATTCGA
6837771 T
1 T
6837772 GGTAAATAGG
Statistics
Matches: 419, Mismatches: 0, Indels: 14
0.97 0.00 0.03
Matches are distributed among these distances:
421 16 0.04
422 128 0.31
423 22 0.05
424 5 0.01
425 33 0.08
426 75 0.18
427 58 0.14
428 82 0.20
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (426 bp):
TACAATTATTAAAAAAATACAGTATTTTCTTTATAATTAGGATAAACAATTATTAGAAAATGTAA
ATTTTTAAATCAGTATTAAAAAATATTCTTGATGTTTTCTAATATCTATTTTTTTAAGTATTTGA
TTATTGAGTATTTACGAAAATTAAATCAATAAATAAAAGAGGTTAGAACACTAATGTATTAATAT
TGGATTACCCGACTAAGCCCAGGCTCACCCTTTTTATTTTTAAAGTCTATAAACAATTTTTATTT
CCCTATTCTCCATTATTTTTTATTTTTTTATATATTTAATGATCATTTTTCAAAAGCAATAAAAT
ATACTTGAATATATTAAATATCATGATAATAGTAAGATTAAAAAATAAAAAGAAAATATTTAAAC
AATATTTAGTAGATTTTTTTTATTAGTAAAATTCGA
Found at i:6839121 original size:31 final size:31
Alignment explanation
Indices: 6839061--6839123 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
6839051 TTTGTTAATC
*
6839061 TTAAATTGATTTGATTTAATATCATAAATAT
1 TTAAATTGATTTAATTTAATATCATAAATAT
* *
6839092 TTAAATATGATTTAATTTGATATTA-AAATAT
1 TTAAAT-TGATTTAATTTAATATCATAAATAT
6839123 T
1 T
6839124 ATTTTTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (31 bp):
TTAAATTGATTTAATTTAATATCATAAATAT
Found at i:6839201 original size:19 final size:19
Alignment explanation
Indices: 6839179--6839228 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 19
6839169 AATAATAAAA
6839179 TATTTTTAAT-TAAAAATAT
1 TATTTTTAATAT-AAAATAT
6839198 TATTTTTAATAT-AAA-A-
1 TATTTTTAATATAAAATAT
6839214 TATTTTTAATATAAA
1 TATTTTTAATATAAA
6839229 TATAAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.41
17 3 0.10
18 3 0.10
19 10 0.34
20 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTTTTAATATAAAATAT
Found at i:6839747 original size:18 final size:18
Alignment explanation
Indices: 6839726--6839774 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6839716 TTAATAAAAA
6839726 TAAATTTAATTTTA-ATAT
1 TAAATTTAATTTTATAT-T
*
6839744 TAAATTTTAAATTTATATT
1 TAAA-TTTAATTTTATATT
*
6839763 TAAACTTAATTT
1 TAAATTTAATTT
6839775 AAACGTGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.38
19 14 0.54
20 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAATTTAATTTTATATT
Found at i:6839763 original size:13 final size:12
Alignment explanation
Indices: 6839726--6839774 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
6839716 TTAATAAAAA
6839726 TAAATTTAATTT
1 TAAATTTAATTT
*
6839738 TAATATTAAATTT
1 TAA-ATTTAATTT
6839751 TAAATTT-ATATT
1 TAAATTTAAT-TT
*
6839763 TAAACTTAATTT
1 TAAATTTAATTT
6839775 AAACGTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 2 0.06
12 16 0.52
13 13 0.42
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (12 bp):
TAAATTTAATTT
Found at i:6844162 original size:17 final size:18
Alignment explanation
Indices: 6844127--6844164 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6844117 ATTTAGGGTA
6844127 AAAAATAAAAAGAAGATT
1 AAAAATAAAAAGAAGATT
6844145 AAAAATGAAAAA-AA-ATT
1 AAAAAT-AAAAAGAAGATT
6844162 AAA
1 AAA
6844165 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 8 0.42
19 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (18 bp):
AAAAATAAAAAGAAGATT
Found at i:6844721 original size:20 final size:21
Alignment explanation
Indices: 6844696--6844737 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
6844686 TCATTTTTTG
6844696 TATTTA-ATTTTAAA-TTTAAT
1 TATTTATA-TTTAAATTTTAAT
6844716 TATTTATATTTAAATTTTAAT
1 TATTTATATTTAAATTTTAAT
6844737 T
1 T
6844738 TAAACTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTATATTTAAATTTTAAT
Found at i:6851085 original size:22 final size:23
Alignment explanation
Indices: 6851048--6851144 Score: 78
Period size: 22 Copynumber: 4.3 Consensus size: 23
6851038 TTAAATTATC
*
6851048 TTAATAATAATATTATTAAAA-AA
1 TTAATTAT-ATATTATTAAAATAA
6851071 TTAATTATATATTA-TAAAATAA
1 TTAATTATATATTATTAAAATAA
**
6851093 TTAATTA-ATTATTATT-ATTTAA
1 TTAATTATA-TATTATTAAAATAA
* *
6851115 TT-ATTATATATGATAAATAATAA
1 TTAATTATATATTATTAA-AATAA
*
6851138 ATAATTA
1 TTAATTA
6851145 ATCATATATT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
21 15 0.25
22 28 0.47
23 12 0.20
24 4 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
TTAATTATATATTATTAAAATAA
Found at i:6851114 original size:14 final size:14
Alignment explanation
Indices: 6851092--6851121 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6851082 TTATAAAATA
6851092 ATTAATTAATTATT
1 ATTAATTAATTATT
*
6851106 ATTATTTAATTATT
1 ATTAATTAATTATT
6851120 AT
1 AT
6851122 ATATGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTAATTAATTATT
Found at i:6851153 original size:28 final size:27
Alignment explanation
Indices: 6851112--6851164 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
6851102 TATTATTATT
*
6851112 TAATTATTATATATGATAAATAATAAA
1 TAATTATCATATATGATAAATAATAAA
* *
6851139 TAATTAATCATATATTATATATAATA
1 TAATT-ATCATATATGATAAATAATA
6851165 TTACGTGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
TAATTATCATATATGATAAATAATAAA
Found at i:6851218 original size:26 final size:23
Alignment explanation
Indices: 6851188--6851241 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
6851178 TTTAGAAGAT
6851188 ATATAAGATAATAATAAATAATTATA
1 ATATAA-ATAATAA-AAATAATTA-A
*
6851214 ATAT--ATTATAAAAATAATTAA
1 ATATAAATAATAAAAATAATTAA
6851235 ATATAAA
1 ATATAAA
6851242 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 5 0.20
22 9 0.36
23 7 0.28
26 4 0.16
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATAAATAATAAAAATAATTAA
Found at i:6851339 original size:19 final size:19
Alignment explanation
Indices: 6851315--6851396 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 19
6851305 AAGATATTCG
6851315 ATTATTTATTTTATTTAAT
1 ATTATTTATTTTATTTAAT
* * *
6851334 ATTATTCAAATTCATTTAAAAT
1 ATTATT-TATTTTATTT--AAT
6851356 ATTCAAATTTTATTTTATTTAAT
1 ATT---A-TTTATTTTATTTAAT
**
6851379 ATTATTTGCTTTATTTAA
1 ATTATTTATTTTATTTAA
6851397 AATATTAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
19 18 0.38
20 8 0.17
22 6 0.12
23 6 0.12
25 8 0.17
26 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (19 bp):
ATTATTTATTTTATTTAAT
Found at i:6851370 original size:20 final size:21
Alignment explanation
Indices: 6851322--6851370 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
6851312 TCGATTATTT
*
6851322 ATTTTATTTAATATTATTCAA
1 ATTTTATTTAATAATATTCAA
*
6851343 A-TTCATTTAA-AATATTCAA
1 ATTTTATTTAATAATATTCAA
6851362 ATTTTATTT
1 ATTTTATTT
6851371 TATTTAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 9 0.38
20 14 0.58
21 1 0.04
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTATTTAATAATATTCAA
Found at i:6851402 original size:21 final size:20
Alignment explanation
Indices: 6851369--6851408 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
6851359 CAAATTTTAT
6851369 TTTATTTAATATT-ATTTGC
1 TTTATTTAATATTAATTTGC
6851388 TTTATTTAAAATATTAATTTG
1 TTTATTT--AATATTAATTTG
6851409 AAAACAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTATTTAATATTAATTTGC
Found at i:6851465 original size:19 final size:19
Alignment explanation
Indices: 6851438--6851489 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
6851428 ATGATTATTT
* *
6851438 ATTTTTTTATATTATTCAA
1 ATTTATTTAAATTATTCAA
6851457 ATTTATTTAAATTATTCAA
1 ATTTATTTAAATTATTCAA
*
6851476 ATTTGTTTAAATTA
1 ATTTATTTAAATTA
6851490 ATTGGAGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTATTTAAATTATTCAA
Found at i:6853563 original size:14 final size:15
Alignment explanation
Indices: 6853534--6853568 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6853524 ATAAAATAAT
6853534 TAATTTAATAAGTTA
1 TAATTTAATAAGTTA
*
6853549 TAATTT-ATTAGTTA
1 TAATTTAATAAGTTA
6853563 TAATTT
1 TAATTT
6853569 TAAAGATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (15 bp):
TAATTTAATAAGTTA
Found at i:6855945 original size:18 final size:18
Alignment explanation
Indices: 6855922--6856267 Score: 179
Period size: 18 Copynumber: 19.6 Consensus size: 18
6855912 AAATTTACTT
6855922 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
6855940 ATAAATTATATTATA-T-
1 ATAAATAATATTATATTA
*
6855956 -T--A-CA-A-TATATTA
1 ATAAATAATATTATATTA
*
6855968 ATAAATAATATTATATGA
1 ATAAATAATATTATATTA
6855986 ATAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
6856004 ATATAAT-ATATTA-A-TA
1 ATA-AATAATATTATATTA
* *
6856020 A-AAATATTATAATATATTC
1 ATAAATA--ATATTATATTA
*
6856039 ATAAAGAATATTATATTA
1 ATAAATAATATTATATTA
*
6856057 ACAAATAATA-T-TATT-
1 ATAAATAATATTATATTA
6856072 ATAAATAA-A-TATA--A
1 ATAAATAATATTATATTA
6856086 ACT-AAT-ATATTAATATTA
1 A-TAAATAATATT-ATATTA
6856104 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
*
6856122 A-AAATCATATATTAATAAATA
1 ATAAAT-A-ATATT-AT-ATTA
*
6856143 ATACACTATTAACGTAATATATTA
1 ATA-A--A-TAA--TATTATATTA
*
6856167 ATAGATAATATTATATTA
1 ATAAATAATATTATATTA
** *
6856185 ATAAAATAATAAAATAATAA
1 AT-AAATAATATTAT-ATTA
* * *
6856205 ATATTATAATAATATATGA
1 ATA-AATAATATTATATTA
6856224 ATAAATAATATCT-TATTA
1 ATAAATAATAT-TATATTA
6856242 ATAAAT-A-A-TATATTA
1 ATAAATAATATTATATTA
6856257 ATAAATAATAT
1 ATAAATAATAT
6856268 AAAGAATAAT
Statistics
Matches: 254, Mismatches: 28, Indels: 92
0.68 0.07 0.25
Matches are distributed among these distances:
10 4 0.02
11 2 0.01
12 1 0.00
13 3 0.01
14 11 0.04
15 25 0.10
16 13 0.05
17 18 0.07
18 98 0.39
19 34 0.13
20 23 0.09
21 5 0.02
22 1 0.00
23 1 0.00
24 7 0.03
25 4 0.02
26 4 0.02
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:6856037 original size:71 final size:68
Alignment explanation
Indices: 6855952--6856275 Score: 222
Period size: 71 Copynumber: 5.0 Consensus size: 68
6855942 AAATTATATT
* * *
6855952 ATATTACAATATATTAATAAATAATATTATATGAATAAATAATATACTATTAATATAATATATTA
1 ATATTATAATATATTAATAAATAATATTATATTAA-AAATAATATA-TATTAATATAATA-AAT-
6856017 ATAAA-A
62 ATAAACA
* *
6856023 ATATTATAATATATTCATAAAGAATATTATATTAACAAATAATAT-TATT-ATA-AATAAATATA
1 ATATTATAATATATTAATAAATAATATTATATTAA-AAATAATATATATTAATATAATAAATATA
6856085 AACTA
65 AAC-A
* *
6856090 ATA-TATTA-ATATTAATAAATAATATTATATTAAAAAT--CATATATTAATA-AAT--A-AT--
1 ATATTATAATATATTAATAAATAATATTATATTAAAAATAATATATATTAATATAATAAATATAA
6856145 ACA
66 ACA
* * *
6856148 CTATTAACGTAATATATTAATAGATAATATTATATTAATAA-AATA-ATA--AA-ATAATAAATA
1 ATATT-A--TAATATATTAATAAATAATATTATATTAAAAATAATATATATTAATATAATAAATA
6856208 T-----
63 TAAACA
* *
6856209 -TATAATAATATATGAATAAATAATATCT-TATTAATAAAT-A-ATATATTAATA-AAT-AATAT
1 ATATTATAATATATTAATAAATAATAT-TATATTAA-AAATAATATATATTAATATAATAAATAT
*
6856268 AAAGA
64 AAACA
6856273 ATA
1 ATA
6856276 ATAAATAGTT
Statistics
Matches: 206, Mismatches: 19, Indels: 62
0.72 0.07 0.22
Matches are distributed among these distances:
57 26 0.13
58 10 0.05
59 9 0.04
60 10 0.05
61 8 0.04
62 5 0.02
63 34 0.17
64 13 0.06
65 30 0.15
66 6 0.03
67 8 0.04
68 3 0.01
69 4 0.02
71 40 0.19
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (68 bp):
ATATTATAATATATTAATAAATAATATTATATTAAAAATAATATATATTAATATAATAAATATAA
ACA
Found at i:6856043 original size:53 final size:49
Alignment explanation
Indices: 6856027--6856145 Score: 77
Period size: 47 Copynumber: 2.4 Consensus size: 49
6856017 ATAAAAATAT
* * * * *
6856027 TATAATATATTCATAAAGAATATTATATTAACAAATAATATTAT-TATAA
1 TATAATATATTAATAAATAATATTATATGAATAAAGAATATTATAT-TAA
* * *
6856076 -ATAA-ATATAAACT-AAT-ATATTAATATTAATAAATAATATTATATTAAA
1 TATAATATATTAA-TAAATAATATT-ATATGAATAAAGAATATTATATT-AA
* *
6856124 AATCATATATTAATAAATAATA
1 TATAATATATTAATAAATAATA
6856146 CACTATTAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
46 5 0.09
47 27 0.48
48 8 0.14
49 4 0.07
50 9 0.16
51 3 0.05
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (49 bp):
TATAATATATTAATAAATAATATTATATGAATAAAGAATATTATATTAA
Found at i:6856130 original size:89 final size:89
Alignment explanation
Indices: 6855961--6856130 Score: 220
Period size: 89 Copynumber: 1.9 Consensus size: 89
6855951 TATATTACAA
* * * *
6855961 TATATTAATAAATAATATTATATGAATAAATAATATACTATTAATATAATATATTAATAAAAATA
1 TATATTAACAAATAATATTATATAAATAAATAATAAACTAATAATATAATATATTAATAAAAATA
* *
6856026 TTATAATATATTCATAAAGAATAT
66 TTATAATAAAATCATAAAGAATAT
*
6856050 TATATTAACAAATAATATTATTATAAATAAAT-ATAAACTAAT-ATATTA-ATATTAATAAATAA
1 TATATTAACAAATAATATTA-TATAAATAAATAATAAACTAATAATATAATATATTAATAAA-AA
*
6856112 TATTATATTAAAAATCATA
64 TATTATAAT-AAAATCATA
6856131 TATTAATAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
87 11 0.16
88 15 0.21
89 34 0.49
90 10 0.14
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (89 bp):
TATATTAACAAATAATATTATATAAATAAATAATAAACTAATAATATAATATATTAATAAAAATA
TTATAATAAAATCATAAAGAATAT
Found at i:6856186 original size:26 final size:25
Alignment explanation
Indices: 6856157--6856278 Score: 65
Period size: 23 Copynumber: 4.8 Consensus size: 25
6856147 ACTATTAACG
*
6856157 TAATATATTAATAGATAATATTATAT
1 TAATATATAAATA-ATAATATTATAT
*
6856183 TAATAAAATAATAAAATAATAAATATTATAA
1 TAAT---AT-AT-AAATAAT-AATATTATAT
* * *
6856214 TAATATATGAAT-A-AATAATATCT
1 TAATATATAAATAATAATATTATAT
*
6856237 TATTA-ATAAATAAT-ATATTA-AT
1 TAATATATAAATAATAATATTATAT
* *
6856259 AAATAATATAAAGAATAATA
1 TAAT-ATATAAATAATAATA
6856279 AATAGTTTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
22 8 0.11
23 18 0.25
24 8 0.11
25 4 0.06
26 7 0.10
27 2 0.03
28 2 0.03
29 2 0.03
30 4 0.06
31 17 0.24
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (25 bp):
TAATATATAAATAATAATATTATAT
Found at i:6856268 original size:15 final size:15
Alignment explanation
Indices: 6855928--6856268 Score: 184
Period size: 15 Copynumber: 22.6 Consensus size: 15
6855918 ACTTATAAAT
*
6855928 AATATTATATTAATA
1 AATAATATATTAATA
6855943 AAT--TATATT-ATA
1 AATAATATATTAATA
* *
6855955 TTACAATATATTAATA
1 -AATAATATATTAATA
6855971 AATAATATTATATGAATA
1 AATAATA-TAT-T-AATA
* *
6855989 AATAATATACTATTA
1 AATAATATATTAATA
6856004 ATATAATATATTAAT-
1 A-ATAATATATTAATA
6856019 AA-AA-ATATT-AT-
1 AATAATATATTAATA
6856030 AAT-ATAT-TCATAA-A
1 AATAATATAT--TAATA
* *
6856044 GAATATTATATTAACA
1 -AATAATATATTAATA
6856060 AATAATATTATT-ATA
1 AATAATA-TATTAATA
*
6856075 AATAA-ATATAAACTA
1 AATAATATATTAA-TA
*
6856090 ATATATTAATATTAATA
1 A-ATAAT-ATATTAATA
6856107 AATAATATTATATTAA-A
1 AAT-A-A-TATATTAATA
*
6856124 AATCATATATTAATA
1 AATAATATATTAATA
* * *
6856139 AATAATACACTATTA
1 AATAATATATTAATA
*
6856154 ACGTAATATATTAATAGA
1 A-ATAATATATTAAT--A
*
6856172 TAATATTATATTAATAA
1 -AATAATATATTAAT-A
6856189 AATAATA-A--AAT-
1 AATAATATATTAATA
6856200 AATAA-ATATT-AT-
1 AATAATATATTAATA
*
6856212 AATAATATATGAATA
1 AATAATATATTAATA
6856227 AATAATATCTTATTAATA
1 AATAATA---TATTAATA
6856245 AATAATATATTAATA
1 AATAATATATTAATA
6856260 AATAATATA
1 AATAATATA
6856269 AAGAATAATA
Statistics
Matches: 255, Mismatches: 30, Indels: 82
0.69 0.08 0.22
Matches are distributed among these distances:
10 1 0.00
11 12 0.05
12 17 0.07
13 20 0.08
14 14 0.05
15 80 0.31
16 46 0.18
17 13 0.05
18 50 0.20
19 2 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:6856369 original size:16 final size:17
Alignment explanation
Indices: 6856342--6856393 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 17
6856332 TTATTATTAA
6856342 AATA-TAATTAATTTTC
1 AATATTAATTAATTTTC
6856358 AATATTAA-TAATTTT-
1 AATATTAATTAATTTTC
*
6856373 AATAATAATTAA-TTTC
1 AATATTAATTAATTTTC
6856389 AATAT
1 AATAT
6856394 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 10 0.32
16 18 0.58
17 3 0.10
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATTAATTAATTTTC
Found at i:6856392 original size:25 final size:26
Alignment explanation
Indices: 6856363--6856427 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 26
6856353 TTTTCAATAT
*
6856363 TAATAATTTTAATAAT-AATTAATT-
1 TAATAATTTTAATAATAAATAAATTG
6856387 TCAATATATTTTAATAATAAATAAATTG
1 T-AATA-ATTTTAATAATAAATAAATTG
6856415 TAAT-ATTTTAATA
1 TAATAATTTTAATA
6856428 GTTATATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 1 0.03
25 13 0.36
26 11 0.31
27 10 0.28
28 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TAATAATTTTAATAATAAATAAATTG
Found at i:6857383 original size:15 final size:16
Alignment explanation
Indices: 6857363--6857392 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6857353 TTAGTTTGAA
6857363 AATATAAAA-AATTAT
1 AATATAAAATAATTAT
6857378 AATATAAAATAATTA
1 AATATAAAATAATTA
6857393 CAATTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:6863129 original size:2 final size:2
Alignment explanation
Indices: 6863122--6863152 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6863112 AGGCTTCAGA
6863122 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6863153 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6863157 original size:2 final size:2
Alignment explanation
Indices: 6863152--6863187 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6863142 ATATATATAT
6863152 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6863188 AATCAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6865787 original size:2 final size:2
Alignment explanation
Indices: 6865780--6865815 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6865770 CAACATAGAA
* *
6865780 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6865816 CTCAATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6870856 original size:20 final size:20
Alignment explanation
Indices: 6870820--6870858 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6870810 GTTTACTATG
*
6870820 TATTTTATGATTAGTTTTGT
1 TATTTTATAATTAGTTTTGT
6870840 TATTTTATTAATT-GTTTTG
1 TATTTTA-TAATTAGTTTTG
6870859 ACTTGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (20 bp):
TATTTTATAATTAGTTTTGT
Found at i:6875419 original size:51 final size:50
Alignment explanation
Indices: 6875358--6875461 Score: 145
Period size: 51 Copynumber: 2.1 Consensus size: 50
6875348 ATTTTCAAAT
* * * * *
6875358 ATTTAATAACAAAAGTGTTATTTGATATAAAAATAATTTTATTAATTTTTA
1 ATTTAATAACAAAAATATTATTTGATAT-AAAATAATTTAAATAATTTCTA
*
6875409 ATTTATTAACAAAAATATTATTTGATATAAAATAATTTAAATAATTTCTA
1 ATTTAATAACAAAAATATTATTTGATATAAAATAATTTAAATAATTTCTA
6875459 ATT
1 ATT
6875462 ATTTATTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 22 0.47
51 25 0.53
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (50 bp):
ATTTAATAACAAAAATATTATTTGATATAAAATAATTTAAATAATTTCTA
Found at i:6881946 original size:25 final size:24
Alignment explanation
Indices: 6881894--6881946 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6881884 TGAGTTTGAG
6881894 TATA-AATAATCAAAATTTTGTTA
1 TATATAATAATCAAAATTTTGTTA
* * *
6881917 AATATAATAATTAAAATTATTTTTA
1 TATATAATAATCAAAATT-TTGTTA
6881942 TATAT
1 TATAT
6881947 TAATCGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 3 0.12
24 12 0.50
25 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
TATATAATAATCAAAATTTTGTTA
Found at i:6882587 original size:2 final size:2
Alignment explanation
Indices: 6882580--6882606 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6882570 ACATACATAC
6882580 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6882607 CATCCTAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6883180 original size:12 final size:12
Alignment explanation
Indices: 6883150--6883186 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
6883140 ATTTTATTTG
*
6883150 TATTTATTTTTT
1 TATTTAATTTTT
6883162 TAGTTTAATTTTT
1 TA-TTTAATTTTT
6883175 TATTTAATTTTT
1 TATTTAATTTTT
6883187 GTTTTTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TATTTAATTTTT
Found at i:6883251 original size:15 final size:15
Alignment explanation
Indices: 6883223--6883258 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
6883213 CAATTGGTAC
6883223 AAAAATAAAAAAAGA
1 AAAAATAAAAAAAGA
6883238 TAAAAAT-AAAAAAGA
1 -AAAAATAAAAAAAGA
6883253 AAAAAT
1 AAAAAT
6883259 GTGAGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 8 0.40
16 6 0.30
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAAAAGA
Found at i:6883881 original size:20 final size:20
Alignment explanation
Indices: 6883809--6883889 Score: 90
Period size: 20 Copynumber: 4.0 Consensus size: 20
6883799 TTTTGCATGA
* *
6883809 ATTTGCATGACTATTAATAT
1 ATTTGCATGATTATTAATTT
* *
6883829 GTTTGCATGATTATTGATTT
1 ATTTGCATGATTATTAATTT
* * *
6883849 ATCTACATAATTATTAATTT
1 ATTTGCATGATTATTAATTT
*
6883869 ATTTGCATGATTATCAATTT
1 ATTTGCATGATTATTAATTT
6883889 A
1 A
6883890 GTTATTTGCG
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (20 bp):
ATTTGCATGATTATTAATTT
Found at i:6883925 original size:20 final size:20
Alignment explanation
Indices: 6883902--6883966 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
6883892 TATTTGCGTG
6883902 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
6883922 ATTG--T-A-TAT-TA-CT-
1 ATTGCATGATTATATATTTA
6883935 -TTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
6883954 ATTGCATGTTTAT
1 ATTGCATGATTAT
6883967 TTGTATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 16
0.64 0.06 0.30
Matches are distributed among these distances:
12 3 0.09
14 2 0.06
15 3 0.09
16 6 0.18
17 3 0.09
18 2 0.06
20 15 0.44
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:6884347 original size:18 final size:18
Alignment explanation
Indices: 6884275--6884387 Score: 92
Period size: 18 Copynumber: 6.2 Consensus size: 18
6884265 CATGAATGGT
*
6884275 TATTGATATATTTGCATGG
1 TATT-ATATATTTGCATGA
*
6884294 TATTTTATATTAATGCAT--
1 TATTATATATT--TGCATGA
*
6884312 TATAATATATTTGCATGA
1 TATTATATATTTGCATGA
*
6884330 TATTATATATTTACATGA
1 TATTATATATTTGCATGA
*
6884348 TTGTTAT-TA-TTGCATGA
1 -TATTATATATTTGCATGA
6884365 TAATTA-ATATATTGCATGA
1 T-ATTATATAT-TTGCATGA
6884384 TATT
1 TATT
6884388 CTTGCATGAA
Statistics
Matches: 77, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
16 6 0.08
17 12 0.16
18 36 0.47
19 18 0.23
20 5 0.06
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.50
Consensus pattern (18 bp):
TATTATATATTTGCATGA
Found at i:6884394 original size:13 final size:12
Alignment explanation
Indices: 6884371--6884426 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
6884361 ATGATAATTA
*
6884371 ATATATTGCATG
1 ATATTTTGCATG
6884383 ATATTCTTGCATG
1 ATATT-TTGCATG
6884396 AATATTTTAGCATG
1 -ATATTTT-GCATG
**
6884410 AT-TTAGGCATG
1 ATATTTTGCATG
6884421 ATATTT
1 ATATTT
6884427 GGTATGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
11 7 0.19
12 8 0.22
13 11 0.31
14 10 0.28
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (12 bp):
ATATTTTGCATG
Found at i:6890280 original size:11 final size:11
Alignment explanation
Indices: 6890264--6890323 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 11
6890254 CATAATATGC
6890264 AAAAAAGAAAA
1 AAAAAAGAAAA
6890275 AAAAAAGCAAAA
1 AAAAAAG-AAAA
6890287 CAAAAATA-AAACA
1 -AAAAA-AGAAA-A
6890300 AAGAAAAGGAAAA
1 AA-AAAA-GAAAA
*
6890313 AAAAAGGAAAA
1 AAAAAAGAAAA
6890324 CTTAAATTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
11 12 0.29
12 13 0.32
13 12 0.29
14 4 0.10
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:6891790 original size:42 final size:43
Alignment explanation
Indices: 6891715--6892296 Score: 512
Period size: 42 Copynumber: 13.6 Consensus size: 43
6891705 AGAATGATCT
* * * *
6891715 CATTTTATTTTTCAAAAATTTTAAAGCCTCAATTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
* * * * *
6891758 TATTTTATTTTTC-AAAGTTTTAAAGCTTCAATTGTAGAGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
*
6891800 CATTTTTTATTTTCAAAAG-TTCTAAAGCTTCAGTTGT-GGGGAG
1 CATTTTAT-TTTTCAAAAGTTTC-AAAGCTTCAGTTGTGGGGGAG
* * **
6891843 CATTTTATTTTTCAATAG-TTCAAAAGCCTCAGTTGTGGCAGAG
1 CATTTTATTTTTCAAAAGTTTC-AAAGCTTCAGTTGTGGGGGAG
* *
6891886 CATTTTA-TTTTCAAAAGTTCCAAAGCTTCAAAGCTTCAATTGTGGGGGCG
1 CATTTTATTTTTCAAAAG-T-------TTCAAAGCTTCAGTTGTGGGGGAG
* * * *
6891936 TATTTTATTTTTTAAAAGTTTCAAATCTTCAGTTAT-GGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
*
6891978 CATTTTA-TTTTCAAAAGTTTCAAAGCTTCAATTGTGGGGGCA-
1 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGG-AG
* * * *
6892020 TATTTTATTTTTTAAAAGTTTCAAATCTTCAGTCGT-GGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
* * *
6892062 CATTTTA-TTTTCAAAAGTTTTAAAGCCTCAGTTGTGAGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
* * *
6892104 CATTTTATTTTTCAAAAG-TTCAAAAACCTT-AGTTGAGGGGAAG
1 CATTTTATTTTTCAAAAGTTTC--AAAGCTTCAGTTGTGGGGGAG
* * * *
6892147 CATTTTA-TTTTCAAAAGTTTCAAAACTTTACTTGTGAGGG-G
1 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
* * * * * *
6892188 CATTTTATTTTTTAAAAGTCTCAAATCCTCAATTGT-AGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
* * *
6892230 CATTTTATCTTTTC-AAAGTTTCAAAGTTTTAGTTGTGGGAGAG
1 CATTTTAT-TTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
*
6892273 CATTTTATTTTCCAAAAGTTTCAA
1 CATTTTATTTTTCAAAAGTTTCAA
6892297 CGCCTCTGTC
Statistics
Matches: 438, Mismatches: 72, Indels: 58
0.77 0.13 0.10
Matches are distributed among these distances:
41 66 0.15
42 178 0.41
43 137 0.31
44 22 0.05
50 23 0.05
51 12 0.03
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGGGGAG
Found at i:6891929 original size:50 final size:48
Alignment explanation
Indices: 6891852--6892008 Score: 141
Period size: 51 Copynumber: 3.3 Consensus size: 48
6891842 GCATTTTATT
* *
6891852 TTTCAATAG-TTCAAAAGCCTCAGTTGTGGCAGAGCATTTTATTTTCAAAAG
1 TTTCAA-AGCTTC-AAAGCTTCAATTGTGG--GAGCATTTTATTTTCAAAAG
* * *
6891903 TTCCAAAGCTTCAAAGCTTCAATTGTGGGGGCGTATTTTATTTTTTAAAAG
1 TTTCAAAGCTTCAAAGCTTCAATTGTGGGAGC--ATTTTA-TTTTCAAAAG
*
6891954 TTTCAAATCTTC--AG-TT--A-TG-GGGAGCATTTTATTTTCAAAAG
1 TTTCAAAGCTTCAAAGCTTCAATTGTGGGAGCATTTTATTTTCAAAAG
6891995 TTTCAAAGCTTCAA
1 TTTCAAAGCTTCAA
6892009 TTGTGGGGGC
Statistics
Matches: 90, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
41 20 0.22
42 6 0.07
44 5 0.06
45 2 0.02
46 1 0.01
48 5 0.06
49 2 0.02
50 22 0.24
51 27 0.30
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (48 bp):
TTTCAAAGCTTCAAAGCTTCAATTGTGGGAGCATTTTATTTTCAAAAG
Found at i:6893254 original size:20 final size:20
Alignment explanation
Indices: 6893210--6893293 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
6893200 TTTTGCATGA
*
6893210 ATTTGCATGACTATTAATAT
1 ATTTGCATGACTATTAATTT
* * *
6893230 GTTTGCGTGATTATTAATTT
1 ATTTGCATGACTATTAATTT
* * *
6893250 ATTTGTATGATTAGTAATTT
1 ATTTGCATGACTATTAATTT
*
6893270 ATTTGCATGACTATCAATTT
1 ATTTGCATGACTATTAATTT
6893290 ATTT
1 ATTT
6893294 ATTTGTGTGA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (20 bp):
ATTTGCATGACTATTAATTT
Found at i:6893353 original size:20 final size:20
Alignment explanation
Indices: 6893237--6893354 Score: 57
Period size: 20 Copynumber: 5.7 Consensus size: 20
6893227 TATGTTTGCG
6893237 TGATTAT-TAATTTATTTGTA
1 TGATTATAT-ATTTATTTGTA
*
6893257 TGATTAGTA-ATTTATTTGCA
1 TGATTA-TATATTTATTTGTA
* *
6893277 TGACTATCAATTTATTTATTTGTG
1 TGA-T-T--ATATATTTATTTGTA
**
6893301 TGATTGCATGATTATATATT-TA
1 TGATTATAT-ATT-TAT-TTGTA
* *
6893323 --ATTGTACATTTATTTGTA
1 TGATTATATATTTATTTGTA
6893341 TGATTATATATTTA
1 TGATTATATATTTA
6893355 ATTGCATATT
Statistics
Matches: 73, Mismatches: 12, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
17 2 0.03
18 5 0.07
19 3 0.04
20 35 0.48
21 5 0.07
22 6 0.08
23 4 0.05
24 13 0.18
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (20 bp):
TGATTATATATTTATTTGTA
Found at i:6893389 original size:32 final size:32
Alignment explanation
Indices: 6893304--6893377 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
6893294 ATTTGTGTGA
*
6893304 TTGCATGATTATATATTTAATTGTACATTTAT
1 TTGCATGATTATATATTTAATTGCACATTTAT
* *
6893336 TTGTATGATTATATATTTAATTGCATATTTAT
1 TTGCATGATTATATATTTAATTGCACATTTAT
6893368 TTGCATGATT
1 TTGCATGATT
6893378 TACATTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (32 bp):
TTGCATGATTATATATTTAATTGCACATTTAT
Found at i:6893400 original size:32 final size:32
Alignment explanation
Indices: 6893304--6893393 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 32
6893294 ATTTGTGTGA
* ** *
6893304 TTGCATGATTATATATTTAATTGTACATTTAT
1 TTGCATGATTATACATTTAATTACATATTTAT
* * *
6893336 TTGTATGATTATATATTTAATTGCATATTTAT
1 TTGCATGATTATACATTTAATTACATATTTAT
6893368 TTGCATGATT-TACATTATAATTACAT
1 TTGCATGATTATACATT-TAATTACAT
6893394 GATTATTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
31 5 0.10
32 46 0.90
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (32 bp):
TTGCATGATTATACATTTAATTACATATTTAT
Found at i:6893464 original size:3 final size:3
Alignment explanation
Indices: 6893456--6893482 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6893446 GTATAGTTAT
6893456 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
6893483 CATAAGTTTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6893708 original size:16 final size:17
Alignment explanation
Indices: 6893670--6893726 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 17
6893660 AAATAGTTAT
* *
6893670 TTATATTATTGCATTATA
1 TTATATT-TTACATGATA
*
6893688 ATATATTTT-CATGATA
1 TTATATTTTACATGATA
6893704 TTATATATTTACATGATTA
1 TTATAT-TTTACATGA-TA
6893723 TTAT
1 TTAT
6893727 TATTGTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 11 0.33
17 5 0.15
18 11 0.33
19 6 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (17 bp):
TTATATTTTACATGATA
Found at i:6893723 original size:37 final size:37
Alignment explanation
Indices: 6893682--6893756 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
6893672 ATATTATTGC
*
6893682 ATTATAATATATTTTCATGAT-ATT-ATATATTTACATG
1 ATTATAAT-TATTGT-ATGATAATTAATATATTTACATG
* *
6893719 ATTATTATTATTGTATGATAATTAATATATTTGCATG
1 ATTATAATTATTGTATGATAATTAATATATTTACATG
6893756 A
1 A
6893757 CATTTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 5 0.15
36 8 0.24
37 20 0.61
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (37 bp):
ATTATAATTATTGTATGATAATTAATATATTTACATG
Found at i:6893756 original size:20 final size:18
Alignment explanation
Indices: 6893688--6893756 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
6893678 TTGCATTATA
*
6893688 ATATATTTTCATGATATT
1 ATATATTTGCATGATATT
*
6893706 ATATATTTACATGATTATT
1 ATATATTTGCATGA-TATT
*
6893725 AT-TA-TTGTATGATAATT
1 ATATATTTGCATGAT-ATT
6893742 AATATATTTGCATGA
1 -ATATATTTGCATGA
6893757 CATTTTTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.02
17 9 0.21
18 17 0.40
19 8 0.19
20 7 0.17
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (18 bp):
ATATATTTGCATGATATT
Found at i:6898651 original size:35 final size:35
Alignment explanation
Indices: 6898605--6898678 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
6898595 GAAAACAACA
* *
6898605 AAAAAGTAAAGATTTATTTGGTTTCAGGAAAGATG
1 AAAAAGCAAAGATATATTTGGTTTCAGGAAAGATG
* *
6898640 AAAAAGCAAAGATATATTTGGTTTTAGGGAAGATG
1 AAAAAGCAAAGATATATTTGGTTTCAGGAAAGATG
6898675 AAAA
1 AAAA
6898679 GAACGCTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (35 bp):
AAAAAGCAAAGATATATTTGGTTTCAGGAAAGATG
Found at i:6929328 original size:6 final size:6
Alignment explanation
Indices: 6929317--6929349 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6929307 ACATCAAGTA
6929317 TGTGTT TGTGTT TGTG-- TGTGTT TGTGTT TGTGT
1 TGTGTT TGTGTT TGTGTT TGTGTT TGTGTT TGTGT
6929350 GTGGTTGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (6 bp):
TGTGTT
Found at i:6929338 original size:16 final size:16
Alignment explanation
Indices: 6929317--6929358 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
6929307 ACATCAAGTA
6929317 TGTGTTTGTGTTTGTG
1 TGTGTTTGTGTTTGTG
6929333 TGTGTTTGTGTTTGTG
1 TGTGTTTGTGTTTGTG
*
6929349 TGTGGTTGTG
1 TGTGTTTGTG
6929359 GAAGTGGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (16 bp):
TGTGTTTGTGTTTGTG
Found at i:6946828 original size:17 final size:18
Alignment explanation
Indices: 6946794--6946838 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
6946784 TTTTTTTCTC
*
6946794 TTTTTTCTTT-CTTATTT
1 TTTTTTCTTTCCCTATTT
6946811 TTTTTTCTTTCCCT-TTT
1 TTTTTTCTTTCCCTATTT
*
6946828 TTTTTCCTTTC
1 TTTTTTCTTTC
6946839 GCCCGTTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTCCCTATTT
Found at i:6947934 original size:26 final size:26
Alignment explanation
Indices: 6947896--6947950 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
6947886 TTATTATCCA
* * *
6947896 TTTTTGTTGTTTTGTCTTTTTTCATT
1 TTTTTGTTATTTTGTCATTTTTCACT
* *
6947922 TTTTTTTTATTTTGTGATTTTTCACT
1 TTTTTGTTATTTTGTCATTTTTCACT
6947948 TTT
1 TTT
6947951 GAATTAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.76
Consensus pattern (26 bp):
TTTTTGTTATTTTGTCATTTTTCACT
Found at i:6948382 original size:14 final size:13
Alignment explanation
Indices: 6948363--6948399 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
6948353 AGTTTTTTTC
6948363 TTTATTTTTAGTTT
1 TTTATTTTTA-TTT
6948377 TTTATTTTTATTT
1 TTTATTTTTATTT
6948390 TTTGATTTTT
1 TTT-ATTTTT
6948400 TTATCTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:6948386 original size:20 final size:19
Alignment explanation
Indices: 6948353--6948401 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6948343 AATTTTTAAA
6948353 AGTTTTTTTCTTTATTTTT
1 AGTTTTTTTCTTTATTTTT
*
6948372 AGTTTTTTATTTTTATTTTT
1 AGTTTTTT-TCTTTATTTTT
*
6948392 TGATTTTTTT
1 AG-TTTTTTT
6948402 ATCTTGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 12 0.46
21 6 0.23
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (19 bp):
AGTTTTTTTCTTTATTTTT
Found at i:6948392 original size:22 final size:22
Alignment explanation
Indices: 6948367--6948423 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
6948357 TTTTTCTTTA
* * *
6948367 TTTTTAGTTTTTTATTTTTATT
1 TTTTTAATTTTTTATCTTGATT
* *
6948389 TTTTGATTTTTTTATCTTGATT
1 TTTTTAATTTTTTATCTTGATT
6948411 TTTTTAATTTTTT
1 TTTTTAATTTTTT
6948424 TAATTAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTTTAATTTTTTATCTTGATT
Found at i:6948400 original size:23 final size:22
Alignment explanation
Indices: 6948374--6948425 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
6948364 TTATTTTTAG
* *
6948374 TTTTTTATTTTTATTTTTTGAT
1 TTTTTTATCTTGATTTTTTGAT
*
6948396 TTTTTTATCTTGATTTTTTTAAT
1 TTTTTTATCTTGA-TTTTTTGAT
6948419 TTTTTTA
1 TTTTTTA
6948426 ATTAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (22 bp):
TTTTTTATCTTGATTTTTTGAT
Found at i:6948720 original size:22 final size:22
Alignment explanation
Indices: 6948671--6948730 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
6948661 ATGTTTTGCT
**
6948671 TAGAGGTCTTAGAAATTATGTT
1 TAGAGGTCTTAGAAATTATGCC
*
6948693 TGGAGGTCTTA-AAGATTATGCC
1 TAGAGGTCTTAGAA-ATTATGCC
* *
6948715 TAGAGGTTTTGGAAAT
1 TAGAGGTCTTAGAAAT
6948731 CTTGACATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 2 0.07
22 26 0.87
23 2 0.07
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (22 bp):
TAGAGGTCTTAGAAATTATGCC
Found at i:6949198 original size:40 final size:39
Alignment explanation
Indices: 6949060--6949372 Score: 184
Period size: 40 Copynumber: 7.7 Consensus size: 39
6949050 CTCGAAGGTA
* *
6949060 TTGGAAATCATGT-AAAAATTTGAGGTTTTGCCC-GAATGTC
1 TTGGAAATCAT-TCAAAAATTTAAGATTTT-CCCTGAA-GTC
* * * * *
6949100 TTTGAAAATCTTTCAAAAATTTAAAATTTTCCCCGGAGATC
1 -TTGGAAATCATTCAAAAATTTAAGATTTTCCCTGAAG-TC
* **
6949141 TTTGATGTCATTCAAAAATTTAAGATTTTACCCTGAAGTC
1 TTGGAAATCATTCAAAAATTTAAGATTTT-CCCTGAAGTC
* * * * *
6949181 TTGGAAATCATGTAAAAAATCTAAGGTTTTGCCTGGAGGTC
1 TTGGAAATCAT-TCAAAAATTTAAGATTTTCCCT-GAAGTC
* * * *
6949222 TTTGAAAATCATTC-AAAATTTAAAATTTTGCTTGAAGGTC
1 -TTGGAAATCATTCAAAAATTTAAGATTTTCCCTGAA-GTC
* * * * * *
6949262 TTAGAGATCATTCAAAGATTTAAGGTTTTGCCAGAAGATC
1 TTGGAAATCATTCAAAAATTTAAGATTTTCCCTGAAG-TC
* * * * *
6949302 TTGGAAATCATGTAAAAAATATGAGGTTTT-GCTCGAAGGTC
1 TTGGAAATCAT-TCAAAAATTTAAGATTTTCCCT-GAA-GTC
*
6949343 TTTGGAAATCATTCAAAAATTTAAAATTTT
1 -TTGGAAATCATTCAAAAATTTAAGATTTT
6949373 GCTGGAGTTC
Statistics
Matches: 208, Mismatches: 50, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
39 13 0.06
40 88 0.42
41 85 0.41
42 22 0.11
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (39 bp):
TTGGAAATCATTCAAAAATTTAAGATTTTCCCTGAAGTC
Found at i:6949274 original size:121 final size:122
Alignment explanation
Indices: 6949060--6949375 Score: 408
Period size: 121 Copynumber: 2.6 Consensus size: 122
6949050 CTCGAAGGTA
* * * *
6949060 TTGGAAATCATGT-AAAAATTTGAGGTTTTGCCCGAATGTCTTTGAAAATCTTTCAAAAATTTAA
1 TTGGAAATCATGTAAAAAATATGAGGTTTTGCCTGAAGGTCTTTGAAAATCATTCAAAAATTTAA
* * * * *
6949124 AATTTTCCCCGGAGATCTTTGATGTCATTCAAAAATTTAAGATTTTACCCTGAAG-TC
66 AATTTTGCTCGAAGATCTTAGATGTCATTCAAAAATTTAAGATTTT-CCCAGAAGATC
* * *
6949181 TTGGAAATCATGTAAAAAATCTAAGGTTTTGCCTGGAGGTCTTTGAAAATCATTC-AAAATTTAA
1 TTGGAAATCATGTAAAAAATATGAGGTTTTGCCTGAAGGTCTTTGAAAATCATTCAAAAATTTAA
* * * * *
6949245 AATTTTGCTTGAAGGTCTTAGA-GATCATTCAAAGATTTAAGGTTTTGCCAGAAGATC
66 AATTTTGCTCGAAGATCTTAGATG-TCATTCAAAAATTTAAGATTTTCCCAGAAGATC
*
6949302 TTGGAAATCATGTAAAAAATATGAGGTTTTG-CTCGAAGGTCTTTGGAAATCATTCAAAAATTTA
1 TTGGAAATCATGTAAAAAATATGAGGTTTTGCCT-GAAGGTCTTTGAAAATCATTCAAAAATTTA
6949366 AAATTTTGCT
65 AAATTTTGCT
6949376 GGAGTTCTTG
Statistics
Matches: 170, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
120 9 0.05
121 108 0.64
122 53 0.31
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (122 bp):
TTGGAAATCATGTAAAAAATATGAGGTTTTGCCTGAAGGTCTTTGAAAATCATTCAAAAATTTAA
AATTTTGCTCGAAGATCTTAGATGTCATTCAAAAATTTAAGATTTTCCCAGAAGATC
Found at i:6949385 original size:81 final size:79
Alignment explanation
Indices: 6949060--6949393 Score: 267
Period size: 81 Copynumber: 4.1 Consensus size: 79
6949050 CTCGAAGGTA
* * * * *
6949060 TTGGAAATCATGTAAAAATTTGAGGTTTTGCCCGAATGTCTTTGAAAATCTTTCAAAAATTTAAA
1 TTGGAAATCAT-TAAAAATTTAAGATTTTGCCCGAAGGTC-TTGGAAATCATTCAAAAATTTAAA
* *
6949125 ATTTTCCCCGGAGATC
64 ATTTTGCCTGGAGATC
* ** * * *
6949141 TTTGATGTCATTCAAAAATTTAAGATTTTACCCTGAA-GTCTTGGAAATCATGTAAAAAATCTAA
1 TTGGAAATCATT-AAAAATTTAAGATTTTGCCC-GAAGGTCTTGGAAATCAT-TCAAAAATTTAA
** *
6949205 GGTTTTGCCTGGAGGTC
63 AATTTTGCCTGGAGATC
* * * ** * * * **
6949222 TTTGAAAATCATTCAAAATTTAAAATTTTGCTTGAAGGTCTTAGAGATCATTCAAAGATTTAAGG
1 -TTGGAAATCATTAAAAATTTAAGATTTTGCCCGAAGGTCTTGGAAATCATTCAAAAATTTAAAA
* *
6949287 TTTTGCCAGAAGATC
65 TTTTGCCTGGAGATC
* * * *
6949302 TTGGAAATCATGTAAAAAATATGAGGTTTTGCTCGAAGGTCTTTGGAAATCATTCAAAAATTTAA
1 TTGGAAATCAT-T-AAAAATTTAAGATTTTGCCCGAAGGTC-TTGGAAATCATTCAAAAATTTAA
*
6949367 AATTTTG-CTGGAGTTC
63 AATTTTGCCTGGAGATC
*
6949383 TTGAAAATCAT
1 TTGGAAATCAT
6949394 ATACTCATTT
Statistics
Matches: 197, Mismatches: 48, Indels: 16
0.75 0.18 0.06
Matches are distributed among these distances:
79 10 0.05
80 37 0.19
81 114 0.58
82 36 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (79 bp):
TTGGAAATCATTAAAAATTTAAGATTTTGCCCGAAGGTCTTGGAAATCATTCAAAAATTTAAAAT
TTTGCCTGGAGATC
Found at i:6950201 original size:12 final size:13
Alignment explanation
Indices: 6950184--6950216 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6950174 TATAAAAACA
6950184 TTTTTCTTTCT-T
1 TTTTTCTTTCTCT
6950196 TTTTTC-TTCTCT
1 TTTTTCTTTCTCT
6950208 TTTTTCTTT
1 TTTTTCTTT
6950217 TTCGACAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 13 0.68
13 2 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTCTCT
Found at i:6951323 original size:26 final size:27
Alignment explanation
Indices: 6951290--6951352 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
6951280 ATTTTTCTCC
*
6951290 TTTCATTTTATTCTTT-TT-TCTTTCTT
1 TTTCATTTT-TTCTTTATTCTCCTTCTT
6951316 TTTCA-TTTTTCTTTATTCTCCTTCTT
1 TTTCATTTTTTCTTTATTCTCCTTCTT
*
6951342 TTCCATTTTTT
1 TTTCATTTTTT
6951353 TTCATTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.19
25 5 0.16
26 16 0.50
27 5 0.16
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTCATTTTTTCTTTATTCTCCTTCTT
Found at i:6951387 original size:21 final size:22
Alignment explanation
Indices: 6951340--6951409 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 22
6951330 ATTCTCCTTC
*
6951340 TTTTC-CATTTTTTTTCATTTT-
1 TTTTCTCA-TTTTTTTCTTTTTA
*
6951361 TGTTCTC-TTTGTTTT-TTTTTA
1 TTTTCTCATTT-TTTTCTTTTTA
6951382 TTTTCTCATTTTTTTCTTTTTA
1 TTTTCTCATTTTTTTCTTTTTA
6951404 TTTTCT
1 TTTTCT
6951410 TTCCCTTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.17
21 18 0.44
22 16 0.39
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.77
Consensus pattern (22 bp):
TTTTCTCATTTTTTTCTTTTTA
Found at i:6951407 original size:13 final size:13
Alignment explanation
Indices: 6951391--6951439 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
6951381 ATTTTCTCAT
*
6951391 TTTTTTCTTTTTA
1 TTTTTTCTTTTCA
6951404 TTTTCTTTCCCTTTTCA
1 -TTT-TTT--CTTTTCA
6951421 TTTTTTCTTTTCA
1 TTTTTTCTTTTCA
6951434 TTTTTT
1 TTTTTT
6951440 TTCCTTCGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 13 0.42
14 3 0.10
15 6 0.19
16 3 0.10
17 6 0.19
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTCTTTTCA
Found at i:6951425 original size:31 final size:31
Alignment explanation
Indices: 6951351--6951443 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 31
6951341 TTTCCATTTT
* * ***
6951351 TTTTCATTTTTGTTCTCTTTGTTTTTTTTTAT
1 TTTTCATTTTT-TTCTTTTTATTTTTTTTCCC
*
6951383 TTTCTCATTTTTTTCTTTTTATTTTCTTTCCC
1 TTT-TCATTTTTTTCTTTTTATTTTTTTTCCC
*
6951415 TTTTCA-TTTTTTCTTTTCATTTTTTTTCC
1 TTTTCATTTTTTTCTTTTTATTTTTTTTCC
6951444 TTCGAGTGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
30 21 0.40
31 3 0.06
32 20 0.38
33 8 0.15
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.75
Consensus pattern (31 bp):
TTTTCATTTTTTTCTTTTTATTTTTTTTCCC
Found at i:6952609 original size:11 final size:11
Alignment explanation
Indices: 6952593--6952623 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6952583 TTTTCTTCCC
6952593 TTTCTTTTTTT
1 TTTCTTTTTTT
6952604 TTTCTTTTTTT
1 TTTCTTTTTTT
6952615 TTT-TTTTTT
1 TTTCTTTTTT
6952624 GCAAAGCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:6952621 original size:15 final size:15
Alignment explanation
Indices: 6952566--6952618 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
6952556 ACAAAAGAAA
6952566 CTTTTTTTTCTCTTT
1 CTTTTTTTTCTCTTT
* *
6952581 CTTTTTCTTCCCTTT
1 CTTTTTTTTCTCTTT
*
6952596 CTTTTTTTTTTCTTT
1 CTTTTTTTTCTCTTT
6952611 -TTTTTTTT
1 CTTTTTTTT
6952619 TTTTTGCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 8 0.24
15 25 0.76
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTTTTTCTCTTT
Found at i:6959194 original size:17 final size:15
Alignment explanation
Indices: 6959169--6959208 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
6959159 GCGTCGATGC
6959169 TTTTTTTTTCTTTCGT
1 TTTTTTTTTCTTTC-T
*
6959185 TTTTTATTTTTTTTCT
1 TTTTT-TTTTCTTTCT
6959201 TTTTTTTT
1 TTTTTTTT
6959209 CCCTTTCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 11 0.50
17 8 0.36
ACGTcount: A:0.03, C:0.07, G:0.03, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTCTTTCT
Found at i:6959214 original size:12 final size:10
Alignment explanation
Indices: 6959168--6959209 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
6959158 GGCGTCGATG
6959168 CTTTTTTTTT
1 CTTTTTTTTT
6959178 CTTTCGTTTTTT
1 CTTT--TTTTTT
*
6959190 -ATTTTTTTT
1 CTTTTTTTTT
6959199 CTTTTTTTTT
1 CTTTTTTTTT
6959209 C
1 C
6959210 CCTTTCCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 6 0.22
10 13 0.48
11 2 0.07
12 6 0.22
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:6960177 original size:26 final size:27
Alignment explanation
Indices: 6960148--6960204 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
6960138 TTATTATCCA
* *
6960148 TTTTTGTTGTTTTGT-CTTTTTTCACT
1 TTTTTGTTATTTTGTGATTTTTTCACT
*
6960174 TTTTTTTTATTTTGTGATTTTTTCACT
1 TTTTTGTTATTTTGTGATTTTTTCACT
6960201 TTTT
1 TTTT
6960205 AATTAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.75
Consensus pattern (27 bp):
TTTTTGTTATTTTGTGATTTTTTCACT
Found at i:6962475 original size:18 final size:19
Alignment explanation
Indices: 6962440--6962496 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
6962430 GAATATTAAT
* *
6962440 TTTAATAAATCATTTAATTA
1 TTTAAT-AATAATATAATTA
6962460 TTTAATAATAA-ATAATT-
1 TTTAATAATAATATAATTA
**
6962477 TTTTTTAATAATATAATTA
1 TTTAATAATAATATAATTA
6962496 T
1 T
6962497 ATGATATGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 9 0.29
18 11 0.35
19 5 0.16
20 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAATAATAATATAATTA
Found at i:6964208 original size:58 final size:57
Alignment explanation
Indices: 6964144--6964663 Score: 476
Period size: 58 Copynumber: 8.8 Consensus size: 57
6964134 TGTTCTTGTG
* *
6964144 CAAGGAAAATTGATACTTTCAACTTTTTCGCAAAAATATTCTTTTGAAACTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATT-TTTTGAAACTTTATTTT
* * *
6964202 CGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAA--TA-TTTTTTGAAACTTTATTTT
* * * *
6964262 TAAGGAAAATTGACACTTTCAACTTTTTCTCAAAACCT-TTTTTTGAAAATTTATTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAA-ATATTTTTTGAAACTTTA-TTTT
** * *
6964320 TTAGAAAAATTGATACTTTCAACTTTTT-TCGAAAATATTTTTTGGAAACTTTGATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT-GAAACTTT-ATTTT
** * * *
6964378 CAAAAAAAATTGATACTTTCAA-TTGTTCCTCAAAAACCTTTTTTTTTTTTAAA-TTTATTTT
1 CAAGGAAAATTGATACTTTCAACTT-TTTCTCAAAAA-----TATTTTTTGAAACTTTATTTT
* * *
6964439 TAAGGAAAATTGATGCTTTCAAC-TTTTCCCAAAAAATATTTTTTGGAAACTTTGATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTTTT-GAAACTTT-ATTTT
*
6964498 CGAGGAAAATTGATACTTTCAACTTTTT-TCCAAAAATATTTTTTGAAAACTTTGATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTTG-AAACTTT-ATTTT
* * * * * *
6964557 CGAGGAAAAATGATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTTGAAAATTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCT---CAAAAA--TATTTTTTGAAACTTTATTTT
* * * * *
6964619 TAAGAAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTG
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTG
6964664 GATTTTATTT
Statistics
Matches: 385, Mismatches: 49, Indels: 57
0.78 0.10 0.12
Matches are distributed among these distances:
56 8 0.02
57 39 0.10
58 98 0.25
59 90 0.23
60 58 0.15
61 31 0.08
62 37 0.10
63 9 0.02
64 15 0.04
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (57 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAACTTTATTTT
Found at i:6964269 original size:17 final size:16
Alignment explanation
Indices: 6964234--6964272 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6964224 CTTTTCCTCA
**
6964234 AAAATTTATTTTTTTG
1 AAAATTTATTTTTAGG
6964250 AAAATTTATTTTTAAGG
1 AAAATTTATTTTT-AGG
6964267 AAAATT
1 AAAATT
6964273 GACACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
AAAATTTATTTTTAGG
Found at i:6964480 original size:120 final size:117
Alignment explanation
Indices: 6964144--6964653 Score: 464
Period size: 118 Copynumber: 4.3 Consensus size: 117
6964134 TGTTCTTGTG
* * * * * **
6964144 CAAGGAAAATTGATACTTTCAACTTTTTCGCAAAA-ATATTCTTTTGAAACTTTA-ATTTCGAGG
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAACCT-TT-TTTTGAAAATTTATTTTTTAAGG
* * *
6964207 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTT-ATTTT
64 AAAATTGATACTTTCAACTTTTCC-CAAAAA-ATATTTTTTGGAAACTTTGATTTT
* * * * *
6964262 TAAGGAAAATTGACACTTTCAACTTTTTCTCAAAACCTTTTTTTGAAAATTTATTTTTTTAGAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAACCTTTTTTTGAAAATTTATTTTTTAAGGAA
** *
6964327 AATTGATACTTTCAACTTTTTTC-GAAAATATTTTTTGGAAACTTTGATTTT
66 AATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGGAAACTTTGATTTT
** **
6964378 CAAAAAAAATTGATACTTTCAA-TTGTTCCTCAAAAACCTTTTTTTTTTTTAAATTTA-TTTTTA
1 CAAGGAAAATTGATACTTTCAACTT-TTCCTC-AAAACC---TTTTTTTGAAAATTTATTTTTTA
*
6964441 AGGAAAATTGATGCTTTCAACTTTTCCCAAAAAATATTTTTTGGAAACTTTGATTTT
61 AGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGGAAACTTTGATTTT
* * * **
6964498 CGAGGAAAATTGATACTTTCAACTTTT-TTCCAAAA-ATATTTTTTGAAAACTTTGA-TTTTCGA
1 CAAGGAAAATTGATACTTTCAACTTTTCCT-CAAAACCT-TTTTTTGAAAA-TTT-ATTTTTTAA
* * * * *
6964560 GGAAAAATGATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTTGAAAATTT-ATTTT
62 GGAAAATTGATACTTTCAACTTTTCC-CAAAAAATA---TTTTTTGGAAACTTTGATTTT
* * * *
6964619 TAAGAAAAATTGATATTTTCAACTTTTCCCCAAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAA
6964654 ATATTTTTTG
Statistics
Matches: 324, Mismatches: 49, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
115 18 0.06
116 40 0.12
117 22 0.07
118 91 0.28
119 42 0.13
120 63 0.19
121 35 0.11
122 13 0.04
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (117 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAACCTTTTTTTGAAAATTTATTTTTTAAGGAA
AATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGGAAACTTTGATTTT
Found at i:6964686 original size:5 final size:5
Alignment explanation
Indices: 6964678--6964758 Score: 53
Period size: 5 Copynumber: 15.8 Consensus size: 5
6964668 TTATTTAAAG
*
6964678 AAAAT AAAAT -AAA- AAAAC AAAAT AAAAGT GAAAAT AAAA- AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAA-AT
* *
6964722 AAAGT AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAA
1 AAAAT AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAAA
6964759 GAACATTAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
4 9 0.15
5 33 0.53
6 16 0.26
7 4 0.06
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (5 bp):
AAAAT
Found at i:6964699 original size:13 final size:13
Alignment explanation
Indices: 6964673--6964742 Score: 56
Period size: 13 Copynumber: 5.5 Consensus size: 13
6964663 GGATTTTATT
*
6964673 TAAAGAAAATAAAA
1 TAAA-AAAAGAAAA
*
6964687 TAAAAAAACAAAA
1 TAAAAAAAGAAAA
**
6964700 T-AAAAGTGAAAA
1 TAAAAAAAGAAAA
6964712 TAAAAAAAGAAAA
1 TAAAAAAAGAAAA
*
6964725 GT-AAAACA-AAAA
1 -TAAAAAAAGAAAA
6964737 TAAAAA
1 TAAAAA
6964743 TAAAATAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
11 1 0.02
12 17 0.37
13 23 0.50
14 5 0.11
ACGTcount: A:0.79, C:0.03, G:0.07, T:0.11
Consensus pattern (13 bp):
TAAAAAAAGAAAA
Found at i:6964717 original size:6 final size:6
Alignment explanation
Indices: 6964678--6964758 Score: 60
Period size: 6 Copynumber: 13.5 Consensus size: 6
6964668 TTATTTAAAG
* * * *
6964678 AAAAT- AAAATA AAAAAA CAAAATA AAAGTG AAAATA AAAAAA GAAAAGT-
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA AAAATA -AAAA-TA
* *
6964727 AAAACA AAAATA AAAAT- AAAATA AAGATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
6964759 GAACATTAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
5 10 0.17
6 39 0.67
7 9 0.16
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:6964736 original size:25 final size:25
Alignment explanation
Indices: 6964683--6964742 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
6964673 TAAAGAAAAT
**
6964683 AAAATAAAAAAACAAAATAAAAGTG
1 AAAATAAAAAAACAAAATAAAAGCA
*
6964708 AAAATAAAAAAAGAAAAGTAAAA-CA
1 AAAATAAAAAAACAAAA-TAAAAGCA
6964733 AAAATAAAAA
1 AAAATAAAAA
6964743 TAAAATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (25 bp):
AAAATAAAAAAACAAAATAAAAGCA
Found at i:6964756 original size:11 final size:11
Alignment explanation
Indices: 6964678--6964758 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 11
6964668 TTATTTAAAG
6964678 AAAATAAAATAAA
1 AAAATAAAAT--A
*
6964691 AAAACAAAATA
1 AAAATAAAATA
*
6964702 AAAGTGAAAATAAA
1 AAAAT-AAAAT--A
*
6964716 AAAAGAAAAGTA
1 AAAATAAAA-TA
6964728 AAACA-AAAATA
1 AAA-ATAAAATA
6964739 AAAATAAAATA
1 AAAATAAAATA
*
6964750 AAGATAAAA
1 AAAATAAAA
6964759 GAACATTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
10 1 0.02
11 23 0.41
12 13 0.23
13 14 0.25
14 5 0.09
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:6965662 original size:13 final size:13
Alignment explanation
Indices: 6965644--6965668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6965634 CGGATAAACC
6965644 AAAAAATAAAAAT
1 AAAAAATAAAAAT
6965657 AAAAAATAAAAA
1 AAAAAATAAAAA
6965669 AAATCAGATG
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:6965835 original size:6 final size:6
Alignment explanation
Indices: 6965824--6965951 Score: 88
Period size: 6 Copynumber: 21.7 Consensus size: 6
6965814 ATACCTAAGG
* * * * *
6965824 TAAAAA TAAAAA AAAAATA TAAAAA AACAATAA TAATAA TAATAA TAATAA
1 TAAAAA TAAAAA TAAAA-A TAAAAA TA-AA-AA TAAAAA TAAAAA TAAAAA
* * * *
6965875 TAATAA TAATAA TAGAAA T-AGAA TAAAAA TAAAAA -ATAAAA T-AAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA
*
6965921 T-AAAA T-AAAA TAAAAA TGAAAA T-AAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAA
6965952 GAAAAAAAAG
Statistics
Matches: 103, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
5 24 0.23
6 68 0.66
7 8 0.08
8 3 0.03
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:6965840 original size:12 final size:12
Alignment explanation
Indices: 6965825--6965960 Score: 60
Period size: 13 Copynumber: 10.4 Consensus size: 12
6965815 TACCTAAGGT
6965825 AAAAATAAAAAA
1 AAAAATAAAAAA
6965837 AAAATATAAAAAA
1 AAAA-ATAAAAAA
6965850 ACAATAATAATAATAA
1 A-AA-AATAA-AA-AA
* * *
6965866 TAATAATAATAAT
1 -AAAAATAAAAAA
*
6965879 AATAATAATAGAAA
1 AAAAATAA-A-AAA
* *
6965893 TAGAATAAAAATA
1 AAAAATAAAAA-A
6965906 AAAAATAAAATAA
1 AAAAATAAAA-AA
*
6965919 AATAAA-ATAAAAT
1 AA-AAATA-AAAAA
*
6965932 AAAAAT-GAAAA
1 AAAAATAAAAAA
*
6965943 TAAAATAAAGAAA
1 AAAAATAAA-AAA
6965956 AAAAA
1 AAAAA
6965961 GAACATAGAC
Statistics
Matches: 94, Mismatches: 15, Indels: 29
0.68 0.11 0.21
Matches are distributed among these distances:
11 8 0.09
12 18 0.19
13 34 0.36
14 22 0.23
15 8 0.09
16 3 0.03
17 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (12 bp):
AAAAATAAAAAA
Found at i:6965882 original size:27 final size:25
Alignment explanation
Indices: 6965855--6965933 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 25
6965845 AAAAAACAAT
6965855 AATAATAATAATAATAATAATAATAA
1 AATAATAA-AATAATAATAATAATAA
* *
6965881 TAATAATAGAAAT-AGAATAAAAATAA
1 -AATAATA-AAATAATAATAATAATAA
6965907 AA-AATAAAATAA-AATAA-AATAA
1 AATAATAAAATAATAATAATAATAA
6965929 AATAA
1 AATAA
6965934 AAATGAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
22 7 0.15
23 11 0.23
24 5 0.11
25 2 0.04
26 11 0.23
27 10 0.21
28 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (25 bp):
AATAATAAAATAATAATAATAATAA
Found at i:6965957 original size:22 final size:20
Alignment explanation
Indices: 6965825--6965958 Score: 83
Period size: 22 Copynumber: 6.2 Consensus size: 20
6965815 TACCTAAGGT
* *
6965825 AAAAATAAAAAAAAAATATAA
1 AAAAAT-AAAATAAAATAAAA
*
6965846 AAAAACAATAATAATAATAATAA
1 AAAAATAA-AATAA-AATAA-AA
*
6965869 TAATAATAATAATAATAATAGAAA
1 -AAAAATAA-AATAA-AATA-AAA
* * *
6965893 TAGAATAAAA-ATAA-AAAA
1 AAAAATAAAATAAAATAAAA
*
6965911 TAAAATAAAATAAAATAAAA
1 AAAAATAAAATAAAATAAAA
6965931 TAAAAATGAAAATAAAATAAAGA
1 -AAAAAT-AAAATAAAATAAA-A
6965954 AAAAA
1 AAAAA
6965959 AAGAACATAG
Statistics
Matches: 92, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
18 12 0.13
19 4 0.04
20 8 0.09
21 15 0.16
22 24 0.26
23 9 0.10
24 19 0.21
25 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (20 bp):
AAAAATAAAATAAAATAAAA
Found at i:6965957 original size:27 final size:26
Alignment explanation
Indices: 6965826--6965957 Score: 99
Period size: 27 Copynumber: 4.7 Consensus size: 26
6965816 ACCTAAGGTA
*
6965826 AAAATAAAA-AAAAAATATAAAAAA-
1 AAAATAAAATAAAAAAAATAAAAAAT
*
6965850 ACAATAATAATAATAATAATAATAATAATAAT
1 AAAATAA-AATAA-AA-AA-AATAA-AA-AAT
*
6965882 AATAATAGAAATAGAATAAAAATAAAAAAT
1 AA-AATA-AAATA-AAAAAA-ATAAAAAAT
6965912 AAAATAAAATAAAATAAAAT-AAAAAT
1 AAAATAAAATAAAA-AAAATAAAAAAT
6965938 GAAAATAAAATAAAGAAAAA
1 -AAAATAAAATAAA-AAAAA
6965958 AAAGAACATA
Statistics
Matches: 88, Mismatches: 5, Indels: 27
0.73 0.04 0.22
Matches are distributed among these distances:
24 6 0.07
25 2 0.02
26 8 0.09
27 23 0.26
28 11 0.12
29 8 0.09
30 7 0.08
31 5 0.06
32 7 0.08
33 9 0.10
34 2 0.02
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.20
Consensus pattern (26 bp):
AAAATAAAATAAAAAAAATAAAAAAT
Found at i:6966248 original size:42 final size:41
Alignment explanation
Indices: 6966147--6966359 Score: 230
Period size: 42 Copynumber: 5.1 Consensus size: 41
6966137 TTCGATCAAA
* * * * *
6966147 GCTCCTTTAAACAAAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCTCCACGACTTTGA-AAA-GTAAATT
* ** * *
6966190 GCTCCTCTGATTAGAGGCTCAACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCTCCACGACTTTG-AAAAGTAAATT
* *
6966232 GCTCCTCTAAACAGAGGCGCCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCCACGACTTTGAAAAGTAAATT
* *
6966273 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCCACGACTTT-GAAAAGTAAATT
* *
6966315 GCTCCTCTAAACAAAAG-TACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCT-CCACGACTTTGAAAAGTAAATT
6966356 GCTC
1 GCTC
6966360 ATTGGCAATC
Statistics
Matches: 147, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 52 0.35
42 66 0.45
43 28 0.19
44 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCTCCACGACTTTGAAAAGTAAATT
Found at i:6966301 original size:83 final size:83
Alignment explanation
Indices: 6966147--6966359 Score: 246
Period size: 83 Copynumber: 2.5 Consensus size: 83
6966137 TTCGATCAAA
* * * * * * ** *
6966147 GCTCCTTTAAACAAAGGCTCAACGACTTTGAGAAACATAAATGGCTCCTCTGATTAGAGGCTCAA
1 GCTCCTCTAAACAAAGGCACCACGACTTTG-GAAA-GTAAATTGCTCCTCTAAACAGAGGCACAA
*
6966212 CGACTTTGAAAAAATAAATT
64 CAACTTTGAAAAAATAAATT
* * *
6966232 GCTCCTCTAAACAGAGGCGCCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACA
1 GCTCCTCTAAACAAAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACAACA
* *
6966297 ACTTTGGAAAAGTAAATT
66 ACTTTGAAAAAATAAATT
* * *
6966315 GCTCCTCTAAACAAAAGTACCACGACTTTGAAAAGTAAATTGCTC
1 GCTCCTCTAAACAAAGGCACCACGACTTTGGAAAGTAAATTGCTC
6966360 ATTGGCAATC
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
83 79 0.72
84 4 0.04
85 26 0.24
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAAAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACAACA
ACTTTGAAAAAATAAATT
Found at i:6969750 original size:49 final size:49
Alignment explanation
Indices: 6969672--6969772 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
6969662 CAGTAAGGCT
*
6969672 ATCCTGAAAGATATACATTAAGAGCTTTTCATCATGAGTATGAGCTGCC
1 ATCCTGAAAGATATACATTAAGAGCTTTTCATCATAAGTATGAGCTGCC
* * *
6969721 ATCCTGAAAGATATGCATTAAGGGTTTTTCATCATAAGTATGAGCTGCC
1 ATCCTGAAAGATATACATTAAGAGCTTTTCATCATAAGTATGAGCTGCC
6969770 ATC
1 ATC
6969773 TTCCGACAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (49 bp):
ATCCTGAAAGATATACATTAAGAGCTTTTCATCATAAGTATGAGCTGCC
Found at i:6970322 original size:11 final size:10
Alignment explanation
Indices: 6970299--6970332 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6970289 CTTAACTCAC
*
6970299 TTTCAATCTT
1 TTTCTATCTT
6970309 TTTCTATGCTT
1 TTTCTAT-CTT
6970320 TTTCTATCTT
1 TTTCTATCTT
6970330 TTT
1 TTT
6970333 GAATCTGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.12, C:0.18, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTCTATCTT
Found at i:6970691 original size:26 final size:26
Alignment explanation
Indices: 6970638--6970693 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
6970628 AAAGTGATGC
* * *
6970638 TGATGCATAATGTTAACATATGATAA
1 TGATGCATAAAGTTAACATATCAAAA
6970664 TGATGCATAAAGTTAAACA-ATCAAAA
1 TGATGCATAAAGTT-AACATATCAAAA
6970690 TGAT
1 TGAT
6970694 TAGATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (26 bp):
TGATGCATAAAGTTAACATATCAAAA
Found at i:6971668 original size:27 final size:27
Alignment explanation
Indices: 6971637--6971727 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
6971627 CTTGTGCAGA
6971637 AAAAATTGATACTTTCAACTTTTTCCC
1 AAAAATTGATACTTTCAACTTTTTCCC
* * **
6971664 AAAAA-T-ATTCTTTTGAAACTTTAATTTCGAG
1 AAAAATTGATAC-TTT-CAAC-TT--TTTC-CC
*
6971695 AAAAATTGATACTTTCAACTTTTCCCC
1 AAAAATTGATACTTTCAACTTTTTCCC
6971722 AAAAAT
1 AAAAAT
6971728 ATTTTTTGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 16
0.65 0.12 0.22
Matches are distributed among these distances:
25 3 0.06
26 4 0.09
27 14 0.30
28 5 0.11
30 6 0.13
31 8 0.17
32 4 0.09
33 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCCC
Done.