Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, 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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 89
Found at i:5931129 original size:134 final size:131
Alignment explanation
Indices: 5930961--5931271 Score: 333
Period size: 131 Copynumber: 2.4 Consensus size: 131
5930951 GCTGGTTGGT
** * * * *
5930961 GGATGACATGGTTCCTACGTGATGAGGACGACATACCATATTTAGGGAGGGTGATAACACGGTTC
1 GGATGACACAGTTCCTACGCGATGAGGATGACATACCATATTTAGGGA--G-AATAACACAGTTC
* * * ** *
5931026 CTACACGATGAGGACGGCTTGTTATCT-GAGGTTGACACGACTCCTATGTGGTGAAGAGGTTTGG
63 ATACACGATGAGGACGACTTGTTATCTAGA-GATGACACGACTCCTACCTGATGAAGAGGTTTGG
5931090 GCGGG
127 GCGGG
* * * ** *
5931095 GGATTATA-TGATTCCTACGCGATGAGGATGACATATAATCTTTAGGGAGAATAACACAGTTCAT
1 GGATGACACAG-TTCCTACGCGATGAGGATGACATACCATATTTAGGGAGAATAACACAGTTCAT
** * *
5931159 ACGTGATGAGGACGACTTGTTATCTAGAGATGACACGGCTCCTACCTGATGAAGAGGTTTGGTCG
65 ACACGATGAGGACGACTTGTTATCTAGAGATGACACGACTCCTACCTGATGAAGAGGTTTGGGCG
5931224 GG
130 GG
* *
5931226 GGATGACACAGTTCCAACGC--TGAGGATGACAAACCATATTTAGGGA
1 GGATGACACAGTTCCTACGCGATGAGGATGACATACCATATTTAGGGA
5931272 TAATGTTTCA
Statistics
Matches: 146, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
129 22 0.15
131 81 0.55
132 4 0.03
133 1 0.01
134 38 0.26
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (131 bp):
GGATGACACAGTTCCTACGCGATGAGGATGACATACCATATTTAGGGAGAATAACACAGTTCATA
CACGATGAGGACGACTTGTTATCTAGAGATGACACGACTCCTACCTGATGAAGAGGTTTGGGCGG
G
Found at i:5931468 original size:68 final size:66
Alignment explanation
Indices: 5931319--5931563 Score: 248
Period size: 66 Copynumber: 3.7 Consensus size: 66
5931309 CAATAAAAGT
* * * * *
5931319 TGTCTCAAGAGAGACAAAATTTATTTCAAGGGGAACAATCTCAAAGAT-TGGTGTTTCATGAGGA
1 TGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATATTGTGTTTCA-GAGAA
5931383 AC
65 AC
* * * * *
5931385 TGTCTCAAGGGAGACAAAACTTGTTTTAAGCGAAACAATCTCAAAGATAGTTTTGTTTCTAGAGA
1 TGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATA-TTGTGTTTC-AGAGA
5931450 AAC
64 AAC
* * *
5931453 TGTCTCAAGAGAGACAAAATTTTGTTTTAAGAGAAA-AGA-CTCACA-A-ATTGTGTTTCAAGAT
1 TGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACA-ATCTCAAAGATATTGTGTTTC-AGAG
*
5931514 AAAA
63 AAAC
* * *
5931518 TGTCTCAAGAAATACAAAATTTGTTTCAAGAGAAACAATCTAAAAG
1 TGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAG
5931564 TTTGTCAATT
Statistics
Matches: 149, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
64 16 0.11
65 36 0.24
66 43 0.29
67 1 0.01
68 37 0.25
69 16 0.11
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (66 bp):
TGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATATTGTGTTTCAGAGAAA
C
Found at i:5931486 original size:37 final size:37
Alignment explanation
Indices: 5931382--5931488 Score: 93
Period size: 32 Copynumber: 3.1 Consensus size: 37
5931372 TTTCATGAGG
* * *
5931382 AACTGTCTCAAGGGAGACAAAA-CTTGTTTTAAGCGA
1 AACTGTCTCAAGAGAGACAAAATTTTGTTTTAAGAGA
** * *
5931418 AACAATCTC-A-A-AG--ATAGTTTTGTTTCT-AGAGA
1 AACTGTCTCAAGAGAGACAAAATTTTGTTT-TAAGAGA
5931450 AACTGTCTCAAGAGAGACAAAATTTTGTTTTAAGAGA
1 AACTGTCTCAAGAGAGACAAAATTTTGTTTTAAGAGA
5931487 AA
1 AA
5931489 AGACTCACAA
Statistics
Matches: 52, Mismatches: 11, Indels: 15
0.67 0.14 0.19
Matches are distributed among these distances:
31 2 0.04
32 17 0.33
33 4 0.08
34 1 0.02
35 3 0.06
36 8 0.15
37 17 0.33
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (37 bp):
AACTGTCTCAAGAGAGACAAAATTTTGTTTTAAGAGA
Found at i:5931535 original size:133 final size:134
Alignment explanation
Indices: 5931319--5931563 Score: 300
Period size: 133 Copynumber: 1.8 Consensus size: 134
5931309 CAATAAAAGT
* * * *
5931319 TGTCTCAAGAGAGACAAAATTTATTTCAAGGGGAACAATCTCAAAGATTGGTGTTTCATGAGGAA
1 TGTCTCAAGAGAGACAAAATTTATTTCAAGGAGAACAAACTCAAAGATTGGTGTTTCAAGAGAAA
* ** * * *
5931384 CTGTCTCAAGGGAGACAAAACTTGTTTTAAGCGAAACAATCTCAAAGATAGTTTTGTTTCTAGAG
66 ATGTCTCAAGAAAGACAAAACTTGTTTCAAGAGAAACAATCTAAAAGATAGTTTTGTTTCTAGAG
5931449 AAAC
131 AAAC
* * *
5931453 TGTCTCAAGAGAGACAAAATTTTGTTTTAA-GAGAA-AAGACTCACAA-ATT-GTGTTTCAAGAT
1 TGTCTCAAGAGAGACAAAA-TTTATTTCAAGGAGAACAA-ACTCA-AAGATTGGTGTTTCAAGAG
* *
5931514 AAAATGTCTCAAGAAATACAAAATTTGTTTCAAGAGAAACAATCTAAAAG
63 AAAATGTCTCAAGAAAGACAAAACTTGTTTCAAGAGAAACAATCTAAAAG
5931564 TTTGTCAATT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
133 53 0.57
134 30 0.32
135 10 0.11
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.28
Consensus pattern (134 bp):
TGTCTCAAGAGAGACAAAATTTATTTCAAGGAGAACAAACTCAAAGATTGGTGTTTCAAGAGAAA
ATGTCTCAAGAAAGACAAAACTTGTTTCAAGAGAAACAATCTAAAAGATAGTTTTGTTTCTAGAG
AAAC
Found at i:5931754 original size:34 final size:36
Alignment explanation
Indices: 5931701--5931792 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 36
5931691 GAAATTTGTA
* * * *
5931701 TTTTGAGAGAAACTATCTCAAGTGAGACAAAATATG
1 TTTTTAGAGAAATTGTCTCAAGCGAGACAAAATATG
* *
5931737 -TTTT-GAGAAATTGTCTCAAGCGAGACACAATTTG
1 TTTTTAGAGAAATTGTCTCAAGCGAGACAAAATATG
*
5931771 TTTTTAAAAGAAATTGTCTCAA
1 TTTTT-AGAGAAATTGTCTCAA
5931793 AAGTGACAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
34 25 0.54
35 7 0.15
37 14 0.30
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (36 bp):
TTTTTAGAGAAATTGTCTCAAGCGAGACAAAATATG
Found at i:5933579 original size:3 final size:3
Alignment explanation
Indices: 5933571--5933615 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
5933561 AACAATGTAA
5933571 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAT -AT AATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
5933615 A
1 A
5933616 TTTTTGTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5933611 original size:23 final size:23
Alignment explanation
Indices: 5933568--5933615 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
5933558 ATAAACAATG
5933568 TAAAATAATAATAATAATAATAA
1 TAAAATAATAATAATAATAATAA
5933591 TAAAATAATAAT-ATAATTAATAA
1 TAAAATAATAATAATAA-TAATAA
5933614 TA
1 TA
5933616 TTTTTGTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAATAATAATAATAATAATAA
Found at i:5944729 original size:5 final size:5
Alignment explanation
Indices: 5944719--5944762 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
5944709 ATTATTTTTC
5944719 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
5944763 ATAAATAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:5950490 original size:20 final size:20
Alignment explanation
Indices: 5950465--5950512 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
5950455 TAAAAATCAT
*
5950465 TTTTCAAAATTTC-ATTTTGC
1 TTTTCAAAA-TCCAATTTTGC
5950485 TTTTCAAAATCCAATTTTGC
1 TTTTCAAAATCCAATTTTGC
5950505 -TTTCAAAA
1 TTTTCAAAA
5950513 GAAAATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.31, C:0.17, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATCCAATTTTGC
Found at i:5951895 original size:23 final size:23
Alignment explanation
Indices: 5951865--5951933 Score: 129
Period size: 23 Copynumber: 3.0 Consensus size: 23
5951855 TTCAACTTCT
*
5951865 CAACCAAGTCTGCATCCACTACC
1 CAACCAAGTCTACATCCACTACC
5951888 CAACCAAGTCTACATCCACTACC
1 CAACCAAGTCTACATCCACTACC
5951911 CAACCAAGTCTACATCCACTACC
1 CAACCAAGTCTACATCCACTACC
5951934 TAAGTTCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.33, C:0.43, G:0.06, T:0.17
Consensus pattern (23 bp):
CAACCAAGTCTACATCCACTACC
Found at i:5953605 original size:6 final size:6
Alignment explanation
Indices: 5953594--5953657 Score: 56
Period size: 6 Copynumber: 10.0 Consensus size: 6
5953584 AGTATTGGTT
* * * *
5953594 ATGAAA ATGAAA TGTGAAA ATGAAT GTGAAA GTGAAA GATGAAA ATGAAA
1 ATGAAA ATGAAA -ATGAAA ATGAAA ATGAAA ATGAAA -ATGAAA ATGAAA
5953644 TATGAAA TATGAAA
1 -ATGAAA -ATGAAA
5953658 GTTCTAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
6 26 0.53
7 23 0.47
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (6 bp):
ATGAAA
Found at i:5953613 original size:13 final size:13
Alignment explanation
Indices: 5953595--5953657 Score: 76
Period size: 13 Copynumber: 4.8 Consensus size: 13
5953585 GTATTGGTTA
5953595 TGAAAATGAAATG
1 TGAAAATGAAATG
5953608 TGAAAATG-AATG
1 TGAAAATGAAATG
*
5953620 TGAAAGTGAAA-G
1 TGAAAATGAAATG
*
5953632 ATGAAAATGAAATA
1 -TGAAAATGAAATG
5953646 TGAAATATGAAA
1 TGAAA-ATGAAA
5953658 GTTCTAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 12 0.28
13 25 0.58
14 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (13 bp):
TGAAAATGAAATG
Found at i:5953629 original size:25 final size:25
Alignment explanation
Indices: 5953595--5953658 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
5953585 GTATTGGTTA
5953595 TGAAAATGAAATG-TGAAAATGAATG
1 TGAAAATGAAA-GATGAAAATGAATG
* *
5953620 TGAAAGTGAAAGATGAAAATGAAATA
1 TGAAAATGAAAGATGAAAATG-AATG
5953646 TGAAATATGAAAG
1 TGAAA-ATGAAAG
5953659 TTCTAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 18 0.55
26 8 0.24
27 6 0.18
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.22
Consensus pattern (25 bp):
TGAAAATGAAAGATGAAAATGAATG
Found at i:5953648 original size:7 final size:7
Alignment explanation
Indices: 5953593--5953657 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
5953583 AAGTATTGGT
5953593 TATGAAA
1 TATGAAA
5953600 -ATGAAA
1 TATGAAA
*
5953606 TGTGAAA
1 TATGAAA
5953613 -ATG-AA
1 TATGAAA
*
5953618 TGTGAAA
1 TATGAAA
*
5953625 -GTGAAA
1 TATGAAA
*
5953631 GATGAAA
1 TATGAAA
5953638 -ATGAAA
1 TATGAAA
5953644 TATGAAA
1 TATGAAA
5953651 TATGAAA
1 TATGAAA
5953658 GTTCTAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
5 2 0.04
6 22 0.45
7 25 0.51
ACGTcount: A:0.55, C:0.00, G:0.22, T:0.23
Consensus pattern (7 bp):
TATGAAA
Found at i:5956644 original size:15 final size:15
Alignment explanation
Indices: 5956613--5956642 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5956603 AAAAAAGGAG
5956613 TATTTTCTTTCTATT
1 TATTTTCTTTCTATT
5956628 TATTTTCTTT-TATT
1 TATTTTCTTTCTATT
5956642 T
1 T
5956643 TAAAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTTCTTTCTATT
Found at i:5957504 original size:31 final size:31
Alignment explanation
Indices: 5957468--5957544 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
5957458 TCAAAACACA
5957468 TAAGTTTTGGTCACTCACGTTATCATTTTAT
1 TAAGTTTTGGTCACTCACGTTATCATTTTAT
* * *
5957499 TAAGTTTTGGTCAGTTACGTTATCGTTTTAT
1 TAAGTTTTGGTCACTCACGTTATCATTTTAT
*
5957530 TAAGTTTTAGTCACT
1 TAAGTTTTGGTCACT
5957545 TGGACATTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (31 bp):
TAAGTTTTGGTCACTCACGTTATCATTTTAT
Found at i:5963475 original size:22 final size:23
Alignment explanation
Indices: 5963427--5963475 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
5963417 ATAAAATAGT
5963427 CAAAAAAGATAAAGATAAAAATA
1 CAAAAAAGATAAAGATAAAAATA
*
5963450 -AAAAAAGGTAAA-ATAAAGAA-A
1 CAAAAAAGATAAAGATAAA-AATA
5963471 CAAAA
1 CAAAA
5963476 TTAAAAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.76, C:0.04, G:0.10, T:0.10
Consensus pattern (23 bp):
CAAAAAAGATAAAGATAAAAATA
Found at i:5970386 original size:31 final size:31
Alignment explanation
Indices: 5970351--5970423 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
5970341 AGTCAAAGCT
5970351 ACCAAAACTTAATAAAACGATAACGTAAGTA
1 ACCAAAACTTAATAAAACGATAACGTAAGTA
* * * *
5970382 ACCAAAACATCATAAAATGATAACGTAAGTG
1 ACCAAAACTTAATAAAACGATAACGTAAGTA
5970413 ACCAAAACTTA
1 ACCAAAACTTA
5970424 TATTTTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.19
Consensus pattern (31 bp):
ACCAAAACTTAATAAAACGATAACGTAAGTA
Found at i:5971258 original size:16 final size:16
Alignment explanation
Indices: 5971239--5971273 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5971229 AATATGAAAC
*
5971239 ATTTTTATTTAAAATA
1 ATTTTCATTTAAAATA
*
5971255 ATTTTCATTTAATATA
1 ATTTTCATTTAAAATA
5971271 ATT
1 ATT
5971274 CAATACAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTCATTTAAAATA
Found at i:5974138 original size:19 final size:21
Alignment explanation
Indices: 5974097--5974137 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5974087 TTTGATTTTC
*
5974097 TCTAATATATATAGGTTGAAAA
1 TCTAATATATATAAGTT-AAAA
5974119 TCTAAT-TATATAAGTTAAA
1 TCTAATATATATAAGTTAAA
5974138 TTGTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 9 0.50
22 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (21 bp):
TCTAATATATATAAGTTAAAA
Found at i:5975107 original size:2 final size:2
Alignment explanation
Indices: 5975102--5975227 Score: 225
Period size: 2 Copynumber: 63.0 Consensus size: 2
5975092 ACACACACAC
5975102 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
5975144 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
* * *
5975186 AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT AT GT 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
5975228 TGCTTTAGTT
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 118 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5976938 original size:16 final size:16
Alignment explanation
Indices: 5976917--5976947 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5976907 AGTTTCGTAT
5976917 GCCCTTGAACTGGTAA
1 GCCCTTGAACTGGTAA
5976933 GCCCTTGAACTGGTA
1 GCCCTTGAACTGGTA
5976948 CGAGCTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (16 bp):
GCCCTTGAACTGGTAA
Found at i:5979146 original size:2 final size:2
Alignment explanation
Indices: 5979139--5979171 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5979129 GTCCTTCGGG
5979139 AT 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 AT A
5979172 ATCCTTTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5979272 original size:21 final size:23
Alignment explanation
Indices: 5979246--5979305 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
5979236 TCCTTAAGGA
*
5979246 GTGGTCCATCGGGACAT-T-TAT
1 GTGGTCCTTCGGGACATATATAT
*
5979267 GTGGTCCTTAGGGACATATATAT
1 GTGGTCCTTCGGGACATATATAT
*
5979290 TTGGTCCTTCGGGACA
1 GTGGTCCTTCGGGACA
5979306 AGTTTTAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 15 0.45
22 1 0.03
23 17 0.52
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.33
Consensus pattern (23 bp):
GTGGTCCTTCGGGACATATATAT
Found at i:5984264 original size:13 final size:14
Alignment explanation
Indices: 5984248--5984280 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
5984238 AAATTTGGAA
5984248 ATTCTATTTA-TTT
1 ATTCTATTTATTTT
5984261 ATTCTATTTATTTT
1 ATTCTATTTATTTT
5984275 ATTCTA
1 ATTCTA
5984281 AATATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTCTATTTATTTT
Found at i:5985098 original size:3 final size:3
Alignment explanation
Indices: 5985090--5985115 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5985080 GATGCCTCAC
5985090 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
5985116 GTGCTCCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5988257 original size:85 final size:85
Alignment explanation
Indices: 5988109--5988274 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 85
5988099 ATACAATCAC
* * *
5988109 GACACAAGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGCAATGTAAGTCATA
1 GACACAAGAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
* *
5988174 CATGCGTGTCATAAATTTAT
66 AATGCGCGTCATAAATTTAT
*
5988194 GACACATA-AATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATGACACGCAATG-AGCGTC
1 GACACA-AGAATGTGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACACGCAATGTA-AGTC
*
5988256 ATAAATGTGCGTCATAAAT
63 ATAAATGCGCGTCATAAAT
5988275 GCACGTCATA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
84 1 0.01
85 66 0.93
86 4 0.06
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (85 bp):
GACACAAGAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACGCAATGTAAGTCATA
AATGCGCGTCATAAATTTAT
Found at i:5988267 original size:13 final size:13
Alignment explanation
Indices: 5988246--5988310 Score: 94
Period size: 13 Copynumber: 5.0 Consensus size: 13
5988236 AATGACACGC
*
5988246 AATGAGCGTCATA
1 AATGCGCGTCATA
*
5988259 AATGTGCGTCATA
1 AATGCGCGTCATA
*
5988272 AATGCACGTCATA
1 AATGCGCGTCATA
5988285 AATGCGCGTCATA
1 AATGCGCGTCATA
*
5988298 AATACGCGTCATA
1 AATGCGCGTCATA
5988311 GATTTATGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:5988949 original size:21 final size:21
Alignment explanation
Indices: 5988923--5988966 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
5988913 TTAATTTAAT
5988923 GAATATTAAAAATTAATAAAA
1 GAATATTAAAAATTAATAAAA
5988944 GAATATTAAAAATTAATAAAA
1 GAATATTAAAAATTAATAAAA
5988965 GA
1 GA
5988967 TAAAATAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (21 bp):
GAATATTAAAAATTAATAAAA
Found at i:5989722 original size:11 final size:11
Alignment explanation
Indices: 5989703--5989732 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5989693 ATTATATTCT
*
5989703 TATTCAATTTC
1 TATTAAATTTC
5989714 TATTAAATTTC
1 TATTAAATTTC
5989725 TATTAAAT
1 TATTAAAT
5989733 CCATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (11 bp):
TATTAAATTTC
Found at i:5998905 original size:2 final size:2
Alignment explanation
Indices: 5998900--5998947 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
5998890 AAGCTTTTTA
5998900 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
5998942 AT AT AT
1 AT AT AT
5998948 TTATGAAGTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6006986 original size:184 final size:184
Alignment explanation
Indices: 6006608--6006969 Score: 688
Period size: 184 Copynumber: 2.0 Consensus size: 184
6006598 ATTATATTAT
* *
6006608 TATATAATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCT
1 TATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCC
*
6006673 AATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAATTTTTTATTTTATA
66 AATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTATTTTATA
6006738 ATTATATATTATTTAAATTAATTTTAAACTATTTTTTGAATTAAAAAAATTAAA
131 ATTATATATTATTTAAATTAATTTTAAACTATTTTTTGAATTAAAAAAATTAAA
6006792 TATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCC
1 TATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCC
*
6006857 AATACCTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTATTTTATA
66 AATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTATTTTATA
6006922 ATTATATATTATTTAAATTAATTTTAAACTATTTTTTGAATTAAAAAA
131 ATTATATATTATTTAAATTAATTTTAAACTATTTTTTGAATTAAAAAA
6006970 TATTTATTTT
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 174 1.00
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.41
Consensus pattern (184 bp):
TATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCC
AATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTATTTTATA
ATTATATATTATTTAAATTAATTTTAAACTATTTTTTGAATTAAAAAAATTAAA
Found at i:6024276 original size:15 final size:14
Alignment explanation
Indices: 6024236--6024293 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 14
6024226 CTTGAAAAAG
*
6024236 AAATGAAGAAGAAA
1 AAATGAAAAAGAAA
6024250 AAA-G-AAAAGAAA
1 AAATGAAAAAGAAA
6024262 AAATGAAAAATGAAAA
1 AAATGAAAAA-G-AAA
*
6024278 AAATATAAAAAGAAA
1 AAAT-GAAAAAGAAA
6024293 A
1 A
6024294 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 10 0.27
13 2 0.05
14 7 0.19
15 5 0.14
16 8 0.22
17 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (14 bp):
AAATGAAAAAGAAA
Found at i:6024293 original size:22 final size:21
Alignment explanation
Indices: 6024275--6024314 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6024265 TGAAAAATGA
*
6024275 AAAAAATATA-AAAAGAAAAT
1 AAAAAATAAATAAAAGAAAAT
6024295 AAAAAATAAATAAAAGAAAA
1 AAAAAATAAATAAAAGAAAA
6024315 AGAATAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAAAATAAATAAAAGAAAAT
Found at i:6024299 original size:36 final size:38
Alignment explanation
Indices: 6024231--6024320 Score: 105
Period size: 36 Copynumber: 2.4 Consensus size: 38
6024221 TGTTGCTTGA
* *
6024231 AAAAGAAATGAAGAAGA-AAAAAGAAAAGAAAAAATGAA-
1 AAAAGAAA--AAGAATATAAAAAGAAAAGAAAAAATAAAT
* *
6024269 AAATGAAAAA-AATATAAAAAGAAAATAAAAAATAAAT
1 AAAAGAAAAAGAATATAAAAAGAAAAGAAAAAATAAAT
6024306 AAAAGAAAAAGAATA
1 AAAAGAAAAAGAATA
6024321 AAGAATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 3 0.07
36 21 0.48
37 9 0.20
38 11 0.25
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (38 bp):
AAAAGAAAAAGAATATAAAAAGAAAAGAAAAAATAAAT
Found at i:6025595 original size:36 final size:37
Alignment explanation
Indices: 6025492--6025613 Score: 167
Period size: 37 Copynumber: 3.3 Consensus size: 37
6025482 TTCGACCTTC
* *
6025492 GAAGCAAATTAATCTTAAGCCTTCATA-GAAAAGTAGT
1 GAAGCAAATCAATCTTAAGCCTTCA-AGGAAGAGTAGT
* *
6025529 GAAGCAAGTCAATCTTAAGCCTTCACGGAAGAGTAGT
1 GAAGCAAATCAATCTTAAGCCTTCAAGGAAGAGTAGT
* *
6025566 GAAGCAAATCAATCTT-AGCCTTTAAGGAAGAGTAGA
1 GAAGCAAATCAATCTTAAGCCTTCAAGGAAGAGTAGT
6025602 GAAGCAAATCAA
1 GAAGCAAATCAA
6025614 GTTCGAGTCC
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
36 29 0.38
37 47 0.62
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (37 bp):
GAAGCAAATCAATCTTAAGCCTTCAAGGAAGAGTAGT
Found at i:6026411 original size:55 final size:55
Alignment explanation
Indices: 6025614--6026400 Score: 850
Period size: 55 Copynumber: 14.3 Consensus size: 55
6025604 AGCAAATCAA
***
6025614 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGC-GAACCCATTTTACAAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAG-ACCCATTTTTTGAAGATT
* ** **
6025669 GTTCGAGTCCTATACTCCCTAAAAGAAGAGGGAGTGGACCCATTTTTCAAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
* * * * * * *
6025724 GTTTGAGTCTTATACTCCATGAAAGAAGTGGGAGTAGACTCATTTTCTGAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
* * * *
6025779 GTTCGACTCATATACTCCCTGAAAGAAGAGGGAACATACCCATTTTTTGAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
* * * *
6025834 GTTCGAGTTCTATACT-CCTAGAAAGAAGAGGGAGCATACTCATTTTATGAAGATT
1 GTTCGAGTCCTATACTCCCT-GAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
* * * * * *** *
6025889 ATTCGAGTCCTATACTTCCTGAAAGAAGAGGGAGCGGACCCGTTCTCCAAACATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
* * * * *
6025944 GTTTGAGTCCTATACTCCCTGAAAGAAGATGGAGTAAACCCGTTTTTTGAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
* * *
6025999 GTTCGAGTCCTATACTCCCTAAAAGAAGAGGGAGCAGACCCATTTTCTGAATATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
** *
6026054 GTTCGAGTCCTATACTCCCTGAAAGAAGA-GGAGTGGA-CCAGTTTTCTGAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCA-TTTTTTGAAGATT
* * * *
6026108 TTTCGAGTCATATACTCCCTGAAAAAAGAGGGAGCATACCC-TTTTTTCGAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTT-GAAGATT
* * * * * *
6026163 ATTCGAGTCCTATACTCCCTGAAAGAATAAGGAGCATACCTATTTTCTGAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
* * * * * **
6026218 GTTTGAGTCCTATACTCCCTGAAAGAAAAAGGAGCGGACACATTTTTCAAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
* * **
6026273 GTTCGAGTCCTATACTCCCTGATAGAAGAGGGAGCA-A-ACATGTTTTCCAAAGATT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCAT-TTTT-TGAAGATT
* * * *
6026328 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGAAAACTCATTTTTTGAAGAAT
1 GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
*
6026383 GTTTGAGTCCTATACTCC
1 GTTCGAGTCCTATACTCC
6026401 ATCTAAGAAG
Statistics
Matches: 620, Mismatches: 100, Indels: 24
0.83 0.13 0.03
Matches are distributed among these distances:
53 7 0.01
54 57 0.09
55 537 0.87
56 16 0.03
57 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (55 bp):
GTTCGAGTCCTATACTCCCTGAAAGAAGAGGGAGCAGACCCATTTTTTGAAGATT
Found at i:6026584 original size:20 final size:20
Alignment explanation
Indices: 6026559--6026601 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6026549 TCTAAGAGCC
*
6026559 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
6026579 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
6026599 CAT
1 CAT
6026602 GTGGTGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:6032411 original size:20 final size:20
Alignment explanation
Indices: 6032375--6032417 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6032365 TCTAAGAGCC
*
6032375 CATTTAGGATCATATAGATG
1 CATTTAGGATCACATAGATG
*
6032395 CATTTAGGAGT-ACATAGTTG
1 CATTTAGGA-TCACATAGATG
6032415 CAT
1 CAT
6032418 GTAATAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGATCACATAGATG
Found at i:6033492 original size:23 final size:23
Alignment explanation
Indices: 6033462--6033518 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
6033452 TTATTGTTTT
*
6033462 ATATATATATATTAGTTA-TTTAA
1 ATATATATATATTAG-TAGTATAA
*
6033485 ATATATATAGATTAGTAGTATAA
1 ATATATATATATTAGTAGTATAA
6033508 ATATATATATA
1 ATATATATATA
6033519 GTATAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 2 0.07
23 28 0.93
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (23 bp):
ATATATATATATTAGTAGTATAA
Found at i:6043064 original size:14 final size:14
Alignment explanation
Indices: 6043045--6043080 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
6043035 CAACGTTCGA
6043045 GTCAAACAGGTCAG
1 GTCAAACAGGTCAG
*
6043059 GTCAAACCGGGTCAG
1 GTCAAA-CAGGTCAG
6043074 GTCAAAC
1 GTCAAAC
6043081 CGGGTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (14 bp):
GTCAAACAGGTCAG
Found at i:6043073 original size:15 final size:15
Alignment explanation
Indices: 6043053--6043087 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
6043043 GAGTCAAACA
6043053 GGTCAGGTCAAACCG
1 GGTCAGGTCAAACCG
6043068 GGTCAGGTCAAACCG
1 GGTCAGGTCAAACCG
6043083 GGTCA
1 GGTCA
6043088 AATGGGTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.34, T:0.14
Consensus pattern (15 bp):
GGTCAGGTCAAACCG
Found at i:6043094 original size:24 final size:25
Alignment explanation
Indices: 6043058--6043112 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
6043048 AAACAGGTCA
6043058 GGTCAAACCGGGTCAGGTCAAACCG
1 GGTCAAACCGGGTCAGGTCAAACCG
* *
6043083 GGTCAAA-TGGGTCGGGTCAAACCG
1 GGTCAAACCGGGTCAGGTCAAACCG
6043107 GGTCAA
1 GGTCAA
6043113 CTGCCCCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.27, C:0.24, G:0.35, T:0.15
Consensus pattern (25 bp):
GGTCAAACCGGGTCAGGTCAAACCG
Found at i:6043357 original size:14 final size:14
Alignment explanation
Indices: 6043338--6043385 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
6043328 TGGGTCAAAC
6043338 CGGGTCAAACGGGT
1 CGGGTCAAACGGGT
6043352 CGGGTCAAAC---T
1 CGGGTCAAACGGGT
*
6043363 -AGGTCAAACGGGT
1 CGGGTCAAACGGGT
6043376 CGGGTCAAAC
1 CGGGTCAAAC
6043386 TTGGTCAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 8 0.29
11 1 0.04
13 1 0.04
14 18 0.64
ACGTcount: A:0.27, C:0.23, G:0.35, T:0.15
Consensus pattern (14 bp):
CGGGTCAAACGGGT
Found at i:6043360 original size:24 final size:24
Alignment explanation
Indices: 6043316--6043385 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
6043306 TGGGTCGAGT
*
6043316 CGGGTC-AAC-GGTTGGGTCAAAC
1 CGGGTCAAACGGGTCGGGTCAAAC
6043338 CGGGTCAAACGGGTCGGGTCAAAC
1 CGGGTCAAACGGGTCGGGTCAAAC
**
6043362 TAGGTCAAACGGGTCGGGTCAAAC
1 CGGGTCAAACGGGTCGGGTCAAAC
6043386 TTGGTCAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 34 0.79
ACGTcount: A:0.26, C:0.23, G:0.36, T:0.16
Consensus pattern (24 bp):
CGGGTCAAACGGGTCGGGTCAAAC
Found at i:6043386 original size:24 final size:24
Alignment explanation
Indices: 6043329--6043393 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
6043319 GTCAACGGTT
**
6043329 GGGTCAAACCGGGTCAAACGGGTC
1 GGGTCAAACTAGGTCAAACGGGTC
6043353 GGGTCAAACTAGGTCAAACGGGTC
1 GGGTCAAACTAGGTCAAACGGGTC
*
6043377 GGGTCAAACTTGGTCAA
1 GGGTCAAACTAGGTCAA
6043394 CTGCCCCAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.28, C:0.22, G:0.34, T:0.17
Consensus pattern (24 bp):
GGGTCAAACTAGGTCAAACGGGTC
Found at i:6047773 original size:11 final size:10
Alignment explanation
Indices: 6047753--6047777 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6047743 GGAGTGTCCC
6047753 TTTTTATTTT
1 TTTTTATTTT
6047763 TTTTTATTTT
1 TTTTTATTTT
6047773 TTTTT
1 TTTTT
6047778 CAAGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:6061237 original size:2 final size:2
Alignment explanation
Indices: 6061230--6061254 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6061220 ATTAGTTTGT
6061230 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
6061255 TAATAGATAT
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:6063605 original size:20 final size:20
Alignment explanation
Indices: 6063582--6063637 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
6063572 CAATTTCACC
6063582 TTCTAACAACAAATTCAACA
1 TTCTAACAACAAATTCAACA
*
6063602 TTCTAACACCAAATTCAACA
1 TTCTAACAACAAATTCAACA
*
6063622 TTCTAACATCAAATTC
1 TTCTAACAACAAATTC
6063638 CACCATAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (20 bp):
TTCTAACAACAAATTCAACA
Found at i:6069064 original size:22 final size:21
Alignment explanation
Indices: 6069014--6069100 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
6069004 AGATCTTTCA
*
6069014 ATGAAAGAACTTAACCTTTTGTT
1 ATGAAAG-ACTTAAACTTTT-TT
*
6069037 A-AAAAGACTTAAACTATTTTT
1 ATGAAAGACTTAAACT-TTTTT
*
6069058 ATGAAAGGGCTT-AACTTTTTT
1 ATGAAA-GACTTAAACTTTTTT
*
6069079 CATGAAAAGAC-TAAACATTTTT
1 -ATG-AAAGACTTAAACTTTTTT
6069101 CTTAAAAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
21 17 0.33
22 27 0.52
23 8 0.15
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (21 bp):
ATGAAAGACTTAAACTTTTTT
Found at i:6069071 original size:44 final size:42
Alignment explanation
Indices: 6069014--6069100 Score: 97
Period size: 44 Copynumber: 2.0 Consensus size: 42
6069004 AGATCTTTCA
6069014 ATGAAAGAACTTAACCTTTTGTT-A-AAAAGACTTAAACTATTTTT
1 ATGAAAGAACTTAA-CTTTT-TTCAGAAAAGAC-TAAAC-ATTTTT
**
6069058 ATGAAAGGGCTTAACTTTTTTCATGAAAAGACTAAACATTTTT
1 ATGAAAGAACTTAACTTTTTTCA-GAAAAGACTAAACATTTTT
6069101 CTTAAAAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
42 2 0.05
43 12 0.32
44 17 0.45
45 7 0.18
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (42 bp):
ATGAAAGAACTTAACTTTTTTCAGAAAAGACTAAACATTTTT
Found at i:6069101 original size:22 final size:22
Alignment explanation
Indices: 6069038--6069109 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
6069028 CCTTTTGTTA
6069038 AAAAGACTTAAACTATTTTT-ATG
1 AAAAGAC-TAAAC-ATTTTTCATG
* * * *
6069061 AAAGGGCTTAACTTTTTTCATG
1 AAAAGACTAAACATTTTTCATG
*
6069083 AAAAGACTAAACATTTTTC-TT
1 AAAAGACTAAACATTTTTCATG
6069104 AAAAGA
1 AAAAGA
6069110 ACATAACTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 12 0.31
22 22 0.56
23 5 0.13
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (22 bp):
AAAAGACTAAACATTTTTCATG
Found at i:6069280 original size:20 final size:20
Alignment explanation
Indices: 6069243--6069308 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
6069233 TTTTTTTATT
*
6069243 AATAGTACTG-TGTTGTATG
1 AATAGTACTGATATTGTATG
6069262 AATAGTACTGATATTGTATG
1 AATAGTACTGATATTGTATG
* *
6069282 AATAGTAATGATATTGTGTG
1 AATAGTACTGATATTGTATG
*
6069302 AACAGTA
1 AATAGTA
6069309 ATGAACAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.24
20 32 0.76
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.38
Consensus pattern (20 bp):
AATAGTACTGATATTGTATG
Found at i:6069671 original size:15 final size:15
Alignment explanation
Indices: 6069651--6069689 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
6069641 AAATATTTTG
*
6069651 TTCTTGTGAGCTTAA
1 TTCTTGTAAGCTTAA
6069666 TTCTTGTAAGCTTAA
1 TTCTTGTAAGCTTAA
6069681 TTCTTGTAA
1 TTCTTGTAA
6069690 ACACCTACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (15 bp):
TTCTTGTAAGCTTAA
Found at i:6069785 original size:33 final size:33
Alignment explanation
Indices: 6069748--6069810 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
6069738 AGGGGTTTTT
*
6069748 GTTCTAGCTGAGTCCGTAAAAAACTAGGGAAAG
1 GTTCTAGCTGAGCCCGTAAAAAACTAGGGAAAG
* * * *
6069781 GTTCTAGTTTAGCCCGTGAAAATCTAGGGA
1 GTTCTAGCTGAGCCCGTAAAAAACTAGGGA
6069811 GTTTGTAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (33 bp):
GTTCTAGCTGAGCCCGTAAAAAACTAGGGAAAG
Found at i:6071766 original size:58 final size:58
Alignment explanation
Indices: 6071397--6071858 Score: 398
Period size: 59 Copynumber: 7.9 Consensus size: 58
6071387 ATATTCCATA
* * * * * * * *
6071397 GGAAATTCATACAATTCGTATAATTTCCTTATAATATTAGCACTCTCAGTGCTCTATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCAT-TTAGCACACTAAGTGCTCCATCT
* * * * *
6071456 GGAAGAT-CATACACTTAGTATAATTTCCCTCTTATTTTAGCACACGAAGTGC-CCTAT-T
1 GGAA-ATCCATACACTTAGTATGATTTCCTTATCA-TTTAGCACACTAAGTGCTCC-ATCT
* * * * *
6071514 CGAAAATCCATAC-CATTAGTATGATTTCCTTACCATTTTAGCACACGAAGTAC-CCTATGT
1 -GGAAATCCATACAC-TTAGTATGATTTCCTTATCA-TTTAGCACACTAAGTGCTCC-ATCT
* * * * * *
6071574 GAAAATCCATACCCTTAGTATGATTTCCTTATCCTTGTAGCACCCTTAGTGCTCTATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATT-TAGCACACTAAGTGCTCCATCT
* * *
6071633 TGAAATCCATACACTTAGTATGATTTCCTTACCTTATTAGCACA-TAAAGTGC-CCTATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCAT-TTAGCACACT-AAGTGCTCC-ATCT
* * * * * *
6071692 AGAAATCCATATACTCAATATGATTTCCTTATCATTTAGAACACTCAGTGCTCCATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTAGCACACTAAGTGCTCCATCT
* * * * *
6071750 GGAAATCCATACACTCAGCATGATTTCCTTATCATTTAGCACAGTTAGTGCTCCATTT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTAGCACACTAAGTGCTCCATCT
* * *
6071808 GGAAATCCATACACTCAGTATGATTTCCTTATCATTTAGAACACAAAGTGC
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTAGCACACTAAGTGC
6071859 CATTTGGTAA
Statistics
Matches: 335, Mismatches: 53, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
58 121 0.36
59 207 0.62
60 7 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (58 bp):
GGAAATCCATACACTTAGTATGATTTCCTTATCATTTAGCACACTAAGTGCTCCATCT
Found at i:6072317 original size:21 final size:20
Alignment explanation
Indices: 6072275--6072347 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
6072265 GATGTTGTAA
* *
6072275 GGTATCGATACCCCTCCAAT
1 GGTACCGATACCCCTACAAT
*
6072295 GGTACCGATACACCCTACTAT
1 GGTACCGATAC-CCCTACAAT
*
6072316 GGTACCGATACCCCTTCAAT
1 GGTACCGATACCCCTACAAT
*
6072336 GGTATCGATACC
1 GGTACCGATACC
6072348 TAATTTATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 28 0.61
21 18 0.39
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (20 bp):
GGTACCGATACCCCTACAAT
Found at i:6075234 original size:21 final size:21
Alignment explanation
Indices: 6075185--6075266 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 21
6075175 AGATCTTTCA
*
6075185 ATGAAAGAACTTAAC-CTTTTG
1 ATGAAAG-ACTTAACTCTTTTT
*
6075206 ATTAAAAGACTTAACTCTTTTT
1 A-TGAAAGACTTAACTCTTTTT
* *
6075228 ATGAAAGGGCTTAACATTTTTTT
1 ATGAAA-GACTTAAC-TCTTTTT
*
6075251 CATGAAAAGACATAAC
1 -ATG-AAAGACTTAAC
6075267 ATTTTTCATA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 12 0.25
22 18 0.38
23 6 0.12
24 9 0.19
25 3 0.06
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (21 bp):
ATGAAAGACTTAACTCTTTTT
Found at i:6075255 original size:24 final size:23
Alignment explanation
Indices: 6075209--6075272 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 23
6075199 CCTTTTGATT
*
6075209 AAAAGACTTAAC-TCTTTTTATG
1 AAAAGACTTAACATTTTTTTATG
* *
6075231 AAAGGGCTTAACATTTTTTTCATG
1 AAAAGACTTAACATTTTTTT-ATG
*
6075255 AAAAGACATAACATTTTT
1 AAAAGACTTAACATTTTT
6075273 CATAAAAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 10 0.29
23 6 0.18
24 18 0.53
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (23 bp):
AAAAGACTTAACATTTTTTTATG
Found at i:6075279 original size:21 final size:22
Alignment explanation
Indices: 6075246--6075299 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
6075236 GCTTAACATT
6075246 TTTTTCATGAAAAG-ACATAAC
1 TTTTTCATGAAAAGAACATAAC
6075267 ATTTTTCAT-AAAAGAACATAAC
1 -TTTTTCATGAAAAGAACATAAC
*
6075289 TTTTCCATGAA
1 TTTTTCATGAA
6075300 GACTATTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (22 bp):
TTTTTCATGAAAAGAACATAAC
Found at i:6078771 original size:21 final size:21
Alignment explanation
Indices: 6078747--6078791 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6078737 GACAAATGAT
6078747 TGAAAG-GTTAAGACCTTTCGA
1 TGAAAGAGTTAAGACCTTT-GA
*
6078768 TG-AAGATTTAAGACCTTTGA
1 TGAAAGAGTTAAGACCTTTGA
6078788 TGAA
1 TGAA
6078792 GAGATTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (21 bp):
TGAAAGAGTTAAGACCTTTGA
Found at i:6078791 original size:20 final size:21
Alignment explanation
Indices: 6078754--6078793 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6078744 GATTGAAAGG
6078754 TTAAGACCTTTCGATGAAGAT
1 TTAAGACCTTTCGATGAAGAT
6078775 TTAAGACCTTT-GATGAAGA
1 TTAAGACCTTTCGATGAAGA
6078794 GATTTGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
TTAAGACCTTTCGATGAAGAT
Found at i:6082800 original size:131 final size:131
Alignment explanation
Indices: 6082552--6082917 Score: 450
Period size: 131 Copynumber: 2.8 Consensus size: 131
6082542 CGATATTGAG
* * * * * * *
6082552 AATAGTAATATCTTTTCATTTCGGTTGGATTAATGAATGACTGCTTTAAGGCATGAGAGGTTATT
1 AATAGTGATATATATTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* *
6082617 TATTCTCGATTGGAAATAATTAGAAATTAAT-GTTTTCTCCCGAATCAATATTG-ATTTTTAAGA
66 TATTCTCGATTGGAAATAATTAGATATT-ATCGTTTTCTCCCAAATCAATATTGAATTTTT-AGA
*
6082680 AGG
129 AGA
* * *
6082683 AATAGTGATATATATTTATTTTGATTGGAGTAATAAATGACTGCTTTAAGGCATAAGAGGTCATT
1 AATAGTGATATATATTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* * * * *
6082748 TATTCTCGATTGGAAATCATTAGATATTATCGTTTT-TACTCAAATTAGTATTGAATTTTTAGAC
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCT-CCCAAATCAATATTGAATTTTTAGAA
6082812 GA
130 GA
* * * *
6082814 AATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGATAAGTCATT
1 AATAGTGATATATATTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
** * *
6082879 TATTCTAAATCGGAAATAAATAGATATTATCGTTTTCTC
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTC
6082918 TCTTAGAATT
Statistics
Matches: 201, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
130 3 0.01
131 191 0.95
132 7 0.03
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (131 bp):
AATAGTGATATATATTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCCCAAATCAATATTGAATTTTTAGAAG
A
Found at i:6084854 original size:11 final size:11
Alignment explanation
Indices: 6084833--6084866 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6084823 CAAAACCTCG
6084833 CATTGCATTTA
1 CATTGCATTTA
6084844 CA-TGACATTTA
1 CATTG-CATTTA
6084855 CATTGCATTTA
1 CATTGCATTTA
6084866 C
1 C
6084867 TTTTCGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (11 bp):
CATTGCATTTA
Found at i:6098734 original size:20 final size:20
Alignment explanation
Indices: 6098700--6098738 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6098690 GCATCAAAGT
6098700 CTTTGTTGAAGCCATGAAATC
1 CTTTGTTGAAGCCAT-AAATC
6098721 CTTTGTTG-AGCCATAAAT
1 CTTTGTTGAAGCCATAAAT
6098739 TCTTGTAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (20 bp):
CTTTGTTGAAGCCATAAATC
Found at i:6118397 original size:2 final size:2
Alignment explanation
Indices: 6118386--6118418 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6118376 AAACTAAAAC
6118386 TA TA TA -A 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
6118419 AACAAGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6120507 original size:7 final size:7
Alignment explanation
Indices: 6120492--6120574 Score: 118
Period size: 7 Copynumber: 12.1 Consensus size: 7
6120482 TCGCTTGAAG
6120492 AAAGAAA
1 AAAGAAA
*
6120499 AATG-AA
1 AAAGAAA
6120505 AAAGAAA
1 AAAGAAA
6120512 AAAG-AA
1 AAAGAAA
*
6120518 ACAGAAA
1 AAAGAAA
6120525 AAAGAAA
1 AAAGAAA
6120532 AAAGAAA
1 AAAGAAA
6120539 AAAGAAA
1 AAAGAAA
6120546 AAAGAAA
1 AAAGAAA
6120553 AAAGAAA
1 AAAGAAA
6120560 AAATG-AA
1 AAA-GAAA
6120567 AAAGAAA
1 AAAGAAA
6120574 A
1 A
6120575 GATAATAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
6 11 0.16
7 56 0.82
8 1 0.01
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:6120584 original size:21 final size:20
Alignment explanation
Indices: 6120492--6120588 Score: 99
Period size: 21 Copynumber: 4.8 Consensus size: 20
6120482 TCGCTTGAAG
6120492 AAAG-AAAAATGAAAAAGAAA
1 AAAGAAAAAAT-AAAAAGAAA
*
6120512 AAAGAAACAGA-AAAAAGAAA
1 AAAGAAA-AAATAAAAAGAAA
*
6120532 AAAGAAAAAAGAAAAAAGAAA
1 AAAGAAAAAA-TAAAAAGAAA
6120553 AAAGAAAAAATGAAAAAGAAA
1 AAAGAAAAAAT-AAAAAGAAA
* * *
6120574 AGATAATAAATAAAA
1 AAAGAAAAAATAAAA
6120589 GGGGGTTCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
19 2 0.03
20 24 0.36
21 38 0.58
22 2 0.03
ACGTcount: A:0.80, C:0.01, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAATAAAAAGAAA
Found at i:6121973 original size:135 final size:135
Alignment explanation
Indices: 6121750--6122317 Score: 732
Period size: 135 Copynumber: 4.2 Consensus size: 135
6121740 GCAAATCGAA
** * * *
6121750 CTCGATTCAATCTTATCTAAAGAACAATGGAATGAATCAATATTTCCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACATTTCCATATCTGATTTTCCCTCA
* ** * * * *
6121815 AGAAGTAATGGAACATATCCCTCTTTTTTCCATATTTGATCTTCCTTGAGGAACAGTGGAACATG
66 AGAAGCAGCGGAACATATCCCTCTTTTTTCCAGATTTGATCTTCCCTAAGGAACAGTGGAACAAG
*
6121880 TCTGC
131 TCTAC
* * *
6121885 CTCGATTCAATCTTCCCTAAAGAATAGTGGAATTAATCAACATTTTCATATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACATTTCCATATCTGATTTTCCCTCA
* * *
6121950 AGAAGCAGCGGAACAAATACCTCTTTTTTCCAGATTTGATCTTCCCTAAGGAATAGTGGAACAAG
66 AGAAGCAGCGGAACATATCCCTCTTTTTTCCAGATTTGATCTTCCCTAAGGAACAGTGGAACAAG
6122015 TCTAC
131 TCTAC
* * *
6122020 CTCGATTCAATCTTCCCTGAAGAGCAGTGGAATGAATCAACATTTCCATATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACATTTCCATATCTGATTTTCCCTCA
* * * * * * *
6122085 ATAAACAGCGGAATAGATCCCTC--TTTTCCAGATTTAATCTTTCCTAAGGAAAAGTGGAACAAG
66 AGAAGCAGCGGAACATATCCCTCTTTTTTCCAGATTTGATCTTCCCTAAGGAACAGTGGAACAAG
*
6122148 TCTTC
131 TCTAC
* *
6122153 CTCAATTCAATCTTCTCC-AAAGAACAGTGGAATGAATTAACATTTCCATATCTGATTTTCCCTC
1 CTCGATTCAATCTTC-CCTAAAGAACAGTGGAATGAATCAACATTTCCATATCTGATTTTCCCTC
* * * * * *
6122217 AAGAAGTATCGAAACATATCCCTC-TTTTT-CAGAATTGATATTCCCTGAGGAACAGTGGAACAA
65 AAGAAGCAGCGGAACATATCCCTCTTTTTTCCAGATTTGATCTTCCCTAAGGAACAGTGGAACAA
*
6122280 GTCAAC
130 GTCTAC
*
6122286 CTCGATTCAATCTTCCCTGAAGAACAGTGGAA
1 CTCGATTCAATCTTCCCTAAAGAACAGTGGAA
6122318 CAAGTCTACC
Statistics
Matches: 374, Mismatches: 56, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
132 2 0.01
133 173 0.46
134 6 0.02
135 193 0.52
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (135 bp):
CTCGATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACATTTCCATATCTGATTTTCCCTCA
AGAAGCAGCGGAACATATCCCTCTTTTTTCCAGATTTGATCTTCCCTAAGGAACAGTGGAACAAG
TCTAC
Found at i:6122243 original size:268 final size:267
Alignment explanation
Indices: 6121750--6122317 Score: 746
Period size: 268 Copynumber: 2.1 Consensus size: 267
6121740 GCAAATCGAA
** * * * *
6121750 CTCGATTCAATCTTATCTAAAGAACAATGGAATGAATCAATATTTCCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCATATATAATTTTCCCTCA
** * * * * * * *
6121815 AGAAGTAATGGAACATATCCCTCTTTTTTCCATATTTGATCTTCCTTGAGGAACAGTGGAACATG
66 AGAAACAACGGAACAGATCCCTC-TTTTTCCAGATTTAATCTTCCTTAAGGAAAAGTGGAACAAG
* * * *
6121880 TCTGCCTCGATTCAATCTTCCCTAAAGAATAGTGGAATTAATCAACATTTTCATATCTGATTTTC
130 TCTGCCTCAATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACATTTCCATATCTGATTTTC
* * * *
6121945 CCTCAAGAAGCAGCGGAACAAATACCTCTTTTTTCCAGATTTGATCTTCCCTAAGGAATAGTGGA
195 CCTCAAGAAGCAGCGAAACAAATACCTC-TTTTT-CAGAATTGATATTCCCTAAGGAACAGTGGA
*
6122010 ACAAGTCTAC
258 ACAAGTCAAC
* *
6122020 CTCGATTCAATCTTCCCTGAAGAGCAGTGGAATGAATCAACATTTCCATATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCATATATAATTTTCCCTCA
* * *
6122085 ATAAACAGCGGAATAGATCCCTC-TTTTCCAGATTTAATCTTTCC-TAAGGAAAAGTGGAACAAG
66 AGAAACAACGGAACAGATCCCTCTTTTTCCAGATTTAATC-TTCCTTAAGGAAAAGTGGAACAAG
* *
6122148 TCTTCCTCAATTCAATCTTCTCC-AAAGAACAGTGGAATGAATTAACATTTCCATATCTGATTTT
130 TCTGCCTCAATTCAATCTTC-CCTAAAGAACAGTGGAATGAATCAACATTTCCATATCTGATTTT
* * * * *
6122212 CCCTCAAGAAGTATCGAAACATATCCCTCTTTTTCAGAATTGATATTCCCTGAGGAACAGTGGAA
194 CCCTCAAGAAGCAGCGAAACAAATACCTCTTTTTCAGAATTGATATTCCCTAAGGAACAGTGGAA
6122277 CAAGTCAAC
259 CAAGTCAAC
6122286 CTCGATTCAATCTTCCCTGAAGAACAGTGGAA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAA
6122318 CAAGTCTACC
Statistics
Matches: 259, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
266 66 0.25
267 5 0.02
268 109 0.42
269 6 0.02
270 73 0.28
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (267 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATTTCCATATATAATTTTCCCTCA
AGAAACAACGGAACAGATCCCTCTTTTTCCAGATTTAATCTTCCTTAAGGAAAAGTGGAACAAGT
CTGCCTCAATTCAATCTTCCCTAAAGAACAGTGGAATGAATCAACATTTCCATATCTGATTTTCC
CTCAAGAAGCAGCGAAACAAATACCTCTTTTTCAGAATTGATATTCCCTAAGGAACAGTGGAACA
AGTCAAC
Found at i:6122314 original size:41 final size:41
Alignment explanation
Indices: 6122257--6122358 Score: 186
Period size: 41 Copynumber: 2.5 Consensus size: 41
6122247 AGAATTGATA
*
6122257 TTCCCTGAGGAACAGTGGAACAAGTCAACCTCGATTCAATC
1 TTCCCTGAAGAACAGTGGAACAAGTCAACCTCGATTCAATC
*
6122298 TTCCCTGAAGAACAGTGGAACAAGTCTACCTCGATTCAATC
1 TTCCCTGAAGAACAGTGGAACAAGTCAACCTCGATTCAATC
6122339 TTCCCTGAAGAACAGTGGAA
1 TTCCCTGAAGAACAGTGGAA
6122359 TGAATCAACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
TTCCCTGAAGAACAGTGGAACAAGTCAACCTCGATTCAATC
Found at i:6124936 original size:132 final size:130
Alignment explanation
Indices: 6124621--6124983 Score: 546
Period size: 132 Copynumber: 2.8 Consensus size: 130
6124611 CGATATTGAG
* * * * * *
6124621 AATAGTAATATATTTTCATTTCGGTTGGAGTAATGAATGAATGCTTTAAGGCTTGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* * * *
6124686 TATTCTCGATTGGAAATAATTAGATATTACCGTTTTTTCTCGAATCAATATTGATTTTAATACGG
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTTACTCGAATCAATATTGATTTTAAGACGA
* *
6124751 AATAGTCATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATAAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
*
6124816 TATTCTCGATTGGAAATAATTAGATATTATCATTTTTCACTCGAATCAATATTGAATTTTAAGAC
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTT-ACTCGAATCAATATTG-ATTTTAAGAC
6124881 GA
129 GA
* * *
6124883 AATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTATGGCATGAGAAGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
**
6124948 TATTCTCGATCAGAAATAATTAGATATTATCGTTTT
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTT
6124984 CTCTCTTAGA
Statistics
Matches: 211, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
130 92 0.44
131 15 0.07
132 104 0.49
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (130 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
TATTCTCGATTGGAAATAATTAGATATTATCGTTTTTACTCGAATCAATATTGATTTTAAGACGA
Found at i:6126208 original size:15 final size:15
Alignment explanation
Indices: 6126165--6126213 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
6126155 TTTTCCTATG
6126165 TTTTATTTATTTATT-
1 TTTTATTTATTT-TTA
*
6126180 TATTATTT-TATTTTA
1 TTTTATTTAT-TTTTA
6126195 TTTTATTTATTTTTA
1 TTTTATTTATTTTTA
6126210 TTTT
1 TTTT
6126214 GGTTGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 25 0.86
16 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:6135189 original size:18 final size:17
Alignment explanation
Indices: 6135158--6135191 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6135148 TCCTAAGTCG
*
6135158 AAAAAAAAACAAAAACA
1 AAAAAAAAAAAAAAACA
6135175 AAAAAAAAATAAAAAAC
1 AAAAAAAAA-AAAAAAC
6135192 GTTTAGGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAAACA
Found at i:6136215 original size:98 final size:98
Alignment explanation
Indices: 6135982--6136626 Score: 757
Period size: 98 Copynumber: 6.6 Consensus size: 98
6135972 ATATCGTACC
* * * * *
6135982 ACTCAAGACAATACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAACAAATTTCCC
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGT---CAACAAA-----C
* *
6136047 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
58 AATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGG
6136088 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGG
*
6136153 AGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
6136186 ACTCAAGATAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGG
* *
6136251 AGTCAATCTCAACTT--C-AC--A-GATATTGG
66 AGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * **
6136278 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCAG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTC-G
*
6136342 G-GCCAATTTCAACTTCACAACGAAGTATATTGG
65 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
6136375 ACCCAAGATAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGG
* *
6136440 TGCCAATCTCAACTT--C-AC--A-GATATTGG
66 AGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * **
6136467 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCAG
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTC-G
*
6136531 G-GCTAATTTCAACTTCACAACGAAGGATATTGG
65 GAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
6136564 AC-CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAAACAATTTC
1 ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAAC-AAACAATTTC
6136627 CCAGTTCCAG
Statistics
Matches: 462, Mismatches: 59, Indels: 44
0.82 0.10 0.08
Matches are distributed among these distances:
91 38 0.08
92 109 0.24
93 4 0.01
94 4 0.01
95 3 0.01
96 48 0.10
97 63 0.14
98 142 0.31
103 7 0.02
106 44 0.10
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (98 bp):
ACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGG
AGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:6136401 original size:189 final size:189
Alignment explanation
Indices: 6136080--6136618 Score: 929
Period size: 189 Copynumber: 2.9 Consensus size: 189
6136070 CACAGCGAAG
* * * **
6136080 GATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAAC
1 GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AAC
* *
6136145 AATTTC-GGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCAAGATAGCACAAGCTCAAC
65 AATTTCAGG-GCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGATAGCACAAGCTCAAC
*
6136209 TTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGTCAATCTCAACTTCACA
129 TTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGCCAATCTCAACTTCACA
*
6136270 GATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
1 GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
*
6136335 ATTTCAGGGCCAATTTCAACTTCACAACGAAGTATATTGGACCCAAGATAGCACAAGCTCAACTT
66 ATTTCAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGATAGCACAAGCTCAACTT
*
6136400 CACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGTGCCAATCTCAACTTCACA
131 CACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGCCAATCTCAACTTCACA
6136459 GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
1 GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
* *
6136524 ATTTCAGGGCTAATTTCAACTTCACAACGAAGGATATTGGA-CCAAGACAGCACAAGCTCAACTT
66 ATTTCAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGATAGCACAAGCTCAACTT
6136588 CACAGCGAAGGGGCGGCTGACTGTCAACAAA
131 CACAGCGAAGGGGCGGCTGACTGTCAACAAA
6136619 ACAATTTCCC
Statistics
Matches: 333, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
188 53 0.16
189 223 0.67
190 57 0.17
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (189 bp):
GATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACA
ATTTCAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGATAGCACAAGCTCAACTT
CACAGCGAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGAGCCAATCTCAACTTCACA
Found at i:6136624 original size:287 final size:285
Alignment explanation
Indices: 6135982--6136626 Score: 811
Period size: 287 Copynumber: 2.2 Consensus size: 285
6135972 ATATCGTACC
*
6135982 ACTCAAGACAATACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAACAAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAAC-A-AAA-----C
* *
6136047 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACT
59 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACT
*
6136112 TCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATTTCAACTTCACAATGAA
124 TCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCAC----AA
* * * *
6136177 GGATATTGGACTCAAGATAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAA
185 GGATATTGGACTCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAA
* *
6136242 CAGTTTTGGAGTCAATCTCAACTTCACAGATATTGG
250 CAATTTAGGAGTCAATCTCAACTTCACAGATATTGG
* *
6136278 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC--AACAATTTCA
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAAACAATTTCA
* * * *
6136341 GGGCCAATTTCAACTTCACAACGAAGTATATTGGACCCAAGATAGCACAAGCTCAACTTCACAGC
66 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAGC
* * *
6136406 GAAGGGGCGGCTGACTGTCAACAAACAGTTTTGGTGCCAATCTCAACTTCAC-A-GATATTGGAC
131 GAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAAGGATATTGGAC
* **
6136469 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCAGG-
196 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTT-AGGA
*
6136532 G-CTAATTTCAACTTCACAACGAAGGATATTGG
260 GTC-AATCTCAACTT--C-AC--A-GATATTGG
* * * * *
6136564 AC-CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAAACAATTTC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAAACAATTTC
6136627 CCAGTTCCAG
Statistics
Matches: 309, Mismatches: 30, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
279 1 0.00
280 18 0.06
281 56 0.18
282 2 0.01
283 2 0.01
285 44 0.14
286 10 0.03
287 124 0.40
292 2 0.01
296 50 0.16
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (285 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAAACAATTTCA
GAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAGC
GAAGGGGCGGCTGACTGTCAACAAACAATTTCGGAGCCAATCTCAACTTCACAAGGATATTGGAC
TCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTAGGAG
TCAATCTCAACTTCACAGATATTGG
Found at i:6138011 original size:23 final size:23
Alignment explanation
Indices: 6137959--6138011 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
6137949 TTATGTGTAT
*
6137959 TTTATTTATTTATATATATTACC
1 TTTATTTATTTATATATATTAAC
6137982 TTT-TTTATTT-TATAT-TTATAC
1 TTTATTTATTTATATATATTA-AC
6138003 TATTATTTA
1 T-TTATTTA
6138012 CTATCATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.12
21 7 0.27
22 9 0.35
23 7 0.27
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATTTATTTATATATATTAAC
Found at i:6138643 original size:50 final size:50
Alignment explanation
Indices: 6138568--6138673 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
6138558 TCACACCCTA
6138568 ACCAAAGATTGTTGGCAACTCCTCGAACCACATTTTATCCTTAACCGGTC
1 ACCAAAGATTGTTGGCAACTCCTCGAACCACATTTTATCCTTAACCGGTC
*
6138618 ACCAAAGATTGTTGGCAATTCCTCGAACCACATTTTATCCTTAACCGGTC
1 ACCAAAGATTGTTGGCAACTCCTCGAACCACATTTTATCCTTAACCGGTC
6138668 ACCAAA
1 ACCAAA
6138674 TATTATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (50 bp):
ACCAAAGATTGTTGGCAACTCCTCGAACCACATTTTATCCTTAACCGGTC
Found at i:6139460 original size:20 final size:21
Alignment explanation
Indices: 6139422--6139461 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6139412 GATTGAAAGG
*
6139422 TTAAGACCTTTCTATGAAGAT
1 TTAAGACCTTTCGATGAAGAT
6139443 TTAAGACCTTT-GATGAAGA
1 TTAAGACCTTTCGATGAAGA
6139462 GATTTGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (21 bp):
TTAAGACCTTTCGATGAAGAT
Found at i:6141028 original size:2 final size:2
Alignment explanation
Indices: 6141021--6141049 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6141011 CATATTTAAA
6141021 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
6141050 GATCTAAAAA
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:6142773 original size:17 final size:18
Alignment explanation
Indices: 6142738--6142774 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6142728 TAGTTAATAA
6142738 ATCTGAAAAGACATATTG
1 ATCTGAAAAGACATATTG
6142756 ATCTGATAAA-AC-TATTG
1 ATCTGA-AAAGACATATTG
6142773 AT
1 AT
6142775 GTGCATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (18 bp):
ATCTGAAAAGACATATTG
Found at i:6144553 original size:24 final size:24
Alignment explanation
Indices: 6144488--6144555 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
6144478 AATGACCAGG
* * *
6144488 ATTCTGTTCAGATTTCTAATCTGG
1 ATTCTGTTCTGATTTCTGATCTGA
* *
6144512 ATTCTGTTCTGATATCTGATTTGA
1 ATTCTGTTCTGATTTCTGATCTGA
*
6144536 ATTCTGTTTTGATTTCTGAT
1 ATTCTGTTCTGATTTCTGAT
6144556 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.19, C:0.13, G:0.16, T:0.51
Consensus pattern (24 bp):
ATTCTGTTCTGATTTCTGATCTGA
Found at i:6149314 original size:24 final size:24
Alignment explanation
Indices: 6149281--6149365 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
6149271 TTCGACTTGA
* * *
6149281 ATTCTATTCTGATAAATGACCTGG
1 ATTCTGTTCTGATATATGATCTGG
* *
6149305 ATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTCTGATATATGATCTGG
* * *
6149329 ATTTTGTTCTGATATATGATTTGA
1 ATTCTGTTCTGATATATGATCTGG
*
6149353 ATTCTGTTTTGAT
1 ATTCTGTTCTGAT
6149366 TTCTGATATC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (24 bp):
ATTCTGTTCTGATATATGATCTGG
Found at i:6149372 original size:24 final size:24
Alignment explanation
Indices: 6149278--6149372 Score: 82
Period size: 24 Copynumber: 4.0 Consensus size: 24
6149268 ATTTTCGACT
* *** *
6149278 TGAATTCTATTCTGATAAATGACC
1 TGAATTCTGTTCTGATTTCTGATC
*
6149302 TGGATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTTCTGATC
* * * * *
6149326 TGGATTTTGTTCTGATATATGATT
1 TGAATTCTGTTCTGATTTCTGATC
*
6149350 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATTTCTGAT
6149373 ATCTCTGTTT
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATC
Found at i:6150545 original size:21 final size:20
Alignment explanation
Indices: 6150505--6150550 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6150495 TCTGATGTGG
*
6150505 CAATTATAATATTGACATGA
1 CAATTATAATATTAACATGA
*
6150525 CAATTCATAATATTAATATGA
1 CAATT-ATAATATTAACATGA
*
6150546 TAATT
1 CAATT
6150551 TATTATACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (20 bp):
CAATTATAATATTAACATGA
Found at i:6152576 original size:42 final size:43
Alignment explanation
Indices: 6152529--6152697 Score: 204
Period size: 42 Copynumber: 4.0 Consensus size: 43
6152519 AGAAAAAAGT
* * *
6152529 TGAGAAGTTTAAAACTGA-GACTGAGGGTGCTCAGGGTGAGGC
1 TGAGAAGTCTAAAACTGAGGAGTGAGGGTGCTAAGGGTGAGGC
* * *
6152571 TGAGAAGTCTAAAACCGAGGA-TGAGGGTGCTGATGGTGAGGC
1 TGAGAAGTCTAAAACTGAGGAGTGAGGGTGCTAAGGGTGAGGC
* * *
6152613 TGAGAAGTCTAAAACTGAGG-GTGAGGGTGTTAATGGTGAGGG
1 TGAGAAGTCTAAAACTGAGGAGTGAGGGTGCTAAGGGTGAGGC
*
6152655 TGAGAAGTCTAACAA-TGATG-GTGAGGGTGCTAAGGGTGAGGC
1 TGAGAAGTCTAA-AACTGAGGAGTGAGGGTGCTAAGGGTGAGGC
6152697 T
1 T
6152698 AATAGTGAAG
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
42 108 0.96
43 4 0.04
ACGTcount: A:0.28, C:0.09, G:0.40, T:0.22
Consensus pattern (43 bp):
TGAGAAGTCTAAAACTGAGGAGTGAGGGTGCTAAGGGTGAGGC
Found at i:6152631 original size:21 final size:21
Alignment explanation
Indices: 6152565--6152637 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
6152555 GTGCTCAGGG
6152565 TGAGGCTGAGAAGTCTAAAAC
1 TGAGGCTGAGAAGTCTAAAAC
* * * * ***
6152586 CGAGGATGAG-GGTGCTGATGG
1 TGAGGCTGAGAAGT-CTAAAAC
6152607 TGAGGCTGAGAAGTCTAAAAC
1 TGAGGCTGAGAAGTCTAAAAC
*
6152628 TGAGGGTGAG
1 TGAGGCTGAG
6152638 GGTGTTAATG
Statistics
Matches: 35, Mismatches: 15, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.40, T:0.19
Consensus pattern (21 bp):
TGAGGCTGAGAAGTCTAAAAC
Found at i:6153686 original size:29 final size:29
Alignment explanation
Indices: 6153638--6153706 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
6153628 ACCGTCGTAC
* * *
6153638 GGAAATAATTCGAAAGTGGTGATATTTTG
1 GGAAATAATTCAAAAATGGTGATATTCTG
*
6153667 GGAAATAATTCAAAAATGGTGTTATTCTG
1 GGAAATAATTCAAAAATGGTGATATTCTG
* *
6153696 GTAATTAATTC
1 GGAAATAATTC
6153707 GAATTTGGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (29 bp):
GGAAATAATTCAAAAATGGTGATATTCTG
Found at i:6153766 original size:24 final size:25
Alignment explanation
Indices: 6153723--6153772 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
6153713 GGTGCAATTA
6153723 TGGGAATTAATTTGATTTT-GGTGC
1 TGGGAATTAATTTGATTTTGGGTGC
*
6153747 TGGGAATTAATTT-CTGTTTGGGTGC
1 TGGGAATTAATTTGAT-TTTGGGTGC
6153772 T
1 T
6153773 ATTTGTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 16 0.70
25 6 0.26
ACGTcount: A:0.18, C:0.06, G:0.30, T:0.46
Consensus pattern (25 bp):
TGGGAATTAATTTGATTTTGGGTGC
Found at i:6156368 original size:48 final size:48
Alignment explanation
Indices: 6156315--6156423 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
6156305 GAATATTTTA
* * *
6156315 TCTGATTTCTGATTTGAATTCTGTTTTGACATCTGATCTGAAATCTGT
1 TCTGATTTCTGATCTGAATTCTGTTCTGACATCTGATCTGAAATATGT
* * * * * *
6156363 TCTGATTCCTAACCTGGATTCTGTTCTGATATCTGATCTGAATTATGT
1 TCTGATTTCTGATCTGAATTCTGTTCTGACATCTGATCTGAAATATGT
*
6156411 TTTGATTTCTGAT
1 TCTGATTTCTGAT
6156424 ATCTCCGTTT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGAATTCTGTTCTGACATCTGATCTGAAATATGT
Found at i:6156411 original size:24 final size:24
Alignment explanation
Indices: 6156315--6156423 Score: 103
Period size: 24 Copynumber: 4.5 Consensus size: 24
6156305 GAATATTTTA
* *
6156315 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
6156339 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
6156363 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTCTGT
*
6156387 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
* *
6156411 TTTGATTTCTGAT
1 TCTGATATCTGAT
6156424 ATCTCCGTTT
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
23 1 0.02
24 64 0.97
25 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:6158517 original size:29 final size:29
Alignment explanation
Indices: 6158419--6158522 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
6158409 CGTACGAAAA
* * * *
6158419 TAATTCGAA-GTGGTGATATTTTGGGAAA
1 TAATTCGAATTTGGTGCTATTATGGGAAT
** * * *
6158447 TAATTCGAAAATGGTGTTATTCTGGTAAT
1 TAATTCGAATTTGGTGCTATTATGGGAAT
6158476 TAATTCGAATTTGGTGCTATTATGGGAAT
1 TAATTCGAATTTGGTGCTATTATGGGAAT
*
6158505 TAATTCGATTTTGGTGCT
1 TAATTCGAATTTGGTGCT
6158523 GGGAATTAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 9 0.14
29 55 0.86
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (29 bp):
TAATTCGAATTTGGTGCTATTATGGGAAT
Found at i:6158541 original size:24 final size:24
Alignment explanation
Indices: 6158498--6158547 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
6158488 GGTGCTATTA
*
6158498 TGGGAATTAATTCGATTTTGGTGC
1 TGGGAATTAATTCGATTTGGGTGC
6158522 TGGGAATTAATTTCTG-TTTGGGTGC
1 TGGGAATTAA-TTC-GATTTGGGTGC
6158547 T
1 T
6158548 ATTTGTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 10 0.43
25 12 0.52
26 1 0.04
ACGTcount: A:0.18, C:0.08, G:0.30, T:0.44
Consensus pattern (24 bp):
TGGGAATTAATTCGATTTGGGTGC
Found at i:6161208 original size:24 final size:24
Alignment explanation
Indices: 6161102--6161208 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
6161092 ATATTTTATC
*
6161102 TGATTTCTGATTTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGTTT
** * *
6161126 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTCTGTTT
* * * * *
6161150 TGATTCCTAACCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTCTGTTT
* * *
6161174 TGATATATGATCTGAATTATGTTT
1 TGATTTCTGATCTGAATTCTGTTT
6161198 TGATTTCTGAT
1 TGATTTCTGAT
6161209 ATCTCCGTTT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTGTTT
Found at i:6166709 original size:64 final size:64
Alignment explanation
Indices: 6166630--6166769 Score: 174
Period size: 64 Copynumber: 2.2 Consensus size: 64
6166620 CGGATCCTGA
* *
6166630 CAGGTCAGGTAAAATCGGATACAGGTCA-AGTCAGGTAAATTTGACACCAGATCCAGATCGGGTT
1 CAGGTCAGGTCAAATCAG-TACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTT
* * * * ** **
6166694 TAGGTCAGGTCAAATCAGTTCGGGTTATTTTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
1 CAGGTCAGGTCAAATCAGTACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTT
6166758 CAGGTCAGGTCA
1 CAGGTCAGGTCA
6166770 TTTTCAGTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 6 0.09
64 58 0.91
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (64 bp):
CAGGTCAGGTCAAATCAGTACAGGTCATAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTT
Found at i:6167466 original size:216 final size:210
Alignment explanation
Indices: 6167088--6167902 Score: 1281
Period size: 210 Copynumber: 3.8 Consensus size: 210
6167078 ATTTAATAAT
*
6167088 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACATTTATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-A---A--AG
*
6167153 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAATACTAAATTATAC
60 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
6167218 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCATA
125 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
6167283 TGCAAATAAAATTTGGAGGAC
190 TGCAAATAAAATTTGGAGGAC
*
6167304 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACTTTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-----A-AAG
* *
6167369 GGATCAAATCGAAATAGTTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
60 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
6167434 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
125 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
*
6167499 TGCAAACAAAATTTGGAGGAC
190 TGCAAATAAAATTTGGAGGAC
* * *
6167520 TAAATTGAACAAACACGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* * *
6167585 AATCGAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAAAGTACTAAATTATACACATTT
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
* *
6167650 AAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGGTGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
6167715 TAAAATTTGGAGGAC
196 TAAAATTTGGAGGAC
* *
6167730 TCAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* * *
6167795 AATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATACTCATTT
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
* *
6167860 AAAAAGTTATGGGCCAA-ATAATAAATATAAATAAGTAATAAGT
131 AAAAAGTTATGGGCCAATTTAA-AAATAGAAATAAGTAATAAGT
6167903 TGAGAAAAAA
Statistics
Matches: 564, Mismatches: 30, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
209 3 0.01
210 307 0.54
211 1 0.00
216 251 0.45
218 1 0.00
220 1 0.00
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (210 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
TAAAATTTGGAGGAC
Found at i:6167930 original size:2 final size:2
Alignment explanation
Indices: 6167925--6168013 Score: 65
Period size: 2 Copynumber: 43.0 Consensus size: 2
6167915 AAAACAACTA
* *
6167925 AT AT AT AT AT AT AT AT A- AT AT AT AA ACT AT AT AGT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT
* * * *
6167968 AA AGT AT AT TT AT -T AT AT AT AT AA ACT AT AT AGT TT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT
6168010 AT AT
1 AT AT
6168014 TATGTATAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
1 2 0.03
2 61 0.90
3 5 0.07
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6167967 original size:22 final size:22
Alignment explanation
Indices: 6167942--6168012 Score: 94
Period size: 22 Copynumber: 3.3 Consensus size: 22
6167932 TATATATATA
6167942 ATATATAAACTATATAG-TT-T
1 ATATATAAACTATATAGTTTAT
* *
6167962 ATATATAAAGTATAT-TTATTAT
1 ATATATAAACTATATAGT-TTAT
6167984 ATATATAAACTATATAGTTTAT
1 ATATATAAACTATATAGTTTAT
6168006 ATATATA
1 ATATATA
6168013 TTATGTATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
20 14 0.33
21 2 0.05
22 26 0.60
23 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (22 bp):
ATATATAAACTATATAGTTTAT
Found at i:6167989 original size:42 final size:44
Alignment explanation
Indices: 6167928--6168010 Score: 143
Period size: 42 Copynumber: 1.9 Consensus size: 44
6167918 ACAACTAATA
6167928 TATATATATATATAATATATAAACTATATAGTTTATATATAAAG
1 TATATATATATATAATATATAAACTATATAGTTTATATATAAAG
*
6167972 TATATTTAT-TAT-ATATATAAACTATATAGTTTATATATA
1 TATATATATATATAATATATAAACTATATAGTTTATATATA
6168011 TATTATGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 27 0.71
43 3 0.08
44 8 0.21
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (44 bp):
TATATATATATATAATATATAAACTATATAGTTTATATATAAAG
Found at i:6168016 original size:11 final size:11
Alignment explanation
Indices: 6167925--6168021 Score: 55
Period size: 11 Copynumber: 9.3 Consensus size: 11
6167915 AAAACAACTA
6167925 ATATA-TATAT
1 ATATATTATAT
*
6167935 ATATATAATAT
1 ATATATTATAT
* *
6167946 ATAAACTATAT
1 ATATATTATAT
*
6167957 A-GT-TTATAT
1 ATATATTATAT
* *
6167966 ATAAAGTATAT
1 ATATATTATAT
6167977 -T-TATTATAT
1 ATATATTATAT
*
6167986 ATATA-AACTAT
1 ATATATTA-TAT
6167997 ATAGT-TTATAT
1 ATA-TATTATAT
*
6168008 ATATATTATGT
1 ATATATTATAT
6168019 ATA
1 ATA
6168022 AAGTATAAAC
Statistics
Matches: 63, Mismatches: 15, Indels: 17
0.66 0.16 0.18
Matches are distributed among these distances:
9 12 0.19
10 9 0.14
11 40 0.63
12 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (11 bp):
ATATATTATAT
Found at i:6168021 original size:22 final size:21
Alignment explanation
Indices: 6167954--6168021 Score: 54
Period size: 24 Copynumber: 3.2 Consensus size: 21
6167944 ATATAAACTA
6167954 TATAGTTTATATATA-A-A-G
1 TATAGTTTATATATATATATG
*
6167972 TATA-TTTATTATATATATAAACTA
1 TATAGTTTA-TATATATAT--A-TG
6167996 TATAGTTTATATATATATTATG
1 TATAGTTTATATATATA-TATG
6168018 TATA
1 TATA
6168022 AAGTATAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
17 4 0.10
18 10 0.26
19 1 0.03
22 6 0.15
23 1 0.03
24 12 0.31
25 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (21 bp):
TATAGTTTATATATATATATG
Found at i:6168121 original size:11 final size:11
Alignment explanation
Indices: 6168107--6168225 Score: 66
Period size: 11 Copynumber: 10.6 Consensus size: 11
6168097 ACTACATAGT
6168107 TTATATATAAA
1 TTATATATAAA
*
6168118 TTATATATGAA
1 TTATATATAAA
6168129 TTATATATAAA
1 TTATATATAAA
* * *
6168140 --CTATACAAT
1 TTATATATAAA
*
6168149 TTATATTTATATA
1 TTATA--TATAAA
*
6168162 TTATGTAT-AA
1 TTATATATAAA
*
6168172 TTATAAATAATA
1 TTATATATAA-A
*
6168184 TATATTGTATAAA
1 T-TA-TATATAAA
**
6168197 TTATATATTTTA
1 TTATATA-TAAA
6168209 TTA-ATATAAA
1 TTATATATAAA
6168219 TTATATA
1 TTATATA
6168226 GTTTATATAT
Statistics
Matches: 78, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
9 6 0.08
10 12 0.15
11 35 0.45
12 9 0.12
13 11 0.14
14 5 0.06
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (11 bp):
TTATATATAAA
Found at i:6168152 original size:20 final size:20
Alignment explanation
Indices: 6167942--6168154 Score: 103
Period size: 20 Copynumber: 10.2 Consensus size: 20
6167932 TATATATATA
*
6167942 ATATATAAACTATATAGTTT
1 ATATATAAACTATATAATTT
* *
6167962 ATATATAAAGTATATTTATTAT
1 ATATATAAACTATA-TAATT-T
*
6167984 ATATATAAACTATATAGTTT
1 ATATATAAACTATATAATTT
* * *
6168004 ATATATATA-T-TAT-GTAT
1 ATATATAAACTATATAATTT
*
6168021 AAAGTATAAACTATATATACCATGTAT
1 ATA-TATAAAC--TATATA--AT-T-T
* *
6168048 AAACTATAATACTATATAGTTT
1 ATA-TATAA-ACTATATAATTT
* *
6168070 ATATATGAACTAT-TGAA-CT
1 ATATATAAACTATAT-AATTT
* * *
6168089 ATATAGAAACTACATAGTTT
1 ATATATAAACTATATAATTT
* *
6168109 ATATATAAATTATATATGAATT
1 ATATATAAACTATATA--ATTT
*
6168131 ATATATAAACTATACAATTT
1 ATATATAAACTATATAATTT
6168151 ATAT
1 ATAT
6168155 TTATATATTA
Statistics
Matches: 144, Mismatches: 31, Indels: 36
0.68 0.15 0.17
Matches are distributed among these distances:
17 5 0.03
18 8 0.06
19 14 0.10
20 50 0.35
21 11 0.08
22 36 0.25
23 1 0.01
24 1 0.01
25 1 0.01
26 6 0.04
27 9 0.06
28 2 0.01
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (20 bp):
ATATATAAACTATATAATTT
Found at i:6168152 original size:42 final size:43
Alignment explanation
Indices: 6168083--6168181 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
6168073 TATGAACTAT
* * * *
6168083 TGAACTATATAGAAACTACATAGTTTATA-TATAAATTATATA
1 TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
* * *
6168125 TGAATTATATATAAACTATACAATTTATATTTATATATTATGTA
1 TGAATTATATATAAACTACACAATTTATA-TTATAAATTATATA
*
6168169 T-AATTATAAATAA
1 TGAATTATATATAA
6168182 TATATATTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.51
43 11 0.23
44 12 0.26
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (43 bp):
TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
Found at i:6168194 original size:9 final size:9
Alignment explanation
Indices: 6168150--6168237 Score: 50
Period size: 9 Copynumber: 10.6 Consensus size: 9
6168140 CTATACAATT
6168150 TATATT-TA
1 TATATTATA
*
6168158 TATATTATG
1 TATATTATA
6168167 TATAATTATA
1 TAT-ATTATA
*
6168177 -A-ATAATA
1 TATATTATA
*
6168184 TATATTGTA
1 TATATTATA
*
6168193 TAAATTATA
1 TATATTATA
6168202 TAT-TT-TA
1 TATATTATA
6168209 T-TA--ATA
1 TATATTATA
*
6168215 TAAATTATA
1 TATATTATA
6168224 TAGT-TTATA
1 TA-TATTATA
6168233 TATAT
1 TATAT
6168238 ATGTGTGTGG
Statistics
Matches: 59, Mismatches: 10, Indels: 21
0.66 0.11 0.23
Matches are distributed among these distances:
6 4 0.07
7 9 0.15
8 10 0.17
9 31 0.53
10 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (9 bp):
TATATTATA
Found at i:6168258 original size:7 final size:7
Alignment explanation
Indices: 6168246--6168342 Score: 113
Period size: 7 Copynumber: 13.9 Consensus size: 7
6168236 ATATGTGTGT
6168246 GGTTTAG
1 GGTTTAG
6168253 GGTTTAG
1 GGTTTAG
6168260 GGTTTAG
1 GGTTTAG
6168267 GGTTTAG
1 GGTTTAG
*
6168274 AGTTTAG
1 GGTTTAG
*
6168281 GATTTAG
1 GGTTTAG
* *
6168288 GGTTAAA
1 GGTTTAG
*
6168295 TGTTTAG
1 GGTTTAG
6168302 GGTTTAG
1 GGTTTAG
* *
6168309 GGTTAAA
1 GGTTTAG
*
6168316 TGTTTAG
1 GGTTTAG
*
6168323 GGTTTAA
1 GGTTTAG
6168330 GGTTTAG
1 GGTTTAG
6168337 GGTTTA
1 GGTTTA
6168343 TATTTATATA
Statistics
Matches: 72, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 72 1.00
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:6168430 original size:33 final size:32
Alignment explanation
Indices: 6168382--6168474 Score: 118
Period size: 33 Copynumber: 2.9 Consensus size: 32
6168372 TATTTATATA
*
6168382 TTATATTTTATACTATTTATATAAACTATAGT
1 TTATATTTTATACTATATATATAAACTATAGT
*
6168414 TTATATTTATATACTATATATATGAACTATAGT
1 TTATATTT-TATACTATATATATAAACTATAGT
* * *
6168447 TTACATATGA-ACTATATATATAAA-TATA
1 TTATATTTTATACTATATATATAAACTATA
6168475 TATATAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.07
31 13 0.24
32 9 0.17
33 28 0.52
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (32 bp):
TTATATTTTATACTATATATATAAACTATAGT
Found at i:6168461 original size:31 final size:32
Alignment explanation
Indices: 6168390--6168505 Score: 107
Period size: 33 Copynumber: 3.6 Consensus size: 32
6168380 TATTATATTT
* *
6168390 TATACTATTTATATAAACTATAGTTTATATTTA
1 TATACTATATATATAAACTATAGTTTACA-TTA
*
6168423 TATACTATATATATGAACTATAGTTTACA-TA
1 TATACTATATATATAAACTATAGTTTACATTA
*
6168454 TGA-ACTATATATATAAA-TATA-TATATAAATATA
1 T-ATACTATATATATAAACTATAGT-T-TACAT-TA
*
6168487 TATA-TATATATATATACTA
1 TATACTATATATATAAACTA
6168506 AGGTTGATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
29 1 0.01
30 5 0.07
31 19 0.27
32 13 0.19
33 32 0.46
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (32 bp):
TATACTATATATATAAACTATAGTTTACATTA
Found at i:6168466 original size:2 final size:2
Alignment explanation
Indices: 6168459--6168502 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
6168449 ACATATGAAC
* *
6168459 TA TA TA TA TA AA TA TA TA TA TA AA 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 TA TA
6168501 TA
1 TA
6168503 CTAAGGTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:6168476 original size:12 final size:12
Alignment explanation
Indices: 6168459--6168502 Score: 79
Period size: 12 Copynumber: 3.7 Consensus size: 12
6168449 ACATATGAAC
6168459 TATATATATAAA
1 TATATATATAAA
6168471 TATATATATAAA
1 TATATATATAAA
*
6168483 TATATATATATA
1 TATATATATAAA
6168495 TATATATA
1 TATATATA
6168503 CTAAGGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATATAAA
Found at i:6168480 original size:18 final size:18
Alignment explanation
Indices: 6168459--6168987 Score: 130
Period size: 18 Copynumber: 28.4 Consensus size: 18
6168449 ACATATGAAC
6168459 TATATATATAAATATATA
1 TATATATATAAATATATA
* *
6168477 TATAAATATATATATATA
1 TATATATATAAATATATA
*
6168495 TATATATACTAAGGT-TGATA
1 TATATATA-TAA-ATAT-ATA
* *
6168515 TTTATATATGAACTATAGT-
1 TATATATAT-AAATATA-TA
*
6168534 T-TACATATAAACTATAGT-
1 TATATATATAAA-TATA-TA
* *
6168552 TA-ATATTTACATATGA-A
1 TATATATATAAATAT-ATA
* * *
6168569 T-TATAGTTTACATA-AGAA
1 TATATA-TATAAATATA-TA
6168587 CTATATATATAAACTATATA
1 -TATATATATAAA-TATATA
* * *
6168607 GTTTACATATGACATATATA
1 -TATATATAT-AAATATATA
*
6168627 TATATATATATATATATA
1 TATATATATAAATATATA
** *
6168645 TATATATTATAGTTGATATT
1 TATATA-TATAAAT-ATATA
* * *
6168665 TATATATAT-AGTTTACA
1 TATATATATAAATATATA
** *
6168682 TATGACCTATATATATACTA
1 TAT-ATATATAAATATA-TA
* **
6168702 TAGTTTATATTTATATATA
1 TA-TATATATAAATATATA
6168721 TATATATATAAACTATAGT-
1 TATATATATAAA-TATA-TA
* *
6168740 TA-ATATTTACATATGA-A
1 TATATATATAAATAT-ATA
* *
6168757 CTATAGT-T-TACATA-AGAA
1 -TATA-TATATAAATATA-TA
6168775 CTATATATATAAACTATATA
1 -TATATATATAAA-TATATA
* * *
6168795 GTTTACATATGACATATATA
1 -TATATATAT-AAATATATA
*
6168815 TATATATATATATATATA
1 TATATATATAAATATATA
*
6168833 TATATATATATATATATA
1 TATATATATAAATATATA
*
6168851 TATATATAT-ATTATAGT-
1 TATATATATAAATATA-TA
* *
6168868 TGATATTTATATACTATATA
1 T-ATATATATA-AATATATA
* * **
6168888 GTTTACATATGACCTATATA
1 -TATATATAT-AAATATATA
* *
6168908 TATA-CTA-AAGT-T-TA
1 TATATATATAAATATATA
* *
6168922 TATTTATAT-ACTATATA
1 TATATATATAAATATATA
6168939 TTATATATATAAACTATATA
1 -TATATATATAAA-TATATA
6168959 TTATATATATAAACTATATA
1 -TATATATATAAA-TATATA
6168979 TACTATATA
1 TA-TATATA
6168988 GTATAATTTA
Statistics
Matches: 386, Mismatches: 71, Indels: 106
0.69 0.13 0.19
Matches are distributed among these distances:
14 5 0.01
15 5 0.01
16 5 0.01
17 25 0.06
18 154 0.40
19 59 0.15
20 124 0.32
21 9 0.02
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (18 bp):
TATATATATAAATATATA
Found at i:6168542 original size:42 final size:42
Alignment explanation
Indices: 6168433--6168591 Score: 130
Period size: 42 Copynumber: 3.7 Consensus size: 42
6168423 TATACTATAT
* * * *
6168433 ATATGAACTATAGTTTACATATGAACTATA-TATATAAATATAT
1 ATATGAACTATAGTTTACATATAAACTATAGT-TA-ATATTTAC
* * * *
6168476 ATAT-AAATATA-TATATATATATATATACTA-AGGTTGATATTTAT
1 ATATGAACTATAGT-T-TACATATA-A-ACTATA-GTTAATATTTAC
6168520 ATATGAACTATAGTTTACATATAAACTATAGTTAATATTTAC
1 ATATGAACTATAGTTTACATATAAACTATAGTTAATATTTAC
*
6168562 ATATGAATTATAGTTTACATA-AGAACTATA
1 ATATGAACTATAGTTTACATATA-AACTATA
6168592 TATATAAACT
Statistics
Matches: 95, Mismatches: 11, Indels: 21
0.75 0.09 0.17
Matches are distributed among these distances:
41 2 0.02
42 48 0.51
43 12 0.13
44 19 0.20
45 12 0.13
46 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (42 bp):
ATATGAACTATAGTTTACATATAAACTATAGTTAATATTTAC
Found at i:6168595 original size:2 final size:2
Alignment explanation
Indices: 6168588--6168992 Score: 184
Period size: 2 Copynumber: 193.0 Consensus size: 2
6168578 ACATAAGAAC
* * * *
6168588 TA TA TA TA TA AA CTA TA TA GTT TA CA TA TGA CA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA T-A TA TA TA TA TA TA
*
6168631 TA TA TA TA TA TA TA TA TA TA T- TA TA GT- TGA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA
* * ** * *
6168673 TA GTT TA CA TA TGA CC TA TA TA TA TA CTA TA GTT TA TA TT TA TA
1 TA -TA TA TA TA T-A TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
* * *
6168717 TA TA TA TA TA TA TA AA CTA TA GT- TA -A TA TT TA CA TA TGA -A
1 TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA T-A TA
* * * * *
6168757 CTA TA GTT TA CA TA -A GA -A CTA TA TA TA TA AA CTA TA TA GTT TA
1 -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA
* *
6168800 CA TA TGA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6168843 TA TA TA TA TA TA TA TA TA T- TA TA GT- TGA TA TT TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA -TA
* * ** * * *
6168884 TA TA GTT TA CA TA TGA CC TA TA TA TA TA CTA AA GTT TA TA TT TA
1 TA TA -TA TA TA TA T-A TA TA TA TA TA TA -TA TA -TA TA TA TA TA
*
6168928 TA TA CTA TA TA T- TA TA TA TA TA AA CTA TA TA T- 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 TA TA
*
6168970 AA CTA TA TA TA CTA TA TA GTA TA
1 TA -TA TA TA TA -TA TA TA -TA TA
6168993 ATTTACATAT
Statistics
Matches: 302, Mismatches: 60, Indels: 82
0.68 0.14 0.18
Matches are distributed among these distances:
1 11 0.04
2 256 0.85
3 35 0.12
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:6168607 original size:33 final size:32
Alignment explanation
Indices: 6168562--6168638 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
6168552 TAATATTTAC
*
6168562 ATATGAAT-TATAGTTTACATAAGA-ACTATAT
1 ATATAAATATATAGTTTACATAAGACA-TATAT
*
6168593 ATATAAACTATATAGTTTACATATGACATATAT
1 ATATAAA-TATATAGTTTACATAAGACATATAT
*
6168626 ATATATATATATA
1 ATATAAATATATA
6168639 TATATATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
31 6 0.15
32 7 0.17
33 26 0.65
34 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (32 bp):
ATATAAATATATAGTTTACATAAGACATATAT
Found at i:6168790 original size:31 final size:32
Alignment explanation
Indices: 6168750--6168818 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
6168740 TAATATTTAC
*
6168750 ATATGAAC-TATAGTTTACATAAGA-ACTATAT
1 ATATAAACATATAGTTTACATAAGACA-TATAT
*
6168781 ATATAAACTATATAGTTTACATATGACATATAT
1 ATATAAAC-ATATAGTTTACATAAGACATATAT
6168814 ATATA
1 ATATA
6168819 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 7 0.21
33 25 0.76
34 1 0.03
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (32 bp):
ATATAAACATATAGTTTACATAAGACATATAT
Found at i:6169060 original size:9 final size:9
Alignment explanation
Indices: 6169048--6169152 Score: 76
Period size: 9 Copynumber: 11.7 Consensus size: 9
6169038 AACTATACGT
6169048 TATATAAAC
1 TATATAAAC
*
6169057 TATATAGTA-
1 TATATA-AAC
6169066 TATATAAAC
1 TATATAAAC
6169075 TATATAATA-
1 TATATAA-AC
*
6169084 TATATAGAC
1 TATATAAAC
**
6169093 TATATGGTA-
1 TATAT-AAAC
6169102 TATATAAAC
1 TATATAAAC
*
6169111 TATACAATA-
1 TATATAA-AC
6169120 TATATAAAC
1 TATATAAAC
*
6169129 TATATAGTA-
1 TATATA-AAC
6169138 TATATAAAC
1 TATATAAAC
6169147 TATATA
1 TATATA
6169153 TTATATAGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
8 5 0.07
9 65 0.87
10 5 0.07
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (9 bp):
TATATAAAC
Found at i:6169069 original size:18 final size:18
Alignment explanation
Indices: 6169036--6169312 Score: 236
Period size: 18 Copynumber: 15.6 Consensus size: 18
6169026 CCCTAAACCC
*
6169036 TAAACTATA-CGT-TATA
1 TAAACTATATAGTATATA
6169052 TAAACTATATAGTATATA
1 TAAACTATATAGTATATA
*
6169070 TAAACTATATAATATATA
1 TAAACTATATAGTATATA
* *
6169088 TAGACTATATGGTATATA
1 TAAACTATATAGTATATA
* *
6169106 TAAACTATACAATATATA
1 TAAACTATATAGTATATA
6169124 TAAACTATATAGTATATA
1 TAAACTATATAGTATATA
6169142 TAAACTATATA-T-TATA
1 TAAACTATATAGTATATA
**
6169158 T-AGTTCAT-TAGTATATA
1 TAAACT-ATATAGTATATA
6169175 TAAACTATATAGTATATA
1 TAAACTATATAGTATATA
*
6169193 TAAACTATATATTATATA
1 TAAACTATATAGTATATA
** *
6169211 GTTCATTAGTATA-TATAACCTA
1 -TAAACTA-TATAGTAT-A--TA
*
6169233 TATAA-TATATGGTATATA
1 TA-AACTATATAGTATATA
*
6169251 CAAACTATATA-T-TATA
1 TAAACTATATAGTATATA
**
6169267 T-AGTTCAT-TAGTATATA
1 TAAACT-ATATAGTATATA
* *
6169284 TAAACTATACAATATATA
1 TAAACTATATAGTATATA
6169302 TAAACTATATA
1 TAAACTATATA
6169313 TTAATTTATT
Statistics
Matches: 209, Mismatches: 32, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
15 8 0.04
16 24 0.11
17 20 0.10
18 132 0.63
19 7 0.03
20 9 0.04
21 6 0.03
22 3 0.01
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (18 bp):
TAAACTATATAGTATATA
Found at i:6169189 original size:51 final size:51
Alignment explanation
Indices: 6169061--6169315 Score: 305
Period size: 51 Copynumber: 4.8 Consensus size: 51
6169051 ATAAACTATA
* * * **
6169061 TAGTATATATAAACTATATAATATATATAGACTATATGGTATATATA-AACTAT
1 TAGTATATATAAACTATATAGTATATATAAACTATAT-AT-TATATAGTTC-AT
* *
6169114 ACAATATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
1 -TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
6169166 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
* *
6169217 TAGTATATATAACCTATATAATATATGGTATATACAAACTATATATTATATAGTTCAT
1 TAGTATATATAA---A-CT-ATATA--GTATATATAAACTATATATTATATAGTTCAT
* *
6169275 TAGTATATATAAACTATACAATATATATAAACTATATATTA
1 TAGTATATATAAACTATATAGTATATATAAACTATATATTA
6169316 ATTTATTAAT
Statistics
Matches: 178, Mismatches: 15, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
51 80 0.45
52 8 0.04
53 6 0.03
54 35 0.20
55 2 0.01
56 5 0.03
58 42 0.24
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (51 bp):
TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
Found at i:6169210 original size:20 final size:20
Alignment explanation
Indices: 6168776--6169210 Score: 135
Period size: 18 Copynumber: 22.3 Consensus size: 20
6168766 ACATAAGAAC
6168776 TATATATATAAACTATATAGT
1 TATATATATAAACTATATA-T
* *
6168797 T-TACATAT-GAC-ATATA-
1 TATATATATAAACTATATAT
*
6168813 TATATATATATA-TATATAT
1 TATATATATAAACTATATAT
*
6168832 ATATATATATATA-TATATAT
1 -TATATATATAAACTATATAT
* *
6168852 ATATATATATTATAGT-TGATATT
1 -TATATATA-TAAACTAT-ATA-T
** *
6168875 TATATACTATATAGTTTACATAT
1 TATATA-TATA-A-ACTATATAT
* * *
6168898 GACCTATATATATACTAAAGT-T
1 TA--TATATATAAACTATA-TAT
* *
6168920 TATATTTATATACTATATAT
1 TATATATATAAACTATATAT
6168940 TATATATATAAACTATATAT
1 TATATATATAAACTATATAT
6168960 TATATATATAAACTATATAT
1 TATATATATAAACTATATAT
** *
6168980 ACTATATAGTATAATTTACATAT
1 --TATATA-TATAAACTATATAT
* **
6169003 GAACTATATATAAA--A-ATCC
1 -TA-TATATATAAACTATATAT
** ** * *
6169022 TA-A-ACCCTAAACCCTAAAC
1 TATATA-TATAAACTATATAT
6169041 TATACGTTATATAAACTATATA-
1 TATA---TATATAAACTATATAT
*
6169063 -GTATATATAAACTATATA-
1 TATATATATAAACTATATAT
*
6169081 -ATATATATAGAC--TATAT
1 TATATATATAAACTATATAT
** *
6169098 GGTATATATAAACTATACA-
1 TATATATATAAACTATATAT
6169117 -ATATATATAAACTATATA-
1 TATATATATAAACTATATAT
*
6169135 -GTATATATAAACTATATAT
1 TATATATATAAACTATATAT
6169154 TATATAGT-T---C-AT-TA-
1 TATATA-TATAAACTATATAT
*
6169168 -GTATATATAAACTATATA-
1 TATATATATAAACTATATAT
*
6169186 -GTATATATAAACTATATAT
1 TATATATATAAACTATATAT
6169205 TATATA
1 TATATA
6169211 GTTCATTAGT
Statistics
Matches: 320, Mismatches: 49, Indels: 91
0.70 0.11 0.20
Matches are distributed among these distances:
12 1 0.00
13 5 0.02
15 3 0.01
16 13 0.04
17 9 0.03
18 100 0.31
19 9 0.03
20 100 0.31
21 9 0.03
22 29 0.09
23 29 0.09
24 9 0.03
25 4 0.01
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (20 bp):
TATATATATAAACTATATAT
Done.