Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 35 of 125
Found at i:6794456 original size:6 final size:6
Alignment explanation
Indices: 6794442--6794481 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
6794432 CATCCCTCTT
*
6794442 ATCCTA ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA ATCC
1 ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA ATCCCA ATCC
6794482 TCCAACAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (6 bp):
ATCCCA
Found at i:6794875 original size:22 final size:19
Alignment explanation
Indices: 6794847--6794906 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 19
6794837 AAAACAATCA
6794847 TAAAATTTCAATAAAAAATGTT
1 TAAAATTTCAATAAAAAA---T
*
6794869 TATAATTGT-AATAAAATAAT
1 TAAAATT-TCAATAAAA-AAT
6794889 TAAAATTTCAATAAAAAA
1 TAAAATTTCAATAAAAAA
6794907 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 3 0.09
20 14 0.42
22 13 0.39
23 3 0.09
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
TAAAATTTCAATAAAAAAT
Found at i:6802359 original size:16 final size:16
Alignment explanation
Indices: 6802338--6802375 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6802328 CACTGTTGCC
6802338 TTCTTTCTTT-TTCTTT
1 TTCTTTCTTTCTT-TTT
6802354 TTCTTTCTTTCTTTTT
1 TTCTTTCTTTCTTTTT
6802370 TT-TTTC
1 TTCTTTC
6802376 AATCATGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTCTTTCTTTCTTTTT
Found at i:6802363 original size:20 final size:19
Alignment explanation
Indices: 6802338--6802375 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
6802328 CACTGTTGCC
6802338 TTCTTTCTTTTTCTTTTTCT
1 TTCTTTCTTTTT-TTTTTCT
6802358 TTCTTTCTTTTTTTTTTC
1 TTCTTTCTTTTTTTTTTC
6802376 AATCATGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTCTTTCTTTTTTTTTTCT
Found at i:6804026 original size:44 final size:44
Alignment explanation
Indices: 6803952--6804037 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
6803942 TTTTTACTTT
*
6803952 TTATCTAAATAATAATTATTAAAATATTTTTTTATT-AATTTTAA
1 TTATCTAAATAAAAATTATTAAAATATTTTTTT-TTAAATTTTAA
** *
6803996 TTATCTAAATAAAAATTA-TATGTATCTTTTTTTTTAAATTTT
1 TTATCTAAATAAAAATTATTA-AAATATTTTTTTTTAAATTTT
6804038 TTTTATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 4 0.11
44 32 0.89
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (44 bp):
TTATCTAAATAAAAATTATTAAAATATTTTTTTTTAAATTTTAA
Found at i:6813632 original size:8 final size:9
Alignment explanation
Indices: 6813616--6813648 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
6813606 TCTTGTAGAC
6813616 ATAAAAAAA
1 ATAAAAAAA
6813625 ATAAAAAAA
1 ATAAAAAAA
6813634 ATAAAAAAA
1 ATAAAAAAA
6813643 ATAAAA
1 ATAAAA
6813649 CAAAGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:6813658 original size:18 final size:18
Alignment explanation
Indices: 6813618--6813659 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6813608 TTGTAGACAT
*
6813618 AAAAAAAATAAAAAAAAT
1 AAAAAAAATAAAAAAAAG
*
6813636 AAAAAAAATAAAACAAAG
1 AAAAAAAATAAAAAAAAG
*
6813654 CAAAAA
1 AAAAAA
6813660 CAAGAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.86, C:0.05, G:0.02, T:0.07
Consensus pattern (18 bp):
AAAAAAAATAAAAAAAAG
Found at i:6813899 original size:25 final size:25
Alignment explanation
Indices: 6813852--6813898 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
6813842 TTTAATTACA
6813852 TTTTAAATGAATATAATGTAAAATT
1 TTTTAAATGAATATAATGTAAAATT
6813877 TTTTAAAT-AATATAATGTAAAA
1 TTTTAAATGAATATAATGTAAAA
6813899 AATATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (25 bp):
TTTTAAATGAATATAATGTAAAATT
Found at i:6813906 original size:25 final size:25
Alignment explanation
Indices: 6813853--6813906 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
6813843 TTAATTACAT
* *
6813853 TTTAAATGAATATAATGTAAAATTT
1 TTTAAATGAATATAATGTAAAAATA
6813878 TTTAAAT-AATATAATGTAAAAAATA
1 TTTAAATGAATATAATGT-AAAAATA
6813903 TTTA
1 TTTA
6813907 TATATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.43
Consensus pattern (25 bp):
TTTAAATGAATATAATGTAAAAATA
Found at i:6818919 original size:20 final size:20
Alignment explanation
Indices: 6818891--6818946 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 20
6818881 TATTATTATT
*
6818891 ATTATTATTAATATTAGTAA
1 ATTAATATTAATATTAGTAA
*
6818911 ATTAATATT-A-A-TAGTAT
1 ATTAATATTAATATTAGTAA
*
6818928 ATTAATATTATTATTAGTA
1 ATTAATATTAATATTAGTA
6818947 CATTTACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 2 0.07
20 13 0.43
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTAATATTAATATTAGTAA
Found at i:6828354 original size:64 final size:64
Alignment explanation
Indices: 6828275--6828399 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
6828265 CAGTCAAGTC
* * *
6828275 ACATTAGGCTAGCTTGAAATCCATGAATACTGGAA-AAAAAGCTTCAAAAGATTTTAAAATAATT
1 ACATTAGGCTAGCTTGAAATCCAGGAATACTAGAATAAAAA-CTTCAAAAGATTTAAAAATAATT
* *
6828339 ACATTAGGCTGGCTTGAAATCCAGGAATATTAGAATAAAAACTTCAAAAGATTTAAAAATA
1 ACATTAGGCTAGCTTGAAATCCAGGAATACTAGAATAAAAACTTCAAAAGATTTAAAAATA
6828400 GCGAAGCCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 50 0.91
65 5 0.09
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.27
Consensus pattern (64 bp):
ACATTAGGCTAGCTTGAAATCCAGGAATACTAGAATAAAAACTTCAAAAGATTTAAAAATAATT
Found at i:6829203 original size:19 final size:19
Alignment explanation
Indices: 6829179--6829217 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6829169 TTACATCAGC
6829179 AAGGAGATAAACTAATGAG
1 AAGGAGATAAACTAATGAG
*
6829198 AAGGAGATAAACTACTGAG
1 AAGGAGATAAACTAATGAG
6829217 A
1 A
6829218 GATTGATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.26, T:0.15
Consensus pattern (19 bp):
AAGGAGATAAACTAATGAG
Found at i:6834328 original size:6 final size:6
Alignment explanation
Indices: 6834319--6834344 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6834309 CCTGGCCCTG
6834319 GGGGCT GGGGCT GGGGCT GGGGCT GG
1 GGGGCT GGGGCT GGGGCT GGGGCT GG
6834345 AGGTGGATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.69, T:0.15
Consensus pattern (6 bp):
GGGGCT
Found at i:6834752 original size:2 final size:2
Alignment explanation
Indices: 6834745--6834773 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6834735 AGAAGACCGA
6834745 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 A
6834774 AGTTAGGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6837693 original size:21 final size:21
Alignment explanation
Indices: 6837669--6837710 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6837659 ATTTCAACAT
6837669 TCTACAGTAAATATGACTGGC
1 TCTACAGTAAATATGACTGGC
6837690 TCTACAGTAAATATGACTGGC
1 TCTACAGTAAATATGACTGGC
6837711 CCAATTGCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (21 bp):
TCTACAGTAAATATGACTGGC
Found at i:6840448 original size:3 final size:3
Alignment explanation
Indices: 6840440--6840474 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
6840430 TAAAGGTATT
6840440 TAA TAA TAA TAA TAA TAA TAA TGAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
6840475 GTTGCAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6842372 original size:16 final size:17
Alignment explanation
Indices: 6842348--6842392 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
6842338 TCAAATTGAA
*
6842348 TTAAATTATATAT-TTT
1 TTAATTTATATATATTT
6842364 TTAATTTATATATATTT
1 TTAATTTATATATATTT
* *
6842381 TCAATTTTTATA
1 TTAATTTATATA
6842393 AAATTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATTTATATATATTT
Found at i:6844214 original size:43 final size:42
Alignment explanation
Indices: 6844148--6844234 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 42
6844138 CTGTTAGTAC
* * *
6844148 AACAAGGGTTGGATCAGGGATTAGAGATTAGTAAGCCTGAAGG
1 AACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCCTG-AGG
*
6844191 AACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCTTGAGG
1 AACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCCTGAGG
6844233 AA
1 AA
6844235 ATGTCTGATG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 5 0.12
43 35 0.88
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (42 bp):
AACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCCTGAGG
Found at i:6844349 original size:245 final size:245
Alignment explanation
Indices: 6844042--6844533 Score: 957
Period size: 245 Copynumber: 2.0 Consensus size: 245
6844032 GAAGATGTTT
*
6844042 GAAAAAGGTATGTCCGGTATTCCTATGCCTAAGTTTGAGATTCCGTTATTTGATGAAAAGAGTAA
1 GAAAAAGGTATGTCCGGTATGCCTATGCCTAAGTTTGAGATTCCGTTATTTGATGAAAAGAGTAA
6844107 TTTTATGTTATGATAAAGTACGATTCAAGATCTGTTAGTACAACAAGGGTTGGATCAGGGATTAG
66 TTTTATGTTATGATAAAGTACGATTCAAGATCTGTTAGTACAACAAGGGTTGGATCAGGGATTAG
6844172 AGATTAGTAAGCCTGAAGGAACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCTTGAGGAAAT
131 AGATTAGTAAGCCTGAAGGAACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCTTGAGGAAAT
6844237 GTCTGATGCTAATTGGAATAAGATTCAGAAGAAGGCTATTAGTACTATTA
196 GTCTGATGCTAATTGGAATAAGATTCAGAAGAAGGCTATTAGTACTATTA
*
6844287 GAAAAAGGTATGTCCGGTATGCCTATGCCTAAGTTTGAGATTCCGTTATTTGATGGAAAGAGTAA
1 GAAAAAGGTATGTCCGGTATGCCTATGCCTAAGTTTGAGATTCCGTTATTTGATGAAAAGAGTAA
6844352 TTTTATGTTATGATAAAGTACGATTCAAGATCTGTTAGTACAACAAGGGTTGGATCAGGGATTAG
66 TTTTATGTTATGATAAAGTACGATTCAAGATCTGTTAGTACAACAAGGGTTGGATCAGGGATTAG
*
6844417 AGATTAGTAAGCCTGAAGGAACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCTTGAGGGAAT
131 AGATTAGTAAGCCTGAAGGAACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCTTGAGGAAAT
6844482 GTCTGATGCTAATTGGAATAAGATTCAGAAGAAGGCTATTAGTACTATTA
196 GTCTGATGCTAATTGGAATAAGATTCAGAAGAAGGCTATTAGTACTATTA
6844532 GA
1 GA
6844534 TTGGCATTAG
Statistics
Matches: 244, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
245 244 1.00
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (245 bp):
GAAAAAGGTATGTCCGGTATGCCTATGCCTAAGTTTGAGATTCCGTTATTTGATGAAAAGAGTAA
TTTTATGTTATGATAAAGTACGATTCAAGATCTGTTAGTACAACAAGGGTTGGATCAGGGATTAG
AGATTAGTAAGCCTGAAGGAACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCTTGAGGAAAT
GTCTGATGCTAATTGGAATAAGATTCAGAAGAAGGCTATTAGTACTATTA
Found at i:6844459 original size:43 final size:43
Alignment explanation
Indices: 6844393--6844480 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
6844383 CTGTTAGTAC
* * *
6844393 AACAAGGGTTGGATCAGGGATTAGAGATTAGTAAGCCTGAAGG
1 AACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCCTGAAGG
* *
6844436 AACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCTTGAGGG
1 AACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCCTGAAGG
6844479 AA
1 AA
6844481 TGTCTGATGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.20
Consensus pattern (43 bp):
AACAAAGGTTGGATCAGGCATTAGAGAGTAGTAAGCCTGAAGG
Found at i:6847942 original size:28 final size:28
Alignment explanation
Indices: 6847909--6847970 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
6847899 AATTTTTATT
*
6847909 AATTTTTTTTTCAATTATAGCTATAATA
1 AATTTTTTTTTCAATTACAGCTATAATA
* *
6847937 ACTTTTTTTTTCAATTACAGTTATAATA
1 AATTTTTTTTTCAATTACAGCTATAATA
6847965 AATTTT
1 AATTTT
6847971 ATTATCGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (28 bp):
AATTTTTTTTTCAATTACAGCTATAATA
Found at i:6851481 original size:20 final size:21
Alignment explanation
Indices: 6851446--6851487 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
6851436 TTGACTAACA
*
6851446 AATTAAAATATAAAAATAAAT
1 AATTAAAATATAAAAAAAAAT
6851467 AATTAAAAT-TAAAAAAAAAT
1 AATTAAAATATAAAAAAAAAT
6851487 A
1 A
6851488 CAAAAACCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AATTAAAATATAAAAAAAAAT
Found at i:6852109 original size:2 final size:2
Alignment explanation
Indices: 6852104--6852128 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6852094 TCTCTCTCTC
6852104 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 T
6852129 TATTGACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6880615 original size:2 final size:2
Alignment explanation
Indices: 6880608--6880634 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6880598 ATGTGGGGAA
6880608 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
6880635 ACATGGCAAT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6882602 original size:21 final size:20
Alignment explanation
Indices: 6882576--6882614 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6882566 GAGAAGGTGG
6882576 AGGATAAGAAGAAGGAGGGGT
1 AGGATAAGAAGAA-GAGGGGT
*
6882597 AGGATATGAAGAAGAGGG
1 AGGATAAGAAGAAGAGGG
6882615 ATTTTGTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (20 bp):
AGGATAAGAAGAAGAGGGGT
Found at i:6902317 original size:21 final size:21
Alignment explanation
Indices: 6902293--6902337 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
6902283 TTAATCTCCA
* *
6902293 GATATTTCGGCTATGTTTGAT
1 GATATTTCGGCCATATTTGAT
6902314 GATATTTCGGCCATATTTGAT
1 GATATTTCGGCCATATTTGAT
6902335 GAT
1 GAT
6902338 GACAATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (21 bp):
GATATTTCGGCCATATTTGAT
Found at i:6906807 original size:183 final size:181
Alignment explanation
Indices: 6906499--6906878 Score: 604
Period size: 183 Copynumber: 2.1 Consensus size: 181
6906489 CCGACAGCAT
6906499 CTGTGGTCACTTGGAATGTTTTAGCTTTAAACCAACAGCATCATGTCTTCTTTAATGGAAACCAT
1 CTGTGGTCACTTGGAATGTTTTAGCTTTAAACCAACAGCATCATGTCTTCTTTAATGGAAACCAT
6906564 GAAAGATGGCCCATGAACTTTATGTTCTCACGCCAGCCATCTTTTCTCT-TCTTTTTTTTTTTTT
66 GAAAGATGGCCCATGAACTTTATGTTCTCACGCCAGCCATCTTTTCTCTCTC-TTTTTTTTTTTT
* * * *
6906628 AATGAGTTTGTTATAGATTGATGTTTTGGTTACTGGCACAGTGTAGAAACAGAA
130 AACGAGTTTATTATAGATTGATGTTTTGGTCACTGGCACAGTATAGAAAC--AA
*
6906682 CTGTGGTCACTTGGAATGTTTTAGCTTTAAACCAACAGCATCATGTCTTCTTTAATGGGCCAAGC
1 CTGTGGTCACTTGGAATGTTTTAGCTTTAAACCAACAGCATCATGTCTTCTTTAAT-GG--AAAC
* *
6906747 CATGAAAGATGGCCCATGAACTTTATGTTCTCACGCCGGCCAT-TGTTTCTCCCT-TTTTTTTTT
63 CATGAAAGATGGCCCATGAACTTTATGTTCTCACGCCAGCCATCT-TTTCTCTCTCTTTTTTTTT
*
6906810 TTTAACGAGTTTATTATAGATTGATGTTTTGGTCACTGGCACAGTATGGAAACAA
127 TTTAACGAGTTTATTATAGATTGATGTTTTGGTCACTGGCACAGTATAGAAACAA
6906865 CTGTGGTCACTTGG
1 CTGTGGTCACTTGG
6906879 GCTTGGCTCA
Statistics
Matches: 184, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
183 72 0.39
184 2 0.01
185 58 0.32
186 51 0.28
187 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (181 bp):
CTGTGGTCACTTGGAATGTTTTAGCTTTAAACCAACAGCATCATGTCTTCTTTAATGGAAACCAT
GAAAGATGGCCCATGAACTTTATGTTCTCACGCCAGCCATCTTTTCTCTCTCTTTTTTTTTTTTA
ACGAGTTTATTATAGATTGATGTTTTGGTCACTGGCACAGTATAGAAACAA
Found at i:6924012 original size:42 final size:43
Alignment explanation
Indices: 6923947--6924028 Score: 139
Period size: 42 Copynumber: 1.9 Consensus size: 43
6923937 AATGGCATGA
6923947 ATCTGAATTGTTGATATTGGGATGGTCATGACAATTGTATTCT
1 ATCTGAATTGTTGATATTGGGATGGTCATGACAATTGTATTCT
* *
6923990 ATCTGAATTGTTGATCTT-GGATGGTCATGGCAATTGTAT
1 ATCTGAATTGTTGATATTGGGATGGTCATGACAATTGTAT
6924029 GTTCCTTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
42 20 0.54
43 17 0.46
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (43 bp):
ATCTGAATTGTTGATATTGGGATGGTCATGACAATTGTATTCT
Found at i:6924509 original size:2 final size:2
Alignment explanation
Indices: 6924502--6924539 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6924492 TTTGTTCCTT
6924502 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6924540 AATTAAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6926509 original size:15 final size:15
Alignment explanation
Indices: 6926489--6926521 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6926479 TTTGTCTTAG
6926489 TGATGACGAGGATGA
1 TGATGACGAGGATGA
6926504 TGATGACGAGGATGA
1 TGATGACGAGGATGA
6926519 TGA
1 TGA
6926522 AGAAGCTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.39, T:0.21
Consensus pattern (15 bp):
TGATGACGAGGATGA
Found at i:6946822 original size:136 final size:136
Alignment explanation
Indices: 6946661--6946939 Score: 526
Period size: 136 Copynumber: 2.1 Consensus size: 136
6946651 CTCGCTTATG
6946661 ATTTTT-A-CGATGCATGAATTAATTTATTTATTTAATTTAAAGTTATAATTATAAAATAATATT
1 ATTTTTAAGCGATGCATGAATTAATTTATTTATTTAATTTAAAGTTATAATTATAAAATAATATT
6946724 AAATTTTAAACAAATATATGAATAAAATATAAAAATATTATTCAAAACTATTAAATTTTTTATTT
66 AAATTTTAAACAAATATATGAATAAAATATAAAAATATTATTCAAAACTATTAAATTTTTTATTT
6946789 TTTAAA
131 TTTAAA
6946795 ATTTTTAAGCGATGCATGAATTAATTTATTTATTTAATTTAAAGTTATAATTATAAAATAATATT
1 ATTTTTAAGCGATGCATGAATTAATTTATTTATTTAATTTAAAGTTATAATTATAAAATAATATT
* *
6946860 AAATTTTAAACAAGTATATGAATAAAATATAAAAATATTATTCAAAAGTATTAAATTTTTTATTT
66 AAATTTTAAACAAATATATGAATAAAATATAAAAATATTATTCAAAACTATTAAATTTTTTATTT
6946925 TTTAAA
131 TTTAAA
6946931 ATTTTTAAG
1 ATTTTTAAG
6946940 TGAAAATGAA
Statistics
Matches: 141, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
134 6 0.04
135 1 0.01
136 134 0.95
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (136 bp):
ATTTTTAAGCGATGCATGAATTAATTTATTTATTTAATTTAAAGTTATAATTATAAAATAATATT
AAATTTTAAACAAATATATGAATAAAATATAAAAATATTATTCAAAACTATTAAATTTTTTATTT
TTTAAA
Found at i:6947666 original size:2 final size:2
Alignment explanation
Indices: 6947654--6947694 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
6947644 TGATGTTAAA
6947654 AT AT A- AT AT AT AT AT AT -T 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 AT AT AT AT AT AT AT
6947694 A
1 A
6947695 CATGAACTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6947911 original size:22 final size:23
Alignment explanation
Indices: 6947879--6947923 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
6947869 TAACAGTTGA
6947879 AAATAAATGGTAAAACTCTTTAT
1 AAATAAATGGTAAAACTCTTTAT
*
6947902 AAAT-AATGGTAAAATTCTTTAT
1 AAATAAATGGTAAAACTCTTTAT
6947924 TCTTGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (23 bp):
AAATAAATGGTAAAACTCTTTAT
Found at i:6949963 original size:23 final size:21
Alignment explanation
Indices: 6949937--6949985 Score: 53
Period size: 25 Copynumber: 2.1 Consensus size: 21
6949927 CATATTTGAA
6949937 AATTTATTAAAAAAATATTAAAT
1 AATTTATTAAAAAAATA--AAAT
*
6949960 AATTTTTTTTAAAAAAATAAAAT
1 AA--TTTATTAAAAAAATAAAAT
6949983 AAT
1 AAT
6949986 AATAATAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
21 1 0.04
23 8 0.35
25 14 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTATTAAAAAAATAAAAT
Found at i:6961588 original size:33 final size:32
Alignment explanation
Indices: 6961557--6961619 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
6961547 TTATAATTTT
*
6961557 TAAACTTTATATATAATTTTAATAAAAAATTTAA
1 TAAA-TTTAAATA-AATTTTAATAAAAAATTTAA
* *
6961591 TATATTTAAATAAATTTTAATATAAAATT
1 TAAATTTAAATAAATTTTAATAAAAAATT
6961620 ATTTTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 16 0.62
33 7 0.27
34 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (32 bp):
TAAATTTAAATAAATTTTAATAAAAAATTTAA
Found at i:6966190 original size:28 final size:28
Alignment explanation
Indices: 6966156--6966212 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
6966146 AGGTAGAATC
* *
6966156 ACCTCCAACATGGAAAAAGAGGGAAAGA
1 ACCTCCAACATCGAAAAAGAGGAAAAGA
6966184 ACCTCCAACATCGAAAAAGAGGAAAAGA
1 ACCTCCAACATCGAAAAAGAGGAAAAGA
6966212 A
1 A
6966213 AATTCCCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.19, G:0.21, T:0.07
Consensus pattern (28 bp):
ACCTCCAACATCGAAAAAGAGGAAAAGA
Found at i:6966917 original size:2 final size:2
Alignment explanation
Indices: 6966910--6966934 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6966900 ACCTCAACTT
6966910 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
6966935 TCAGTTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6994388 original size:31 final size:31
Alignment explanation
Indices: 6994346--6994407 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
6994336 GGCCACAGGA
6994346 AATTGTACCTTAGTAAAAGAAAATAACAAAG
1 AATTGTACCTTAGTAAAAGAAAATAACAAAG
* *
6994377 AATTGTTCCTTAGTAAAAGAAAATGACAAAG
1 AATTGTACCTTAGTAAAAGAAAATAACAAAG
6994408 GTAATACTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.24
Consensus pattern (31 bp):
AATTGTACCTTAGTAAAAGAAAATAACAAAG
Found at i:6997818 original size:16 final size:15
Alignment explanation
Indices: 6997799--6997828 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6997789 AATTTATTTA
6997799 ATTAAAAAAATAAAAG
1 ATTAAAAAAA-AAAAG
6997815 ATTAAAAAAAAAAA
1 ATTAAAAAAAAAAA
6997829 CCCAAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
ATTAAAAAAAAAAAG
Found at i:6999626 original size:26 final size:26
Alignment explanation
Indices: 6999588--6999640 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6999578 AGTGTCTGCA
*
6999588 AACGCTTCGAAAGATCTGATCTTCAC
1 AACGCTTCAAAAGATCTGATCTTCAC
6999614 AACGCTTCAAAAGATCTGATCTTCAC
1 AACGCTTCAAAAGATCTGATCTTCAC
6999640 A
1 A
6999641 TTCGTTGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (26 bp):
AACGCTTCAAAAGATCTGATCTTCAC
Found at i:7001612 original size:2 final size:2
Alignment explanation
Indices: 7001595--7001633 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
7001585 TGTTGGAAGT
* *
7001595 TA TA TG TA TG 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 TA TA T
7001634 GTTACATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7005804 original size:14 final size:15
Alignment explanation
Indices: 7005785--7005814 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7005775 TCATCGTCTC
7005785 TAAAATTT-AATATT
1 TAAAATTTGAATATT
7005799 TAAAATTTGAATATT
1 TAAAATTTGAATATT
7005814 T
1 T
7005815 GATTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TAAAATTTGAATATT
Found at i:7006656 original size:11 final size:11
Alignment explanation
Indices: 7006642--7006691 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
7006632 TATTTAAAAT
7006642 TTATTCATTTA
1 TTATTCATTTA
*
7006653 TTATTTATTTA
1 TTATTCATTTA
*
7006664 TTATTCGTTTA
1 TTATTCATTTA
* *
7006675 TTATTTATTTG
1 TTATTCATTTA
7006686 TTATTC
1 TTATTC
7006692 GTGTATAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (11 bp):
TTATTCATTTA
Found at i:7006659 original size:22 final size:23
Alignment explanation
Indices: 7006631--7006681 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
7006621 ATAAATAAAT
7006631 TTATTTAAAAT-TTATTCATTTA
1 TTATTTAAAATATTATTCATTTA
** *
7006653 TTATTT-ATTTATTATTCGTTTA
1 TTATTTAAAATATTATTCATTTA
7006675 TTATTTA
1 TTATTTA
7006682 TTTGTTATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTATTTAAAATATTATTCATTTA
Found at i:7006682 original size:22 final size:22
Alignment explanation
Indices: 7006642--7006693 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
7006632 TATTTAAAAT
*
7006642 TTATTCATTTATTATTTATTTA
1 TTATTCGTTTATTATTTATTTA
*
7006664 TTATTCGTTTATTATTTATTTG
1 TTATTCGTTTATTATTTATTTA
7006686 TTATTCGT
1 TTATTCGT
7006694 GTATAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (22 bp):
TTATTCGTTTATTATTTATTTA
Found at i:7006790 original size:11 final size:10
Alignment explanation
Indices: 7006720--7006778 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 10
7006710 AAATTATTTT
7006720 TTTATTTT--
1 TTTATTTTAA
7006728 TTTATTTTAA
1 TTTATTTTAA
7006738 TTATATTTTAAAA
1 TT-TATTTT--AA
7006751 TTTATTTTATA
1 TTTATTTTA-A
*
7006762 TTTATTTGAA
1 TTTATTTTAA
*
7006772 TTAATTT
1 TTTATTT
7006779 ATTGTTAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
8 8 0.19
10 10 0.23
11 15 0.35
12 6 0.14
13 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:7007028 original size:18 final size:19
Alignment explanation
Indices: 7007002--7007037 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7006992 TAAATCCTAA
7007002 ATATATGA-TTATTTATTC
1 ATATATGATTTATTTATTC
*
7007020 ATATTTGATTTATTTATT
1 ATATATGATTTATTTATT
7007038 GCGCTACTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (19 bp):
ATATATGATTTATTTATTC
Found at i:7009472 original size:27 final size:27
Alignment explanation
Indices: 7009442--7009496 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
7009432 GGTGGTATAT
7009442 GTTGATTACAATAATTTTGCTCCCGGA
1 GTTGATTACAATAATTTTGCTCCCGGA
7009469 GTTGATTACAATAATTTTGCTCCCGGA
1 GTTGATTACAATAATTTTGCTCCCGGA
7009496 G
1 G
7009497 ATGAGAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GTTGATTACAATAATTTTGCTCCCGGA
Found at i:7010032 original size:30 final size:30
Alignment explanation
Indices: 7009982--7010039 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7009972 CAGATTATAC
* * *
7009982 ATATGTTACTGTTCTTATGTTACAATTCCT
1 ATATATTACAGTTCTCATGTTACAATTCCT
7010012 ATATATTACAGTTCTCATGTTACAATTC
1 ATATATTACAGTTCTCATGTTACAATTC
7010040 TTATCAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (30 bp):
ATATATTACAGTTCTCATGTTACAATTCCT
Found at i:7010040 original size:14 final size:14
Alignment explanation
Indices: 7009983--7010043 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
7009973 AGATTATACA
**
7009983 TATGTTACTGTTCT
1 TATGTTACAATTCT
7009997 TATGTTACAATTCCT
1 TATGTTACAATT-CT
* *
7010012 ATATATTACAGTTCT
1 -TATGTTACAATTCT
*
7010027 CATGTTACAATTCT
1 TATGTTACAATTCT
7010041 TAT
1 TAT
7010044 CAAATTTTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
14 23 0.62
15 4 0.11
16 10 0.27
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.49
Consensus pattern (14 bp):
TATGTTACAATTCT
Found at i:7011749 original size:2 final size:2
Alignment explanation
Indices: 7011742--7011767 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7011732 AAGGTTAGCC
7011742 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
7011768 GTCTTCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7020270 original size:126 final size:126
Alignment explanation
Indices: 7020045--7020295 Score: 466
Period size: 126 Copynumber: 2.0 Consensus size: 126
7020035 TTTGGGTTTG
7020045 CATCATGATTACCTCCACTTTGTGAAGTTCCTTGATGTTGCTGTTGTTCAGTCTCCGCTACTTGT
1 CATCATGATTACCTCCACTTTGTGAAGTTCCTTGATGTTGCTGTTGTTCAGTCTCCGCTACTTGT
*
7020110 TGACCACCCTCATTCTGATTGTGCTCTATTGCCTCAGCAGCAGGTCCAATTACCCAATTAA
66 TGACCACCCTCATTCTGATTGTGCTCTACTGCCTCAGCAGCAGGTCCAATTACCCAATTAA
* * *
7020171 CATCATGATTACCTTCACTTTGTTAAGTTCCTTGATGTTGCTGTTTTTCAGTCTCCGCTACTTGT
1 CATCATGATTACCTCCACTTTGTGAAGTTCCTTGATGTTGCTGTTGTTCAGTCTCCGCTACTTGT
7020236 TGACCACCCTCATTCTGATTGTGCTCTACTGCCTCAGCAGCAGGTCCAATTACCCAATTA
66 TGACCACCCTCATTCTGATTGTGCTCTACTGCCTCAGCAGCAGGTCCAATTACCCAATTA
7020296 GCATGTTTTC
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 121 1.00
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.37
Consensus pattern (126 bp):
CATCATGATTACCTCCACTTTGTGAAGTTCCTTGATGTTGCTGTTGTTCAGTCTCCGCTACTTGT
TGACCACCCTCATTCTGATTGTGCTCTACTGCCTCAGCAGCAGGTCCAATTACCCAATTAA
Found at i:7025390 original size:18 final size:18
Alignment explanation
Indices: 7025346--7025391 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
7025336 AACCATCATA
*
7025346 AAATCATTCTTTAAACAT
1 AAATCATTTTTTAAACAT
7025364 AAATCATTTTTTAAACAT
1 AAATCATTTTTTAAACAT
7025382 AAATCATTTT
1 AAATCATTTT
7025392 CTCATTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATCATTTTTTAAACAT
Found at i:7029384 original size:2 final size:2
Alignment explanation
Indices: 7029377--7029410 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7029367 CAGATAACAG
* *
7029377 AT AT AT AT AT AA AA 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 AT AT AT
7029411 TTTGGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:7030859 original size:25 final size:26
Alignment explanation
Indices: 7030823--7030878 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
7030813 TTTTAGCAAG
* *
7030823 AAAATGTCTTGAA-TCATTTATAA-C
1 AAAATGTATTGAAGACATTTATAATC
*
7030847 AAAATGTTATTGAAGACATTTTTAATC
1 AAAATG-TATTGAAGACATTTATAATC
7030874 AAAAT
1 AAAAT
7030879 TATCTTCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 6 0.23
25 6 0.23
26 8 0.31
27 6 0.23
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (26 bp):
AAAATGTATTGAAGACATTTATAATC
Found at i:7032703 original size:2 final size:2
Alignment explanation
Indices: 7032698--7032722 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7032688 TTAAAATAAA
7032698 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 A
7032723 ATGAATGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7032948 original size:32 final size:31
Alignment explanation
Indices: 7032911--7032972 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
7032901 AATTATTTCA
7032911 ATTTTATTACTA-TAAAAGTATATATTAAATTT
1 ATTTTATTA-TATTAAAAGTATA-ATTAAATTT
* *
7032943 ATTTTATTATATTAAAATTATAATTTAATT
1 ATTTTATTATATTAAAAGTATAATTAAATT
7032973 AATAATTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
ATTTTATTATATTAAAAGTATAATTAAATTT
Found at i:7036267 original size:36 final size:35
Alignment explanation
Indices: 7036209--7036282 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 35
7036199 TATTTTTCTC
*
7036209 AATAACAAAAAGAATATTTATTAATGCATACAAAA
1 AATAACAAAAAGAATATATATTAATGCATACAAAA
7036244 AATAACAAAAA-ATTATATATATTAATGCATACAAAA
1 AATAACAAAAAGA--ATATATATTAATGCATACAAAA
7036280 AAT
1 AAT
7036283 TATGGAGTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 1 0.03
35 11 0.31
36 24 0.67
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (35 bp):
AATAACAAAAAGAATATATATTAATGCATACAAAA
Found at i:7036739 original size:29 final size:29
Alignment explanation
Indices: 7036696--7036801 Score: 97
Period size: 30 Copynumber: 3.6 Consensus size: 29
7036686 CGTTTTTTTT
* *
7036696 TTATTTTTA-AAATTTAGTCCGTATAATA
1 TTATTTTAAGAAATTTAGTCCTTATAATA
* * * *
7036724 TTATTTAAAGAAATTTAATTCTTGTAATA
1 TTATTTTAAGAAATTTAGTCCTTATAATA
** *
7036753 TTATTTTTAAGAAATCCAGTCCTTATAGTA
1 TTA-TTTTAAGAAATTTAGTCCTTATAATA
7036783 TTATATTTTAAGAAATTTA
1 -T-TATTTTAAGAAATTTA
7036802 TTCTATATGT
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 7 0.12
29 18 0.31
30 19 0.32
31 13 0.22
32 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.48
Consensus pattern (29 bp):
TTATTTTAAGAAATTTAGTCCTTATAATA
Found at i:7039953 original size:6 final size:6
Alignment explanation
Indices: 7039942--7039980 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
7039932 CATCGTCCTT
* *
7039942 AGGTGA AGGTGA AGGTGC AGGTGC AGGTGC AGGTGC AGG
1 AGGTGC AGGTGC AGGTGC AGGTGC AGGTGC AGGTGC AGG
7039981 CTGAGGAGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.23, C:0.10, G:0.51, T:0.15
Consensus pattern (6 bp):
AGGTGC
Found at i:7041643 original size:18 final size:18
Alignment explanation
Indices: 7041617--7041661 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
7041607 TCTTTGTTTT
* *
7041617 TTTTTTTTTTTCC-AATA
1 TTTTCTTTTTTCCTAAAA
7041634 TTTTCCTTTTTTCCTAAAA
1 TTTT-CTTTTTTCCTAAAA
7041653 TTTTCTTTT
1 TTTTCTTTT
7041662 CTTTATAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 13 0.54
19 7 0.29
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTCTTTTTTCCTAAAA
Found at i:7052290 original size:26 final size:26
Alignment explanation
Indices: 7052254--7052306 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7052244 ACTCTTTGGG
7052254 TAGCAAAACCTTCAAAGATAAAGCTA
1 TAGCAAAACCTTCAAAGATAAAGCTA
7052280 TAGCAAAACCTTCAAAGATAAAGCTA
1 TAGCAAAACCTTCAAAGATAAAGCTA
7052306 T
1 T
7052307 GTAATGCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (26 bp):
TAGCAAAACCTTCAAAGATAAAGCTA
Found at i:7057406 original size:24 final size:25
Alignment explanation
Indices: 7057360--7057406 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7057350 TGTTGTACCT
* * *
7057360 TATAATTTAAAATTTAATGTGATAA
1 TATAATATAAAATATAATATGATAA
7057385 TATAATATAAAA-ATAATATGAT
1 TATAATATAAAATATAATATGAT
7057407 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (25 bp):
TATAATATAAAATATAATATGATAA
Found at i:7057470 original size:8 final size:8
Alignment explanation
Indices: 7057453--7057483 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
7057443 AATTAAAAAA
7057453 TATATATTT
1 TATAT-TTT
7057462 TATATTTT
1 TATATTTT
7057470 TATATTTT
1 TATATTTT
7057478 TATATT
1 TATATT
7057484 AATACGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.77
9 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TATATTTT
Found at i:7057969 original size:2 final size:2
Alignment explanation
Indices: 7057962--7057989 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7057952 TTTTTCAGAG
7057962 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
7057990 GTCAACATCC
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:7061553 original size:24 final size:22
Alignment explanation
Indices: 7061511--7061566 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
7061501 TAAATATAAA
*
7061511 AATAATAATATAATTTAAAATTTT
1 AATAATAATATAATAT-AAA-TTT
7061535 AATAATAAT-TATATATAAATTT
1 AATAATAATATA-ATATAAATTT
*
7061557 AATAAAAATA
1 AATAATAATA
7061567 AAAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 11 0.39
23 5 0.18
24 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAATAATATAATATAAATTT
Found at i:7063818 original size:15 final size:16
Alignment explanation
Indices: 7063800--7063834 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7063790 AATATATGAT
7063800 AAATAAATA-ATTTTA
1 AAATAAATATATTTTA
7063815 AAATAAATATATTTTA
1 AAATAAATATATTTTA
7063831 AAAT
1 AAAT
7063835 TTTTAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATAAATATATTTTA
Found at i:7064082 original size:185 final size:176
Alignment explanation
Indices: 7063867--7064229 Score: 627
Period size: 185 Copynumber: 2.0 Consensus size: 176
7063857 TTTTAATGTT
7063867 TACATTGATTAGGGTTAGAAGTGAAATTTTTTGAAAAAATAAAAAATCAATCCAAAACAGCAATA
1 TACATTGATTAGGGTTAGAAGTGAAATTTTTTGAAAAAATAAAAAATCAATCCAAAACAGCAATA
7063932 TTCGTTTGATTTAAATTTTTTTAATTGATTCGAATTAAATTCGATTAGTAAATATATATTAAATT
66 TTCGTTTGATTTAAA-TTTTTTAATTGATTCGAATTAAATTCGATTAGT-AA-ATATA-T--A-T
7063997 CGAATCAGATTTTAAATCAAAAAATTAAATATTAAAAAAATTAAATCAAATTATA
124 --AATCAGATTTTAAATCAAAAAATTAAATATTAAAAAAATTAAATCAAATTATA
*
7064052 TACATTGATTAGGGTTAGAAGTGAAATTTTTTGAAAAAATAAAAATTCAATCCAAAACAGCAATA
1 TACATTGATTAGGGTTAGAAGTGAAATTTTTTGAAAAAATAAAAAATCAATCCAAAACAGCAATA
*
7064117 TTCGTTTGATTTAAATTTTTTAGTTGATTCGAATTAAATTCGATTAGTAAATATATATAATCAGA
66 TTCGTTTGATTTAAATTTTTTAATTGATTCGAATTAAATTCGATTAGTAAATATATATAATCAGA
7064182 TTTTAAATCAAAAAATTAAATATTAAAAAAATTAAATCAAATTATA
131 TTTTAAATCAAAAAATTAAATATTAAAAAAATTAAATCAAATTATA
7064228 TA
1 TA
7064230 TTTTATTAGT
Statistics
Matches: 176, Mismatches: 2, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
176 55 0.31
178 1 0.01
179 1 0.01
181 1 0.01
182 5 0.03
183 2 0.01
184 32 0.18
185 79 0.45
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (176 bp):
TACATTGATTAGGGTTAGAAGTGAAATTTTTTGAAAAAATAAAAAATCAATCCAAAACAGCAATA
TTCGTTTGATTTAAATTTTTTAATTGATTCGAATTAAATTCGATTAGTAAATATATATAATCAGA
TTTTAAATCAAAAAATTAAATATTAAAAAAATTAAATCAAATTATA
Found at i:7064320 original size:22 final size:25
Alignment explanation
Indices: 7064290--7064349 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
7064280 TTTTATATCT
*
7064290 AATTTTATTTAAAT-ATAT-T-AAA
1 AATTATATTTAAATAATATATAAAA
7064312 AATTATA-TTAACATAATATATAAAA
1 AATTATATTTAA-ATAATATATAAAA
*
7064337 AATTAAATTTAAA
1 AATTATATTTAAA
7064350 AAATTGCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 4 0.13
24 1 0.03
25 10 0.32
26 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTATATTTAAATAATATATAAAA
Found at i:7064394 original size:11 final size:11
Alignment explanation
Indices: 7064378--7064408 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7064368 GGTGGATTTG
7064378 ATTCAAATTAT
1 ATTCAAATTAT
*
7064389 ATTCAAATTTT
1 ATTCAAATTAT
7064400 ATTCAAATT
1 ATTCAAATT
7064409 CGAATCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTCAAATTAT
Found at i:7064403 original size:22 final size:22
Alignment explanation
Indices: 7064373--7064422 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
7064363 GAACTGGTGG
* * *
7064373 ATTTGATTCAAATTATATTCAA
1 ATTTTATTCAAATTAGAATCAA
*
7064395 ATTTTATTCAAATTCGAATCAA
1 ATTTTATTCAAATTAGAATCAA
7064417 ATTTTA
1 ATTTTA
7064423 AAAATATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTTTATTCAAATTAGAATCAA
Found at i:7065321 original size:32 final size:32
Alignment explanation
Indices: 7065235--7065301 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
7065225 AGAGAGACAG
7065235 AAAACCAACAATGAGAAACTAAATTGAACATA
1 AAAACCAACAATGAGAAACTAAATTGAACATA
7065267 AAAACCAACAATGAGAAACTAAATTGAACATA
1 AAAACCAACAATGAGAAACTAAATTGAACATA
7065299 AAA
1 AAA
7065302 CAATAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.61, C:0.15, G:0.09, T:0.15
Consensus pattern (32 bp):
AAAACCAACAATGAGAAACTAAATTGAACATA
Found at i:7066623 original size:13 final size:13
Alignment explanation
Indices: 7066605--7066645 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
7066595 TTTAAATTTT
*
7066605 TTATTTTTATATA
1 TTATTTTAATATA
7066618 TTATTTTAATATA
1 TTATTTTAATATA
**
7066631 AAATTTTAATATA
1 TTATTTTAATATA
7066644 TT
1 TT
7066646 TAAATAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:7066635 original size:33 final size:32
Alignment explanation
Indices: 7066598--7066679 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
7066588 TTAAATTTTT
*
7066598 AAATTTTTTATTTTTATATATTATTTTAATATA
1 AAATTTTTTATTTTTATATA-AATTTTAATATA
* * * *
7066631 AAATTTTAATATATTTAAATAAATTTTGATATA
1 AAATTTT-TTATTTTTATATAAATTTTAATATA
*
7066664 AAA-TTATTATTTTTAT
1 AAATTTTTTATTTTTAT
7066680 TTTATAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
31 7 0.18
32 2 0.05
33 20 0.51
34 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (32 bp):
AAATTTTTTATTTTTATATAAATTTTAATATA
Found at i:7069870 original size:2 final size:2
Alignment explanation
Indices: 7069863--7069891 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7069853 CAAGAATTTA
7069863 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7069892 AAATATGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7075313 original size:15 final size:16
Alignment explanation
Indices: 7075293--7075327 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7075283 AACATAATAT
*
7075293 AATAATATT-ATACAA
1 AATAATATTAATAAAA
7075308 AATAATATTAATAAAA
1 AATAATATTAATAAAA
7075324 AATA
1 AATA
7075328 TAAATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATATTAATAAAA
Found at i:7075332 original size:6 final size:6
Alignment explanation
Indices: 7075323--7075378 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
7075313 TATTAATAAA
* *
7075323 AAATAT AAATAT AAATAT AAAT-T ATATAT AAAT-T TAATA- AAAT-T
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
*
7075367 AAATAA AAATAT
1 AAATAT AAATAT
7075379 TTTATATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
5 15 0.38
6 25 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AAATAT
Found at i:7075339 original size:19 final size:18
Alignment explanation
Indices: 7075311--7075377 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 18
7075301 TATACAAAAT
*
7075311 AATATTAATAAAAAATATA
1 AATATAAATAAAAAAT-TA
*
7075330 AATATAAAT-ATAAATTA
1 AATATAAATAAAAAATTA
*
7075347 TATATAAATTTAATAAAATTA
1 AATATAAA--TAA-AAAATTA
*
7075368 AATAAAAATA
1 AATATAAATA
7075378 TTTTATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
17 9 0.24
18 5 0.13
19 11 0.29
20 1 0.03
21 12 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATATAAATAAAAAATTA
Found at i:7075353 original size:11 final size:11
Alignment explanation
Indices: 7075323--7075376 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
7075313 TATTAATAAA
7075323 AAATATAAATAT
1 AAATATAAAT-T
7075335 AAATATAAATT
1 AAATATAAATT
*
7075346 ATATATAAATT
1 AAATATAAATT
*
7075357 TAATA-AAATT
1 AAATATAAATT
*
7075367 AAATAAAAAT
1 AAATATAAAT
7075377 ATTTTATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 9 0.24
11 18 0.49
12 10 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATAAATT
Found at i:7075365 original size:21 final size:23
Alignment explanation
Indices: 7075323--7075378 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
7075313 TATTAATAAA
7075323 AAATATAAATATAAATATAAATT
1 AAATATAAATATAAATATAAATT
* *
7075346 ATATATAAAT-TTAATA-AAATT
1 AAATATAAATATAAATATAAATT
*
7075367 AAATAAAAATAT
1 AAATATAAATAT
7075379 TTTATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.46
22 6 0.21
23 9 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATAAATATAAATATAAATT
Found at i:7075640 original size:33 final size:33
Alignment explanation
Indices: 7075576--7075641 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
7075566 ATTATTATAT
**
7075576 AAATATATAAATTATTAATAATTTACGTAATAA
1 AAATATATAAATTATTAATAATTTAAATAATAA
*
7075609 AAATATATAAATTATT-ATATTTATAAATAATAA
1 AAATATATAAATTATTAATAATT-TAAATAATAA
7075642 TACCAAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (33 bp):
AAATATATAAATTATTAATAATTTAAATAATAA
Found at i:7077127 original size:20 final size:22
Alignment explanation
Indices: 7077104--7077156 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
7077094 ATAATTATTT
7077104 TATATATAAATTTAT-TT-AAA
1 TATATATAAATTTATATTAAAA
7077124 TATAT-TAAAATTTATATTAAAA
1 TATATAT-AAATTTATATTAAAA
7077146 TAATATATAAA
1 T-ATATATAAA
7077157 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.04
20 13 0.46
21 2 0.07
22 4 0.14
23 7 0.25
24 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATATAAATTTATATTAAAA
Found at i:7077164 original size:27 final size:26
Alignment explanation
Indices: 7077122--7077173 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
7077112 AATTTATTTA
* *
7077122 AATATATTAAAATTTATA-TTAAAAT
1 AATATATAAAAATTTAAATTTAAAAT
7077147 AATATATAAAAAATTTTAAATTTAAAA
1 AATATAT-AAAAA-TTTAAATTTAAAA
7077174 ATCAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 4 0.18
27 5 0.23
28 6 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATATAAAAATTTAAATTTAAAAT
Found at i:7078113 original size:11 final size:11
Alignment explanation
Indices: 7078080--7078119 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
7078070 ACTTTTAATA
7078080 TTTTAAAATTAT
1 TTTTAAAATT-T
7078092 ATTTTATAAATTT
1 -TTTTA-AAATTT
7078105 TTTTAAAATTT
1 TTTTAAAATTT
7078116 TTTT
1 TTTT
7078120 TGAATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 10 0.38
12 5 0.19
13 6 0.23
14 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:7082982 original size:18 final size:19
Alignment explanation
Indices: 7082959--7083007 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
7082949 CATTTTCATT
7082959 TTCCTCTTCTTCATT-CTG
1 TTCCTCTTCTTCATTCCTG
* *
7082977 TTCCTCTTCCTC-TTCCTT
1 TTCCTCTTCTTCATTCCTG
*
7082995 TTCTTCTTCTTCA
1 TTCCTCTTCTTCA
7083008 GACTCATCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.04, C:0.37, G:0.02, T:0.57
Consensus pattern (19 bp):
TTCCTCTTCTTCATTCCTG
Found at i:7089005 original size:12 final size:13
Alignment explanation
Indices: 7088965--7089009 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
7088955 GTAAGTTAGT
*
7088965 AAAAATCAAGT-A
1 AAAAATAAAGTAA
7088977 AAAAATAAAGTAA
1 AAAAATAAAGTAA
7088990 AAAAAT-AAG-AA
1 AAAAATAAAGTAA
*
7089001 GAAAATAAA
1 AAAAATAAA
7089010 TATATAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 7 0.24
12 15 0.52
13 7 0.24
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (13 bp):
AAAAATAAAGTAA
Found at i:7090374 original size:21 final size:22
Alignment explanation
Indices: 7090344--7090393 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
7090334 TGCGTGTGTC
* *
7090344 AAAAAG-ATTACACATGATC-T
1 AAAAAGCATTAAACATCATCAT
*
7090364 AAAAAGCATTAAACTTCATCAT
1 AAAAAGCATTAAACATCATCAT
7090386 AAAAAGCA
1 AAAAAGCA
7090394 AACTTTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.24
21 10 0.40
22 9 0.36
ACGTcount: A:0.54, C:0.16, G:0.08, T:0.22
Consensus pattern (22 bp):
AAAAAGCATTAAACATCATCAT
Found at i:7096493 original size:18 final size:17
Alignment explanation
Indices: 7096459--7096506 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 17
7096449 AATTAAAAAA
7096459 ATTTTTAAAAATATTTT
1 ATTTTTAAAAATATTTT
*
7096476 ATTTTTAAAATATTTTTT
1 ATTTTTAAAA-ATATTTT
7096494 ATTTTTTAAAAAT
1 A-TTTTTAAAAAT
7096507 GATACTTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 10 0.36
18 9 0.32
19 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTAAAAATATTTT
Found at i:7097949 original size:28 final size:29
Alignment explanation
Indices: 7097913--7097969 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
7097903 TATTTGAAAG
7097913 TTTAGGGTG-CAAATTGTACATTTTATTTC
1 TTTAGGGTGTCAAATTGTACATTTT-TTTC
*
7097942 TTTA-GGTGTCAATTTGTACATTTTTTTC
1 TTTAGGGTGTCAAATTGTACATTTTTTTC
7097970 AAAATTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (29 bp):
TTTAGGGTGTCAAATTGTACATTTTTTTC
Found at i:7101329 original size:2 final size:2
Alignment explanation
Indices: 7101324--7101375 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
7101314 CCTTTCTCTC
* * *
7101324 AT AT AT AT AT AT AT AT AA AT AT AT AA AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7101366 AT AT AT AT AT
1 AT AT AT AT AT
7101376 TCTAACGTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:7106948 original size:124 final size:120
Alignment explanation
Indices: 7106819--7107069 Score: 389
Period size: 124 Copynumber: 2.0 Consensus size: 120
7106809 TTCGATATTA
7106819 AAATATTATTTTTATACTCAAATCTAATTTAATCAATATATATTTAAATTCGTAATC-ATTCGAT
1 AAATATTATTTTTATACTCAAATCTAATTTAATCAATATATATTTAAATTCGTAATCGATTCGA-
* *
7106883 TGAAAATATTAAAATA-TATTTTTTAAATATAAATATGTAAATATAAAATTAAAATTAAAT
65 TGAAAATAATAAAATATTA-TTTTTAAATATAAATAT-AAAAT-TAAAATT-AAA-TAAAT
7106943 AAATATTATTTTTATACTCAAATCTAATTTAATCAATATATATTTAAATTCGTAATCGATTCGAT
1 AAATATTATTTTTATACTCAAATCTAATTTAATCAATATATATTTAAATTCGTAATCGATTCGAT
* *
7107008 GGAATTAATAAAATATTATTTTTAAATATAAATATAAAATTAAAATTAAATAAAT
66 GAAAATAATAAAATATTATTTTTAAATATAAATATAAAATTAAAATTAAATAAAT
7107063 AATATAT
1 AA-ATAT
7107070 ATACTAAGTT
Statistics
Matches: 120, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
120 7 0.06
121 7 0.06
122 7 0.06
123 4 0.03
124 87 0.73
125 8 0.07
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (120 bp):
AAATATTATTTTTATACTCAAATCTAATTTAATCAATATATATTTAAATTCGTAATCGATTCGAT
GAAAATAATAAAATATTATTTTTAAATATAAATATAAAATTAAAATTAAATAAAT
Found at i:7108402 original size:10 final size:9
Alignment explanation
Indices: 7108378--7108421 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
7108368 TATTTTTATT
7108378 TTATAAAAA
1 TTATAAAAA
7108387 TT-TAAAAA
1 TTATAAAAA
7108395 TATATAAAAA
1 T-TATAAAAA
7108405 TTAATAAAAA
1 TT-ATAAAAA
7108415 TATATAA
1 T-TATAA
7108422 TTCGTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.23
9 4 0.13
10 19 0.61
11 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:7108402 original size:18 final size:19
Alignment explanation
Indices: 7108379--7108421 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
7108369 ATTTTTATTT
7108379 TATAAAAATT-TAAAAATA
1 TATAAAAATTATAAAAATA
7108397 TATAAAAATTAATAAAAATA
1 TATAAAAATT-ATAAAAATA
7108417 TATAA
1 TATAA
7108422 TTCGTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.43
20 13 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:7108501 original size:13 final size:13
Alignment explanation
Indices: 7108481--7108515 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
7108471 AATTCATTTC
7108481 AAATTTAATATAT
1 AAATTTAATATAT
* *
7108494 ATATTTAATATTT
1 AAATTTAATATAT
7108507 AAATTTAAT
1 AAATTTAAT
7108516 TCAAATCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTTAATATAT
Found at i:7112708 original size:13 final size:13
Alignment explanation
Indices: 7112692--7112716 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7112682 TTAAATTATG
7112692 TTATTTTTATATT
1 TTATTTTTATATT
7112705 TTATTTTTATAT
1 TTATTTTTATAT
7112717 CATATTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTTATATT
Found at i:7119928 original size:21 final size:21
Alignment explanation
Indices: 7119902--7119948 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
7119892 TGTAAAATTA
*
7119902 ATAAAATATTAATTTTT-TAAT
1 ATAAAATATT-ATTTTTAAAAT
7119923 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
7119944 ATAAA
1 ATAAA
7119949 TTAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:7120997 original size:14 final size:14
Alignment explanation
Indices: 7120974--7121006 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7120964 TTTTATATTT
*
7120974 ATATTTAAAAATTA
1 ATATTAAAAAATTA
7120988 ATATTAAAAAATTA
1 ATATTAAAAAATTA
7121002 ATATT
1 ATATT
7121007 TTATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTAAAAAATTA
Found at i:7122165 original size:17 final size:19
Alignment explanation
Indices: 7122139--7122173 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7122129 CAAAATATTA
7122139 TTTTTCATTTTCA-TTTTG
1 TTTTTCATTTTCACTTTTG
7122157 TTTTT-ATTTTCACTTTT
1 TTTTTCATTTTCACTTTT
7122174 CTTCTCATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTTTCATTTTCACTTTTG
Found at i:7131813 original size:18 final size:18
Alignment explanation
Indices: 7131790--7131825 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7131780 ACACACCAGG
7131790 GCCTTATAGATATTCTTT
1 GCCTTATAGATATTCTTT
7131808 GCCTTATAGATATTCTTT
1 GCCTTATAGATATTCTTT
7131826 ACCCAACTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
GCCTTATAGATATTCTTT
Found at i:7141240 original size:2 final size:2
Alignment explanation
Indices: 7141233--7141260 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7141223 TAAAGAAGAG
7141233 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7141261 CATTTCTGTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7144862 original size:21 final size:22
Alignment explanation
Indices: 7144838--7144887 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
7144828 TAAAAATATA
*
7144838 AAATATTTTTTTAA-TTTTATT
1 AAATATTTTTATAATTTTTATT
*
7144859 AAAT-TTATTATAATTTTTATT
1 AAATATTTTTATAATTTTTATT
7144880 AAA-ATTTT
1 AAATATTTT
7144888 AAATCATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AAATATTTTTATAATTTTTATT
Found at i:7145472 original size:22 final size:22
Alignment explanation
Indices: 7145432--7145473 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7145422 GATTTAAAAT
** *
7145432 TTTAATAAAAATTATAAATAAG
1 TTTAATAAAAACCAAAAATAAG
7145454 TTTAATAAAAACCAAAAATA
1 TTTAATAAAAACCAAAAATA
7145474 TATATTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (22 bp):
TTTAATAAAAACCAAAAATAAG
Found at i:7148107 original size:111 final size:111
Alignment explanation
Indices: 7147913--7148135 Score: 446
Period size: 111 Copynumber: 2.0 Consensus size: 111
7147903 GATAGTCATG
7147913 TGTGCTACTGATTATATATGAGTTAATCTTGGCCTGATTAGCATCTAGCTGGTCCTCGGAAGTTC
1 TGTGCTACTGATTATATATGAGTTAATCTTGGCCTGATTAGCATCTAGCTGGTCCTCGGAAGTTC
7147978 TGCTTAGAAACTTTTTCATAGTCAAATACTATGAGAAGGACTGAAT
66 TGCTTAGAAACTTTTTCATAGTCAAATACTATGAGAAGGACTGAAT
7148024 TGTGCTACTGATTATATATGAGTTAATCTTGGCCTGATTAGCATCTAGCTGGTCCTCGGAAGTTC
1 TGTGCTACTGATTATATATGAGTTAATCTTGGCCTGATTAGCATCTAGCTGGTCCTCGGAAGTTC
7148089 TGCTTAGAAACTTTTTCATAGTCAAATACTATGAGAAGGACTGAAT
66 TGCTTAGAAACTTTTTCATAGTCAAATACTATGAGAAGGACTGAAT
7148135 T
1 T
7148136 ATGGAGGGGG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 112 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (111 bp):
TGTGCTACTGATTATATATGAGTTAATCTTGGCCTGATTAGCATCTAGCTGGTCCTCGGAAGTTC
TGCTTAGAAACTTTTTCATAGTCAAATACTATGAGAAGGACTGAAT
Found at i:7158161 original size:2 final size:2
Alignment explanation
Indices: 7158154--7158191 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7158144 TAAAGAAGAG
7158154 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7158192 CATTTCTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7161840 original size:20 final size:21
Alignment explanation
Indices: 7161803--7161841 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7161793 AAAATTTTAA
7161803 TTTTATTAAATATATTAAAAT
1 TTTTATTAAATATATTAAAAT
*
7161824 TTTTATTAAA-ATTTTAAA
1 TTTTATTAAATATATTAAA
7161842 TTATATCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTATTAAATATATTAAAAT
Found at i:7162427 original size:22 final size:22
Alignment explanation
Indices: 7162387--7162428 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7162377 GATTTAAAAT
** *
7162387 TTTAATAAAAATTATAAATAAG
1 TTTAATAAAAACCAAAAATAAG
7162409 TTTAATAAAAACCAAAAATA
1 TTTAATAAAAACCAAAAATA
7162429 TATATTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (22 bp):
TTTAATAAAAACCAAAAATAAG
Found at i:7163648 original size:16 final size:15
Alignment explanation
Indices: 7163624--7163678 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
7163614 TATTTTTTAA
*
7163624 TTATTTATTTATATAT
1 TTATATATTTATAT-T
7163640 TTATATATTTATATT
1 TTATATATTTATATT
* * *
7163655 TTA-AAAATAATATT
1 TTATATATTTATATT
7163669 TTATAT-TTTA
1 TTATATATTTA
7163679 AAAAATAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
14 13 0.42
15 5 0.16
16 13 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATATTTATATT
Found at i:7163652 original size:8 final size:8
Alignment explanation
Indices: 7163624--7163657 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
7163614 TATTTTTTAA
*
7163624 TTATTTAT
1 TTATATAT
7163632 TTATATAT
1 TTATATAT
7163640 TTATATAT
1 TTATATAT
7163648 TTATAT-T
1 TTATATAT
7163655 TTA
1 TTA
7163658 AAAATAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTATATAT
Found at i:7163667 original size:20 final size:21
Alignment explanation
Indices: 7163644--7163695 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
7163634 ATATATTTAT
7163644 ATATTTATATTTT-AAAAATA
1 ATATTTATATTTTAAAAAATA
7163664 ATATTTTATATTTTAAAAAATA
1 ATA-TTTATATTTTAAAAAATA
7163686 ATATTT-TATT
1 ATATTTATATT
7163696 AATTTCGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.23
21 13 0.43
22 10 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTATATTTTAAAAAATA
Found at i:7163673 original size:21 final size:22
Alignment explanation
Indices: 7163642--7163694 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
7163632 TTATATATTT
7163642 ATATATTTATATTTT-AAAAATA
1 ATAT-TTTATATTTTAAAAAATA
7163664 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
7163686 ATATTTTAT
1 ATATTTTAT
7163695 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:7169930 original size:2 final size:2
Alignment explanation
Indices: 7169923--7169957 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7169913 TGACTGTAAT
7169923 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7169958 GTTATCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7169946 original size:15 final size:15
Alignment explanation
Indices: 7169926--7169955 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7169916 CTGTAATTAT
7169926 ATATATATATATATA
1 ATATATATATATATA
7169941 ATATATATATATATA
1 ATATATATATATATA
7169956 TAGTTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:7169946 original size:17 final size:17
Alignment explanation
Indices: 7169924--7169957 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7169914 GACTGTAATT
7169924 ATATATATATATATATA
1 ATATATATATATATATA
7169941 ATATATATATATATATA
1 ATATATATATATATATA
7169958 GTTATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:7171417 original size:20 final size:20
Alignment explanation
Indices: 7171389--7171427 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7171379 TAAATAATTG
* *
7171389 TTTATAATTTAATACTATTA
1 TTTAAAATTTAAAACTATTA
7171409 TTTAAAATTTAAAACTATT
1 TTTAAAATTTAAAACTATT
7171428 TCATTTCAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATTTAAAACTATTA
Found at i:7172143 original size:59 final size:59
Alignment explanation
Indices: 7172053--7172458 Score: 453
Period size: 59 Copynumber: 6.7 Consensus size: 59
7172043 TTGTGTAGGA
* * *
7172053 AAAATTGATACTTTCAACTTTTCCCCAAAAATTATTTTTTTAGAAA-TTT-ACTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTT-GAAACTTTGATTTTTAAGG
* *
7172112 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTTTTTTGGAAACTTTGATTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA------TTTTTTT-GAAACTTTGATTTTTAAG
7172177 G
59 G
* * *
7172178 AAAGTTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTTGAAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATA-TTTTTTTG-AAACTTTGATTTTTAAGG
* ** *
7172241 AAAATCGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTAGAAACTTTG-TTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAACTTTGATTTTTAAGG
* * *
7172300 AAGATTGATACTTTCAACTTTTCC-CTAAAATATTTTTTTGAAAATTTTGATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAACTTTGATTTTTAAGG
* *** *
7172359 AAAATTGATACTTTCAATTTTTCCTCAAAACCCTTTTTTTGAAA-TTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTTTAAGG
*
7172417 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGA
7172459 TTTTTATTTA
Statistics
Matches: 296, Mismatches: 36, Indels: 31
0.82 0.10 0.09
Matches are distributed among these distances:
57 7 0.02
58 64 0.22
59 92 0.31
60 20 0.07
61 8 0.03
62 5 0.02
63 48 0.16
64 11 0.04
65 3 0.01
66 31 0.10
67 4 0.01
68 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTGATTTTTAAGG
Found at i:7172612 original size:17 final size:18
Alignment explanation
Indices: 7172587--7172626 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
7172577 TCTAATAAAT
* *
7172587 AAAATAAATAAA-ACAAA
1 AAAACAAATAAATAAAAA
7172604 AAAACAAATAAATAAAAA
1 AAAACAAATAAATAAAAA
7172622 AAAAC
1 AAAAC
7172627 CTAGAGCGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAACAAATAAATAAAAA
Found at i:7172898 original size:18 final size:20
Alignment explanation
Indices: 7172875--7172914 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7172865 TAGAACACTC
7172875 CTTCC-TTCT-CTCTCTCTT
1 CTTCCTTTCTCCTCTCTCTT
*
7172893 CTTCCTTTTTCCTCTCTCTT
1 CTTCCTTTCTCCTCTCTCTT
7172913 CT
1 CT
7172915 CTCTAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.57
Consensus pattern (20 bp):
CTTCCTTTCTCCTCTCTCTT
Found at i:7173517 original size:19 final size:19
Alignment explanation
Indices: 7173472--7173519 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
7173462 AAAAAATAAT
*
7173472 AATAATAATCAGATAATCG
1 AATAAAAATCAGATAATCG
7173491 AA-AAAAATCAGATAAAT-G
1 AATAAAAATCAGAT-AATCG
7173509 AATAAAAATCA
1 AATAAAAATCA
7173520 AATTAACAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.21
Consensus pattern (19 bp):
AATAAAAATCAGATAATCG
Found at i:7173597 original size:12 final size:12
Alignment explanation
Indices: 7173576--7173737 Score: 58
Period size: 12 Copynumber: 13.8 Consensus size: 12
7173566 TTACAAGGTA
*
7173576 AAAAAAAATAAT
1 AAAAATAATAAT
7173588 AAAAATAATAAT
1 AAAAATAATAAT
*
7173600 AATAATAAT-AT
1 AAAAATAATAAT
** *
7173611 AACTATAA-AAA
1 AAAAATAATAAT
*
7173622 AAAATATAATATT
1 AAAA-ATAATAAT
7173635 AACAAA-AA-AAT
1 AA-AAATAATAAT
*
7173646 AAATA-AATAAAT
1 AAAAATAAT-AAT
*
7173658 AAAGAT-ATACAT
1 AAAAATAATA-AT
* *
7173670 -ATATTAATACAT
1 AAAAATAATA-AT
*
7173682 AACAATAATAAT
1 AAAAATAATAAT
7173694 AAATAATAA-AAT
1 AAA-AATAATAAT
* **
7173706 ACATAA-AATACC
1 A-AAAATAATAAT
7173718 AAAAA-AA-AAT
1 AAAAATAATAAT
7173728 AAAAATAATA
1 AAAAATAATA
7173738 CAAGATAAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
10 10 0.09
11 27 0.24
12 55 0.50
13 17 0.15
14 2 0.02
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.24
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:7173630 original size:23 final size:23
Alignment explanation
Indices: 7173604--7173654 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
7173594 AATAATAATA
7173604 ATAATA-TAACTATAAAAAA-AAAT
1 ATAATATTAAC-A-AAAAAATAAAT
7173627 ATAATATTAACAAAAAAATAAAT
1 ATAATATTAACAAAAAAATAAAT
7173650 A-AATA
1 ATAATA
7173655 AATAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 10 0.38
23 12 0.46
24 4 0.15
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (23 bp):
ATAATATTAACAAAAAAATAAAT
Done.