Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 208 of 325
Found at i:67235211 original size:28 final size:27
Alignment explanation
Indices: 67235178--67235253 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 27
67235168 TTTTTAAAAC
67235178 TTTAAAAATTAAAAATATATAA-ATTA
1 TTTAAAAATTAAAAATATATAAGATTA
*
67235204 TTTCTAAAAATTAAAAA-ACATTAAGATTA
1 -TT-TAAAAATTAAAAATATA-TAAGATTA
*
67235233 TTTAAAAAGTATAAAATATAT
1 TTTAAAAATTA-AAAATATAT
67235254 TTTCTTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
27 12 0.29
28 23 0.56
29 6 0.15
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (27 bp):
TTTAAAAATTAAAAATATATAAGATTA
Found at i:67235232 original size:29 final size:28
Alignment explanation
Indices: 67235180--67235235 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
67235170 TTTAAAACTT
*
67235180 TAAAAATTAAAAATATATAAATTATTTC
1 TAAAAATTAAAAACATATAAATTATTTC
67235208 TAAAAATTAAAAAACAT-TAAGATTATTT
1 TAAAAATT-AAAAACATATAA-ATTATTT
67235236 AAAAAGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (28 bp):
TAAAAATTAAAAACATATAAATTATTTC
Found at i:67240607 original size:22 final size:24
Alignment explanation
Indices: 67240576--67240627 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
67240566 CTAATTTTAG
*
67240576 AAAAT-CATAAAA-TTT-TAATTA
1 AAAATACATAAAAGTTTAAAATTA
67240597 AAAATACATAAAAGTTTCAAAATTA
1 AAAATACATAAAAGTTT-AAAATTA
67240622 AAAATA
1 AAAATA
67240628 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 5 0.19
22 7 0.27
23 3 0.12
25 11 0.42
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAATACATAAAAGTTTAAAATTA
Found at i:67248310 original size:3 final size:3
Alignment explanation
Indices: 67248302--67248327 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
67248292 ATTGAGTTTA
67248302 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
67248328 AGAAAACATA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:67252191 original size:31 final size:29
Alignment explanation
Indices: 67252093--67252200 Score: 94
Period size: 31 Copynumber: 3.6 Consensus size: 29
67252083 AGTTCTCTTG
*
67252093 AAATTTTTAAACAAATTTAATTAGGTCCTTCA
1 AAATTTTTAAA-AAATTTAATT--GACCTTCA
* * * *
67252125 AAA-TTTTAAAATGATTTCATTTATCTT-A
1 AAATTTTTAAAA-AATTTAATTGACCTTCA
*
67252153 AATTTTTTAAAAAATTGTAATTGACCCTTCA
1 AAATTTTTAAAAAATT-TAATTGA-CCTTCA
67252184 AAATTTTTAAAAAATTT
1 AAATTTTTAAAAAATTT
67252201 CTTTATATCT
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
28 6 0.10
29 16 0.27
30 5 0.08
31 30 0.50
32 3 0.05
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATTTTTAAAAAATTTAATTGACCTTCA
Found at i:67252201 original size:59 final size:60
Alignment explanation
Indices: 67252067--67252221 Score: 156
Period size: 60 Copynumber: 2.5 Consensus size: 60
67252057 GCCTCTCAAT
* * * **
67252067 TTTTTGAAAAAATTTTAGTTCTCTTGAAA-TTTTTAAACAAATTTAATTAGGTCCTTCAAAA
1 TTTTT-AAAAAATTTCATTTATCTT-AAATTTTTTAAACAAATTTAATTAGACCCTTCAAAA
*
67252128 -TTTTAAAATGATTTCATTTATCTTAAATTTTTTAAA-AAATTGTAATT-GACCCTTCAAAA
1 TTTTTAAAA-AATTTCATTTATCTTAAATTTTTTAAACAAATT-TAATTAGACCCTTCAAAA
* *
67252187 TTTTTAAAAAATTTCTTTATATCTTTTAATTTTTT
1 TTTTTAAAAAATTTCATT-TATC-TTAAATTTTTT
67252222 TGAAAATTAT
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
59 29 0.37
60 40 0.51
61 10 0.13
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (60 bp):
TTTTTAAAAAATTTCATTTATCTTAAATTTTTTAAACAAATTTAATTAGACCCTTCAAAA
Found at i:67257498 original size:30 final size:30
Alignment explanation
Indices: 67257462--67257521 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
67257452 TTCCCGAGCC
67257462 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
67257492 TAGGGGCAAAAGTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
67257522 CGTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:67257997 original size:46 final size:46
Alignment explanation
Indices: 67257946--67258167 Score: 233
Period size: 47 Copynumber: 4.8 Consensus size: 46
67257936 ATGGTTGAGC
*
67257946 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATGCAACAGG
* *
67257993 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGCAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAAC-AGG
* * * *
67258038 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAAC-AGG
67258085 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC--G
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATGC-AACAGG
* *
67258133 -CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
67258168 GGGCAGGTTA
Statistics
Matches: 156, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
43 7 0.04
44 1 0.01
45 4 0.03
46 61 0.39
47 74 0.47
48 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAACAGG
Found at i:67258062 original size:47 final size:47
Alignment explanation
Indices: 67257944--67258115 Score: 244
Period size: 47 Copynumber: 3.7 Consensus size: 47
67257934 GGATGGTTGA
* * *
67257944 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGCAACTAG
67257992 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGCAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGCAACTAG
* *
67258037 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGCAACTAG
67258084 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
67258116 ACTTATGGAT
Statistics
Matches: 115, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
43 7 0.06
45 4 0.03
46 29 0.25
47 74 0.64
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGCAACTAG
Found at i:67280979 original size:26 final size:26
Alignment explanation
Indices: 67280949--67281004 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
67280939 TACGAACCAA
67280949 ATAGAGACTAAATCGAGTATAAAAAC
1 ATAGAGACTAAATCGAGTATAAAAAC
67280975 ATAGAGACTAAATCGAGTATAAAAAC
1 ATAGAGACTAAATCGAGTATAAAAAC
67281001 ATAG
1 ATAG
67281005 TTTAATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.54, C:0.11, G:0.16, T:0.20
Consensus pattern (26 bp):
ATAGAGACTAAATCGAGTATAAAAAC
Found at i:67287515 original size:28 final size:28
Alignment explanation
Indices: 67287456--67287515 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
67287446 GCAGTGTTCA
** * *
67287456 CACATATAGGGTTTGCTCATGGGGTTTT
1 CACATATAGGGTTCACACATGGGGTTTG
67287484 CACATATAGGGTTCACACAT-GGGTTTCG
1 CACATATAGGGTTCACACATGGGGTTT-G
67287512 CACA
1 CACA
67287516 CCTAAGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (28 bp):
CACATATAGGGTTCACACATGGGGTTTG
Found at i:67290538 original size:9 final size:9
Alignment explanation
Indices: 67290524--67290560 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
67290514 TTATCAATTC
67290524 TCAATGTGT
1 TCAATGTGT
67290533 TCAATGTGT
1 TCAATGTGT
*
67290542 GCAATGTGT
1 TCAATGTGT
67290551 TCAATGTGT
1 TCAATGTGT
67290560 T
1 T
67290561 GGAAATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (9 bp):
TCAATGTGT
Found at i:67300009 original size:34 final size:34
Alignment explanation
Indices: 67299963--67300060 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 34
67299953 TTGAACAGTC
* * **
67299963 TGGGCCTAAGCCCATTTTAGTCGCAATATCAATG
1 TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
* * * * *
67299997 TGGGCCTTAGCCCAATACAGTAACAGTATCAGTT
1 TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
*
67300031 TGGGCCTTAGCCCATTTCAGT-ACAGTATCA
1 TGGGCCTTAGCCCATTTCAGTAACAATATCA
67300061 GAAATGCATA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
33 9 0.17
34 44 0.83
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
Found at i:67302798 original size:47 final size:47
Alignment explanation
Indices: 67302681--67302851 Score: 244
Period size: 47 Copynumber: 3.7 Consensus size: 47
67302671 GGATGGTTGA
* * *
67302681 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
67302728 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
*
67302773 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
67302820 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
67302852 ACTCATGGAT
Statistics
Matches: 114, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
42 6 0.05
43 1 0.01
44 2 0.02
45 30 0.26
47 75 0.66
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:67314333 original size:34 final size:34
Alignment explanation
Indices: 67314287--67314384 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 34
67314277 TTGAACAGTC
* * **
67314287 TGGGCCTAAGCCCATTTTAGTCGCAATATCAATG
1 TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
* * * * *
67314321 TGGGCCTTAGCCCAATACAGTAACAGTATCAGTT
1 TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
*
67314355 TGGGCCTTAGCCCATTTCAGT-ACAGTATCA
1 TGGGCCTTAGCCCATTTCAGTAACAATATCA
67314385 GAAATGCATA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
33 9 0.17
34 44 0.83
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTTCAGTAACAATATCAATG
Found at i:67317046 original size:46 final size:48
Alignment explanation
Indices: 67316995--67317216 Score: 218
Period size: 46 Copynumber: 4.8 Consensus size: 48
67316985 ATGGTTGAGC
*
67316995 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
* * *
67317042 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
* * *
67317087 CATCCGAACTCGTTGAGTTGAGTCC-AGTTC-GTGA--GATGTAACTAGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
*
67317133 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAAC--G
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACAGG
* *
67317180 -CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67317217 GCGGGTTACA
Statistics
Matches: 156, Mismatches: 9, Indels: 21
0.84 0.05 0.11
Matches are distributed among these distances:
43 6 0.04
45 34 0.22
46 79 0.51
47 30 0.19
49 4 0.03
50 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:67320142 original size:15 final size:15
Alignment explanation
Indices: 67320122--67320190 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
67320112 GTATCTTGGG
67320122 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
67320137 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
67320152 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
67320167 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
67320182 TTTCTTTAT
1 TTTCTTTAT
67320191 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:67320191 original size:30 final size:30
Alignment explanation
Indices: 67320113--67320200 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
67320103 CATAGTATCG
* * * *
67320113 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
67320143 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
67320173 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
67320201 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:67322633 original size:46 final size:46
Alignment explanation
Indices: 67322583--67322758 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
67322573 TGGTTGAGCA
67322583 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
67322629 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
** * *
67322674 CATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
67322722 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67322759 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 61 0.57
47 27 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:67322739 original size:93 final size:93
Alignment explanation
Indices: 67322580--67322750 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
67322570 GGATGGTTGA
* * *
67322580 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
67322645 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
67322673 GCATCCGAACTCGTTGAGTTGAGTCTAAGTTCACTCATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
67322738 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
67322751 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:67339096 original size:27 final size:27
Alignment explanation
Indices: 67339058--67339113 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
67339048 GTTCTAAAGA
*
67339058 TGAAAATTCTTCTAGATGGTTATATAG
1 TGAAAATTCTTCTAGATGGTCATATAG
67339085 TGAAAATTCTTCTAGATGGTCATATAG
1 TGAAAATTCTTCTAGATGGTCATATAG
67339112 TG
1 TG
67339114 GAGGCGACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
TGAAAATTCTTCTAGATGGTCATATAG
Found at i:67340706 original size:21 final size:22
Alignment explanation
Indices: 67340682--67340737 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
67340672 GTCTCTGGCT
*
67340682 CACACGGGTGTGTGCCT-TAGC
1 CACACGGGTGTGTGCCTCTACC
* *
67340703 CACACGGCTGTGTGCCTCTTCC
1 CACACGGGTGTGTGCCTCTACC
67340725 CACACGGGTGTGT
1 CACACGGGTGTGT
67340738 TGACCCCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.12, C:0.32, G:0.30, T:0.25
Consensus pattern (22 bp):
CACACGGGTGTGTGCCTCTACC
Found at i:67353226 original size:41 final size:41
Alignment explanation
Indices: 67353169--67353251 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
67353159 TTATAACTGA
67353169 ATCATACCTCAAATTAGTGCCAAAAATAGGTAGATCGAGTT
1 ATCATACCTCAAATTAGTGCCAAAAATAGGTAGATCGAGTT
*
67353210 ATCATACCTCAAATTAGTGCCAGAAATAGGTAGATCGAGTT
1 ATCATACCTCAAATTAGTGCCAAAAATAGGTAGATCGAGTT
67353251 A
1 A
67353252 CAACGACTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.27
Consensus pattern (41 bp):
ATCATACCTCAAATTAGTGCCAAAAATAGGTAGATCGAGTT
Found at i:67360055 original size:6 final size:6
Alignment explanation
Indices: 67360041--67360089 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
67360031 ACATACATGC
* * * *
67360041 TCAGTT TCAGAT TCAGAT TCAGAT TCAAAT ATCGGAT TTAGAT TCAGAT
1 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT -TCAGAT TCAGAT TCAGAT
67360090 AGCAAATATG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (6 bp):
TCAGAT
Found at i:67360084 original size:25 final size:26
Alignment explanation
Indices: 67360050--67360098 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
67360040 CTCAGTTTCA
*
67360050 GATTCAGATTCAGAT-TCAAATATCG
1 GATTCAGATTCAGATAGCAAATATCG
*
67360075 GATTTAGATTCAGATAGCAAATAT
1 GATTCAGATTCAGATAGCAAATAT
67360099 GCCAAAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (26 bp):
GATTCAGATTCAGATAGCAAATATCG
Found at i:67364748 original size:46 final size:46
Alignment explanation
Indices: 67364597--67364816 Score: 234
Period size: 46 Copynumber: 4.7 Consensus size: 46
67364587 TTATTTGTCT
** * * *
67364597 GCCAGTGTAAGACATGTCTAAGACATGCATTGGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGA
* *
67364643 GCCAGTGTAAGACCATGTCTGGGACATGTCATTGGC-ATTGAGATGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCTA-CGAGATGAGA
* *
67364691 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATG-AGA
*
67364737 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGA
* *
67364781 GTCAGTCTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
67364817 ACAAATATGT
Statistics
Matches: 152, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
44 10 0.07
45 14 0.09
46 73 0.48
47 30 0.20
48 24 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGA
Found at i:67367497 original size:23 final size:24
Alignment explanation
Indices: 67367458--67367503 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
67367448 AGATTAAATG
67367458 ATAATTAATTAAGATTA-AACTAT
1 ATAATTAATTAAGATTACAACTAT
*
67367481 ATAATTAAGTTTA-ATTACAACTA
1 ATAATTAA-TTAAGATTACAACTA
67367504 AACCTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
ATAATTAATTAAGATTACAACTAT
Found at i:67376729 original size:11 final size:11
Alignment explanation
Indices: 67376713--67376755 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
67376703 CTAATTTAAC
*
67376713 ATAAAATCAAA
1 ATAAAATAAAA
*
67376724 ATAAAATGATAA
1 ATAAAAT-AAAA
67376736 ATAAAATAAAA
1 ATAAAATAAAA
67376747 ATAAAATAA
1 ATAAAATAA
67376756 GATTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:67376742 original size:5 final size:5
Alignment explanation
Indices: 67376713--67376755 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
67376703 CTAATTTAAC
67376713 ATAAA ATCAAA ATAAA ATGATAA ATAAA ATAAAA ATAAA ATAA
1 ATAAA AT-AAA ATAAA AT-A-AA ATAAA AT-AAA ATAAA ATAA
67376756 GATTTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 18 0.53
6 12 0.35
7 4 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:67384637 original size:15 final size:17
Alignment explanation
Indices: 67384617--67384648 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
67384607 TCTTCAGAGC
67384617 ATCCTG-AT-TGTTGTG
1 ATCCTGCATGTGTTGTG
67384632 ATCCTGCATGTGTTGTG
1 ATCCTGCATGTGTTGTG
67384649 GACACACCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.44
Consensus pattern (17 bp):
ATCCTGCATGTGTTGTG
Found at i:67388341 original size:14 final size:15
Alignment explanation
Indices: 67388310--67388342 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
67388300 GGGTTATGGA
*
67388310 TTTATGTAATTAAGG
1 TTTATGGAATTAAGG
67388325 TTTATGGAATT-AGG
1 TTTATGGAATTAAGG
67388339 TTTA
1 TTTA
67388343 AGTTGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATGGAATTAAGG
Found at i:67396332 original size:23 final size:22
Alignment explanation
Indices: 67396283--67396333 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
67396273 AAGCTCTATT
* *
67396283 GAGCTAAACAGTAAGCTCTTTC
1 GAGCTAAACAGTAAGCTCATAC
* *
67396305 AAGCTGAATCAGTAAGCTCATAC
1 GAGCT-AAACAGTAAGCTCATAC
67396328 GAGCTA
1 GAGCTA
67396334 TGGTGAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (22 bp):
GAGCTAAACAGTAAGCTCATAC
Found at i:67397466 original size:15 final size:15
Alignment explanation
Indices: 67397446--67397477 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
67397436 AAAATTTCTT
67397446 TACTACACTTTCACA
1 TACTACACTTTCACA
67397461 TACTACACTTTCACA
1 TACTACACTTTCACA
67397476 TA
1 TA
67397478 AATAATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (15 bp):
TACTACACTTTCACA
Found at i:67403757 original size:22 final size:23
Alignment explanation
Indices: 67403732--67403779 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
67403722 TGGAAACAAG
67403732 AAGCTCTATTGACCTGAA-CAGT
1 AAGCTCTATTGACCTGAATCAGT
* *
67403754 AAGCTCTTTTGAGCTGAATCAGT
1 AAGCTCTATTGACCTGAATCAGT
67403777 AAG
1 AAG
67403780 TTCATACGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (23 bp):
AAGCTCTATTGACCTGAATCAGT
Found at i:67407907 original size:18 final size:18
Alignment explanation
Indices: 67407884--67407918 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67407874 AATATCATAC
67407884 ATACATATATTTATTTTA
1 ATACATATATTTATTTTA
* *
67407902 ATACATGTTTTTATTTT
1 ATACATATATTTATTTT
67407919 TAAAACATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
ATACATATATTTATTTTA
Found at i:67409174 original size:29 final size:30
Alignment explanation
Indices: 67409117--67409175 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
67409107 TATTTTATTG
*
67409117 TTAATTTTGTTATTATTTTAAATGCATTTA
1 TTAATTTTGTTATTATTTTAAAGGCATTTA
* *
67409147 TTAATTTT-TTATTATTTTATAGGGATTTA
1 TTAATTTTGTTATTATTTTAAAGGCATTTA
67409176 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTA
Found at i:67409299 original size:11 final size:12
Alignment explanation
Indices: 67409278--67409310 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
67409268 ATATATTTTT
*
67409278 AAAATTTATATA
1 AAAATTAATATA
67409290 AAAA-TAATATA
1 AAAATTAATATA
67409301 AAAATTAATA
1 AAAATTAATA
67409311 AGGGAGGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:67410069 original size:5 final size:5
Alignment explanation
Indices: 67410059--67410114 Score: 67
Period size: 5 Copynumber: 10.4 Consensus size: 5
67410049 ATTAAAAATA
*
67410059 TATAT TATAT TATAT TATAT TATAT TATAT TATTCAG TATAAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-T-AT TAT-AT TATAT
67410107 TAATAT TA
1 T-ATAT TA
67410115 ATTGTAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
5 31 0.69
6 11 0.24
7 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:67411367 original size:16 final size:17
Alignment explanation
Indices: 67411346--67411377 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
67411336 GATTTGACAA
67411346 AAAAAATAGAA-AAATT
1 AAAAAATAGAATAAATT
67411362 AAAAAATAGAATAAAT
1 AAAAAATAGAATAAAT
67411378 AATTTCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAAAATAGAATAAATT
Found at i:67411539 original size:14 final size:14
Alignment explanation
Indices: 67411520--67411559 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
67411510 TTTATTATCA
67411520 TTATTATTACTGCT
1 TTATTATTACTGCT
* *
67411534 TTATTATTATTTCT
1 TTATTATTACTGCT
67411548 TCTATTATTACT
1 T-TATTATTACT
67411560 ACTACTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.23, C:0.12, G:0.03, T:0.62
Consensus pattern (14 bp):
TTATTATTACTGCT
Found at i:67411569 original size:26 final size:26
Alignment explanation
Indices: 67411510--67411589 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
67411500 TCACCTAATT
* *
67411510 TTTATTATCATTATTATTACTGCT-T
1 TTTATTATCATTATTATTACTACTAC
*
67411535 TATTATTATTTCTTCTATTATTACTACTAC
1 T-TTATTA--TCAT-TATTATTACTACTAC
*
67411565 TTTATTATCATTATTATTATTACTA
1 TTTATTATCATTATTATTACTACTA
67411590 TCGCAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
25 1 0.02
26 19 0.42
27 3 0.07
28 3 0.07
29 18 0.40
30 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.01, T:0.59
Consensus pattern (26 bp):
TTTATTATCATTATTATTACTACTAC
Found at i:67411586 original size:32 final size:32
Alignment explanation
Indices: 67411511--67411586 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
67411501 CACCTAATTT
* * * *
67411511 TTATTATCATTATTATTACTGCTTTATTATTA
1 TTATTATTATTATTACTACTACTTTATTATCA
67411543 TT-TCT-TCTATTATTACTACTACTTTATTATCA
1 TTAT-TAT-TATTATTACTACTACTTTATTATCA
67411575 TTATTATTATTA
1 TTATTATTATTA
67411587 CTATCGCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
31 2 0.06
32 32 0.89
33 2 0.06
ACGTcount: A:0.28, C:0.12, G:0.01, T:0.59
Consensus pattern (32 bp):
TTATTATTATTATTACTACTACTTTATTATCA
Found at i:67418894 original size:23 final size:23
Alignment explanation
Indices: 67418851--67418894 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
67418841 TGAGGAAACT
*
67418851 TCATACCCATGATTTTACCATGC
1 TCATACCCATGATATTACCATGC
* *
67418874 TCATTCCCATGATATTCCCAT
1 TCATACCCATGATATTACCAT
67418895 TCCAATATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.36
Consensus pattern (23 bp):
TCATACCCATGATATTACCATGC
Found at i:67445714 original size:9 final size:9
Alignment explanation
Indices: 67445700--67445726 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
67445690 CACACACTAA
67445700 TAATAATAG
1 TAATAATAG
67445709 TAATAATAG
1 TAATAATAG
67445718 TAATAATAG
1 TAATAATAG
67445727 AAAGATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
TAATAATAG
Found at i:67446109 original size:23 final size:22
Alignment explanation
Indices: 67446062--67446117 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
67446052 AACAATACTA
*
67446062 ATAT-TACATAAAGATATACCT
1 ATATATACATAAAGATATAACT
67446083 ATATATACATTAAAGATATATAC-
1 ATATATACA-TAAAGATATA-ACT
67446106 ATATATA-ATAAA
1 ATATATACATAAA
67446118 ATACATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
23 17 0.55
24 1 0.03
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATATACATAAAGATATAACT
Found at i:67446153 original size:23 final size:25
Alignment explanation
Indices: 67446127--67446172 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
67446117 AATACATGAA
*
67446127 TAATATG-ATATTAAAAA-AATACG
1 TAATATGTATAATAAAAATAATACG
67446150 TAATATGTATAATAAAAATAATA
1 TAATATGTATAATAAAAATAATA
67446173 ATATACACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 9 0.45
25 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (25 bp):
TAATATGTATAATAAAAATAATACG
Found at i:67446365 original size:15 final size:15
Alignment explanation
Indices: 67446345--67446378 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
67446335 TGATAGTGAA
*
67446345 AATAATAGATATAAT
1 AATAATAGAAATAAT
*
67446360 AATAATAGAAATGAT
1 AATAATAGAAATAAT
67446375 AATA
1 AATA
67446379 CTGTATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
AATAATAGAAATAAT
Found at i:67446559 original size:3 final size:3
Alignment explanation
Indices: 67446539--67446587 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
67446529 AAATATACAC
*
67446539 TAA TATA TAA -AA -AA TAA TAA TAA TAAA TAA CAA TAA T-A TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
67446583 TAA TA
1 TAA TA
67446588 GCAAAATTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 6 0.15
3 28 0.70
4 6 0.15
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:67448760 original size:44 final size:45
Alignment explanation
Indices: 67448704--67448797 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 45
67448694 AAGTCATGCC
67448704 TATGAGAATGATTTTGTGATGACCTTATGATTATAGGTCTATAAT
1 TATGAGAATGATTTTGTGATGACCTTATGATTATAGGTCTATAAT
*
67448749 TATGA-AATGATTTTGTGATGACCTTATGATTATAGGTCTATATT
1 TATGAGAATGATTTTGTGATGACCTTATGATTATAGGTCTATAAT
67448793 TATGA
1 TATGA
67448798 TGTATAAACA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 43 0.90
45 5 0.10
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (45 bp):
TATGAGAATGATTTTGTGATGACCTTATGATTATAGGTCTATAAT
Found at i:67453745 original size:22 final size:22
Alignment explanation
Indices: 67453711--67453756 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
67453701 CAAATAACTT
** * *
67453711 TTTTTAATTATAATTAATATTA
1 TTTTTAAAAATAAATAATAATA
67453733 TTTTTAAAAATAAATAATAATA
1 TTTTTAAAAATAAATAATAATA
67453755 TT
1 TT
67453757 ATTGTAACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTAAAAATAAATAATAATA
Found at i:67454117 original size:5 final size:5
Alignment explanation
Indices: 67454095--67454137 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
67454085 TTACTAAACA
* *
67454095 TATAT TATTT TGTAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
67454138 TGTTGAAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:67461330 original size:37 final size:37
Alignment explanation
Indices: 67461276--67461352 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
67461266 CATAAATTAG
* * *
67461276 AATATCTAAATTCGTATAATACATGGACCAAAATATT
1 AATATCTAAATTCGTATAATACAAGGACAAAAATAAT
*
67461313 AATATCTAAATTTGTATAATACAAGGACAAAAATAAT
1 AATATCTAAATTCGTATAATACAAGGACAAAAATAAT
67461350 AAT
1 AAT
67461353 TCAACTGGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (37 bp):
AATATCTAAATTCGTATAATACAAGGACAAAAATAAT
Found at i:67463970 original size:20 final size:19
Alignment explanation
Indices: 67463923--67463970 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
67463913 AAAAAGGAAC
*
67463923 CGAAGTGCAGACAGAGGCA
1 CGAAGTGCAAACAGAGGCA
*
67463942 CAAATGTGCAAACAGAGGCA
1 CGAA-GTGCAAACAGAGGCA
67463962 CTGAAGTGC
1 C-GAAGTGC
67463971 GATCCCGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 19 0.79
21 2 0.08
ACGTcount: A:0.38, C:0.21, G:0.31, T:0.10
Consensus pattern (19 bp):
CGAAGTGCAAACAGAGGCA
Found at i:67468691 original size:27 final size:27
Alignment explanation
Indices: 67468654--67468860 Score: 238
Period size: 27 Copynumber: 7.6 Consensus size: 27
67468644 TAAATTGTAC
67468654 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
67468681 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
67468708 TGCACTAAGTGTGTGCGAAATGAATATG-
1 AGCACTAA--GTGTGCGATTTGACTATGT
* * *
67468736 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
67468764 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
67468792 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
67468819 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
67468846 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67468861 GACTCAATAT
Statistics
Matches: 155, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 109 0.70
28 23 0.15
29 22 0.14
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:67476728 original size:27 final size:27
Alignment explanation
Indices: 67476691--67476895 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
67476681 TAAATTGTAC
67476691 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
67476718 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
67476745 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
67476771 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
67476799 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
67476827 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
67476854 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
67476881 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
67476896 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:67476830 original size:109 final size:108
Alignment explanation
Indices: 67476692--67476895 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
67476682 AAATTGTACA
* *
67476692 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
67476757 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
67476800 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
67476865 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
67476896 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:67479568 original size:27 final size:26
Alignment explanation
Indices: 67479534--67479652 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 26
67479524 CCATAAAATA
* *
67479534 GGTAAAATGATCGTAATGCTCTTATAG
1 GGTAAAATGA-CGTAATGCCCTTGTAG
67479561 GGTAAAATGACTGTAATGCCCTTGTAG
1 GGTAAAATGAC-GTAATGCCCTTGTAG
*
67479588 GGTAAAATGACCGTAATGCCCATGTAG
1 GGTAAAATGA-CGTAATGCCCTTGTAG
* *
67479615 GGTAAAATAACCGTAACAT-CCC-TGTAT
1 GGTAAAATGA-CGT-A-ATGCCCTTGTAG
67479642 GGTAAAATGAC
1 GGTAAAATGAC
67479653 AATTATGCCC
Statistics
Matches: 82, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.02
27 73 0.89
28 5 0.06
29 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (26 bp):
GGTAAAATGACGTAATGCCCTTGTAG
Found at i:67479616 original size:54 final size:54
Alignment explanation
Indices: 67479534--67479652 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 54
67479524 CCATAAAATA
* * * * *
67479534 GGTAAAATGATCGTAATGCTCTTATAGGGTAAAATGACTGT-A-ATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCATATAGGGTAAAATAACCGTAACAT-CCC-TGTAG
* *
67479588 GGTAAAATGACCGTAATGCCCATGTAGGGTAAAATAACCGTAACATCCCTGTAT
1 GGTAAAATGACCGTAATGCCCATATAGGGTAAAATAACCGTAACATCCCTGTAG
67479642 GGTAAAATGAC
1 GGTAAAATGAC
67479653 AATTATGCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 50 0.89
55 4 0.07
56 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (54 bp):
GGTAAAATGACCGTAATGCCCATATAGGGTAAAATAACCGTAACATCCCTGTAG
Found at i:67483244 original size:47 final size:49
Alignment explanation
Indices: 67483108--67483248 Score: 144
Period size: 47 Copynumber: 2.9 Consensus size: 49
67483098 AGGCATTGGC
* * *
67483108 TACATGATGTGTCAGTATAAGACCCTGTCTGGGACATGGCATCAACACGGA
1 TACATGA-GAGTCAGTGTAAGACCATGTCTGGGACATGGCATC-ACACGGA
* * * * **
67483159 TACATGGGAGTCAGTTTAAGACTATGTGTGGGACATGGCATCA-ACTTA
1 TACATGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCACACGGA
*
67483207 -ACGTGAGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCA
1 TACATGAGAGTC-AGTGTAAGACCATGTCTGGGACATGGCATCA
67483249 GCATTATACC
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
46 1 0.01
47 35 0.46
48 3 0.04
49 1 0.01
50 30 0.39
51 6 0.08
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (49 bp):
TACATGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCACACGGA
Found at i:67484422 original size:41 final size:41
Alignment explanation
Indices: 67484372--67484459 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
67484362 GTGTGACGAC
*
67484372 TCCTGATAAGATAAATTGTGTTTTATTCATATAGTAAATGGA
1 TCCT-ATAAGATAAATTATGTTTTATTCATATAGTAAATGGA
67484414 TCCTATAAGATAAATTATGTTTTATTCATATAGTAAATGGA
1 TCCTATAAGATAAATTATGTTTTATTCATATAGTAAATGGA
67484455 TCCTA
1 TCCTA
67484460 ACGTAGCTAC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 41 0.91
42 4 0.09
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (41 bp):
TCCTATAAGATAAATTATGTTTTATTCATATAGTAAATGGA
Found at i:67490415 original size:46 final size:46
Alignment explanation
Indices: 67490235--67490414 Score: 150
Period size: 46 Copynumber: 3.9 Consensus size: 46
67490225 TTTGTGTGCT
* * * *
67490235 AGTGTAAGACATGTCTGGAACATGCATCGACCACATTATGAGAGCA
1 AGTGTAAGACATGTCTGGGACATGCATCAACTACATGATGAGAGCA
* * * ** *
67490281 AGTGCAAGATCATGTCTGGGACCTGGCATCAGCATTGA-GACGAGAGCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAAC-TACATGATGAGAGCA
* * * * * *
67490329 AGTATAAGATATGTCTGGGACATCCATCAGCCT-CTTGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCA-ACTACATGATG-AGAGCA
67490375 AGTGTAAGACATGTCTGGGACATGCATCAACTACATGATG
1 AGTGTAAGACATGTCTGGGACATGCATCAACTACATGATG
67490415 TGTCAGTATA
Statistics
Matches: 102, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
45 2 0.02
46 52 0.51
47 26 0.25
48 21 0.21
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACTACATGATGAGAGCA
Found at i:67490535 original size:47 final size:46
Alignment explanation
Indices: 67490235--67490544 Score: 161
Period size: 47 Copynumber: 6.6 Consensus size: 46
67490225 TTTGTGTGCT
* * * *
67490235 AGTGTAAGA-CATGTCTGGAACAT-GCATCGACCACATTATGAGAGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTA-A-CATGAGAGCC
* * * * * * * *
67490281 AGTGCAAGATCATGTCTGGGACCTGGCATCAGCATTGAGACGAGAGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTAACATGAGAGCC
* * * * *
67490329 AGTATAAGA-TATGTCTGGGACAT-CCATCAGCCT--CTTGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTAACATGA-G--AGCC
* * *
67490375 AGTGTAAGA-CATGTCTGGGACAT-GCATCAACT-ACATGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAACATGA-GAGCC
* * * * * *
67490419 AGTATAAGACCGTGTCTAGGACATGGCATCGGCACGGATACATGGGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TA-ACATGAGAGCC
* *
67490469 AGTGTAAAACCATGTCTGGGACATGGCATCGACTTAACGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TAACATGAGAGCC
* *
67490516 AATGTAAGACCATGTCTGGGACATTGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
67490545 TGGCATTATA
Statistics
Matches: 203, Mismatches: 46, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
43 2 0.01
44 11 0.05
45 15 0.07
46 53 0.26
47 58 0.29
48 25 0.12
49 3 0.01
50 31 0.15
51 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTAACATGAGAGCC
Found at i:67495033 original size:23 final size:23
Alignment explanation
Indices: 67495002--67495055 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
67494992 GATGAGCAAC
*
67495002 CCTGTTATAGCCCTCT-CGAGCAT
1 CCTGATATAGCCCT-TACGAGCAT
*
67495025 CCTGATATATAGTCCTTACGAGCAT
1 CCTG--ATATAGCCCTTACGAGCAT
67495050 CCTGAT
1 CCTGAT
67495056 CGGTAGTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.23
24 1 0.04
25 19 0.73
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (23 bp):
CCTGATATAGCCCTTACGAGCAT
Found at i:67497056 original size:20 final size:18
Alignment explanation
Indices: 67497015--67497056 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
67497005 TGAAAATAAG
*
67497015 CATTATTATTAGGTTTTA
1 CATTATTATTAGGCTTTA
67497033 -ATTATTATTAGGACTTTA
1 CATTATTATTAGG-CTTTA
67497051 CCATTA
1 -CATTA
67497057 ATATACACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
20 4 0.20
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.50
Consensus pattern (18 bp):
CATTATTATTAGGCTTTA
Found at i:67499219 original size:14 final size:14
Alignment explanation
Indices: 67499200--67499227 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67499190 CCTAACTTAA
67499200 AATTGATCAAAACT
1 AATTGATCAAAACT
67499214 AATTGATCAAAACT
1 AATTGATCAAAACT
67499228 TCTACTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
AATTGATCAAAACT
Found at i:67511051 original size:17 final size:17
Alignment explanation
Indices: 67511029--67511061 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
67511019 TGATGGTTGC
67511029 ATTTATTAATAACATGT
1 ATTTATTAATAACATGT
67511046 ATTTATTAATAACATG
1 ATTTATTAATAACATG
67511062 AAATTCTACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (17 bp):
ATTTATTAATAACATGT
Found at i:67519616 original size:30 final size:30
Alignment explanation
Indices: 67519580--67519667 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
67519570 TCATCATATT
*
67519580 ACAAACTTTCAAGTATTTCGGGACCATAAC
1 ACAAACTTTCAAGTATTTCGGGATCATAAC
* * *
67519610 ACAAACTTTCAAGTATTTCAGGATTATATC
1 ACAAACTTTCAAGTATTTCGGGATCATAAC
*
67519640 ACAAACTTTCAATTATTTCGGGATCATA
1 ACAAACTTTCAAGTATTTCGGGATCATA
67519668 TAATTCATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (30 bp):
ACAAACTTTCAAGTATTTCGGGATCATAAC
Found at i:67520034 original size:23 final size:23
Alignment explanation
Indices: 67519994--67520039 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
67519984 GAGTTCAAGT
67519994 GAGCTATATCAGGAAGCCCATAA
1 GAGCTATATCAGGAAGCCCATAA
67520017 GAGCTTATATCAGG-AGCCCATAA
1 GAGC-TATATCAGGAAGCCCATAA
67520040 CAGATAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (23 bp):
GAGCTATATCAGGAAGCCCATAA
Found at i:67531533 original size:47 final size:48
Alignment explanation
Indices: 67531410--67531537 Score: 154
Period size: 48 Copynumber: 2.7 Consensus size: 48
67531400 CTCGCACACT
* * * *
67531410 AAGTGCCAATATCATGGCCCGAAGCCAACTCAATATATCTCGCATCCA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATATAGCTCACACCCA
* * *
67531458 AAGTGCTAATATC-TGGGCCCGAACCCAAATCAATGA-AGCTCACACCCG
1 AAGTGCCAATATCAT-GGCCCGAAGCCAAATCAAT-ATAGCTCACACCCA
67531506 AAGTGCCAATA-CATGGCCCGAAGCCAAATCAA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAA
67531538 AGTATCCCCT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
47 19 0.28
48 48 0.71
49 1 0.01
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.17
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAATATAGCTCACACCCA
Found at i:67532122 original size:21 final size:22
Alignment explanation
Indices: 67532079--67532123 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
67532069 AACTTGTATA
* *
67532079 TCTATCAACAAGCATTCATAAC
1 TCTATCAACAAACATTCAAAAC
*
67532101 TCTATCAAGAAAC-TTCAAAAC
1 TCTATCAACAAACATTCAAAAC
67532122 TC
1 TC
67532124 ATGCTTATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (22 bp):
TCTATCAACAAACATTCAAAAC
Found at i:67538344 original size:57 final size:57
Alignment explanation
Indices: 67538281--67538395 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
67538271 TATATAAGTA
67538281 AACCAAAACAACTCATCAGTAGATGTCACACATAACCAAGCCTTAATATCTACCTCT
1 AACCAAAACAACTCATCAGTAGATGTCACACATAACCAAGCCTTAATATCTACCTCT
67538338 AACCAAAACAACTCATCAGTAGATGTCACACATAACCAAGCCTTAATATCTACCTCT
1 AACCAAAACAACTCATCAGTAGATGTCACACATAACCAAGCCTTAATATCTACCTCT
67538395 A
1 A
67538396 TCTCAGTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.23
Consensus pattern (57 bp):
AACCAAAACAACTCATCAGTAGATGTCACACATAACCAAGCCTTAATATCTACCTCT
Found at i:67539053 original size:21 final size:21
Alignment explanation
Indices: 67539019--67539065 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
67539009 GTGGCTCAGA
* *
67539019 ACATGGCCGTGTGGCTACTCC
1 ACATGCCCGAGTGGCTACTCC
* *
67539040 ACATGCCCGAGTGGCTATTTC
1 ACATGCCCGAGTGGCTACTCC
67539061 ACATG
1 ACATG
67539066 TCTGTGTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.30, G:0.26, T:0.26
Consensus pattern (21 bp):
ACATGCCCGAGTGGCTACTCC
Found at i:67542399 original size:12 final size:14
Alignment explanation
Indices: 67542382--67542413 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
67542372 ATGAGAACAC
67542382 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
67542394 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
67542408 ATGTGT
1 ATGTGT
67542414 TTAAGATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:67542573 original size:101 final size:101
Alignment explanation
Indices: 67542432--67542711 Score: 303
Period size: 101 Copynumber: 2.8 Consensus size: 101
67542422 GTTTTAGGTT
* * * *
67542432 ATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTA
1 ATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATATGTAGTACTA
*
67542497 AGTGCGGGCTACTATGCGTACCCGATAGTTTCAATC
66 AGTGCAGGCTACTATGCGTACCCGATAGTTTCAATC
* * *
67542533 ATGTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAGGTCACGTATGTAGTACTA
1 ATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATATGTAGTACTA
* * * * *
67542598 AGTGCAGGCTACTATGTGTACCAGATTG-AT-AGGTC
66 AGTGCAGGCTACTATGCGTACCCGATAGTTTCA-ATC
*** * * * * * * * *
67542633 GCATATATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTA
1 ATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATATGTAGTACTA
* *
67542698 AATGTAGGCTACTA
66 AGTGCAGGCTACTA
67542712 CGTGTACCAG
Statistics
Matches: 153, Mismatches: 25, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
99 1 0.01
100 70 0.46
101 82 0.54
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (101 bp):
ATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATATGTAGTACTA
AGTGCAGGCTACTATGCGTACCCGATAGTTTCAATC
Found at i:67542684 original size:100 final size:100
Alignment explanation
Indices: 67542435--67542761 Score: 404
Period size: 100 Copynumber: 3.3 Consensus size: 100
67542425 TTAGGTTATG
* * * *
67542435 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * * * ***
67542500 GCGGGCTACTATGCGTACCCGATAGTTTCA-ATCATG
66 GCAGGCTACTATGTGTACCAGATTG-AT-AGGTCGCA
* * *
67542536 TGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAGGTCACGTATGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
67542601 GCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
66 GCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
* * * * *
67542636 TATATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
67542701 GTAGGCTACTACGTGTACCAGATTGATAGGTTGCA
66 GCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
*
67542736 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
67542762 TACGTACCAG
Statistics
Matches: 195, Mismatches: 30, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
99 1 0.01
100 115 0.59
101 79 0.41
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
Found at i:67542772 original size:50 final size:50
Alignment explanation
Indices: 67542435--67542761 Score: 350
Period size: 50 Copynumber: 6.5 Consensus size: 50
67542425 TTAGGTTATG
*
67542435 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * * * * * * ***
67542485 TGTGTAGTACTAAGTGCGGGCTACTATGCGTACCCGATAGTTTCA-ATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-AT-AGGTCGCA
* * * * * * *
67542536 TGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* *
67542586 TATGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * * * * * *
67542636 TATATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
* * *
67542686 TGTGTAGTACTAAATGTAGGCTACTACGTGTACCAGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
*
67542736 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
67542762 TACGTACCAG
Statistics
Matches: 228, Mismatches: 46, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
49 1 0.00
50 190 0.83
51 36 0.16
52 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
Found at i:67543115 original size:25 final size:25
Alignment explanation
Indices: 67543087--67543137 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
67543077 TTATGAGATT
67543087 ATAGCATGATTATATTAGTGTTTGA
1 ATAGCATGATTATATTAGTGTTTGA
67543112 ATAGCATGATTATATTAGTGTTTGA
1 ATAGCATGATTATATTAGTGTTTGA
67543137 A
1 A
67543138 AAAATTGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (25 bp):
ATAGCATGATTATATTAGTGTTTGA
Found at i:67543933 original size:17 final size:17
Alignment explanation
Indices: 67543911--67543944 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
67543901 GTGAAATTAT
67543911 GAATGCCTAATTGTAAC
1 GAATGCCTAATTGTAAC
67543928 GAATGCCTAATTGTAAC
1 GAATGCCTAATTGTAAC
67543945 TAATAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (17 bp):
GAATGCCTAATTGTAAC
Found at i:67544374 original size:94 final size:95
Alignment explanation
Indices: 67544256--67544471 Score: 274
Period size: 94 Copynumber: 2.3 Consensus size: 95
67544246 TTTATGTGAG
* * *
67544256 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATTGAGACAAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACAAGGGCCAGTGTAAGACGTG
* *
67544321 TCTGGGACATGTATCAGCCAC-ATTATGAT
66 TCTGGGACATGCATCAGCCACAATGATGAT
* * * * ** *
67544350 AGCCAGTGCAAGACCATGTCTGGGATATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACAAGGGCCAGTGTAAGACGTG
* *
67544415 TCTGGGACATGCATCAGCCTCAATGATGGT
66 TCTGGGACATGCATCAGCCACAATGATGAT
**
67544445 AGCCAGTGTAAGA-TGTGTCTGGGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACAT
67544472 ACATCGGTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
94 85 0.83
95 18 0.17
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACAAGGGCCAGTGTAAGACGTG
TCTGGGACATGCATCAGCCACAATGATGAT
Found at i:67544417 original size:47 final size:47
Alignment explanation
Indices: 67544308--67544523 Score: 178
Period size: 47 Copynumber: 4.7 Consensus size: 47
67544298 GACAAGGGCT
* * * *
67544308 AGTGTAAGACGTGTCTGGGACATGTATCAGCCAC-ATTATGATAGCC
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGATGGTAGCC
* * * * *
67544354 AGTGCAAGACCATGTCTGGGATATGGCATCGGCGT-AGA-GATGAGT-GCC
1 AGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCCTCA-ATGATG-GTAGCC
67544402 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGATGGTAGCC
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGATGGTAGCC
* * * * * * *
67544449 AGTGTAAGATGTGTCTGGGACATACATC-G-GTTAA-GCTTCGT-GCT
1 AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATG-ATGGTAGCC
*
67544493 AGTGTAAGACTTGTCTGGGACATGCATCAGC
1 AGTGTAAGACGTGTCTGGGACATGCATCAGC
67544524 ACTTATACAC
Statistics
Matches: 135, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 28 0.21
45 7 0.05
46 20 0.15
47 58 0.43
48 20 0.15
49 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGATGGTAGCC
Found at i:67548011 original size:45 final size:46
Alignment explanation
Indices: 67547960--67548130 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 46
67547950 AACCCGCCCC
*
67547960 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
67548005 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATCCA
* * *
67548053 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
67548098 T-AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
67548131 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:67548122 original size:92 final size:92
Alignment explanation
Indices: 67547965--67548133 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
67547955 GCCCCTAAGT
*
67547965 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
67548030 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
67548057 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67548121 CGAGTTCGGATGC
65 CGAGTTCGGATGC
67548134 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 62 0.84
93 12 0.16
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:67548585 original size:30 final size:30
Alignment explanation
Indices: 67548551--67548610 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
67548541 ATTTAATACG
67548551 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
67548581 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
67548611 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:67552789 original size:22 final size:23
Alignment explanation
Indices: 67552747--67552802 Score: 87
Period size: 22 Copynumber: 2.4 Consensus size: 23
67552737 GAATGAGTCT
*
67552747 AGCAATAACATCGGGATCAATCAA
1 AGCAATAACA-CGAGATCAATCAA
67552771 AGCAATAAC-CGAGATCAATCAA
1 AGCAATAACACGAGATCAATCAA
67552793 AGCAATAACA
1 AGCAATAACA
67552803 TTAGTATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 21 0.70
24 9 0.30
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (23 bp):
AGCAATAACACGAGATCAATCAA
Found at i:67555675 original size:47 final size:49
Alignment explanation
Indices: 67555558--67555732 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 49
67555548 AACCCGCCCC
* * * *
67555558 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
67555603 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
67555651 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
67555696 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
67555733 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 32 0.29
46 30 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:67555721 original size:93 final size:92
Alignment explanation
Indices: 67555563--67555732 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
67555553 GCCCCTAAGT
*
67555563 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
67555628 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
67555655 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67555720 CGAGTTCGGATGC
65 CGAGTTCGGATGC
67555733 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:67556184 original size:30 final size:30
Alignment explanation
Indices: 67556150--67556209 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
67556140 ATTTAATACG
67556150 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
67556180 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
67556210 GGCTCGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:67561435 original size:47 final size:47
Alignment explanation
Indices: 67561323--67561491 Score: 152
Period size: 47 Copynumber: 3.6 Consensus size: 47
67561313 GACGAGGGCT
* * * *
67561323 AGTGTAAGACGTGTCTGGGACATGTATCAGCC--ACATTA-CGACAGCC
1 AGTGTAAGACGTGTCTGGGACATGCATCGGCCGTA-ATGATCG-TAGCC
*
67561369 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CGTAGA-GATACGT-GCC
1 AGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCCGTA-ATGAT-CGTAGCC
* * * *
67561417 AGTGTAAGACGTGGCTGGGACATGCATTGGCCTTAATGATGGTAGCC
1 AGTGTAAGACGTGTCTGGGACATGCATCGGCCGTAATGATCGTAGCC
*
67561464 AGTGTAAGACGTGTCTGGGACAAGCATC
1 AGTGTAAGACGTGTCTGGGACATGCATC
67561492 AGCACTTATA
Statistics
Matches: 100, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
46 18 0.18
47 60 0.60
48 18 0.18
49 2 0.02
50 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACGTGTCTGGGACATGCATCGGCCGTAATGATCGTAGCC
Found at i:67578165 original size:40 final size:40
Alignment explanation
Indices: 67578118--67578302 Score: 318
Period size: 40 Copynumber: 4.6 Consensus size: 40
67578108 ACTACTTGCT
*
67578118 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
67578158 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
67578198 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
67578238 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
67578278 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
67578303 TTATCATCCG
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
39 1 0.01
40 138 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:67584560 original size:50 final size:50
Alignment explanation
Indices: 67584437--67584875 Score: 398
Period size: 50 Copynumber: 8.7 Consensus size: 50
67584427 GAGAACATAT
* * *
67584437 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGTCACGTG
* * *
67584489 TGTAGTACGAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * * * * * * *
67584539 TGTAATACTAAGCGCATGCTACTATGCGTACCTGATAGTTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCACGTG
* * * *
67584590 TGTAGTACTAAGTGCAGGCTACGATGTGTATCAGATGGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * *
67584640 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * * * * *
67584690 TGTAGTACTAAGTGTAGGCTATTATGCGTACCA-ATTAACTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGTCACGTG
* * * * *
67584741 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGCCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * * *
67584791 TGTAGTACTAAGTGCAGGCTACTACATCTACCAGATTGATAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * * *
67584841 TGCAGTACAAAGTACAGGCTACTATGCGTACCAGA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
67584876 GAGCTTCGGT
Statistics
Matches: 309, Mismatches: 72, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
48 3 0.01
49 6 0.02
50 200 0.65
51 73 0.24
52 27 0.09
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
Found at i:67584619 original size:101 final size:99
Alignment explanation
Indices: 67584481--67584875 Score: 378
Period size: 101 Copynumber: 3.9 Consensus size: 99
67584471 ACAGTTTTAG
* * *
67584481 GTCACGTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAATA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTA
* * * * *
67584546 CTAAGCGCATGCTACTATGCGTACCTGATAGTTTC
66 CTAAGTGCAGGCTACTACGCGTACCAGATAG-TTA
* * * * *
67584581 GATCACGTGTGTAGTACTAAGTGCAGGCTACGATGTGTATCAGATGGTTAGGTCACGTGTGTAGT
1 G-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGT
* * *
67584646 ACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
65 ACTAAGTGCAGGCTACTACGCGTACCAGATAGTTA
* * * * * * * * * *
67584681 GGTCGCATGTGTAGTACTAAGTGTAGGCTATTATGCGTACCA-ATTAACTTCGATCACGTGTGTA
1 -GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGTCACATGTGTA
* * * *
67584745 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAA
63 GTACTAAGTGCAGGCTACTACGCGTACCAGATAG-TTA
* * * * * *
67584783 GCCACGTGTGTAGTACTAAGTGCAGGCTACTACATCTACCAGATTGATAGGTCGCATGTGCAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTA
* * *
67584848 CAAAGTACAGGCTACTATGCGTACCAGA
66 CTAAGTGCAGGCTACTACGCGTACCAGA
67584876 GAGCTTCGGT
Statistics
Matches: 237, Mismatches: 52, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
99 2 0.01
100 71 0.30
101 160 0.68
102 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (99 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTA
CTAAGTGCAGGCTACTACGCGTACCAGATAGTTA
Found at i:67584716 original size:151 final size:151
Alignment explanation
Indices: 67584437--67584873 Score: 615
Period size: 151 Copynumber: 2.9 Consensus size: 151
67584427 GAGAACATAT
* * * * * *
67584437 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTACGAAGT
1 TGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TG-GTTAGGTCACGTGTGTAGTACTAAGT
* * * *
67584502 GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAATACTAAGCGCATGCTACTATGCG
64 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
* **
67584567 TACCTGA-TAGTTTCGATCACGTG
129 TACC-AATTAACTTCGATCACGTG
*
67584590 TGTAGTACTAAGTGCAGGCTACGATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
* *
67584655 AGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGTAGGCTATTATGCGTA
66 AGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
67584720 CCAATTAACTTCGATCACGTG
131 CCAATTAACTTCGATCACGTG
* * * *
67584741 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGCCACGTGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
* * * * *
67584806 AGGCTACTACATCTACCAGATTGATAGGTCGCATGTGCAGTACAAAGTACAGGCTACTATGCGTA
66 AGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
67584871 CCA
131 CCA
67584874 GAGAGCTTCG
Statistics
Matches: 255, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
150 1 0.00
151 222 0.87
152 1 0.00
153 31 0.12
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGC
AGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
CCAATTAACTTCGATCACGTG
Found at i:67593020 original size:43 final size:43
Alignment explanation
Indices: 67592972--67593069 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
67592962 CTTACATGTT
*
67592972 ATCACATATCGATGCCACTGTCCCACACAGGGTCTTACACGAA
1 ATCACATATCGATGCCAATGTCCCACACAGGGTCTTACACGAA
* * * * * *
67593015 ATCACA-ATACAATGCCAATGTCCTAGACATGGTCTTACATGTA
1 ATCACATAT-CGATGCCAATGTCCCACACAGGGTCTTACACGAA
67593058 ATCACATATCGA
1 ATCACATATCGA
67593070 GTCGATGCCA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.04
43 41 0.91
44 2 0.04
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCACACAGGGTCTTACACGAA
Found at i:67593179 original size:95 final size:97
Alignment explanation
Indices: 67593026--67593202 Score: 270
Period size: 95 Copynumber: 1.8 Consensus size: 97
67593016 TCACAATACA
* * *
67593026 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATATCGAGTCGATGCCATGTCCCAGACA
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AATCACATATCAAGCCGATGCCATGTCCCAGACA
*
67593091 TGGTCTTACACTGGCTCTCCTCTTTCTGTGCCG
65 TGGTCTTACACTAGCTCTCCTCTTTCTGTGCCG
67593124 ATGCC-ATGTCCCAGACATGGTCTTACACTG-A-CACATATCAAGCCGATGCCATGTCCCAGACA
1 ATGCCAATGTCCCAGACATGGTCTTACA-TGAATCACATATCAAGCCGATGCCATGTCCCAGACA
*
67593186 TGGTTTTACACTAGCTC
65 TGGTCTTACACTAGCTC
67593203 ACATGTATTA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 44 0.60
96 1 0.01
97 21 0.29
98 7 0.10
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (97 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAATCACATATCAAGCCGATGCCATGTCCCAGACAT
GGTCTTACACTAGCTCTCCTCTTTCTGTGCCG
Found at i:67593184 original size:45 final size:46
Alignment explanation
Indices: 67593026--67593197 Score: 177
Period size: 50 Copynumber: 3.6 Consensus size: 46
67593016 TCACAATACA
* *
67593026 ATGCCAATGTCCTAGACATGGTCTTACA-TGTAATCACATATCGAGTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACTG-AA-CACATATCGAGCCG
** * * * *
67593074 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTCTTTCTGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-GAAC-AC-ATATC-GAGCCG
*
67593124 ATGCCATGTCCCAGACATGGTCTTACACTG-ACACATATCAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAACACATATCGAGCCG
*
67593169 ATGCCATGTCCCAGACATGGTTTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
67593198 AGCTCACATG
Statistics
Matches: 104, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
45 32 0.31
46 3 0.03
47 23 0.22
48 8 0.08
49 5 0.05
50 33 0.32
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGAACACATATCGAGCCG
Found at i:67596462 original size:18 final size:18
Alignment explanation
Indices: 67596450--67596485 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
67596440 CAAAATTGAT
67596450 ATTTTTGCTAAAATTCAC
1 ATTTTTGCTAAAATTCAC
67596468 ATTTTTGCTAAAATTCAC
1 ATTTTTGCTAAAATTCAC
67596486 TTAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTTTTGCTAAAATTCAC
Found at i:67600994 original size:30 final size:29
Alignment explanation
Indices: 67600960--67601027 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
67600950 GGGGGATGGG
*
67600960 TTTGGGGTAAA-TGGGAGGGACGTAAAAGTT
1 TTTGGGG-AAAGTGAGAGGGA-GTAAAAGTT
67600990 TTTGGGGAAAGTGAGAGGGAGTAAAAG-T
1 TTTGGGGAAAGTGAGAGGGAGTAAAAGTT
*
67601018 TTGGGGGAAA
1 TTTGGGGAAA
67601028 ATAAAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 10 0.29
29 10 0.29
30 15 0.43
ACGTcount: A:0.32, C:0.01, G:0.43, T:0.24
Consensus pattern (29 bp):
TTTGGGGAAAGTGAGAGGGAGTAAAAGTT
Found at i:67601814 original size:82 final size:79
Alignment explanation
Indices: 67601653--67601816 Score: 274
Period size: 82 Copynumber: 2.0 Consensus size: 79
67601643 ATCATCATAA
* *
67601653 CAATTCCTCACCACATATTATAGTTATCAAGATTTGGCATATTAGTACATTTGGAGAACCATACC
1 CAATTCCTCACCACATATTATAGTTATCAAGATTTGGCATATTAGTACATTTGAAGAACCATACA
67601718 ATCAAGACATTTTC
66 ATCAAGACATTTTC
*
67601732 CAATTCCTCACCACATATTATAGTTGATTAAGATTTGGCATATTAGTACATTTATGAAGAACCAT
1 CAATTCCTCACCACATATTATAGTT-ATCAAGATTTGGCATATTAGTACA-TT-TGAAGAACCAT
67601797 ACAATCAAGACATTTTC
63 ACAATCAAGACATTTTC
67601814 CAA
1 CAA
67601817 ACCAAAGTAA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
79 25 0.32
80 23 0.29
81 2 0.03
82 29 0.37
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (79 bp):
CAATTCCTCACCACATATTATAGTTATCAAGATTTGGCATATTAGTACATTTGAAGAACCATACA
ATCAAGACATTTTC
Found at i:67602810 original size:112 final size:107
Alignment explanation
Indices: 67602710--67603058 Score: 321
Period size: 112 Copynumber: 3.1 Consensus size: 107
67602700 AAATTCATTT
* *
67602710 AAAAATTCAATAAAAATATAAAGCTCCAAAAATTTTAAAAAAATTGTTATTT-TTTCTTGAATGG
1 AAAAAATC-ATAAAAATATAAAGCTCCAAAAATTTAAAAAAAATTGTTATTTGTTTCTTGAATGG
* * *
67602774 TAGAATATCTATCTAAATTTTTAAAAAATTCATTTAAAAATTC
65 TAAAATGTCTATCTAAAATTTTAAAAAATTCATTTAAAAATTC
* * ** *
67602817 AATAAAGTCATAAAAAATATAAAAACTCCAAATGTTTAAAACAAAAAACGTGTTATTTGTTTCTT
1 AA-AAAATCAT-AAAAATAT-AAAGCTCCAAAAATTT--AA-AAAAAA-TTGTTATTTGTTTCTT
*
67602882 GAATGGTAAAATGTCTATATAAAATTTTAAGAAACA-T-ATTT-AAAATTC
59 GAATGGTAAAATGTCTATCTAAAATTTTAA-AAA-ATTCATTTAAAAATTC
* * * ** *
67602930 AACAAAA-CTATAAATATATAAAAAGTTTCAAAAACTCAAAAAAAAAATGTGTTATTTGCTTCTT
1 AA-AAAATC-ATAAA-A-ATATAAAGCTCCAAAAA-T-TTAAAAAAAAT-TGTTATTTGTTTCTT
* *
67602994 GAATGGTAAAATGTCTATCTAAAATTTTAAGAAATTCATTTAAAAGTTC
59 GAATGGTAAAATGTCTATCTAAAATTTTAAAAAATTCATTTAAAAATTC
*
67603043 AATAAAATTATAAAAA
1 AA-AAAATCATAAAAA
67603059 GTTTCAAATG
Statistics
Matches: 195, Mismatches: 27, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
107 4 0.02
108 13 0.07
109 13 0.07
110 1 0.01
111 5 0.03
112 64 0.33
113 50 0.26
114 40 0.21
115 4 0.02
116 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (107 bp):
AAAAAATCATAAAAATATAAAGCTCCAAAAATTTAAAAAAAATTGTTATTTGTTTCTTGAATGGT
AAAATGTCTATCTAAAATTTTAAAAAATTCATTTAAAAATTC
Found at i:67602814 original size:99 final size:102
Alignment explanation
Indices: 67602588--67603058 Score: 296
Period size: 112 Copynumber: 4.4 Consensus size: 102
67602578 GTACAAATAA
* ** * *
67602588 AAATTTTAAGAAATTCATTTAAATTTTCAAT-AAAATTTAAAAATATAAAAAATTCAAAAAAAAG
1 AAATTTTAAAAAATTCATTTAAAAATTCAATAAAAATATAAAAATACAAAAAATTCAAAAAAAAG
*
67602652 TGTGTTATTTACTTTTTCAATGGTAAAATGTCTATCTT
66 TGTGTTATTTA-TTTTTCAATGGTAAAATATCTATCTT
** * **
67602690 AAATTTTAAAAAATTCATTTAAAAATTCAATAAAAATATAAAGCT-CCAAAAATTTTAAAAAAA-
1 AAATTTTAAAAAATTCATTTAAAAATTCAATAAAAATATAAAAATACAAAAAATTCAAAAAAAAG
* *
67602753 T-TGTTATTT-TTTCTTGAATGGTAGAATATCTATC-T
66 TGTGTTATTTATTT-TTCAATGGTAAAATATCTATCTT
* * *
67602788 AAATTTTTAAAAAATTCATTTAAAAATTCAATAAAGTCATAAAAAATATAAAAACTCCAAATGTT
1 AAA-TTTTAAAAAATTCATTTAAAAATTCAATAAA--AATATAAAA-ATACAAA----AAA---T
* ** * * * * *
67602853 TAAAACAAAAAACGTGTTATTTGTTTCTTGAATGGTAAAATGTCTATATA
55 TCAAA-AAAAAGTGTGTTATTTATTT-TTCAATGGTAAAATATCTATCTT
*
67602903 AAATTTTAAGAAACA-T-ATTT-AAAATTCAACAAAACTATAAATATATAAAAAGTTTC-AAAAA
1 AAATTTTAA-AAA-ATTCATTTAAAAATT---C--AA-TA-AAA-ATATAAAAA--TACAAAAAA
* * * * * * *
67602964 CTCAAAAAAAAAATGTGTTATTTGCTTCTTGAATGGTAAAATGTCTATCTA
54 TTC-AAAAAAAAGTGTGTTATTT-ATTTTTCAATGGTAAAATATCTATCTT
* * *
67603015 AAATTTTAAGAAATTCATTTAAAAGTTCAATAAAATTATAAAAA
1 AAATTTTAAAAAATTCATTTAAAAATTCAATAAAAATATAAAAA
67603059 GTTTCAAATG
Statistics
Matches: 294, Mismatches: 39, Indels: 69
0.73 0.10 0.17
Matches are distributed among these distances:
98 7 0.02
99 49 0.17
100 8 0.03
101 7 0.02
102 43 0.15
103 12 0.04
105 8 0.03
106 3 0.01
107 5 0.02
108 2 0.01
110 6 0.02
111 8 0.03
112 51 0.17
113 24 0.08
114 32 0.11
115 10 0.03
116 2 0.01
118 3 0.01
119 11 0.04
120 3 0.01
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (102 bp):
AAATTTTAAAAAATTCATTTAAAAATTCAATAAAAATATAAAAATACAAAAAATTCAAAAAAAAG
TGTGTTATTTATTTTTCAATGGTAAAATATCTATCTT
Found at i:67603096 original size:99 final size:104
Alignment explanation
Indices: 67602858--67603115 Score: 296
Period size: 112 Copynumber: 2.4 Consensus size: 104
67602848 ATGTTTAAAA
* *
67602858 CAAAAAACGTGTTATTTGTTTCTTGAATGGTAAAATGTCTATATAAAATTTTAAGAAACATATTT
1 CAAAAAA-GTGTTATTTGCTTCTTGAATGGTAAAATGTCTATCTAAAATTTTAAGAAACATATTT
67602923 AAAATTCAACAAAACTATAAATATATAAAAAGTTTCAAAAACT
65 AAAATT--AC-AAACTATAAATATATAAAAAGTTTCAAAAACT
*
67602966 CAAAAAAAAAATGTGTTATTTGCTTCTTGAATGGTAAAATGTCTATCTAAAATTTTAAGAAA-TT
1 C----AAAAAA-GTGTTATTTGCTTCTTGAATGGTAAAATGTCTATCTAAAATTTTAAGAAACAT
***
67603030 CATTTAAAAGTT-C-AA-TA-AAAT-TATAAAAAGTTTCAAATGTT
61 -ATTTAAAA-TTACAAACTATAAATATATAAAAAGTTTCAAAAACT
* *
67603071 CAAAAAA-TGTTAGTTGCTTCTTGAATGATAAAATGTCTATCTAAA
1 CAAAAAAGTGTTATTTGCTTCTTGAATGGTAAAATGTCTATCTAAA
67603116 GTTTGAAGGA
Statistics
Matches: 135, Mismatches: 9, Indels: 21
0.82 0.05 0.13
Matches are distributed among these distances:
99 36 0.27
101 6 0.04
105 18 0.13
106 4 0.03
107 2 0.01
108 3 0.02
110 1 0.01
111 1 0.01
112 62 0.46
113 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (104 bp):
CAAAAAAGTGTTATTTGCTTCTTGAATGGTAAAATGTCTATCTAAAATTTTAAGAAACATATTTA
AAATTACAAACTATAAATATATAAAAAGTTTCAAAAACT
Found at i:67609995 original size:17 final size:17
Alignment explanation
Indices: 67609973--67610011 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
67609963 ATCATCAAAA
67609973 TAATAATAATAA-ATATT
1 TAATAA-AATAATATATT
67609990 TAATAAAATAATATATT
1 TAATAAAATAATATATT
*
67610007 AAATA
1 TAATA
67610012 TTTTTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAAAATAATATATT
Found at i:67612936 original size:17 final size:16
Alignment explanation
Indices: 67612908--67612960 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
67612898 TTTGGTTCGC
67612908 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
67612924 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
67612941 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
67612957 TGTA
1 TGTA
67612961 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:67613216 original size:18 final size:17
Alignment explanation
Indices: 67613195--67613229 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
67613185 TTATTATTAA
*
67613195 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
67613213 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
67613230 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:67613275 original size:61 final size:61
Alignment explanation
Indices: 67613204--67613400 Score: 163
Period size: 61 Copynumber: 3.3 Consensus size: 61
67613194 AATATATTTT
* * *
67613204 AATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCA
1 AATTATAATATATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTAA
* * * * * * * **
67613265 AATCATAATATATGATACT-ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATATTTT
1 AATTATAATATATAAT-TTAATAAAATTCTTAA--TAATCAAT-ATTATTATATGAATTTACTAA
* * * * *
67613324 AATTAAAATATATATTTTAATAAAATTCTTAATATTAAATATTTTTATATGAATTTACTAA
1 AATTATAATATATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTAA
67613385 AATTATAATATATAAT
1 AATTATAATATATAAT
67613401 AGTATAAAAT
Statistics
Matches: 99, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
58 1 0.01
59 32 0.32
60 17 0.17
61 48 0.48
62 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (61 bp):
AATTATAATATATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTAA
Found at i:67613313 original size:120 final size:120
Alignment explanation
Indices: 67613173--67613439 Score: 444
Period size: 120 Copynumber: 2.2 Consensus size: 120
67613163 ATTTAATCAT
67613173 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
67613238 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
67613294 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATATTTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * *
67613359 TAAATATTTTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
67613414 ATATAACATAATTATTATTAAATATA
1 ATTTAACATAATTATTATTAAATATA
67613440 ATCAATTTTT
Statistics
Matches: 137, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
120 133 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:67613336 original size:18 final size:17
Alignment explanation
Indices: 67613315--67613349 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
67613305 TTATTATTAA
67613315 ATATATTTTAATTAAAAT
1 ATATATTTTAA-TAAAAT
67613333 ATATATTTTAATAAAAT
1 ATATATTTTAATAAAAT
67613350 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATTTTAATAAAAT
Found at i:67615901 original size:18 final size:18
Alignment explanation
Indices: 67615878--67615912 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
67615868 GTTTCAGACG
67615878 TGAGAAAGAAATGAGAAA
1 TGAGAAAGAAATGAGAAA
67615896 TGAGAAAGAAATGAGAA
1 TGAGAAAGAAATGAGAA
67615913 GACGGCTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAATGAGAAA
Found at i:67632519 original size:7 final size:7
Alignment explanation
Indices: 67632509--67632537 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
67632499 CCAATACCAA
67632509 AGAAACC
1 AGAAACC
67632516 AGAAACC
1 AGAAACC
67632523 AGAAACC
1 AGAAACC
67632530 AGAAACC
1 AGAAACC
67632537 A
1 A
67632538 CAAAAGGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.28, G:0.14, T:0.00
Consensus pattern (7 bp):
AGAAACC
Found at i:67636679 original size:21 final size:22
Alignment explanation
Indices: 67636639--67636683 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
67636629 TCGAAACCTG
67636639 GTAAAAGGTATCAATACTTTTT
1 GTAAAAGGTATCAATACTTTTT
* *
67636661 GTAAAA-GTATCGATGCTTTTT
1 GTAAAAGGTATCAATACTTTTT
67636682 GT
1 GT
67636684 GTAATCTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (22 bp):
GTAAAAGGTATCAATACTTTTT
Found at i:67639329 original size:45 final size:45
Alignment explanation
Indices: 67639147--67639358 Score: 257
Period size: 45 Copynumber: 4.7 Consensus size: 45
67639137 TTTTGCAGAT
*
67639147 AAGCTGCTAGTACGGTGTGGATAAACCACTCATTGGTGTAGATAA
1 AAGCTGCTAATACGGTGTGGATAAACCACTCATTGGTGTAGATAA
** * * *
67639192 AAATTGCTAGTACAGTGTGGATAAACCACTCATTGATGTAGATAA
1 AAGCTGCTAATACGGTGTGGATAAACCACTCATTGGTGTAGATAA
* ** * * *
67639237 ATGCTTTTAATATGGTGTGGATAAACCACTCATTGGTGCATATAA
1 AAGCTGCTAATACGGTGTGGATAAACCACTCATTGGTGTAGATAA
67639282 AAGCTGCTAATACGGTGTGGATAAACCACTCATTGGTGTTA-ATAA
1 AAGCTGCTAATACGGTGTGGATAAACCACTCATTGGTG-TAGATAA
* ** *
67639327 AAGCTAC-AATACAATATGGATAAACCACTCAT
1 AAGCTGCTAATACGGTGTGGATAAACCACTCAT
67639359 CCATATAGAT
Statistics
Matches: 142, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
44 22 0.15
45 119 0.84
46 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (45 bp):
AAGCTGCTAATACGGTGTGGATAAACCACTCATTGGTGTAGATAA
Found at i:67639508 original size:34 final size:34
Alignment explanation
Indices: 67639458--67639547 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
67639448 CCCATACAAT
** *
67639458 GCAATATGACATGCTTATAGTAGATCAATACGGTA
1 GCAATA-GACATGCTTATAACAGATCAATACAGTA
* *
67639493 GTAATAGACATGCTTATAACATATCAATACAGTA
1 GCAATAGACATGCTTATAACAGATCAATACAGTA
* *
67639527 GCAATAAACATGCTTACAACA
1 GCAATAGACATGCTTATAACA
67639548 AGTTAGTACG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 42 0.89
35 5 0.11
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
GCAATAGACATGCTTATAACAGATCAATACAGTA
Found at i:67642500 original size:16 final size:16
Alignment explanation
Indices: 67642479--67642510 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67642469 TCGAGTTGAG
*
67642479 AAAATTATTTAATTTA
1 AAAATTAATTAATTTA
67642495 AAAATTAATTAATTTA
1 AAAATTAATTAATTTA
67642511 TGATGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATTAATTAATTTA
Found at i:67645913 original size:5 final size:5
Alignment explanation
Indices: 67645903--67645933 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
67645893 GATACCAACC
67645903 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
67645934 GTTTTGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:67648001 original size:43 final size:43
Alignment explanation
Indices: 67647932--67648094 Score: 213
Period size: 43 Copynumber: 3.8 Consensus size: 43
67647922 CTAAAGGCCA
* ** * *
67647932 TTCCCACAAACGCAGCTAAAGGTCATGGCCTTTAGCGGCGCTT
1 TTCCCACAAACGCCGCTAAAAATCATGACCTTTAACGGCGCTT
* * *
67647975 TTCCCACAAACGTCGCCAAAAATCATGACCTTTAACGGCGTTT
1 TTCCCACAAACGCCGCTAAAAATCATGACCTTTAACGGCGCTT
*
67648018 TTCCCATAAACGCCGCTAAAAATCATGACCTTTAACGGCGC-T
1 TTCCCACAAACGCCGCTAAAAATCATGACCTTTAACGGCGCTT
*
67648060 TTCCCACAAACGCCGCTAAAGATCAT-AGCCTTTAA
1 TTCCCACAAACGCCGCTAAAAATCATGA-CCTTTAA
67648095 AAAAATATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
41 1 0.01
42 32 0.30
43 72 0.69
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (43 bp):
TTCCCACAAACGCCGCTAAAAATCATGACCTTTAACGGCGCTT
Found at i:67648405 original size:31 final size:31
Alignment explanation
Indices: 67648329--67648402 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 31
67648319 TCAAGTTATC
67648329 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATTTAGAA
67648361 TTAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATTTAGAA
67648391 TTAAATATAAAA
1 TTAAATATAAAA
67648403 ATATCAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 11 0.28
31 15 0.38
32 13 0.33
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATTTAGAA
Found at i:67653974 original size:7 final size:7
Alignment explanation
Indices: 67653962--67653993 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
67653952 ATTTATCTCT
67653962 AAACCCC
1 AAACCCC
67653969 AAACCCC
1 AAACCCC
67653976 AAACCCC
1 AAACCCC
*
67653983 AAACCCT
1 AAACCCC
67653990 AAAC
1 AAAC
67653994 TCTAGGCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.50, G:0.00, T:0.03
Consensus pattern (7 bp):
AAACCCC
Found at i:67654090 original size:41 final size:41
Alignment explanation
Indices: 67654045--67654232 Score: 268
Period size: 41 Copynumber: 4.6 Consensus size: 41
67654035 ACTTTTTTGC
* * *
67654045 GGCGTTTTTCAAAAAGCGCAGCTAAAACCTCGATTTATAGT
1 GGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGT
* *
67654086 GGCGTTTTTCCAAAAGCGCCGCTAAAACCTTGATCTATAGC
1 GGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGT
* * * **
67654127 GGCGTTTTTCGAAAAGCGCCACTAAAACCTCAATCTATAAA
1 GGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGT
*
67654168 AGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGT
1 GGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGT
*
67654209 GGCGTTTTTCTAAAAGCGCCGCTA
1 GGCGTTTTTCCAAAAGCGCCGCTA
67654233 TTGTTCAGTT
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 128 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
GGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATAGT
Found at i:67668325 original size:29 final size:29
Alignment explanation
Indices: 67668283--67668341 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
67668273 TAGGTCAGTA
67668283 AGTACTTAAGACTCTTATGATCTGTGTAT
1 AGTACTTAAGACTCTTATGATCTGTGTAT
67668312 AGTACTTAAGACTCTTATGATCTGTGTAT
1 AGTACTTAAGACTCTTATGATCTGTGTAT
67668341 A
1 A
67668342 TAATACACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (29 bp):
AGTACTTAAGACTCTTATGATCTGTGTAT
Found at i:67689036 original size:50 final size:50
Alignment explanation
Indices: 67688927--67689142 Score: 222
Period size: 50 Copynumber: 4.3 Consensus size: 50
67688917 GCTAAATGAC
* * * * * * *
67688927 CTTGTATATTCAGCCACATAGGTATGTACATATGTGATGTTGTA-TTAGGT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTA-AT
* * * *
67688977 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGCGATATTATATTTAAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTATATTT-AAT
* * * * *
67689028 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
*
67689077 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
*
67689127 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
67689143 AATGAGTGAT
Statistics
Matches: 135, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
49 3 0.02
50 127 0.94
51 4 0.03
52 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
Done.