Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 278 of 279
Found at i:90664111 original size:188 final size:188
Alignment explanation
Indices: 90663794--90664150 Score: 705
Period size: 188 Copynumber: 1.9 Consensus size: 188
90663784 TGTGTGTGTG
*
90663794 ACTTATCAACAAGCCGCCCTAAGAGAAAAACTCTCATTCAAGAGAAGACCAACCATTGTTAGATG
1 ACTTATCAACAAGCCGCCCTAAGAGAAAAACGCTCATTCAAGAGAAGACCAACCATTGTTAGATG
90663859 GATGCCTCCTACTCAAAGGTCATCTATAGGAGGCATCCATGACAGACCATTGATAATGATGTGAA
66 GATGCCTCCTACTCAAAGGTCATCTATAGGAGGCATCCATGACAGACCATTGATAATGATGTGAA
90663924 CAAAACTTATTTTGTTAAATTTTGAAAATGTGTAAATTTGCTCGCTATTGATCTATCA
131 CAAAACTTATTTTGTTAAATTTTGAAAATGTGTAAATTTGCTCGCTATTGATCTATCA
90663982 ACTTATCAACAAGCCGCCCTAAGAGAAAAACGCTCATTCAAGAGAAGACCAACCATTGTTAGATG
1 ACTTATCAACAAGCCGCCCTAAGAGAAAAACGCTCATTCAAGAGAAGACCAACCATTGTTAGATG
90664047 GATGCCTCCTACTCAAAGGTCATCTATAGGAGGCATCCATGACAGACCATTGATAATGATGTGAA
66 GATGCCTCCTACTCAAAGGTCATCTATAGGAGGCATCCATGACAGACCATTGATAATGATGTGAA
90664112 CAAAACTTATTTTGTTAAATTTTGAAAATGTGTAAATTT
131 CAAAACTTATTTTGTTAAATTTTGAAAATGTGTAAATTT
90664151 TGAAAATGTG
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 168 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (188 bp):
ACTTATCAACAAGCCGCCCTAAGAGAAAAACGCTCATTCAAGAGAAGACCAACCATTGTTAGATG
GATGCCTCCTACTCAAAGGTCATCTATAGGAGGCATCCATGACAGACCATTGATAATGATGTGAA
CAAAACTTATTTTGTTAAATTTTGAAAATGTGTAAATTTGCTCGCTATTGATCTATCA
Found at i:90664149 original size:17 final size:17
Alignment explanation
Indices: 90664127--90664162 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
90664117 CTTATTTTGT
90664127 TAAATTTTGAAAATGTG
1 TAAATTTTGAAAATGTG
90664144 TAAATTTTGAAAATGTG
1 TAAATTTTGAAAATGTG
90664161 TA
1 TA
90664163 CCAAATCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
TAAATTTTGAAAATGTG
Found at i:90664969 original size:36 final size:38
Alignment explanation
Indices: 90664890--90664970 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
90664880 GTTAGCCATG
* *
90664890 TATACCAGCAGCCATGTATAACATATGTTAAGCAACAA
1 TATACCAGCAGCCATGTATAACATATGATAACCAACAA
*
90664928 TATACCAGCAGCCATGTATACCA-AT-ATAACCAACAA
1 TATACCAGCAGCCATGTATAACATATGATAACCAACAA
90664964 TATACCA
1 TATACCA
90664971 ACAATAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 16 0.40
37 2 0.05
38 22 0.55
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (38 bp):
TATACCAGCAGCCATGTATAACATATGATAACCAACAA
Found at i:90665352 original size:21 final size:21
Alignment explanation
Indices: 90665326--90665373 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
90665316 GGCATCTCTA
90665326 TTTTTCCTC-T-TGTCCTTCTTC
1 TTTTTCCTCATCT-TCCTT-TTC
*
90665347 TTTTTCTTCATCTTCCTTTTC
1 TTTTTCCTCATCTTCCTTTTC
90665368 TTTTTC
1 TTTTTC
90665374 TCTAACCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 17 0.71
22 6 0.25
23 1 0.04
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTCCTCATCTTCCTTTTC
Found at i:90665884 original size:33 final size:33
Alignment explanation
Indices: 90665817--90665907 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
90665807 TGGTTTCAAA
* * *
90665817 ATTTAATTTAATACTTGTA--TACGTTGATTAAT
1 ATTT-ATTTAATACATGTATTTAAGTAGATTAAT
*
90665849 ATTTATTTAATATATGTATTTAAGTAGATTAAT
1 ATTTATTTAATACATGTATTTAAGTAGATTAAT
*
90665882 ATTTATTTAATACATGTTTTTAAGTA
1 ATTTATTTAATACATGTATTTAAGTA
90665908 AAAGTATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
31 12 0.24
32 4 0.08
33 35 0.69
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (33 bp):
ATTTATTTAATACATGTATTTAAGTAGATTAAT
Found at i:90666071 original size:32 final size:32
Alignment explanation
Indices: 90666013--90666075 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
90666003 AATTTTGAAA
*
90666013 AAATTTAGATATCAAATTAAAGATTAAAAAAT
1 AAATTTAAATATCAAATTAAAGATTAAAAAAT
* *
90666045 AAATTTAAATATTAAA-TAATATATTAAAAAA
1 AAATTTAAATATCAAATTAA-AGATTAAAAAA
90666076 AAAAGGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (32 bp):
AAATTTAAATATCAAATTAAAGATTAAAAAAT
Found at i:90673850 original size:47 final size:47
Alignment explanation
Indices: 90673742--90673851 Score: 134
Period size: 47 Copynumber: 2.3 Consensus size: 47
90673732 CGGGATAACT
* *
90673742 ACATAGTGCTTCATCGGAATAAATCCGAAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
* * * *
90673789 ACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTAC
90673836 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
90673852 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
Found at i:90674623 original size:4 final size:4
Alignment explanation
Indices: 90674614--90674642 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
90674604 CCCTTTTCTA
90674614 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
90674643 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:90683838 original size:14 final size:14
Alignment explanation
Indices: 90683819--90683848 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90683809 GTCATTTAGG
90683819 CCAACCAAACTGGC
1 CCAACCAAACTGGC
90683833 CCAACCAAACTGGC
1 CCAACCAAACTGGC
90683847 CC
1 CC
90683849 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:90688964 original size:14 final size:14
Alignment explanation
Indices: 90688945--90688974 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90688935 GTCATTTAGG
90688945 CCAACCAAACTGGC
1 CCAACCAAACTGGC
90688959 CCAACCAAACTGGC
1 CCAACCAAACTGGC
90688973 CC
1 CC
90688975 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:90691282 original size:17 final size:18
Alignment explanation
Indices: 90691260--90691301 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
90691250 CATTTAGAAA
*
90691260 ATTTTTATTGT-ACTGAT
1 ATTTTTATAGTAACTGAT
*
90691277 ATTTTTATAGTAATTGAT
1 ATTTTTATAGTAACTGAT
90691295 ATTTTTA
1 ATTTTTA
90691302 AATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (18 bp):
ATTTTTATAGTAACTGAT
Found at i:90695495 original size:13 final size:13
Alignment explanation
Indices: 90695477--90695501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90695467 CTTTCTTTTG
90695477 TTTTATTTATTTA
1 TTTTATTTATTTA
90695490 TTTTATTTATTT
1 TTTTATTTATTT
90695502 TATTCTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:90695496 original size:9 final size:9
Alignment explanation
Indices: 90695478--90695518 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
90695468 TTTCTTTTGT
90695478 TTTA-TTTA
1 TTTATTTTA
90695486 TTTATTTTA
1 TTTATTTTA
90695495 TTTATTTTA
1 TTTATTTTA
*
90695504 -TTCTTTTA
1 TTTATTTTA
90695512 CTTTATT
1 -TTTATT
90695519 AAATTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 11 0.39
9 13 0.46
10 4 0.14
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:90695829 original size:20 final size:20
Alignment explanation
Indices: 90695806--90695862 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
90695796 TTAATTTATT
90695806 TTTAATAATAATAATAATAA
1 TTTAATAATAATAATAATAA
*
90695826 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATAATAA
* *
90695846 TTTGAT-AGAATAATAAT
1 TTTAATAATAATAATAAT
90695863 GATAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATAATAA
Found at i:90697108 original size:44 final size:43
Alignment explanation
Indices: 90697040--90697150 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 43
90697030 CTGATATGTG
* *
90697040 TTATCGTGTAAGATCACGTCTGGGACGTTGGCATCG-ACTTATGAT
1 TTAT-GTGTAAGACCATGTCTGGGACGTTGGCATCGCAC-T-TGAT
*
90697085 TTATGTGTAAGAGCATGTCTGGGACGTTGGCATCGCACTTGAT
1 TTATGTGTAAGACCATGTCTGGGACGTTGGCATCGCACTTGAT
* *
90697128 TT-CGTGTAAGACCCTGTCTGGGA
1 TTATGTGTAAGACCATGTCTGGGA
90697151 TAGTGACATC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 18 0.30
43 6 0.10
44 30 0.50
45 6 0.10
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
TTATGTGTAAGACCATGTCTGGGACGTTGGCATCGCACTTGAT
Found at i:90712464 original size:92 final size:93
Alignment explanation
Indices: 90712337--90712505 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 93
90712327 GCCCATAAGT
* *
90712337 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90712402 CGAGCTCGGATGCCTAGTTATATCTCTC
66 CGAGCTCGGATGCCTAGTTATATCTCTC
*
90712430 GAACTCGGACT-AACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
90712494 CGAGTTCGGATG
66 CGAGCTCGGATG
90712506 TTCAACCATC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 61 0.85
93 11 0.15
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTATATCTCTC
Found at i:90712522 original size:46 final size:46
Alignment explanation
Indices: 90712329--90712508 Score: 204
Period size: 46 Copynumber: 3.9 Consensus size: 46
90712319 TGTAACCCGC
*
90712329 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
90712375 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCG-CAT
*** * *
90712423 --ATCTCTCGAACTCGGACT-AACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
90712467 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTC
90712509 AACCATCCTA
Statistics
Matches: 109, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
44 2 0.02
45 13 0.12
46 79 0.72
47 13 0.12
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:90712751 original size:68 final size:67
Alignment explanation
Indices: 90712671--90712808 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 67
90712661 ACATATTATC
*
90712671 AAACAATTATCACGAGTATAATATTTCATAATAATTATCATATCATTTAAATAACATTAAAACAT
1 AAACAATTATCACGAGTATAATATTTCATAATAATTATCATATCATTTAAATAACATAAAAACAT
90712736 TT
66 TT
*
90712738 AAANCAATTATCACGAGTATAATATTTCATAATAATTATCATATCATTTAAATAACATAAAAATA
1 AAA-CAATTATCACGAGTATAATATTTCATAATAATTATCATATCATTTAAATAACATAAAAACA
90712803 TTT
65 TTT
90712806 AAA
1 AAA
90712809 ATAATAACTA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
67 3 0.04
68 65 0.96
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.36
Consensus pattern (67 bp):
AAACAATTATCACGAGTATAATATTTCATAATAATTATCATATCATTTAAATAACATAAAAACAT
TT
Found at i:90719348 original size:26 final size:25
Alignment explanation
Indices: 90719301--90719352 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
90719291 AATGTTAATA
*
90719301 TTATATATGAGTTTTAATTTTGTGTT
1 TTATATATGAATTTTAATTTTG-GTT
*
90719327 TTATATATGGAATTTTGA-TTTGGTT
1 TTATATAT-GAATTTTAATTTTGGTT
90719352 T
1 T
90719353 AATTTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 7 0.30
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (25 bp):
TTATATATGAATTTTAATTTTGGTT
Found at i:90722281 original size:31 final size:28
Alignment explanation
Indices: 90722256--90722316 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
90722246 TATTTTGATG
90722256 ATAGTAAAAATACAAGTTTATTATTTTA
1 ATAGTAAAAATACAAGTTTATTATTTTA
*
90722284 ATAGTAAAAATACAAGTTTATCATTTTA
1 ATAGTAAAAATACAAGTTTATTATTTTA
90722312 ATAGT
1 ATAGT
90722317 TTATATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (28 bp):
ATAGTAAAAATACAAGTTTATTATTTTA
Found at i:90725224 original size:27 final size:27
Alignment explanation
Indices: 90725186--90725246 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
90725176 GTAGTGTTTG
90725186 TTTCGT-TTTTGTTCAAGGCAAAGCAC
1 TTTCGTATTTTGTTCAAGGCAAAGCAC
90725212 TTTCGTATTTTGTTCAAGGCAAAGCAC
1 TTTCGTATTTTGTTCAAGGCAAAGCAC
90725239 TTTCGTAT
1 TTTCGTAT
90725247 GAATGAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
TTTCGTATTTTGTTCAAGGCAAAGCAC
Found at i:90726197 original size:6 final size:6
Alignment explanation
Indices: 90726189--90726219 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
90726179 TGCCCATCGT
*
90726189 CAACGT CAACGC CAACGC CAACGC CAACGC C
1 CAACGC CAACGC CAACGC CAACGC CAACGC C
90726220 GCTTTCATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.32, C:0.48, G:0.16, T:0.03
Consensus pattern (6 bp):
CAACGC
Found at i:90734429 original size:21 final size:20
Alignment explanation
Indices: 90734387--90734431 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
90734377 ATAATATTAT
*
90734387 ATTTTAAAAATTTTAATTTA
1 ATTTTAAAAATTTTAATATA
90734407 ATTTTAAAAATTAATT-ATATA
1 ATTTTAAAAATT--TTAATATA
90734428 ATTT
1 ATTT
90734432 GGATAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 8 0.36
22 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTAAAAATTTTAATATA
Found at i:90735035 original size:16 final size:16
Alignment explanation
Indices: 90735013--90735081 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
90735003 TTTGGTTCGC
90735013 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
90735029 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
90735045 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
90735062 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
90735078 TGTA
1 TGTA
90735082 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:90735059 original size:33 final size:32
Alignment explanation
Indices: 90735013--90735081 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
90735003 TTTGGTTCGC
90735013 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
90735045 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
90735078 TGTA
1 TGTA
90735082 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:90735146 original size:44 final size:45
Alignment explanation
Indices: 90735062--90735152 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
90735052 GGATTAGAGG
* * *
90735062 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
90735107 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
90735151 TG
1 TG
90735153 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:90735338 original size:18 final size:17
Alignment explanation
Indices: 90735317--90735351 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90735307 TTATTATTAA
*
90735317 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
90735335 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
90735352 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:90735458 original size:18 final size:17
Alignment explanation
Indices: 90735437--90735471 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
90735427 TTATTATTAA
*
90735437 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
90735455 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
90735472 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:90735513 original size:120 final size:120
Alignment explanation
Indices: 90735300--90736042 Score: 1441
Period size: 120 Copynumber: 6.2 Consensus size: 120
90735290 ATCATATTTA
*
90735300 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
90735365 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
90735420 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
90735485 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
90735540 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
90735605 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
90735660 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
90735725 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
90735780 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
90735845 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
90735900 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
90735965 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
90736020 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
90736043 AACTTGAAAA
Statistics
Matches: 619, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 619 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:90739113 original size:33 final size:33
Alignment explanation
Indices: 90739074--90739183 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
90739064 ATTATAAAGC
90739074 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
90739107 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
90739140 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
90739173 ATGTATAATTG
1 ATGTATAATTG
90739184 TTGGTTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:90739190 original size:51 final size:51
Alignment explanation
Indices: 90739130--90739334 Score: 387
Period size: 51 Copynumber: 4.0 Consensus size: 51
90739120 CTAAAATTAC
90739130 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
90739181 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
90739232 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
90739283 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATG-ATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
90739333 TT
1 TT
90739335 TTTACGTATA
Statistics
Matches: 153, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
50 7 0.05
51 146 0.95
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:90739508 original size:86 final size:86
Alignment explanation
Indices: 90739401--90739581 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
90739391 TTCTCTCCAC
90739401 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
90739465 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
90739486 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
90739551 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
90739572 ATAATAATTA
1 ATAATAATTA
90739582 CAATTATATT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:90746058 original size:30 final size:31
Alignment explanation
Indices: 90746024--90746125 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
90746014 TAAAAAATAA
*
90746024 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
90746054 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
90746084 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
90746114 AAATTTCATTTT
1 AAATTTCATTTT
90746126 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:90746878 original size:16 final size:17
Alignment explanation
Indices: 90746847--90746884 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
90746837 TTATATTTAT
90746847 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
*
90746864 ATTTTTAATTT-ATTTT
1 ATTTTTAATTTAATTTG
90746880 ATTTT
1 ATTTT
90746885 AAATAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:90747096 original size:34 final size:34
Alignment explanation
Indices: 90747025--90747116 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 34
90747015 AAAATTGTAA
* * *
90747025 TTTCAATAATCCTCGTGCTTTTAAAAATTCTCATG
1 TTTCAAAAATCTTCGTG-TTTTCAAAATTCTCATG
90747060 TTTCAAAAATCTTCGTGTTTTCAAAATTCT-AGTG
1 TTTCAAAAATCTTCGTGTTTTCAAAATTCTCA-TG
* *
90747094 TTTCAAAAATTTTCTTGTTTTCA
1 TTTCAAAAATCTTCGTGTTTTCA
90747117 GAAAAAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
33 1 0.02
34 35 0.69
35 15 0.29
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (34 bp):
TTTCAAAAATCTTCGTGTTTTCAAAATTCTCATG
Found at i:90747099 original size:16 final size:16
Alignment explanation
Indices: 90747048--90747101 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
90747038 CGTGCTTTTA
90747048 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
90747064 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
90747082 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
90747098 AAAA
1 AAAA
90747102 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:90747113 original size:17 final size:17
Alignment explanation
Indices: 90747025--90747104 Score: 74
Period size: 17 Copynumber: 4.6 Consensus size: 17
90747015 AAAATTGTAA
* *
90747025 TTTCAATAATCCTCGTG
1 TTTCAAAAATTCTCGTG
* *
90747042 CTTTTAAAAATTCTCATG
1 -TTTCAAAAATTCTCGTG
90747060 TTTCAAAAA-TCTTCGTG
1 TTTCAAAAATTC-TCGTG
*
90747077 TTTTC-AAAATTCTAGTG
1 -TTTCAAAAATTCTCGTG
90747094 TTTCAAAAATT
1 TTTCAAAAATT
90747105 TTCTTGTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
16 6 0.12
17 26 0.51
18 19 0.37
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTG
Found at i:90747133 original size:38 final size:38
Alignment explanation
Indices: 90747047--90747227 Score: 158
Period size: 38 Copynumber: 4.8 Consensus size: 38
90747037 TCGTGCTTTT
* *
90747047 AAAAATTCTCATGTTTCAAAAATCTTCGTGTTTTC---
1 AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* * *
90747082 -AAAATTCTAGTGTTTCAAAAATTTTCTTGTTTTCAGA
1 AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* * * * *
90747119 AAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAA
1 AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
* *
90747157 AAAAAATCAT-GTCTTTCAAAAATTTTCGTGTTTTCAAAAA
1 AAAAATTC-TCGTGTTTCAAAAATTTTCGTGTTTTC--AAA
** *
90747197 AAAAAGAC-CGTGTTTCAAAAATTTCCGTGTT
1 AAAAATTCTCGTGTTTCAAAAATTTTCGTGTT
90747228 AAAAAAAATA
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
34 30 0.26
38 55 0.48
39 21 0.18
40 9 0.08
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41
Consensus pattern (38 bp):
AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAA
Found at i:90747195 original size:17 final size:18
Alignment explanation
Indices: 90747037--90747545 Score: 165
Period size: 17 Copynumber: 28.8 Consensus size: 18
90747027 TCAATAATCC
*
90747037 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
90747055 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
90747072 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
90747089 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
90747106 TCTTGTTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
90747127 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * ***
90747144 CCGTATTTTCAAAAAAAAA
1 TCGTGTTTTC-AAAAATTT
*
90747163 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
***
90747182 TCGTGTTTTCAAAAAAAAAAGA
1 TCGTGTTTTC----AAAAATTT
*
90747204 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *** *
90747221 CCGTGTTAAAAAAAATAT
1 TCGTGTTTTCAAAAATTT
* **
90747239 TCGTATTTTCAAAAAAAAT
1 TCGTGTTTTC-AAAAATTT
*
90747258 TCG-GTGTTTCAAAAATCT
1 TCGTGT-TTTCAAAAATTT
90747276 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
90747293 TCG-GTGTTTCAAAGATTT
1 TCGTGT-TTTCAAAAATTT
* *
90747311 TCATGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* * ***
90747328 CCGGTGATTTTTAAAACAAAA
1 TC-GTG-TTTTCAAAA-ATTT
* *
90747349 TCAT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
*
90747367 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
90747384 TCGTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
*
90747401 TCGTATTTT----AATTT
1 TCGTGTTTTCAAAAATTT
** **
90747415 T--T-TTTAAGAAAAAAAT
1 TCGTGTTT-TCAAAAATTT
* *
90747431 T-GTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
* *
90747447 TCTTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
***
90747464 TCGTG-TTTCAAAAAAGG
1 TCGTGTTTTCAAAAATTT
90747481 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
**
90747498 TCGTG-TTTCTGAAATTT
1 TCGTGTTTTCAAAAATTT
* *
90747515 CCGTG-TTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
*
90747531 TCGTGTTTTTAAAAA
1 TCGTGTTTTCAAAAA
90747546 AAATTTCATT
Statistics
Matches: 357, Mismatches: 92, Indels: 84
0.67 0.17 0.16
Matches are distributed among these distances:
11 3 0.01
12 1 0.00
14 5 0.01
16 35 0.10
17 145 0.41
18 84 0.24
19 48 0.13
20 6 0.02
21 21 0.06
22 9 0.03
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:90747197 original size:39 final size:38
Alignment explanation
Indices: 90747094--90747227 Score: 112
Period size: 39 Copynumber: 3.5 Consensus size: 38
90747084 AATTCTAGTG
* * *** *
90747094 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGT
1 TTTCAAAAATTTCCGTGTTTTCA-AAAAAAAAATCATGT
* *
90747133 TTT-ATAAATTTCCGTATTTTC-AAAAAAAAATCATGT
1 TTTCAAAAATTTCCGTGTTTTCAAAAAAAAAATCATGT
* * *
90747169 CTTTCAAAAATTTTCGTGTTTTCAAAAAAAAAA-GACCGT
1 -TTTCAAAAATTTCCGTGTTTTCAAAAAAAAAATCA-TGT
90747208 GTTTCAAAAATTTCCGTGTT
1 -TTTCAAAAATTTCCGTGTT
90747228 AAAAAAAATA
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
36 11 0.14
37 3 0.04
38 30 0.39
39 32 0.42
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.42
Consensus pattern (38 bp):
TTTCAAAAATTTCCGTGTTTTCAAAAAAAAAATCATGT
Found at i:90747254 original size:37 final size:35
Alignment explanation
Indices: 90747209--90747300 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 35
90747199 AAAGACCGTG
*
90747209 TTTCAAAAATTTCCGTGTTAAAAAAAATATTCGTAT
1 TTTCAAAAATTTCGGTGTT-AAAAAAATATTCGTAT
* ** * *
90747245 TTTCAAAAAAAATTCGGTGTTTCAAAAATCTTCGTGT
1 TTTC--AAAAATTTCGGTGTTAAAAAAATATTCGTAT
90747282 TTTCAAAAATTTCGGTGTT
1 TTTCAAAAATTTCGGTGTT
90747301 TCAAAGATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 14 0.30
36 4 0.09
37 16 0.34
38 13 0.28
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (35 bp):
TTTCAAAAATTTCGGTGTTAAAAAAATATTCGTAT
Found at i:90747265 original size:55 final size:56
Alignment explanation
Indices: 90747174--90747282 Score: 141
Period size: 55 Copynumber: 1.9 Consensus size: 56
90747164 CATGTCTTTC
* *
90747174 AAAAATTTTCGTGTTTTCAAAAAAAAAAGACCGTGTTTCAAAAAT-TTCCGTGTTAAA
1 AAAAATATTCGTATTTTC-AAAAAAAAAGACCGTGTTTCAAAAATCTT-CGTGTTAAA
** *
90747231 AAAAATATTCGTATTTTC-AAAAAAAATTCGGTGTTTCAAAAATCTTCGTGTT
1 AAAAATATTCGTATTTTCAAAAAAAAAGACCGTGTTTCAAAAATCTTCGTGTT
90747283 TTCAAAAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 28 0.61
56 2 0.04
57 16 0.35
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (56 bp):
AAAAATATTCGTATTTTCAAAAAAAAAGACCGTGTTTCAAAAATCTTCGTGTTAAA
Found at i:90747573 original size:56 final size:56
Alignment explanation
Indices: 90747509--90747615 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
90747499 CGTGTTTCTG
* *
90747509 AAATTTCCGTGTTTAAAAATTCTCGTGTTTTTAAAAAAAA-TTTCATTTTTTAAAAA
1 AAATTTCCGTGCTTAAAAATTCTCGTG-TCTTAAAAAAAAGTTTCATTTTTTAAAAA
*
90747565 AAATTTCCGTGCTTCAAAATTCTCGTGTCTTAAAAAAAAGTTTTCATTTTT
1 AAATTTCCGTGCTTAAAAATTCTCGTGTCTTAAAAAAAAG-TTTCATTTTT
90747616 CAATCGGATC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
55 11 0.24
56 25 0.54
57 10 0.22
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (56 bp):
AAATTTCCGTGCTTAAAAATTCTCGTGTCTTAAAAAAAAGTTTCATTTTTTAAAAA
Found at i:90749275 original size:22 final size:22
Alignment explanation
Indices: 90749250--90749291 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
90749240 CATAAAATTA
90749250 AAAAAGAAAAAAGAATCAATCC
1 AAAAAGAAAAAAGAATCAATCC
** *
90749272 AAAATTAATAAAGAATCAAT
1 AAAAAGAAAAAAGAATCAAT
90749292 TCATTCTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAAGAAAAAAGAATCAATCC
Found at i:90751347 original size:59 final size:59
Alignment explanation
Indices: 90751267--90751385 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
90751257 GGTGAGGATC
*
90751267 GAGGGATCTGCTGGTTCAGGTACCCTAGTTTAGAACCAAACCACATGTAATGAGCCATA
1 GAGGAATCTGCTGGTTCAGGTACCCTAGTTTAGAACCAAACCACATGTAATGAGCCATA
90751326 GAGGAATCTGCTGGTTCAGGTACCCTAGTTTAGAACCAAACCACATGTAATGAGCCATA
1 GAGGAATCTGCTGGTTCAGGTACCCTAGTTTAGAACCAAACCACATGTAATGAGCCATA
90751385 G
1 G
90751386 GAACTGACCT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (59 bp):
GAGGAATCTGCTGGTTCAGGTACCCTAGTTTAGAACCAAACCACATGTAATGAGCCATA
Found at i:90754757 original size:10 final size:10
Alignment explanation
Indices: 90754742--90754771 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
90754732 CAATATGCGC
90754742 AGAGGTGGCG
1 AGAGGTGGCG
90754752 AGAGGTGGCG
1 AGAGGTGGCG
90754762 AGAGGTGGCG
1 AGAGGTGGCG
90754772 GTTCAGGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.60, T:0.10
Consensus pattern (10 bp):
AGAGGTGGCG
Found at i:90756982 original size:13 final size:13
Alignment explanation
Indices: 90756960--90756992 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
90756950 AAGGGTTTGT
90756960 TTAT-TAAACTAA
1 TTATCTAAACTAA
90756972 TTATCTAAACTAA
1 TTATCTAAACTAA
*
90756985 TTAACTAA
1 TTATCTAA
90756993 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:90759516 original size:24 final size:25
Alignment explanation
Indices: 90759477--90759523 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
90759467 CTGTATAACG
90759477 GGAAGCTCATAAGAGCC-ATAATTA
1 GGAAGCTCATAAGAGCCAATAATTA
**
90759501 GGAAGCTCATGCGAGCCAATAAT
1 GGAAGCTCATAAGAGCCAATAAT
90759524 GGGTAGCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATAAGAGCCAATAATTA
Found at i:90759602 original size:25 final size:24
Alignment explanation
Indices: 90759488--90759605 Score: 62
Period size: 24 Copynumber: 4.8 Consensus size: 24
90759478 GAAGCTCATA
* **
90759488 AGAGCCATAATTAGGAAGCTCATG
1 AGAGCCATAATCAGGAAGCTCCGG
* * * *
90759512 CGAGCCAATAAT-GGGTAGCTCCGA
1 AGAGCC-ATAATCAGGAAGCTCCGG
* *
90759536 AGAGTCATTAA-CTA-GAACCTCCGG
1 AGAGCCA-TAATC-AGGAAGCTCCGG
* **
90759560 ATAGCCATATATTGGGAAGCTCCGG
1 AGAGCCATA-ATCAGGAAGCTCCGG
90759585 AGAGCCATTAATCAGGAAGCT
1 AGAGCCA-TAATCAGGAAGCT
90759606 TACAAAGAGC
Statistics
Matches: 66, Mismatches: 20, Indels: 15
0.65 0.20 0.15
Matches are distributed among these distances:
23 3 0.05
24 32 0.48
25 29 0.44
26 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.20
Consensus pattern (24 bp):
AGAGCCATAATCAGGAAGCTCCGG
Found at i:90760271 original size:19 final size:19
Alignment explanation
Indices: 90760232--90760271 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
90760222 GGTTAATTAG
*
90760232 AGTTTAATTAAGTGAATTT
1 AGTTTAATTAAGTGAAATT
90760251 AGTTTAATTAAG-GATAATT
1 AGTTTAATTAAGTGA-AATT
90760270 AG
1 AG
90760272 ATAAAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
AGTTTAATTAAGTGAAATT
Found at i:90760639 original size:20 final size:20
Alignment explanation
Indices: 90760578--90760625 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
90760568 ATATAAGTAT
90760578 TTAATTAT-AAATGGATATTTA
1 TTAATTATAAAAT--ATATTTA
90760599 TTAATTATAAAATATATTTA
1 TTAATTATAAAATATATTTA
90760619 TTAATTA
1 TTAATTA
90760626 AATAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.54
21 8 0.31
22 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
TTAATTATAAAATATATTTA
Found at i:90762023 original size:46 final size:46
Alignment explanation
Indices: 90761971--90762382 Score: 488
Period size: 46 Copynumber: 9.0 Consensus size: 46
90761961 GCTCTCTGAA
** * *
90761971 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
90762017 ATGAAATGTGTAAGACCATGATTGAAAGATACCATGACAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
90762063 ATGAAATGTGTAACACCATGGTTGAAAAATACCATGGCAACATGATG
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-C
90762110 A-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
90762155 CGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCGGA-GTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC-AACATGAC
* *
90762201 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAACATGGC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
90762247 CGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
90762293 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
90762339 A-GAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
90762383 TCAAAGATAA
Statistics
Matches: 319, Mismatches: 42, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
45 2 0.01
46 315 0.99
47 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:90762683 original size:16 final size:17
Alignment explanation
Indices: 90762662--90762694 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90762652 ATGATGGAGC
90762662 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
90762678 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
90762695 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:90763995 original size:5 final size:5
Alignment explanation
Indices: 90763976--90764020 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
90763966 ATAAATAAGA
*
90763976 ATATT AT-TAT ATATT ATATT ATATT AAATT ATATAT ATATT ATAT
1 ATATT ATAT-T ATATT ATATT ATATT ATATT ATAT-T ATATT ATAT
90764021 AAATAGGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 1 0.03
5 28 0.80
6 6 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:90765004 original size:22 final size:22
Alignment explanation
Indices: 90764944--90765036 Score: 105
Period size: 22 Copynumber: 4.1 Consensus size: 22
90764934 CTCTTATAAA
* *
90764944 TAGCACATTAGTGCTCTCCGAT
1 TAGCACATTAGTGCTCTCTGTT
*
90764966 TACTGAAACATTAGTGCTCTCTGTT
1 TA--G-CACATTAGTGCTCTCTGTT
* *
90764991 TAGCACATTCGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTT
*
90765013 TAGCACTTTAGTGCTCTCTGTT
1 TAGCACATTAGTGCTCTCTGTT
90765035 TA
1 TA
90765037 ATAGTTGTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
22 39 0.66
23 1 0.02
24 1 0.02
25 18 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTT
Found at i:90770093 original size:60 final size:60
Alignment explanation
Indices: 90769993--90770112 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
90769983 ATAAAGTTTT
* * *
90769993 ACTTTTATTCAATTTAGTCCCTGAGCCTAAAATATGCAAATTAGCCATGCTAGATGAATA
1 ACTTTTATTCAATTTAGTCCATGAGCCTAAAACATACAAATTAGCCATGCTAGATGAATA
*
90770053 ACTTTTATTCAATTTAGTCCATGAGCCTAAAACATACAAATTAGCCATGCTAGCTGAATA
1 ACTTTTATTCAATTTAGTCCATGAGCCTAAAACATACAAATTAGCCATGCTAGATGAATA
90770113 TTCATACATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (60 bp):
ACTTTTATTCAATTTAGTCCATGAGCCTAAAACATACAAATTAGCCATGCTAGATGAATA
Found at i:90772391 original size:6 final size:6
Alignment explanation
Indices: 90772370--90772402 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
90772360 TTTTTTTTTT
90772370 CATTT- CATTT- CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
90772403 AATTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (6 bp):
CATTTC
Found at i:90772397 original size:12 final size:11
Alignment explanation
Indices: 90772367--90772407 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 11
90772357 AAATTTTTTT
90772367 TTTCATTT-CA
1 TTTCATTTCCA
90772377 TTTCATTTCCA
1 TTTCATTTCCA
90772388 TTTCCATTTCCA
1 TTT-CATTTCCA
*
90772400 TTTAATTT
1 TTTCATTT
90772408 AATTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 8 0.29
11 9 0.32
12 11 0.39
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTCATTTCCA
Found at i:90772419 original size:20 final size:20
Alignment explanation
Indices: 90772393--90772449 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
90772383 TTCCATTTCC
90772393 ATTTCCATTT-AATTTAATTT
1 ATTTCCATTTAAATTT-ATTT
*
90772413 TTTTCCATTTAAATTTATTT
1 ATTTCCATTTAAATTTATTT
*
90772433 ATTTCTCATTTCAATTT
1 ATTTC-CATTTAAATTT
90772450 TTTTTCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTCCATTTAAATTTATTT
Found at i:90772559 original size:28 final size:27
Alignment explanation
Indices: 90772526--90772666 Score: 110
Period size: 28 Copynumber: 5.0 Consensus size: 27
90772516 TTCATAATTA
90772526 TCATTTCATTTCATATTCATTTAAC-ATT
1 TCATTTCATTTCATATTCATTT--CTATT
* * * *
90772554 TCATTTCACTTCTTATTCATTACAAATT
1 TCATTTCATTTCATATTCATTTC-TATT
* * *
90772582 ACATTTTATTTCATAGTCATATTCTATT
1 TCATTTCATTTCATATTCAT-TTCTATT
90772610 TCATTTCATTTC-TATTTCTATTTCTATT
1 TCATTTCATTTCATA-TTC-ATTTCTATT
90772638 TCATTTCCATTTCCAT-TTCCATTTC-ATT
1 TCATTT-CATTT-CATATT-CATTTCTATT
90772666 T
1 T
90772667 AAATTATATT
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
26 1 0.01
27 2 0.02
28 69 0.76
29 16 0.18
30 2 0.02
31 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.01, T:0.55
Consensus pattern (27 bp):
TCATTTCATTTCATATTCATTTCTATT
Found at i:90772628 original size:6 final size:5
Alignment explanation
Indices: 90772505--90772666 Score: 94
Period size: 5 Copynumber: 29.6 Consensus size: 5
90772495 TCATTTAAAC
* *
90772505 TTTCA TTCCA TTTCA --TAA TTATCA TTTCA TTTCA TATTCA TTTAACA
1 TTTCA TTTCA TTTCA TTTCA TT-TCA TTTCA TTTCA T-TTCA TTT--CA
* * * * * *
90772552 TTTCA TTTCA CTTCT TATTCA TTACAAA TTACA TTTTA TTTCA TAGTCA
1 TTTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA TTTCA TTTCA T-TTCA
90772601 TATTCTA TTTCA TTTCA TTTCTA TTTCTA TTTCTA TTTCA TTTCCA TTTCCA
1 T-TTC-A TTTCA TTTCA TTTC-A TTTC-A TTTC-A TTTCA TTT-CA TTT-CA
90772653 TTTCCA TTTCA TTT
1 TTT-CA TTTCA TTT
90772667 AAATTATATT
Statistics
Matches: 130, Mismatches: 14, Indels: 26
0.76 0.08 0.15
Matches are distributed among these distances:
3 2 0.02
5 59 0.45
6 57 0.44
7 12 0.09
ACGTcount: A:0.25, C:0.20, G:0.01, T:0.55
Consensus pattern (5 bp):
TTTCA
Found at i:90772632 original size:12 final size:11
Alignment explanation
Indices: 90772607--90772666 Score: 77
Period size: 12 Copynumber: 5.4 Consensus size: 11
90772597 GTCATATTCT
90772607 ATTT-CATTTC
1 ATTTCCATTTC
*
90772617 ATTTCTATTTC
1 ATTTCCATTTC
*
90772628 TATTTCTATTTC
1 -ATTTCCATTTC
90772640 ATTTCCATTTCC
1 ATTTCCATTT-C
90772652 ATTTCCATTTC
1 ATTTCCATTTC
90772663 ATTT
1 ATTT
90772667 AAATTATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
10 4 0.09
11 19 0.42
12 22 0.49
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTCCATTTC
Found at i:90772642 original size:23 final size:22
Alignment explanation
Indices: 90772505--90772666 Score: 95
Period size: 23 Copynumber: 7.1 Consensus size: 22
90772495 TCATTTAAAC
90772505 TTTCA-TTCCATTTCATAATTATCA
1 TTTCATTTCCATTTC-T-ATT-TCA
90772529 TTTCATTT-CATATTC-ATTTAACA
1 TTTCATTTCCAT-TTCTATTT--CA
*
90772552 TTTCATTT-CACTTCT-TATTCA
1 TTTCATTTCCATTTCTAT-TTCA
* * *
90772573 TTACAAATTACATTT-TATTTCA
1 TTTC-ATTTCCATTTCTATTTCA
* *
90772595 TAGTCATATTCTATTTC-ATTTCA
1 T-TTCAT-TTCCATTTCTATTTCA
*
90772618 TTTCTATTTCTATTTCTATTTCA
1 TTTC-ATTTCCATTTCTATTTCA
*
90772641 TTTCCATTTCCATTTCCATTTCA
1 TTT-CATTTCCATTTCTATTTCA
90772664 TTT
1 TTT
90772667 AAATTATATT
Statistics
Matches: 111, Mismatches: 12, Indels: 31
0.72 0.08 0.20
Matches are distributed among these distances:
21 6 0.05
22 28 0.25
23 63 0.57
24 9 0.08
25 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.01, T:0.55
Consensus pattern (22 bp):
TTTCATTTCCATTTCTATTTCA
Found at i:90772717 original size:48 final size:48
Alignment explanation
Indices: 90772653--90772797 Score: 183
Period size: 45 Copynumber: 3.1 Consensus size: 48
90772643 TCCATTTCCA
*
90772653 TTTC-CATTTCATTTAAATTATATTTTTTCCCTTTTAAATATAATTTT
1 TTTCTCATTTCATTTAAATTATATTTTTTCCCTTTTAAATTTAATTTT
* *
90772700 TTTCTCATTTCATTTAAA-T-TATTTTTT-CCATTTAAATTTAATTGT
1 TTTCTCATTTCATTTAAATTATATTTTTTCCCTTTTAAATTTAATTTT
* * *
90772745 TTTCTCATTTCATTTAGATTATCTTTCTTTCCATTTT-AATTTACATTTT
1 TTTCTCATTTCATTTAAATTATATTT-TTTCCCTTTTAAATTTA-ATTTT
90772794 TTTC
1 TTTC
90772798 ATATTAATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
45 32 0.38
46 9 0.11
47 9 0.11
48 22 0.26
49 12 0.14
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.61
Consensus pattern (48 bp):
TTTCTCATTTCATTTAAATTATATTTTTTCCCTTTTAAATTTAATTTT
Found at i:90772724 original size:23 final size:23
Alignment explanation
Indices: 90772653--90772772 Score: 79
Period size: 23 Copynumber: 5.2 Consensus size: 23
90772643 TCCATTTCCA
90772653 TTTC-CATTTCATTTAAATTATAT
1 TTTCTCATTTCATTTAAATTAT-T
* * * **
90772676 TTTTTCCCTTTTAAATATAATT-TT
1 TTTCT-CATTTCATTTA-AATTATT
90772700 TTTCTCATTTCATTTAAATTATT
1 TTTCTCATTTCATTTAAATTATT
* *
90772723 TTT-TCCATTTAAATTT-AATT-GT
1 TTTCT-CATTT-CATTTAAATTATT
* *
90772745 TTTCTCATTTCATTTAGATTATC
1 TTTCTCATTTCATTTAAATTATT
90772768 TTTCT
1 TTTCT
90772773 TTCCATTTTA
Statistics
Matches: 72, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
21 4 0.06
22 17 0.24
23 30 0.42
24 9 0.12
25 8 0.11
26 4 0.06
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTCTCATTTCATTTAAATTATT
Found at i:90772797 original size:22 final size:21
Alignment explanation
Indices: 90772675--90772807 Score: 65
Period size: 21 Copynumber: 5.9 Consensus size: 21
90772665 TTAAATTATA
* *
90772675 TTTTTTCCCTTTTAAATATAAT
1 TTTTTTCCATTTT-AATTTAAT
*
90772697 TTTTTTCTCA-TTTCATTTAAATT
1 TTTTTTC-CATTTTAATTT-AA-T
*
90772720 ATTTTTTCCATTTAAATTTAAT
1 -TTTTTTCCATTTTAATTTAAT
* *
90772742 TGTTTTCTCA-TTTCATTTAGATTAT
1 TTTTTTC-CATTTTAATTT--A--AT
90772767 CTTTCTTTCCATTTTAATTTACAT
1 -TTT-TTTCCATTTTAATTTA-AT
*
90772791 TTTTTT-CATATTAATTT
1 TTTTTTCCATTTTAATTT
90772808 TTCTCTCATT
Statistics
Matches: 86, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
21 25 0.29
22 18 0.21
23 10 0.12
24 15 0.17
25 3 0.03
26 4 0.05
27 11 0.13
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTTCCATTTTAATTTAAT
Found at i:90776594 original size:24 final size:24
Alignment explanation
Indices: 90776566--90776615 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
90776556 AATCTTATGT
90776566 TAGCAAGAAAGTTTAGTTTAAAAC
1 TAGCAAGAAAGTTTAGTTTAAAAC
90776590 TAGCAAGAAAGTTTAGTTTAAAAC
1 TAGCAAGAAAGTTTAGTTTAAAAC
90776614 TA
1 TA
90776616 CTTCTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (24 bp):
TAGCAAGAAAGTTTAGTTTAAAAC
Found at i:90776808 original size:26 final size:27
Alignment explanation
Indices: 90776758--90776808 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
90776748 AGTTAATAAA
* *
90776758 TTCTCTTTGAGTTTTTTTTTCAAGAAT
1 TTCTCTTTGAGTTTCTTTTACAAGAAT
*
90776785 TTCTC-TTGAGTTTCTTTTAGAAGA
1 TTCTCTTTGAGTTTCTTTTACAAGA
90776809 GTTTTAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.20, C:0.12, G:0.14, T:0.55
Consensus pattern (27 bp):
TTCTCTTTGAGTTTCTTTTACAAGAAT
Found at i:90777734 original size:9 final size:9
Alignment explanation
Indices: 90777698--90777744 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
90777688 AAAAAAAGTG
90777698 ATAAAAAAA
1 ATAAAAAAA
*
90777707 AGTACAAAAA
1 A-TAAAAAAA
90777717 ATACGAAAAAA
1 ATA--AAAAAA
90777728 AT-AAAAAA
1 ATAAAAAAA
90777736 ATAAAAAAA
1 ATAAAAAAA
90777745 TTATGTGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
8 8 0.25
9 9 0.28
10 8 0.25
11 7 0.22
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:90779666 original size:15 final size:15
Alignment explanation
Indices: 90779646--90779691 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
90779636 AAATGAGGAG
*
90779646 TGGTTATGTTTTACC
1 TGGTTATGTTTTAAC
90779661 TGGTTATGTTTTAAC
1 TGGTTATGTTTTAAC
90779676 TGGTTATGTTTTAAC
1 TGGTTATGTTTTAAC
90779691 T
1 T
90779692 AACTCTAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.17, C:0.09, G:0.20, T:0.54
Consensus pattern (15 bp):
TGGTTATGTTTTAAC
Found at i:90780463 original size:24 final size:24
Alignment explanation
Indices: 90780435--90780484 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
90780425 AATCTTATGT
90780435 TAGCAAGAAAGTTTAGTTTAAAAC
1 TAGCAAGAAAGTTTAGTTTAAAAC
90780459 TAGCAAGAAAGTTTAGTTTAAAAC
1 TAGCAAGAAAGTTTAGTTTAAAAC
90780483 TA
1 TA
90780485 CTTCTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (24 bp):
TAGCAAGAAAGTTTAGTTTAAAAC
Found at i:90789578 original size:19 final size:19
Alignment explanation
Indices: 90789554--90789690 Score: 77
Period size: 19 Copynumber: 6.8 Consensus size: 19
90789544 ATACGATAAT
90789554 TTTTATATTTTTTTACGAA
1 TTTTATATTTTTTTACGAA
*
90789573 TTTTATATTTTTTTAC-AT
1 TTTTATATTTTTTTACGAA
90789591 TTTCTATATTTTTCTTACAGCTTTATAAAA
1 TTT-TATATTTTT-TTAC-G--------AA
* *
90789621 TTTTATAATTTTTTACGAT
1 TTTTATATTTTTTTACGAA
**
90789640 TTTTATGA-AATTTTAC-AA
1 TTTTAT-ATTTTTTTACGAA
90789658 TTTTTATATTTTTTTACG-A
1 -TTTTATATTTTTTTACGAA
90789677 TTTT-TATTTTTTTA
1 TTTTATATTTTTTTA
90789691 ATTTTAATAA
Statistics
Matches: 93, Mismatches: 9, Indels: 34
0.68 0.07 0.25
Matches are distributed among these distances:
17 10 0.11
18 10 0.11
19 51 0.55
20 5 0.05
27 1 0.01
28 4 0.04
29 8 0.09
30 4 0.04
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTATATTTTTTTACGAA
Found at i:90789632 original size:29 final size:29
Alignment explanation
Indices: 90789595--90789662 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
90789585 TTACATTTTC
*
90789595 TATATTTTTCTTAC-AGCTTTATAAAATTT
1 TATAATTTT-TTACGAGCTTTATAAAATTT
** *
90789624 TATAATTTTTTACGATTTTTATGAAATTT
1 TATAATTTTTTACGAGCTTTATAAAATTT
*
90789653 TACAATTTTT
1 TATAATTTTT
90789663 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (29 bp):
TATAATTTTTTACGAGCTTTATAAAATTT
Found at i:90789634 original size:10 final size:9
Alignment explanation
Indices: 90789621--90789705 Score: 54
Period size: 9 Copynumber: 9.4 Consensus size: 9
90789611 CTTTATAAAA
90789621 TTTTATAAT
1 TTTTATAAT
90789630 TTTT-TACGAT
1 TTTTATA--AT
*
90789640 TTTTATGAAA
1 TTTTAT-AAT
*
90789650 TTTTACAAT
1 TTTTATAAT
90789659 TTTTAT-AT
1 TTTTATAAT
*
90789667 TTTTTTACGAT
1 TTTTATA--AT
90789678 TTTTAT--T
1 TTTTATAAT
90789685 TTTT-TAAT
1 TTTTATAAT
*
90789693 TTTAATAAT
1 TTTTATAAT
90789702 TTTT
1 TTTT
90789706 TTTCTAGTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
6 1 0.02
7 5 0.09
8 13 0.22
9 18 0.31
10 12 0.21
11 8 0.14
12 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:90789706 original size:20 final size:20
Alignment explanation
Indices: 90789683--90789745 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
90789673 ACGATTTTTA
90789683 TTTTTTTAATTTTAATAATT
1 TTTTTTTAATTTTAATAATT
*
90789703 TTTTTTCTAGTTTTAAT-ATT
1 TTTTTT-TAATTTTAATAATT
* * *
90789723 TTTATTAAAATTTAATAATT
1 TTTTTTTAATTTTAATAATT
90789743 TTT
1 TTT
90789746 ATACATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.19
20 20 0.56
21 9 0.25
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTTTAATTTTAATAATT
Found at i:90789755 original size:19 final size:19
Alignment explanation
Indices: 90789620--90789766 Score: 69
Period size: 19 Copynumber: 7.9 Consensus size: 19
90789610 GCTTTATAAA
90789620 ATTTT-ATAATTTTT-TAC
1 ATTTTAATAATTTTTATAC
* * *
90789637 GATTTTTATGAAATTTTACA-
1 -ATTTTAAT-AATTTTTATAC
* *
90789657 ATTTTTAT-ATTTTTTTAC
1 ATTTTAATAATTTTTATAC
*
90789675 GATTTT--T-ATTTTTTTA-
1 -ATTTTAATAATTTTTATAC
* *
90789691 ATTTTAATAATTTTTTTTC
1 ATTTTAATAATTTTTATAC
*
90789710 TAGTTTTAAT-ATTTTTATTAA
1 -A-TTTTAATAATTTTTA-TAC
*
90789731 AATTTAATAATTTTTATAC
1 ATTTTAATAATTTTTATAC
* *
90789750 ATTTTATTGATTTTTAT
1 ATTTTAATAATTTTTAT
90789767 CTTCTATTAT
Statistics
Matches: 102, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
15 5 0.05
17 17 0.17
18 13 0.13
19 37 0.36
20 21 0.21
21 9 0.09
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
ATTTTAATAATTTTTATAC
Found at i:90796571 original size:23 final size:25
Alignment explanation
Indices: 90796526--90796572 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
90796516 AATAAATATA
*
90796526 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
90796551 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
90796573 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:90797760 original size:70 final size:76
Alignment explanation
Indices: 90797601--90797776 Score: 186
Period size: 70 Copynumber: 2.3 Consensus size: 76
90797591 TTTCCAATCA
* * * **
90797601 AATTCAAATCACTAATTACTTTTCAATCAATATACATTTCAAATACTCACATCTTTTCTTCATTC
1 AATTCAAATCACT-TTTAATTTCCAATCAATATACATTTCAAATACTCACA---TTAATTCATTC
90797666 AATTCAATTTGATTC
62 AATTCAATTTGATTC
* * *
90797681 AATTAAAATCACTTTTAGTTTCCAATCAATATAC-TTTCAAATATTCACA-TAATTCA-T-AATT
1 AATTCAAATCACTTTTAATTTCCAATCAATATACATTTCAAATACTCACATTAATTCATTCAATT
90797742 CAA-TT-ACTT-
66 CAATTTGA-TTC
90797751 AATTCAAATCACTTTTAATTTCCAAT
1 AATTCAAATCACTTTTAATTTCCAAT
90797777 TTGTTCACAT
Statistics
Matches: 86, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
70 25 0.29
71 4 0.05
72 7 0.08
73 1 0.01
74 5 0.06
78 14 0.16
79 18 0.21
80 12 0.14
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.42
Consensus pattern (76 bp):
AATTCAAATCACTTTTAATTTCCAATCAATATACATTTCAAATACTCACATTAATTCATTCAATT
CAATTTGATTC
Found at i:90799856 original size:3 final size:3
Alignment explanation
Indices: 90799841--90799889 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
90799831 ATATATTAGT
* *
90799841 TAA TAA TAT TAA TAA TAA TACA TTA TAA TAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
90799885 TAA TA
1 TAA TA
90799890 TTTAATTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:90799871 original size:16 final size:16
Alignment explanation
Indices: 90799845--90799889 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
90799835 ATTAGTTAAT
90799845 AATATTAATAATAATAC
1 AATA-TAATAATAATAC
* *
90799862 ATTATAATAATAATAT
1 AATATAATAATAATAC
90799878 AATATAATAATA
1 AATATAATAATA
90799890 TTTAATTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAATAATAATAC
Found at i:90799887 original size:13 final size:14
Alignment explanation
Indices: 90799841--90799890 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
90799831 ATATATTAGT
90799841 TAATAATATTAATAA
1 TAATAATA-TAATAA
90799856 TAATACAT-T-ATAA
1 TAATA-ATATAATAA
90799869 TAATAATATAAT-A
1 TAATAATATAATAA
90799882 TAATAATAT
1 TAATAATAT
90799891 TTAATTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.06
13 20 0.62
14 3 0.09
15 5 0.16
16 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:90800082 original size:24 final size:23
Alignment explanation
Indices: 90800028--90800084 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
90800018 AATAATAATA
90800028 ATTTAATAATTTAATATAAAACT
1 ATTTAATAATTTAATATAAAACT
* *
90800051 ATAATAATAATTATAATA-AATATCT
1 AT-TTAATAATT-TAATATAA-AACT
90800076 ATTTAATAA
1 ATTTAATAA
90800085 CAAAAACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.07
24 16 0.57
25 10 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTAATAATTTAATATAAAACT
Found at i:90800386 original size:12 final size:12
Alignment explanation
Indices: 90800328--90800390 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
90800318 ATTTTATTTC
90800328 ATAA-TATAATA
1 ATAATTATAATA
90800339 AT-ATTAATAATA
1 ATAATT-ATAATA
*
90800351 ATATTTA-AATAA
1 ATAATTATAAT-A
* **
90800363 AAAACCATAATA
1 ATAATTATAATA
90800375 ATAATTATAATA
1 ATAATTATAATA
90800387 ATAA
1 ATAA
90800391 ATTGATAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 27 0.69
13 5 0.13
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATTATAATA
Found at i:90802573 original size:3 final size:3
Alignment explanation
Indices: 90802565--90802591 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
90802555 TTTTTCTGTC
90802565 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
90802592 TTTCCATCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:90802815 original size:89 final size:89
Alignment explanation
Indices: 90802661--90802838 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
90802651 TTACCTTGCG
90802661 AAACGGCCATGGATCTGTTCACTTCGTTGAGATCGAGGTTGGAAAGGTCCTAAGGCGCCGATGAT
1 AAACGGCCATGGATCTGTTCACTTCGTTGAGATCGAGGTTGGAAAGGTCCTAAGGCGCCGATGAT
90802726 TGTTTTTGATATGCTATCGACCAC
66 TGTTTTTGATATGCTATCGACCAC
*
90802750 AAACGGCCATGGATCTGTTCACTTCGTTGAGATCGAGGTTGGAAAGGTCCTAAGGCGCCGTTGAT
1 AAACGGCCATGGATCTGTTCACTTCGTTGAGATCGAGGTTGGAAAGGTCCTAAGGCGCCGATGAT
90802815 TGTTTTTGATATGCTATCGACCAC
66 TGTTTTTGATATGCTATCGACCAC
90802839 CTGATTAAGT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (89 bp):
AAACGGCCATGGATCTGTTCACTTCGTTGAGATCGAGGTTGGAAAGGTCCTAAGGCGCCGATGAT
TGTTTTTGATATGCTATCGACCAC
Found at i:90808064 original size:21 final size:20
Alignment explanation
Indices: 90808032--90808087 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
90808022 ATCTCAGAAG
90808032 TAAAAAAGAAAAATTAAATTT
1 TAAAAAA-AAAAATTAAATTT
*
90808053 CTAAAAAAAAAAAGTAAATTT
1 -TAAAAAAAAAAATTAAATTT
*
90808074 TAAATATAAAAAAT
1 TAAA-AAAAAAAAT
90808088 ATATAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 19 0.63
22 7 0.23
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAAAAAAAAAATTAAATTT
Found at i:90811867 original size:103 final size:105
Alignment explanation
Indices: 90811664--90811868 Score: 263
Period size: 103 Copynumber: 2.0 Consensus size: 105
90811654 AAATTAGAGG
* * * * *
90811664 AGATGGAGTAGTAAAAATAAGTTGTTCTCGTGATTCCAACCTTTGATAGGTTTTTTTTTTATGGG
1 AGATGGAGTAGTAAAAATAAGTTGTTCTCATAATTCCAACCTTTAATAGGTATTTTTTTTATGGA
*** *
90811729 TTGATATTGTTTGTAAACGAAGTATTACTACTTCGTTAGA
66 CCAATATTATTTGTAAACGAAGTATTACTACTTCGTTAGA
* *
90811769 AGATGGAGTAGTAGAAATAAGTTGTT-TCCATAATTCCAATCTTTAATA-G-ATTTTTTTTATGG
1 AGATGGAGTAGTAAAAATAAGTTGTTCT-CATAATTCCAACCTTTAATAGGTATTTTTTTTATGG
* *
90811831 ACCAATATTATTTGTCAACGAAGTATTACTATTTCGTT
65 ACCAATATTATTTGTAAACGAAGTATTACTACTTCGTT
90811869 TTTTATGATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
103 43 0.50
104 2 0.02
105 41 0.48
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (105 bp):
AGATGGAGTAGTAAAAATAAGTTGTTCTCATAATTCCAACCTTTAATAGGTATTTTTTTTATGGA
CCAATATTATTTGTAAACGAAGTATTACTACTTCGTTAGA
Found at i:90812721 original size:29 final size:25
Alignment explanation
Indices: 90812657--90812718 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
90812647 TCATTTTAAG
*
90812657 TTTATATATTTAATATAAAAATAAT
1 TTTATTTATTTAATATAAAAATAAT
90812682 TTTATTTATTTAATATAAAAATAAT
1 TTTATTTATTTAATATAAAAATAAT
* *
90812707 TTGATGTATTTA
1 TTTATTTATTTA
90812719 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTATTTATTTAATATAAAAATAAT
Found at i:90813447 original size:61 final size:60
Alignment explanation
Indices: 90813368--90813484 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
90813358 TTTAGTTTTC
***
90813368 TAATGTTTACATGTTTTATAAATTTAATTTTAAATAT-AAAAAATTTAACAAATTTAACTAT
1 TAATGTTTACAAAATTTATAAATTTAA-TTTAAAT-TCAAAAAATTTAACAAATTTAACTAT
* * * *
90813429 TAATGTTTACAAAATTTATCATTTTAATTTAAATTCTAAAAATTTAATAAATTTAA
1 TAATGTTTACAAAATTTATAAATTTAATTTAAATTCAAAAAATTTAACAAATTTAA
90813485 TTTTTAAGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.02
60 25 0.52
61 22 0.46
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (60 bp):
TAATGTTTACAAAATTTATAAATTTAATTTAAATTCAAAAAATTTAACAAATTTAACTAT
Found at i:90818388 original size:10 final size:10
Alignment explanation
Indices: 90818359--90818392 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
90818349 TTTCAACAAA
*
90818359 TTTAAAAAAG
1 TTTAAAAAAT
*
90818369 TTGAAAAAAT
1 TTTAAAAAAT
90818379 TTTAAAAAAT
1 TTTAAAAAAT
90818389 TTTA
1 TTTA
90818393 TCTCATACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (10 bp):
TTTAAAAAAT
Found at i:90828825 original size:3 final size:3
Alignment explanation
Indices: 90828811--90828847 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
90828801 AGGCGGCAAG
*
90828811 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
90828848 TTAAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:90829007 original size:75 final size:76
Alignment explanation
Indices: 90828914--90829060 Score: 260
Period size: 75 Copynumber: 1.9 Consensus size: 76
90828904 AATTAAGCAT
*
90828914 AAGATATTTATTAAATAAATAATTAAATTATGAGA-TTTTGTATAATAAATAAACTGAATAATGA
1 AAGATATTTATTAAATAAATAATTAAATTATGAGATTTTTGTATAATAAACAAACTGAATAATGA
90828978 CAATTGTTTAA
66 CAATTGTTTAA
* *
90828989 AAGATATTTATTAGATAAATAATTAAATTATGAGATTTTTGTATAATAAACAAATTGAATAATGA
1 AAGATATTTATTAAATAAATAATTAAATTATGAGATTTTTGTATAATAAACAAACTGAATAATGA
90829054 CAATTGT
66 CAATTGT
90829061 AATAAAAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
75 34 0.50
76 34 0.50
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (76 bp):
AAGATATTTATTAAATAAATAATTAAATTATGAGATTTTTGTATAATAAACAAACTGAATAATGA
CAATTGTTTAA
Found at i:90829083 original size:23 final size:24
Alignment explanation
Indices: 90829057--90829115 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
90829047 ATAATGACAA
*
90829057 TTGTAATAAAA-ATAT-TGGTACAT
1 TTGTAATAAAAGATATAT-GTACAC
90829080 TTGTAATAAATAGATATATGTACAC
1 TTGTAATAAA-AGATATATGTACAC
*
90829105 TTGTTATAAAA
1 TTGTAATAAAA
90829116 TAATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 18 0.58
26 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (24 bp):
TTGTAATAAAAGATATATGTACAC
Found at i:90832423 original size:26 final size:26
Alignment explanation
Indices: 90832394--90832446 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
90832384 TATCAAATAT
90832394 AATTTAATATTTTTATTATATAAGAC
1 AATTTAATATTTTTATTATATAAGAC
90832420 AATTTAATATTTTTATTATATAAGAC
1 AATTTAATATTTTTATTATATAAGAC
90832446 A
1 A
90832447 GTACAGTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (26 bp):
AATTTAATATTTTTATTATATAAGAC
Found at i:90832561 original size:16 final size:17
Alignment explanation
Indices: 90832540--90832572 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90832530 AACTTTGAAG
*
90832540 CAAAAAT-TATTTTATT
1 CAAAAATATAATTTATT
90832556 CAAAAATATAATTTATT
1 CAAAAATATAATTTATT
90832573 ATTTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
CAAAAATATAATTTATT
Found at i:90837377 original size:23 final size:25
Alignment explanation
Indices: 90837332--90837378 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
90837322 AATAAATATA
*
90837332 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
90837357 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
90837379 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:90837904 original size:5 final size:5
Alignment explanation
Indices: 90837894--90837920 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
90837884 AAGATATTAT
90837894 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
90837921 ATTAAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:90846296 original size:41 final size:40
Alignment explanation
Indices: 90846217--90846300 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
90846207 TAATATACAT
* *
90846217 ATATTAGTAATTATTATATATTTACTTATAATTTAAGTAA
1 ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
*
90846257 ATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAA
1 ATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAA
90846298 ATA
1 ATA
90846301 AAATAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
40 8 0.21
41 19 0.50
42 5 0.13
43 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
Found at i:90846507 original size:27 final size:25
Alignment explanation
Indices: 90846445--90846519 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 25
90846435 AAACAAAAGA
90846445 AACA-AAAGAAAGAAAAAAAGGAAG
1 AACAGAAAGAAAGAAAAAAAGGAAG
*
90846469 AACAGAATAGAAACGAAAAAACAGGGGAG
1 AACAGAA-AGAAA-GAAAAAA-A-GGAAG
*
90846498 AA-AGAAAGAAAG-GAAAAAGGAA
1 AACAGAAAGAAAGAAAAAAAGGAA
90846520 AAGAAAGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
23 3 0.07
24 5 0.12
25 6 0.14
26 6 0.14
27 12 0.28
28 5 0.12
29 6 0.14
ACGTcount: A:0.68, C:0.05, G:0.25, T:0.01
Consensus pattern (25 bp):
AACAGAAAGAAAGAAAAAAAGGAAG
Found at i:90847469 original size:40 final size:39
Alignment explanation
Indices: 90847409--90847516 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 39
90847399 CCTTCTCGAG
90847409 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTAAAA-A
* *
90847450 AATTAAAGTGAATATGATTTATTCCTGATTCACTAGAAA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
* * *
90847489 TATATAAAGTGGATAGGATTTGTTCCTG
1 AAT-TAAAGTGAATAGGATTTATTCCTG
90847517 TTTACTATGG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.05
40 53 0.88
41 4 0.07
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
Found at i:90850666 original size:25 final size:25
Alignment explanation
Indices: 90850629--90850680 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
90850619 AAGAATAATT
**
90850629 TGAATATTTGATATTGCCTAGTAAA
1 TGAATATCCGATATTGCCTAGTAAA
*
90850654 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAGTAAA
90850679 TG
1 TG
90850681 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAGTAAA
Found at i:90857995 original size:18 final size:18
Alignment explanation
Indices: 90857972--90858025 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
90857962 ACAAGTGGTG
90857972 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
90857990 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
90858002 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
90858020 GTGGAG
1 GTGGAG
90858026 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:90858008 original size:30 final size:30
Alignment explanation
Indices: 90857967--90858065 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
90857957 TAGGTACAAG
90857967 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
90857997 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
90858027 TGGTGGTGGAGCAAGTGTGACTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
90858057 TGGTGGTGG
1 TGGTGGTGG
90858066 CAAAGGCTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:90858998 original size:99 final size:99
Alignment explanation
Indices: 90858870--90860083 Score: 2238
Period size: 99 Copynumber: 12.4 Consensus size: 99
90858860 TATGTGACCC
90858870 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90858935 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90858969 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859034 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90859068 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859133 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90859167 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859232 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90859266 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859331 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90859365 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859430 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90859464 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859529 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90859563 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859628 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90859662 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859727 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
90859761 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90859826 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
** *
90859860 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-----------TTT-TAGAAACATAAATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTA-AGGCAAAAATT
*
90859913 -AAAAAAACGAAAATTGAAAATACCTCAACGTGTCTT
65 GAAAAACA-G-AAATTGAAAATACCTCAACGTGTCTT
* *
90859949 GAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
90860014 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
66 AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
* *
90860048 GAGGCTTAACTCACTTCTCGCAATATGAGTTGATTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
90860084 TTGAAAAACA
Statistics
Matches: 1089, Mismatches: 10, Indels: 32
0.96 0.01 0.03
Matches are distributed among these distances:
87 8 0.01
88 12 0.01
89 60 0.06
99 989 0.91
100 12 0.01
101 8 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (99 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTG
AAAAACAGAAATTGAAAATACCTCAACGTGTCTT
Found at i:90860052 original size:188 final size:187
Alignment explanation
Indices: 90859727--90860104 Score: 668
Period size: 188 Copynumber: 2.0 Consensus size: 187
90859717 GCAAAAATTG
90859727 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
90859792 GATTTGAAAAGAAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAACGTGT
66 GATTTGAAAAGAAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAACGTGT
* * *
90859857 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAGAAACATAAATTAA
131 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAA
* *
90859915 AAAAAC-GAAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACTTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
90859979 TGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAACGTG
65 TGATTTGAAAAGAAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAACGTG
* *
90860044 TCTTGAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
130 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
90860102 AAA
1 AAA
90860105 TACCTCGGCG
Statistics
Matches: 182, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
187 22 0.12
188 160 0.88
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (187 bp):
AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTGAAAAGAAGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTGAAAATACCTCAACGTGT
CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:90860134 original size:73 final size:73
Alignment explanation
Indices: 90860011--90860178 Score: 219
Period size: 73 Copynumber: 2.3 Consensus size: 73
90860001 AAGGCAAAAA
* * ** * * *
90860011 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGA
90860076 GTTGATTT
66 GTTGATTT
** *
90860084 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCCCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGA
90860149 GTTGATTT
66 GTTGATTT
* *
90860157 TTGAAAAGCATAAATTTAAAAA
1 TTGAAAAACAGAAA-TTAAAAA
90860179 ACGGAAATTG
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 75 0.91
74 7 0.09
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGA
GTTGATTT
Found at i:90862505 original size:50 final size:50
Alignment explanation
Indices: 90862434--90862618 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
90862424 ACATGCCAAA
90862434 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
90862484 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
90862534 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
90862584 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
90862619 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:90862734 original size:13 final size:13
Alignment explanation
Indices: 90862713--90862744 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90862703 GCTTGGATCA
*
90862713 TCATCAAATAAAT
1 TCATAAAATAAAT
90862726 TCATAAAATAAAT
1 TCATAAAATAAAT
90862739 TCATAA
1 TCATAA
90862745 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:90862992 original size:30 final size:30
Alignment explanation
Indices: 90862956--90863013 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90862946 CCTCGACTCT
*
90862956 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
90862986 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
90863014 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:90870088 original size:50 final size:50
Alignment explanation
Indices: 90869964--90870212 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
90869954 GATAATAACA
* * ** * *
90869964 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
90870015 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
90870065 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
90870115 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
90870170 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
90870213 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:90870142 original size:100 final size:104
Alignment explanation
Indices: 90869963--90870212 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
90869953 TGATAATAAC
**
90869963 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
90870028 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
90870065 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
90870128 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
90870170 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
90870213 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:90870328 original size:13 final size:13
Alignment explanation
Indices: 90870307--90870338 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
90870297 GCTTGGATCA
*
90870307 TCATCAAATAAAT
1 TCATAAAATAAAT
90870320 TCATAAAATAAAT
1 TCATAAAATAAAT
90870333 TCATAA
1 TCATAA
90870339 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:90870585 original size:30 final size:30
Alignment explanation
Indices: 90870550--90870607 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90870540 CCTCGACTCT
*
90870550 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
90870580 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
90870608 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:90879214 original size:18 final size:19
Alignment explanation
Indices: 90879193--90879233 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
90879183 AATGAAATGA
90879193 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
90879211 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
90879230 GAAA
1 GAAA
90879234 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:90884582 original size:18 final size:18
Alignment explanation
Indices: 90884559--90884612 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
90884549 ACAAGTGGTG
90884559 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
90884577 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
90884589 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
90884607 GTGGAG
1 GTGGAG
90884613 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:90884595 original size:30 final size:30
Alignment explanation
Indices: 90884559--90884622 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
90884549 ACAAGTGGTG
90884559 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
* *
90884589 GTGGAGCAAGTGTGGCTAGTGGAGTTGGTG
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
90884619 GTGG
1 GTGG
90884623 CAAAGGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (30 bp):
GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
Found at i:90895525 original size:8 final size:8
Alignment explanation
Indices: 90895512--90895539 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
90895502 ATTTGGCGGT
90895512 ATTATCAA
1 ATTATCAA
90895520 ATTATCAA
1 ATTATCAA
90895528 ATTATCAA
1 ATTATCAA
90895536 ATTA
1 ATTA
90895540 AAATAGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTATCAA
Found at i:90896984 original size:20 final size:20
Alignment explanation
Indices: 90896959--90896996 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
90896949 ACTAAGTATA
90896959 TGTGTTGGCAGCTTCATATT
1 TGTGTTGGCAGCTTCATATT
90896979 TGTGTTGGCAGCTTCATA
1 TGTGTTGGCAGCTTCATA
90896997 CCTACTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (20 bp):
TGTGTTGGCAGCTTCATATT
Found at i:90898302 original size:14 final size:15
Alignment explanation
Indices: 90898274--90898320 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
90898264 TAAAATATAT
* *
90898274 ATAAAATCTAGAAAA
1 ATAAAATTTACAAAA
*
90898289 A-AAAATTTATAAAA
1 ATAAAATTTACAAAA
*
90898303 ATGAAATTTACAAAA
1 ATAAAATTTACAAAA
90898318 ATA
1 ATA
90898321 CAATAAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (15 bp):
ATAAAATTTACAAAA
Found at i:90898344 original size:19 final size:19
Alignment explanation
Indices: 90898322--90898358 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
90898312 ACAAAAATAC
90898322 AATAAGATTATAAAAAATT
1 AATAAGATTATAAAAAATT
* *
90898341 AATAATATTATTAAAAAT
1 AATAAGATTATAAAAAAT
90898359 GAAAAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AATAAGATTATAAAAAATT
Done.