Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 28 of 129
Found at i:5756533 original size:12 final size:12
Alignment explanation
Indices: 5756518--5756547 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5756508 TAAAAAATTA
5756518 TTTTTAATTAAT
1 TTTTTAATTAAT
5756530 TTTTTAATTAAT
1 TTTTTAATTAAT
*
5756542 TATTTA
1 TTTTTA
5756548 TATATGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTTAATTAAT
Found at i:5757460 original size:12 final size:11
Alignment explanation
Indices: 5757433--5757485 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
5757423 AAACATGTTT
5757433 ATAAATAATAA
1 ATAAATAATAA
*
5757444 ATAAATATATCA
1 ATAAATA-ATAA
* *
5757456 ATAAACAACAA
1 ATAAATAATAA
*
5757467 ATAAATTATAA
1 ATAAATAATAA
*
5757478 TTAAATAA
1 ATAAATAA
5757486 ATTTAACAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:5766415 original size:10 final size:11
Alignment explanation
Indices: 5766389--5766415 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5766379 ACTTCAAAGT
5766389 CAAAAAGTTTA
1 CAAAAAGTTTA
5766400 CAAAAAGTTTA
1 CAAAAAGTTTA
5766411 CAAAA
1 CAAAA
5766416 TCAAAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (11 bp):
CAAAAAGTTTA
Found at i:5769265 original size:20 final size:20
Alignment explanation
Indices: 5769219--5769258 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5769209 CTGATGAATG
5769219 ACAAGATCCTCACCAAGTGT
1 ACAAGATCCTCACCAAGTGT
*
5769239 ACAAGATCCTCGCCAAGTGT
1 ACAAGATCCTCACCAAGTGT
5769259 CAAAGATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (20 bp):
ACAAGATCCTCACCAAGTGT
Found at i:5770466 original size:13 final size:14
Alignment explanation
Indices: 5770448--5770477 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
5770438 TATGTATTTC
5770448 AAATAATT-TTAAT
1 AAATAATTATTAAT
5770461 AAATAATTATTAAT
1 AAATAATTATTAAT
5770475 AAA
1 AAA
5770478 ATTTAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATAATTATTAAT
Found at i:5775959 original size:82 final size:82
Alignment explanation
Indices: 5775866--5776030 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
5775856 TAAAAATAAT
*
5775866 TATATAAATTAATTAAATTAAACTTTGGATTGATATTGTTATTATTTACTTTAATTTCTACTTTA
1 TATATAAATTAATTAAATTAAACTTTGGATTGATATTGTTATTATTTACTTTAATCTCTACTTTA
5775931 TCATCACTTGGTTTTAG
66 TCATCACTTGGTTTTAG
*
5775948 TATATAAATTAATTAAATTAAACTTTGGATTGATATTGTTATTATTTACTTTAATCTCTACTTTC
1 TATATAAATTAATTAAATTAAACTTTGGATTGATATTGTTATTATTTACTTTAATCTCTACTTTA
5776013 TCATCACTTGGTTTTAG
66 TCATCACTTGGTTTTAG
5776030 T
1 T
5776031 CTAAACCCAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (82 bp):
TATATAAATTAATTAAATTAAACTTTGGATTGATATTGTTATTATTTACTTTAATCTCTACTTTA
TCATCACTTGGTTTTAG
Found at i:5783335 original size:5 final size:5
Alignment explanation
Indices: 5783309--5783346 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
5783299 TTTGGTATTT
*
5783309 TTTAA TTT-T TTTAA TTTAAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTT-AA TTTAA TTTAA TTTAA TTT
5783347 TTCTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 21 0.72
6 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TTTAA
Found at i:5783472 original size:56 final size:59
Alignment explanation
Indices: 5783383--5783501 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
5783373 AAGTTTTCAA
* *
5783383 AAAAAATATTTTTGAGAAAAAATTAAAAATATCAA-TTTTTT-TAAAAAATAAAATTTT
1 AAAAAATATATTTGAAAAAAAATTAAAAATATCAATTTTTTTATAAAAAATAAAATTTT
**
5783440 AAAAAATATATTT-AAAAAAAATTAAATCTATCAATTTTTTTAATAAAAAATAAAATTTT
1 AAAAAATATATTTGAAAAAAAATTAAAAATATCAATTTTTTT-ATAAAAAATAAAATTTT
5783499 AAA
1 AAA
5783502 GAAAAATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
56 18 0.33
57 18 0.33
59 19 0.35
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (59 bp):
AAAAAATATATTTGAAAAAAAATTAAAAATATCAATTTTTTTATAAAAAATAAAATTTT
Found at i:5784061 original size:22 final size:23
Alignment explanation
Indices: 5784034--5784093 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
5784024 AATAGACATG
5784034 GATTATTTTCATAAAATATTT-T
1 GATTATTTTCATAAAATATTTAT
* *
5784056 GATTATTGTT-A-ATATTATTTAT
1 GATTATT-TTCATAAAATATTTAT
*
5784078 GATTGTTTTCATAAAA
1 GATTATTTTCATAAAA
5784094 ATAATAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
21 9 0.31
22 16 0.55
23 4 0.14
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.53
Consensus pattern (23 bp):
GATTATTTTCATAAAATATTTAT
Found at i:5796035 original size:27 final size:27
Alignment explanation
Indices: 5795986--5796043 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
5795976 TTTGAATATA
* *
5795986 TTTATTATATTTAAATAAGTTTTTATT
1 TTTATTATATTCAAATAAGTTTTTAAT
*
5796013 TTTATTTATATTCGAATAA-TTTTTAAT
1 TTTA-TTATATTCAAATAAGTTTTTAAT
5796040 TTTA
1 TTTA
5796044 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTATTATATTCAAATAAGTTTTTAAT
Found at i:5796125 original size:28 final size:30
Alignment explanation
Indices: 5796072--5796135 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
5796062 ATCAAAGATT
*
5796072 TATTTAGATATAAATTCAAAAATAAATATC
1 TATTTAGATATAAATTCAAAAATAAAAATC
*
5796102 TATTT-GA-ATAAATT-AAAAATTAAAAATT
1 TATTTAGATATAAATTCAAAAA-TAAAAATC
5796130 TATTTA
1 TATTTA
5796136 TTTATCCCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.17
28 18 0.60
29 2 0.07
30 5 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
TATTTAGATATAAATTCAAAAATAAAAATC
Found at i:5806081 original size:16 final size:17
Alignment explanation
Indices: 5806060--5806094 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
5806050 TTAATTTTTC
5806060 TTTTTCTTTTTTTA-AT
1 TTTTTCTTTTTTTATAT
5806076 TTTTTCTTTTTTTATAT
1 TTTTTCTTTTTTTATAT
5806093 TT
1 TT
5806095 AATAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTTTTTATAT
Found at i:5806095 original size:22 final size:22
Alignment explanation
Indices: 5806049--5806097 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
5806039 CATACTACTC
*
5806049 TTTAA-TTTTTCTTTTTCTTTT
1 TTTAATTTTTTCTTTTTCTTTA
5806070 TTTAATTTTTTCTTTTT-TTATA
1 TTTAATTTTTTCTTTTTCTT-TA
5806092 TTTAAT
1 TTTAAT
5806098 AAATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTAATTTTTTCTTTTTCTTTA
Found at i:5806164 original size:2 final size:2
Alignment explanation
Indices: 5806157--5806187 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5806147 AAACTTTCTT
5806157 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5806188 TAGACATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5806936 original size:16 final size:16
Alignment explanation
Indices: 5806910--5806943 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
5806900 ATGCCACATG
5806910 TTTATTTTTTCATTTTT
1 TTTATTTTTTC-TTTTT
5806927 TTTA-TTTTTCTTTTT
1 TTTATTTTTTCTTTTT
5806942 TT
1 TT
5806944 AATATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 6 0.35
17 4 0.24
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTATTTTTTCTTTTT
Found at i:5807055 original size:22 final size:22
Alignment explanation
Indices: 5807029--5807071 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5807019 ACTATTTGAT
5807029 TTTTTTATTTACA-TAATATTTA
1 TTTTTTATTTA-ATTAATATTTA
5807051 TTTTTTATTTAATTAATATTT
1 TTTTTTATTTAATTAATATTT
5807072 TAGAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTTATTTAATTAATATTTA
Found at i:5808113 original size:13 final size:15
Alignment explanation
Indices: 5808087--5808122 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
5808077 TAAATTTTTC
5808087 AAAAA-AAAAGAAT-
1 AAAAATAAAAGAATA
5808100 AAAAATAAAA-AATA
1 AAAAATAAAAGAATA
5808114 AAAAATAAA
1 AAAAATAAA
5808123 TTGGATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAGAATA
Found at i:5811163 original size:32 final size:32
Alignment explanation
Indices: 5811112--5811176 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
5811102 CTATATCTAC
5811112 AAATCCAGAAAACTAATGAG-CATCAAGTCATT
1 AAATCCAGAAAACTAATGAGAC-TCAAGTCATT
* * *
5811144 AAATTCAGACAACTAATGAGACTCCAGTCATT
1 AAATCCAGAAAACTAATGAGACTCAAGTCATT
5811176 A
1 A
5811177 TACAAGTGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (32 bp):
AAATCCAGAAAACTAATGAGACTCAAGTCATT
Found at i:5814747 original size:15 final size:15
Alignment explanation
Indices: 5814720--5814753 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5814710 TAGATTTATT
5814720 AAAATTAATAATTAC
1 AAAATTAATAATTAC
5814735 AAAATATAA-AATTAC
1 AAAAT-TAATAATTAC
5814750 AAAA
1 AAAA
5814754 AAATACACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTAATAATTAC
Found at i:5816086 original size:31 final size:30
Alignment explanation
Indices: 5816025--5816086 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
5816015 GATTTATAAA
* **
5816025 TTTAAATTTAAATTAACTCGAATTTTAATT
1 TTTAAATTTAAATTAACTCGAAATAAAATT
*
5816055 TTTAAATTTAAATTTCACTCGAAATAAAATT
1 TTTAAATTTAAA-TTAACTCGAAATAAAATT
5816086 T
1 T
5816087 AAGTAGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTAAATTTAAATTAACTCGAAATAAAATT
Found at i:5816178 original size:14 final size:14
Alignment explanation
Indices: 5816159--5816192 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
5816149 TTCACAAAAC
5816159 AAAAATAAGAATAA
1 AAAAATAAGAATAA
5816173 AAAAATAAGAATAA
1 AAAAATAAGAATAA
*
5816187 TAAAAT
1 AAAAAT
5816193 TTTTTGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAATAAGAATAA
Found at i:5818817 original size:24 final size:24
Alignment explanation
Indices: 5818764--5818817 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
5818754 TATAATTTTT
** *
5818764 TTATTTTACTAAATTTATTTATAA
1 TTATTTTAAAAAATTTAATTATAA
5818788 TT-TTTTAAAAAATTTAAATTAT-A
1 TTATTTTAAAAAATTT-AATTATAA
5818811 TTATTTT
1 TTATTTT
5818818 TATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTTTAAAAAATTTAATTATAA
Found at i:5827506 original size:30 final size:31
Alignment explanation
Indices: 5827470--5827533 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 31
5827460 TTTTTTTCAC
5827470 TTTTTTTT-A-GAAATAATCTTGATCGTTGA
1 TTTTTTTTGAGGAAATAATCTTGATCGTTGA
* *
5827499 TTTTTTTTGAGGGGCAATAATGTTGATCGTTGA
1 TTTTTTTTGA--GGAAATAATCTTGATCGTTGA
5827532 TT
1 TT
5827534 AAGACGCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 8 0.28
30 1 0.03
33 20 0.69
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.50
Consensus pattern (31 bp):
TTTTTTTTGAGGAAATAATCTTGATCGTTGA
Found at i:5831431 original size:187 final size:187
Alignment explanation
Indices: 5831116--5831494 Score: 749
Period size: 187 Copynumber: 2.0 Consensus size: 187
5831106 TCATTTCTAA
5831116 TATGGACTCTTAGACATCAGAAAATGGGTCATTGCCTCATTGGACAACTTAACTGCACATATACT
1 TATGGACTCTTAGACATCAGAAAATGGGTCATTGCCTCATTGGACAACTTAACTGCACATATACT
5831181 ACCAGCAAAAACAATGCTAAAATCACCAGGCAAGGTGGCTGAAAAGCAAATTCTCTCATGCCGCT
66 ACCAGCAAAAACAATGCTAAAATCACCAGGCAAGGTGGCTGAAAAGCAAATTCTCTCATGCCGCT
5831246 TTCGGCTTTTGCATGTTCTTCTTCCTTTCCTATCTTGTTTGATTCCTCAACACCGTC
131 TTCGGCTTTTGCATGTTCTTCTTCCTTTCCTATCTTGTTTGATTCCTCAACACCGTC
*
5831303 TATGGACTCTTGGACATCAGAAAATGGGTCATTGCCTCATTGGACAACTTAACTGCACATATACT
1 TATGGACTCTTAGACATCAGAAAATGGGTCATTGCCTCATTGGACAACTTAACTGCACATATACT
5831368 ACCAGCAAAAACAATGCTAAAATCACCAGGCAAGGTGGCTGAAAAGCAAATTCTCTCATGCCGCT
66 ACCAGCAAAAACAATGCTAAAATCACCAGGCAAGGTGGCTGAAAAGCAAATTCTCTCATGCCGCT
5831433 TTCGGCTTTTGCATGTTCTTCTTCCTTTCCTATCTTGTTTGATTCCTCAACACCGTC
131 TTCGGCTTTTGCATGTTCTTCTTCCTTTCCTATCTTGTTTGATTCCTCAACACCGTC
5831490 TATGG
1 TATGG
5831495 CTCCTGCAAT
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 191 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (187 bp):
TATGGACTCTTAGACATCAGAAAATGGGTCATTGCCTCATTGGACAACTTAACTGCACATATACT
ACCAGCAAAAACAATGCTAAAATCACCAGGCAAGGTGGCTGAAAAGCAAATTCTCTCATGCCGCT
TTCGGCTTTTGCATGTTCTTCTTCCTTTCCTATCTTGTTTGATTCCTCAACACCGTC
Found at i:5831568 original size:18 final size:18
Alignment explanation
Indices: 5831545--5831579 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5831535 TCTATCGTTA
5831545 GGCAATTGCATGCTTAAT
1 GGCAATTGCATGCTTAAT
5831563 GGCAATTGCATGCTTAA
1 GGCAATTGCATGCTTAA
5831580 AGGGTTATCA
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:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (18 bp):
GGCAATTGCATGCTTAAT
Found at i:5832033 original size:14 final size:15
Alignment explanation
Indices: 5832016--5832046 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
5832006 TATATTTATA
5832016 TAATTATA-ATATTT
1 TAATTATATATATTT
5832030 TAATTATATATATTT
1 TAATTATATATATTT
5832045 TA
1 TA
5832047 GGTTGGACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTATATATATTT
Found at i:5834727 original size:2 final size:2
Alignment explanation
Indices: 5834720--5834747 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5834710 TGCATGAATA
5834720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5834748 TCTGAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5835497 original size:36 final size:35
Alignment explanation
Indices: 5835457--5835575 Score: 85
Period size: 36 Copynumber: 3.1 Consensus size: 35
5835447 ATAATAAAAT
5835457 TTATATTTGATGTATTAATAATGTATAAATTTTATA
1 TTATATTT-ATGTATTAATAATGTATAAATTTTATA
* * * **
5835493 TTATATTATATTCTATTATTATTATGAATAATAATAATATAA
1 TTATATT-TA-TGTATTA--ATAATGTAT-A-AATTTTAT-A
* *
5835535 TTTATATTTAATGTATTAATAATATATAACTTTTATA
1 -TTATATTT-ATGTATTAATAATGTATAAATTTTATA
5835572 TTAT
1 TTAT
5835576 TATTATTATT
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
36 12 0.19
37 8 0.13
38 5 0.08
39 8 0.13
40 7 0.11
41 6 0.10
42 8 0.13
43 8 0.13
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (35 bp):
TTATATTTATGTATTAATAATGTATAAATTTTATA
Found at i:5835537 original size:79 final size:82
Alignment explanation
Indices: 5835441--5835599 Score: 252
Period size: 79 Copynumber: 2.0 Consensus size: 82
5835431 CAAAAATGGG
* *
5835441 ATAATAATAATAAAATTTATATTTGATGTATTAATAATGTATAAATTTTATATTA-TATTA-TAT
1 ATAATAATAATAAAATTTATATTTAATGTATTAATAATATATAAATTTTATATTATTATTATTAT
5835504 T-CTATTATTATTATGA
66 TACTATTATTATTATGA
* *
5835520 ATAATAATAATATAATTTATATTTAATGTATTAATAATATATAACTTTTATATTATTATTATTAT
1 ATAATAATAATAAAATTTATATTTAATGTATTAATAATATATAAATTTTATATTATTATTATTAT
*
5835585 TATTATTATTATTAT
66 TACTATTATTATTAT
5835600 TATTATTATG
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 51 0.71
80 5 0.07
81 4 0.06
82 12 0.17
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (82 bp):
ATAATAATAATAAAATTTATATTTAATGTATTAATAATATATAAATTTTATATTATTATTATTAT
TACTATTATTATTATGA
Found at i:5835576 original size:3 final size:3
Alignment explanation
Indices: 5835570--5835608 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
5835560 ATAACTTTTA
5835570 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5835609 GAAAAAACGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5835763 original size:32 final size:33
Alignment explanation
Indices: 5835707--5835772 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
5835697 TAATATAATG
*
5835707 TAATTATATAATTAAATATAATA-TTAGAGATTA
1 TAATAATATAATTAAATATAATATTTA-AGATTA
*
5835740 TAATAATATAATTGAA-ATAATATTTAAGATTA
1 TAATAATATAATTAAATATAATATTTAAGATTA
5835772 T
1 T
5835773 GATACAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (33 bp):
TAATAATATAATTAAATATAATATTTAAGATTA
Found at i:5853118 original size:3 final size:3
Alignment explanation
Indices: 5853110--5853140 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
5853100 GGCATCTTTA
5853110 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
5853141 GTTTACTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:5876625 original size:15 final size:15
Alignment explanation
Indices: 5876607--5876641 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
5876597 TTCCTTATCA
5876607 TCATCATCGTCATCG
1 TCATCATCGTCATCG
*
5876622 TCATCCTCGTCATCG
1 TCATCATCGTCATCG
5876637 TCATC
1 TCATC
5876642 TTCTTTCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.37, G:0.11, T:0.34
Consensus pattern (15 bp):
TCATCATCGTCATCG
Found at i:5885054 original size:242 final size:241
Alignment explanation
Indices: 5884629--5885111 Score: 815
Period size: 242 Copynumber: 2.0 Consensus size: 241
5884619 AATGTGCTTG
* * * *
5884629 ACTTATGGAGTTTCACAACCAGTTCTAGAAAAGTTTACTGATGTTGACATGATAGGTGATCATGA
1 ACTTATGAAGTTTCACAACCAGTTCTAGAAAAGTTTACTGATGCTGACATGACAGGCGATCATGA
*
5884694 TGGTAGAAAATCTACTTCAGGGTATTTGTTCACTTTTACAGAAAGAGCTGTATCTTGACAATTTA
66 TGATAGAAAATCTACTTCAGGGTATTTGTTCACTTTTACAGAAAGAGCTGTATCTTGACAATTTA
5884759 AGTTACAAAAGTGTGTTGCTTTGTCAACTACAGAGGCTGAGTATGTTGCAGCAACTGAAGCATGT
131 AGTTACAAAAGTGTGTTGCTTTGTCAACTACAGAGGCTGAGTATGTTGCAGCAACTGAAGCATGT
5884824 AAAGAAATACTTTGGATGGAACGTTTTCTTTTTGAATTGGGGTTGAA
196 AAAGAAATACTTTGGATGGAACGTTTTCTTTTTGAATT-GGGTTGAA
** * * *
5884871 ACTTATGAAGTTTCACAACCAGTTCTAGAAGGGTTTACTGATGCTGGCATGGCAGGCGATCTTGA
1 ACTTATGAAGTTTCACAACCAGTTCTAGAAAAGTTTACTGATGCTGACATGACAGGCGATCATGA
*
5884936 TGATAGAAAATCTACTTCAGGGTATTTGTTCACTTTTACAG-GAGAAGCTGTATCTTGACAATTT
66 TGATAGAAAATCTACTTCAGGGTATTTGTTCACTTTTACAGAAAG-AGCTGTATCTTGACAATTT
* *
5885000 AAGTTGCAGAAGTGTGTTGCTTTGTCAACTACAGAGGCTGAGTATGTTGCAGCAACTGAAGCATG
130 AAGTTACAAAAGTGTGTTGCTTTGTCAACTACAGAGGCTGAGTATGTTGCAGCAACTGAAGCATG
*
5885065 TAAAGAAATGCTTTGGATGGAACGTTTTCTTTTTGAATTGGGTTGAA
195 TAAAGAAATACTTTGGATGGAACGTTTTCTTTTTGAATTGGGTTGAA
5885112 TCAGAAAGAC
Statistics
Matches: 226, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
241 10 0.04
242 216 0.96
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (241 bp):
ACTTATGAAGTTTCACAACCAGTTCTAGAAAAGTTTACTGATGCTGACATGACAGGCGATCATGA
TGATAGAAAATCTACTTCAGGGTATTTGTTCACTTTTACAGAAAGAGCTGTATCTTGACAATTTA
AGTTACAAAAGTGTGTTGCTTTGTCAACTACAGAGGCTGAGTATGTTGCAGCAACTGAAGCATGT
AAAGAAATACTTTGGATGGAACGTTTTCTTTTTGAATTGGGTTGAA
Found at i:5886870 original size:27 final size:26
Alignment explanation
Indices: 5886830--5886887 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
5886820 ATAAAATAAA
*
5886830 ATAATATTATTTTATTTAATTATATTC
1 ATAATATTAATTTATTTAATTATA-TC
* *
5886857 ATAATATTAATTTATTTTATTTTATC
1 ATAATATTAATTTATTTAATTATATC
5886883 ATAAT
1 ATAAT
5886888 CTTATGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (26 bp):
ATAATATTAATTTATTTAATTATATC
Found at i:5900865 original size:2 final size:2
Alignment explanation
Indices: 5900848--5900885 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
5900838 TTAATATAGT
* *
5900848 TA TA TA -A TA TA AA TA TA TA TA AA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5900886 TAAATACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:5900869 original size:10 final size:10
Alignment explanation
Indices: 5900849--5900901 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
5900839 TAATATAGTT
5900849 ATATAATATAA
1 ATAT-ATATAA
5900860 ATATATATAA
1 ATATATATAA
*
5900870 ATATATATAT
1 ATATATATAA
5900880 ATATAT-TAA
1 ATATATATAA
*
5900889 ATACATATTAA
1 ATATATA-TAA
5900900 AT
1 AT
5900902 GAATATTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 7 0.19
10 21 0.57
11 9 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATATAA
Found at i:5900882 original size:29 final size:30
Alignment explanation
Indices: 5900840--5900901 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
5900830 ACCAAAAATT
*
5900840 AATATAGTTATATA-ATATAAATATATA-TA
1 AATATAGTTATATATAT-TAAATACATATTA
5900869 AATATA-TATATATATATTAAATACATATTA
1 AATATAGT-TATATATATTAAATACATATTA
5900899 AAT
1 AAT
5900902 GAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 1 0.03
29 21 0.72
30 7 0.24
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
AATATAGTTATATATATTAAATACATATTA
Found at i:5904150 original size:5 final size:5
Alignment explanation
Indices: 5904140--5904188 Score: 66
Period size: 5 Copynumber: 10.0 Consensus size: 5
5904130 TAATAAGAGT
*
5904140 AAATA AAATA AAATA AAATA AAAT- AAATA AAA-A GAATA AAATCA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A AAATA
5904189 GAAAATGGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 7 0.18
5 27 0.69
6 5 0.13
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:5904167 original size:9 final size:10
Alignment explanation
Indices: 5904140--5904188 Score: 66
Period size: 9 Copynumber: 5.0 Consensus size: 10
5904130 TAATAAGAGT
5904140 AAATAAAATA
1 AAATAAAATA
5904150 AAATAAAATA
1 AAATAAAATA
5904160 AAAT-AAATA
1 AAATAAAATA
*
5904169 AAA-AGAATA
1 AAATAAAATA
5904178 AAATCAAAATA
1 AAAT-AAAATA
5904189 GAAAATGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 15 0.44
10 14 0.41
11 5 0.15
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (10 bp):
AAATAAAATA
Found at i:5904171 original size:24 final size:24
Alignment explanation
Indices: 5904139--5904188 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5904129 ATAATAAGAG
5904139 TAAATAAAATAAAATAAAAT-AAAA
1 TAAATAAAA-AAAATAAAATCAAAA
*
5904163 TAAATAAAAAGAATAAAATCAAAA
1 TAAATAAAAAAAATAAAATCAAAA
5904187 TA
1 TA
5904189 GAAAATGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (24 bp):
TAAATAAAAAAAATAAAATCAAAA
Found at i:5907601 original size:14 final size:14
Alignment explanation
Indices: 5907572--5907611 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
5907562 GTAATACACA
*
5907572 ATTTAATATAATAAC
1 ATTTAA-ATTATAAC
5907587 ATTTAAATTATAAC
1 ATTTAAATTATAAC
5907601 ATTTAAATTAT
1 ATTTAAATTAT
5907612 TTAGTACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTAAATTATAAC
Found at i:5907880 original size:25 final size:23
Alignment explanation
Indices: 5907835--5907884 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
5907825 CTTCCTTGTC
* *
5907835 ATTTTCAAAGTTTATCTCAAACA
1 ATTTTCAAAGTTTAGCCCAAACA
5907858 ATTTTGCAAAGTTTTAGCCCAAACA
1 ATTTT-CAAAG-TTTAGCCCAAACA
5907883 AT
1 AT
5907885 GGGAGGTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 5 0.22
25 13 0.57
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (23 bp):
ATTTTCAAAGTTTAGCCCAAACA
Found at i:5909114 original size:16 final size:17
Alignment explanation
Indices: 5909063--5909116 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
5909053 AAATTTTTTT
*
5909063 AAATAAAAGAAAATCAAA
1 AAATAAAATAAAAT-AAA
* *
5909081 ATATAAAAT-AATTAAA
1 AAATAAAATAAAATAAA
5909097 AAATAAAATAAAATAAA
1 AAATAAAATAAAATAAA
5909114 AAA
1 AAA
5909117 CTTGTGATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 11 0.37
17 12 0.40
18 7 0.23
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAAATAAA
Found at i:5909880 original size:6 final size:6
Alignment explanation
Indices: 5909866--5909943 Score: 61
Period size: 6 Copynumber: 13.2 Consensus size: 6
5909856 GTTAAGAAAG
* * *
5909866 AAAATA AAAACA AAAATA AAAA-A ATAAA-A ATAATA AAAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA
* * * * *
5909913 ATAATA ATAATA ATAATA ATAATA ATAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A
5909944 TAAGTAGTAG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
5 4 0.06
6 61 0.94
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:5909887 original size:7 final size:8
Alignment explanation
Indices: 5909877--5909910 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
5909867 AAATAAAAAC
5909877 AAAAATAA
1 AAAAATAA
5909885 AAAAATAA
1 AAAAATAA
5909893 AAATAATAA
1 AAA-AATAA
5909902 AAATAATAA
1 AAA-AATAA
5909911 TAATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 11 0.44
9 14 0.56
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAAATAA
Found at i:5909900 original size:3 final size:3
Alignment explanation
Indices: 5909888--5909946 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
5909878 AAAATAAAAA
* *
5909888 AAT AAA AAT AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5909936 AAT AAT AAT AA
1 AAT AAT AAT AA
5909947 GTAGTAGTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:5909911 original size:12 final size:12
Alignment explanation
Indices: 5909866--5909946 Score: 85
Period size: 12 Copynumber: 6.8 Consensus size: 12
5909856 GTTAAGAAAG
* *
5909866 AAAATAAAAACA
1 AAAATAATAATA
5909878 AAAATAA-AA-A
1 AAAATAATAATA
*
5909888 AATAAAAATAATA
1 AA-AATAATAATA
5909901 AAAATAATAATA
1 AAAATAATAATA
*
5909913 ATAATAATAATA
1 AAAATAATAATA
*
5909925 ATAATAATAATA
1 AAAATAATAATA
*
5909937 ATAATAATAA
1 AAAATAATAA
5909947 GTAGTAGTAG
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
10 3 0.05
11 6 0.10
12 51 0.81
13 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATAATAATA
Found at i:5909965 original size:21 final size:21
Alignment explanation
Indices: 5909951--5910002 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
5909941 TAATAAGTAG
*
5909951 TAGTAGTAATGTAATATACTA
1 TAGTAGTAATATAATATACTA
5909972 TAGTAGTAATATAATATACTA
1 TAGTAGTAATATAATATACTA
*
5909993 TAATA-TAATA
1 TAGTAGTAATA
5910003 ACACAATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (21 bp):
TAGTAGTAATATAATATACTA
Found at i:5909965 original size:24 final size:22
Alignment explanation
Indices: 5909908--5910002 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 22
5909898 ATAAAAATAA
* * *
5909908 TAATAATAATAATAATAATAATAA
1 TAAT-ATAATAATACT-ATAGTAG
*
5909932 TAATAATAATAATAAGTAGTAGTAG
1 TAAT-ATAATAAT-ACTA-TAGTAG
*
5909957 TAATGTAAT-ATACTATAGTAG
1 TAATATAATAATACTATAGTAG
*
5909978 TAATATAAT-ATACTATAATA-
1 TAATATAATAATACTATAGTAG
5909998 TAATA
1 TAATA
5910003 ACACAATAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
20 5 0.08
21 24 0.39
22 3 0.05
23 2 0.03
24 18 0.29
25 10 0.16
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
TAATATAATAATACTATAGTAG
Found at i:5909982 original size:16 final size:16
Alignment explanation
Indices: 5909961--5910002 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
5909951 TAGTAGTAAT
* *
5909961 GTAATATACTATAGTA
1 GTAATATAATATACTA
5909977 GTAATATAATATACTA
1 GTAATATAATATACTA
5909993 -TAATATAATA
1 GTAATATAATA
5910003 ACACAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (16 bp):
GTAATATAATATACTA
Found at i:5910660 original size:120 final size:120
Alignment explanation
Indices: 5910522--5910739 Score: 267
Period size: 120 Copynumber: 1.8 Consensus size: 120
5910512 TCATGAGTAA
* * ** * *
5910522 AAAAAATGATTTGGATTGAGTCGAAATTGAATAACTAAGA-ATGAACCATAAGTCTAAAAGATAA
1 AAAAAATGATCTGAATTGAGTCGAAACCGAATAACTAAGACA-AAACCATAACTCTAAAAGATAA
* * * *
5910586 AATGATCAAGATTGAGTCGAGGTCAAAGATGAATGATTGAGACTAAATTACAAGTC
65 AATGACCAAGATCGAATCAAGGTCAAAGATGAATGATTGAGACTAAATTACAAGTC
* * * * **
5910642 AAAAAATGATCTGAATTGAGTTGAGACCGGATAACTAGGACAAAACTGTAACTCTAAAAGATAAA
1 AAAAAATGATCTGAATTGAGTCGAAACCGAATAACTAAGACAAAACCATAACTCTAAAAGATAAA
*
5910707 ATGACCAAGATCGAATCAAGGTCGAAGATGAAT
66 ATGACCAAGATCGAATCAAGGTCAAAGATGAAT
5910740 AACTGAGATG
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
120 79 0.99
121 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (120 bp):
AAAAAATGATCTGAATTGAGTCGAAACCGAATAACTAAGACAAAACCATAACTCTAAAAGATAAA
ATGACCAAGATCGAATCAAGGTCAAAGATGAATGATTGAGACTAAATTACAAGTC
Found at i:5910801 original size:66 final size:66
Alignment explanation
Indices: 5910722--5910885 Score: 211
Period size: 66 Copynumber: 2.5 Consensus size: 66
5910712 CAAGATCGAA
* **
5910722 TCAAGGTCGAAGATGAATAACTGAGATGAAATCACGAGTCTAAAAGATGAAGCAACCAGGACTAA
1 TCAAGGTTGAAGATGAATAACCAAGATGAAATCACGAGTCTAAAAGATGAAGCAACCAGGACTAA
5910787 G
66 G
* ** * * *
5910788 TCGAGGTTGAAGATGAATAACCAAGATGAAATCGTGAGTCTAAAAGATGAAGCTACTAGGATTAA
1 TCAAGGTTGAAGATGAATAACCAAGATGAAATCACGAGTCTAAAAGATGAAGCAACCAGGACTAA
5910853 G
66 G
* * * *
5910854 TCAAGATTGAAGATGAATGATCAAGATAAAAT
1 TCAAGGTTGAAGATGAATAACCAAGATGAAAT
5910886 TACAAGTCAA
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 84 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.21
Consensus pattern (66 bp):
TCAAGGTTGAAGATGAATAACCAAGATGAAATCACGAGTCTAAAAGATGAAGCAACCAGGACTAA
G
Found at i:5911164 original size:121 final size:121
Alignment explanation
Indices: 5910863--5911164 Score: 347
Period size: 121 Copynumber: 2.5 Consensus size: 121
5910853 GTCAAGATTG
* * * * * *
5910863 AAGATGAATGATCAAGATAAAATTACAAGTCAAAAAAATG-TTCTAGATTGAGTCGAGATAGAAT
1 AAGATGAATGACCGAGATGAAATTACAAGTCAAAAAAATGATT-TGGACTGAGTCGAGATCGAAT
* ** * *
5910927 GACTATGATGAAATCACGAGTCTAAAAGATGAAGAGATCGAGATCAAGTTGAGGTAA
65 GACTAAGACAAAATCACGAGTCTAAAAGATAAAGAGATCGAGAACAAGTTGAGGTAA
* * * * * * *
5910984 AAAATAAATGACTGAGATGAAATTACAAGTCAGAAAGATAATTTGGACTGAGTCGAGATCGGATG
1 AAGATGAATGACCGAGATGAAATTACAAGTCAAAAAAATGATTTGGACTGAGTCGAGATCGAATG
* ** * *
5911049 ATTAAGACAAAATCGTGAGTCTAAAAGATAAAGCGATC-AGAACTAAGTTGAGGTCA
66 ACTAAGACAAAATCACGAGTCTAAAAGATAAAGAGATCGAGAAC-AAGTTGAGGTAA
* *
5911105 AAGATGAATGACCGAGATGAAACTACAAGTCAAAAAAATGATTTGGACTGAGTCAAGATC
1 AAGATGAATGACCGAGATGAAATTACAAGTCAAAAAAATGATTTGGACTGAGTCGAGATC
5911165 AAATTGGTGA
Statistics
Matches: 148, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
120 4 0.03
121 142 0.96
122 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.22
Consensus pattern (121 bp):
AAGATGAATGACCGAGATGAAATTACAAGTCAAAAAAATGATTTGGACTGAGTCGAGATCGAATG
ACTAAGACAAAATCACGAGTCTAAAAGATAAAGAGATCGAGAACAAGTTGAGGTAA
Found at i:5911922 original size:18 final size:18
Alignment explanation
Indices: 5911901--5911943 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
5911891 AATTTAAGTA
*
5911901 TTTTTTTCCTCTTTTTGT-
1 TTTTTTTCCT-TTTTTCTC
5911919 TTTTTTTCCTTTTTTCTC
1 TTTTTTTCCTTTTTTCTC
5911937 TTTTTTT
1 TTTTTTT
5911944 TTGCACACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTCCTTTTTTCTC
Found at i:5918594 original size:5 final size:5
Alignment explanation
Indices: 5918584--5918681 Score: 103
Period size: 5 Copynumber: 18.8 Consensus size: 5
5918574 AAATTTTTTA
5918584 AAAAT AAAAT AAAAT AAAAT AAAAT CAAAATAT AAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT --AAA-AT AAAAT -AAAAT AAAAT
*
5918633 AAAAT AAAAAT AAAAAT AAAAT -AAA- AAACT AAAA- AAAAT AAAAAT
1 AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
5918678 AAAA
1 AAAA
5918682 ATGAAAAAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
4 9 0.11
5 44 0.54
6 24 0.29
7 3 0.04
8 2 0.02
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:5918667 original size:8 final size:7
Alignment explanation
Indices: 5918589--5918682 Score: 56
Period size: 7 Copynumber: 13.4 Consensus size: 7
5918579 TTTTAAAAAT
5918589 AAAATAA
1 AAAATAA
5918596 AATAA-AA
1 AA-AATAA
*
5918603 TAAAAT-C
1 -AAAATAA
*
5918610 AAAATAT
1 AAAATAA
5918617 AAAAT-A
1 AAAATAA
5918623 AAAATAA
1 AAAATAA
*
5918630 AATAAAATA
1 AA-AATA-A
5918639 AAAAT-A
1 AAAATAA
5918645 AAAAT--
1 AAAATAA
5918650 AAAATAA
1 AAAATAA
5918657 AAAACTAA
1 AAAA-TAA
*
5918665 AAAAAATA
1 AAAATA-A
5918673 AAAATAA
1 AAAATAA
5918680 AAA
1 AAA
5918683 TGAAAAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
5 5 0.07
6 16 0.23
7 23 0.33
8 22 0.32
9 3 0.04
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAATAA
Found at i:5918677 original size:34 final size:33
Alignment explanation
Indices: 5918589--5918692 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 33
5918579 TTTTAAAAAT
5918589 AAAATAAAATAAAAT-AAAATCAAAATATAAAAT-A
1 AAAATAAAA-AAAATAAAAAT-AAAA-ATAAAATAA
5918623 AAAATAAAATAAAATAAAAATAAAAATAAAATAA
1 AAAATAAAA-AAAATAAAAATAAAAATAAAATAA
*
5918657 AAAACTAAAAAAAATAAAAATAAAAATGAAA-AA
1 AAAA-TAAAAAAAATAAAAATAAAAATAAAATAA
5918690 AAA
1 AAA
5918693 CCTACGATCG
Statistics
Matches: 66, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
33 12 0.18
34 44 0.67
35 10 0.15
ACGTcount: A:0.81, C:0.02, G:0.01, T:0.16
Consensus pattern (33 bp):
AAAATAAAAAAAATAAAAATAAAAATAAAATAA
Found at i:5918688 original size:7 final size:6
Alignment explanation
Indices: 5918582--5918689 Score: 108
Period size: 6 Copynumber: 19.0 Consensus size: 6
5918572 AAAAATTTTT
*
5918582 TAAAAA T-AAAA T-AAAA T-AAAA T-AAAA TCAAAA TATAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA
*
5918627 T-AAAA T-AAAA TAAAAA TAAAAA T-AAAA TAAAAA -ACTAAA -AAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA
5918671 TAAAAA TAAAAA TGAAAAA
1 TAAAAA TAAAAA T-AAAAA
5918690 AAACCTACGA
Statistics
Matches: 92, Mismatches: 3, Indels: 13
0.85 0.03 0.12
Matches are distributed among these distances:
5 39 0.42
6 42 0.46
7 11 0.12
ACGTcount: A:0.80, C:0.02, G:0.01, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:5918987 original size:12 final size:12
Alignment explanation
Indices: 5918970--5918994 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5918960 CAAACCCTCG
5918970 TTGAAAAATTCA
1 TTGAAAAATTCA
5918982 TTGAAAAATTCA
1 TTGAAAAATTCA
5918994 T
1 T
5918995 ATGTTCTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TTGAAAAATTCA
Found at i:5919499 original size:3 final size:3
Alignment explanation
Indices: 5919491--5919531 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
5919481 AAGAAAAATA
5919491 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5919532 AACATAGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5919590 original size:5 final size:5
Alignment explanation
Indices: 5919495--5919696 Score: 92
Period size: 5 Copynumber: 39.2 Consensus size: 5
5919485 AAAATAAATA
* * * **
5919495 ATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AAAAC ATAGT ATGGT
1 ATAAT -ATAAT -ATAAT -ATAAT -ATAAT -ATAAT ATAAT ATAAT ATAAT
* * * * *
5919545 ATAAT ATGAT ATAAT AATAAT AGTAGT AGTAAT GTAAT ATACT ATAGT
1 ATAAT ATAAT ATAAT -ATAAT A-TAAT A-TAAT ATAAT ATAAT ATAAT
* *
5919593 AGTAAT ATAAT ATACT ATAAT AT-A- ATAAT ACAAT AGTAAT GATAAT
1 A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT -ATAAT
* * * * * *
5919639 AT-A- ATAAT ATGAT ACAAT ATAAT ATAGT ATAGT ATGAT AATAAT AT--G
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
5919686 ATAAT ATAAT A
1 ATAAT ATAAT A
5919697 ATGTGATAAT
Statistics
Matches: 153, Mismatches: 31, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
3 6 0.04
4 4 0.03
5 85 0.56
6 57 0.37
7 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:5919594 original size:21 final size:21
Alignment explanation
Indices: 5919553--5919619 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
5919543 GTATAATATG
*
5919553 ATATAATAATAATAGTAGTAGTA
1 ATATAAT-ATACTA-TAGTAGTA
*
5919576 ATGTAATATACTATAGTAGTA
1 ATATAATATACTATAGTAGTA
*
5919597 ATATAATATACTATAATA-TA
1 ATATAATATACTATAGTAGTA
5919617 ATA
1 ATA
5919620 ATACAATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 5 0.12
21 24 0.60
22 5 0.12
23 6 0.15
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (21 bp):
ATATAATATACTATAGTAGTA
Found at i:5919705 original size:8 final size:8
Alignment explanation
Indices: 5919631--5919707 Score: 50
Period size: 8 Copynumber: 9.1 Consensus size: 8
5919621 TACAATAGTA
5919631 ATGATAAT
1 ATGATAAT
*
5919639 ATAATAAT
1 ATGATAAT
5919647 ATGATACA-
1 ATGATA-AT
5919655 AT-ATAAT
1 ATGATAAT
5919662 ATAGTATAGTAT
1 AT-G-ATA--AT
*
5919674 GATAATAAT
1 -ATGATAAT
5919683 ATGATAAT
1 ATGATAAT
*
5919691 ATAATAAT
1 ATGATAAT
*
5919699 GTGATAAT
1 ATGATAAT
5919707 A
1 A
5919708 ACAAAATAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
6 1 0.02
7 5 0.09
8 34 0.64
9 3 0.06
10 3 0.06
11 3 0.06
12 2 0.04
13 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.36
Consensus pattern (8 bp):
ATGATAAT
Found at i:5921865 original size:6 final size:6
Alignment explanation
Indices: 5921802--5921835 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
5921792 TAGAATGGGG
* *
5921802 GAAAAA GAAAAT GAAAAT GGAAAT GAAAAT GAAA
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAA
5921836 GATAAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.12
Consensus pattern (6 bp):
GAAAAT
Found at i:5922145 original size:23 final size:22
Alignment explanation
Indices: 5922098--5922147 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
5922088 TCTATCTTTT
*
5922098 TTTTAAAATTTAATTTAATCAA
1 TTTTAAAATTTAATTTAAACAA
*
5922120 TTTTAATAATTTTATTTACAAC-A
1 TTTTAA-AATTTAATTTA-AACAA
5922143 TTTTA
1 TTTTA
5922148 GTTTACAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 16 0.67
24 2 0.08
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTAAAATTTAATTTAAACAA
Found at i:5923295 original size:9 final size:8
Alignment explanation
Indices: 5923269--5923315 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
5923259 TTTATGATTA
5923269 AAAAAATT
1 AAAAAATT
**
5923277 AATTAATT
1 AAAAAATT
5923285 AAAAAATTT
1 AAAAAA-TT
5923294 AAAAAGATT
1 AAAAA-ATT
5923303 -AAAAATT
1 AAAAAATT
5923310 AAAAAA
1 AAAAAA
5923316 AAAAGAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 3 0.09
8 19 0.59
9 9 0.28
10 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (8 bp):
AAAAAATT
Found at i:5923316 original size:26 final size:26
Alignment explanation
Indices: 5923266--5923315 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
5923256 TTCTTTATGA
*
5923266 TTAAAAAAATTAATTAATTAAAAAAT
1 TTAAAAAAATTAATAAATTAAAAAAT
*
5923292 TTAAAAAGATTAA-AAATTAAAAAA
1 TTAAAAAAATTAATAAATTAAAAAA
5923316 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (26 bp):
TTAAAAAAATTAATAAATTAAAAAAT
Found at i:5923357 original size:16 final size:16
Alignment explanation
Indices: 5923338--5923375 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
5923328 GAAGACAAAC
5923338 AGAAAAGCCAAACAGA
1 AGAAAAGCCAAACAGA
* *
5923354 AGAAAATCCAAATAGA
1 AGAAAAGCCAAACAGA
5923370 AGAAAA
1 AGAAAA
5923376 AATGATTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.66, C:0.13, G:0.16, T:0.05
Consensus pattern (16 bp):
AGAAAAGCCAAACAGA
Found at i:5927030 original size:16 final size:17
Alignment explanation
Indices: 5926989--5927030 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
5926979 ATATTCATTT
5926989 TATTATACATATTTACA
1 TATTATACATATTTACA
*
5927006 TATTA-ACATATTTATA
1 TATTATACATATTTACA
5927022 -ATTATACAT
1 TATTATACAT
5927031 TTTGATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 14 0.61
17 5 0.22
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTATACATATTTACA
Found at i:5928868 original size:2 final size:2
Alignment explanation
Indices: 5928861--5928889 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5928851 ATTCAATTTC
5928861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5928890 AAACAGGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5930529 original size:21 final size:23
Alignment explanation
Indices: 5930474--5930535 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 23
5930464 ATCATCATGT
5930474 AAATAATACCATGCAA-TAATAATA
1 AAATAAT--CATGCAATTAATAATA
5930498 AAATAAT-ATGCAATTAAT-ATA
1 AAATAATCATGCAATTAATAATA
*
5930519 AACT-ATCATGCAATTAA
1 AAATAATCATGCAATTAA
5930536 AAGGAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 2 0.06
21 22 0.63
22 4 0.11
24 7 0.20
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (23 bp):
AAATAATCATGCAATTAATAATA
Found at i:5930546 original size:21 final size:21
Alignment explanation
Indices: 5930505--5930552 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
5930495 ATAAAATAAT
* *
5930505 ATGCAATTAATATAAACTATC
1 ATGCAATTAAAAGAAACTATC
5930526 ATGCAATTAAAAGGAAA-TATC
1 ATGCAATTAAAA-GAAACTATC
*
5930547 AAGCAA
1 ATGCAA
5930553 ATTGATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.25
Consensus pattern (21 bp):
ATGCAATTAAAAGAAACTATC
Found at i:5931133 original size:20 final size:20
Alignment explanation
Indices: 5931108--5931146 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5931098 CACTTCCTCA
5931108 AAAAATTCAAACATTCAACG
1 AAAAATTCAAACATTCAACG
*
5931128 AAAAATTCAAAGATTCAAC
1 AAAAATTCAAACATTCAAC
5931147 CTAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAATTCAAACATTCAACG
Found at i:5932799 original size:45 final size:44
Alignment explanation
Indices: 5932726--5932889 Score: 154
Period size: 44 Copynumber: 3.7 Consensus size: 44
5932716 AAAAAAAAAA
* * * * *
5932726 TAGAGGTTCACACCCAAAAGTT-AAAGATTTTTGTTTGAAAAACT
1 TAGAGATTCACA-TCAAAATTTCAAAGATTTTTATTTAAAAAACT
* **
5932770 TAGGGATTCACATCCAAAATTTCAAAGATTCATATTTAAAAAACTT
1 TAGAGATTCACAT-CAAAATTTCAAAGATTTTTATTTAAAAAAC-T
* *
5932816 TAGAGATTCACAT-AAGAATTTC-AAGTTTTTTATTCAAAAAACT
1 TAGAGATTCACATCAA-AATTTCAAAGATTTTTATTTAAAAAACT
* *
5932859 TAGAGATTCATATAAAAATTTTCAAAGATTT
1 TAGAGATTCACATCAAAA-TTTCAAAGATTT
5932890 GAAAATCTTA
Statistics
Matches: 98, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
43 15 0.15
44 41 0.42
45 29 0.30
46 13 0.13
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (44 bp):
TAGAGATTCACATCAAAATTTCAAAGATTTTTATTTAAAAAACT
Found at i:5932964 original size:22 final size:21
Alignment explanation
Indices: 5932891--5932964 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
5932881 CAAAGATTTG
* * *
5932891 AAAATCTTAGTATTTTACAACC
1 AAAATTTTAGAATTTCAC-ACC
* *
5932913 AAAATTTTAAAATTTCCCACC
1 AAAATTTTAGAATTTCACACC
*
5932934 TGAAAATTTTAGGATTTCACATCC
1 --AAAATTTTAGAATTTCACA-CC
5932958 AAAATTT
1 AAAATTT
5932965 CAAAGCTTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
21 3 0.07
22 20 0.49
23 16 0.39
24 2 0.05
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAATTTTAGAATTTCACACC
Found at i:5933016 original size:21 final size:21
Alignment explanation
Indices: 5932949--5933017 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 21
5932939 ATTTTAGGAT
*
5932949 TTCACATCCAAAATTTCAAAGC
1 TTCACATCCAAAATTT-AAAGA
** * *
5932971 TTCACATTTAAAAAATTAGAGA
1 TTCACA-TCCAAAATTTAAAGA
*
5932993 TTCACATCCACAATTTAAAGA
1 TTCACATCCAAAATTTAAAGA
5933014 TTCA
1 TTCA
5933018 TTTTCAAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
21 14 0.39
22 15 0.42
23 7 0.19
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.30
Consensus pattern (21 bp):
TTCACATCCAAAATTTAAAGA
Found at i:5939034 original size:42 final size:43
Alignment explanation
Indices: 5938949--5939068 Score: 139
Period size: 42 Copynumber: 2.9 Consensus size: 43
5938939 GAATTAATTA
*
5938949 ATAATCATGCAA--AAATA-AA-GATCACAAATAAA-ATGATAT
1 ATAATCATGCAATCAAATATAATCATCACAAATAAATAT-ATAT
5938988 ATAATCATGCAATCAAATATAATCA-CACAAATAAATATAT-T
1 ATAATCATGCAATCAAATATAATCATCACAAATAAATATATAT
* *
5939029 GATAATCATGCAATTAAATATAGTCATC-CAAATAAATATA
1 -ATAATCATGCAATCAAATATAATCATCACAAATAAATATA
5939069 CAATCATATC
Statistics
Matches: 71, Mismatches: 3, Indels: 11
0.84 0.04 0.13
Matches are distributed among these distances:
39 12 0.17
41 6 0.08
42 49 0.69
43 4 0.06
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (43 bp):
ATAATCATGCAATCAAATATAATCATCACAAATAAATATATAT
Found at i:5939133 original size:14 final size:14
Alignment explanation
Indices: 5939114--5939152 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
5939104 AGAGAATTAA
5939114 AAAAAATCAAAAT-
1 AAAAAATCAAAATC
5939127 AATAAAATCAAAATC
1 AA-AAAATCAAAATC
5939142 AAAAAA-CAAAA
1 AAAAAATCAAAA
5939153 AAAAAGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.29
14 15 0.62
15 2 0.08
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATCAAAATC
Found at i:5944397 original size:20 final size:20
Alignment explanation
Indices: 5944359--5944397 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5944349 ATGAAAAATG
*
5944359 ATTTTCTAAATTTTTTTTAT
1 ATTTTCTAAATTTTGTTTAT
5944379 ATTTT-TAAATATTTGTTTA
1 ATTTTCTAAAT-TTTGTTTA
5944398 ATAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTTCTAAATTTTGTTTAT
Found at i:5944422 original size:18 final size:19
Alignment explanation
Indices: 5944395--5944436 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
5944385 AAATATTTGT
*
5944395 TTAATAAAAAATTAATTGA
1 TTAATAAAAAAGTAATTGA
*
5944414 TTAAT-AAAAAGTAATTTA
1 TTAATAAAAAAGTAATTGA
5944432 TTAAT
1 TTAAT
5944437 TAATAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TTAATAAAAAAGTAATTGA
Found at i:5944438 original size:22 final size:23
Alignment explanation
Indices: 5944404--5944446 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5944394 TTTAATAAAA
*
5944404 AATTAATTGATTAATA-AAAAGT
1 AATTAATTAATTAATAGAAAAGT
*
5944426 AATTTATTAATTAATAGAAAA
1 AATTAATTAATTAATAGAAAA
5944447 TAAAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTAATTAATTAATAGAAAAGT
Found at i:5944559 original size:18 final size:18
Alignment explanation
Indices: 5944544--5944578 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5944534 TTTGAATATA
*
5944544 ATTTTATTTATAAATAAT
1 ATTTTATTAATAAATAAT
5944562 ATTTTATTAATAAATAA
1 ATTTTATTAATAAATAA
5944579 ATAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTATTAATAAATAAT
Found at i:5944582 original size:26 final size:27
Alignment explanation
Indices: 5944552--5944675 Score: 110
Period size: 26 Copynumber: 4.4 Consensus size: 27
5944542 TAATTTTATT
5944552 TATAAATAATATTTTATTAATAAATAA
1 TATAAATAATATTTTATTAATAAATAA
*
5944579 -ATAAATAATATATTAATAATATTATAAATAA
1 TATAAATAATAT-TT--T-AT-TAATAAATAA
* *
5944610 TATTAATAA-ATATTATT-ATAAATAAA
1 TATAAATAATATTTTATTAATAAAT-AA
*
5944636 TATTATAATAATATATTATTAATAAATAA
1 TA-TA-AATAATATTTTATTAATAAATAA
*
5944665 TATAAAGAATA
1 TATAAATAATA
5944676 ATAAATAGTT
Statistics
Matches: 81, Mismatches: 5, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
25 6 0.07
26 16 0.20
27 11 0.14
28 8 0.10
29 13 0.16
30 9 0.11
31 11 0.14
32 7 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
TATAAATAATATTTTATTAATAAATAA
Found at i:5944592 original size:23 final size:23
Alignment explanation
Indices: 5944553--5944621 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
5944543 AATTTTATTT
* *
5944553 ATAAAT-AATATTTTATTAATAA
1 ATAAATAAATAATATATTAATAA
5944575 ATAAATAAATAATATATTAAT-A
1 ATAAATAAATAATATATTAATAA
*
5944597 ATATTATAAAT-A-ATATTAATAA
1 ATA-AATAAATAATATATTAATAA
5944619 ATA
1 ATA
5944622 TTATTATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.20
22 15 0.37
23 18 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAAATAAATAATATATTAATAA
Found at i:5944605 original size:49 final size:53
Alignment explanation
Indices: 5944551--5944667 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 53
5944541 ATAATTTTAT
* * *
5944551 TTATAAATAATATTTTATTAATA-A-ATAAATAAATAATATATTAATA-A-TA
1 TTATAAATAATATTTAATAAATATATATAAATAAATAATATAATAATATATTA
*
5944600 TTATAAATAATA-TTAATAAATATTATTATAAATAAATATTATAATAATATATTA
1 TTATAAATAATATTTAATAAATA-TA-TATAAATAAATAATATAATAATATATTA
5944654 TTAATAAATAATAT
1 TT-ATAAATAATAT
5944668 AAAGAATAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
48 8 0.14
49 12 0.21
50 1 0.02
52 20 0.36
53 1 0.02
54 4 0.07
55 10 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (53 bp):
TTATAAATAATATTTAATAAATATATATAAATAAATAATATAATAATATATTA
Found at i:5944635 original size:16 final size:16
Alignment explanation
Indices: 5944614--5944664 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
5944604 AAATAATATT
5944614 AATAAATATTATTATA
1 AATAAATATTATTATA
*
5944630 AATAAATATTATAAT-
1 AATAAATATTATTATA
5944645 AAT--ATATTATTAATA
1 AATAAATATTATT-ATA
5944660 AATAA
1 AATAA
5944665 TATAAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 7 0.24
14 2 0.07
15 6 0.21
16 14 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATAAATATTATTATA
Found at i:5944774 original size:15 final size:16
Alignment explanation
Indices: 5944754--5944787 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5944744 TATAATTATT
*
5944754 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
5944769 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
5944785 TTT
1 TTT
5944788 CATAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:5961218 original size:3 final size:3
Alignment explanation
Indices: 5961197--5961289 Score: 61
Period size: 3 Copynumber: 31.3 Consensus size: 3
5961187 TCCACACTTT
* * *
5961197 TTA TT- TTA TTTA TTTA TTA TTA TTG GTA TTA TTA TTA TT- TT- TTC
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
5961241 GT- TTA TCA TTTA TTA TTA TTA TTA TCA TTA TTTA TT- TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
5961286 TTA T
1 TTA T
5961290 CTTTTTTATC
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
2 9 0.12
3 52 0.71
4 12 0.16
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5961285 original size:24 final size:23
Alignment explanation
Indices: 5961253--5961298 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
5961243 TTATCATTTA
5961253 TTATTATTATTATCATTATTTATT
1 TTATTATTATTATC-TTATTTATT
*
5961277 TTATTATTATTATCTTTTTTAT
1 TTATTATTATTATCTTATTTAT
5961299 CAATTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTATTATTATCTTATTTATT
Found at i:5961997 original size:3 final size:3
Alignment explanation
Indices: 5961986--5962031 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
5961976 TTTTTTTAAT
5961986 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5962032 GAATTAGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:5962082 original size:21 final size:20
Alignment explanation
Indices: 5962058--5962097 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
5962048 GTATTCCTTA
*
5962058 ATTTTTGTTTTTATTTTTTTT
1 ATTTTTGTTTCT-TTTTTTTT
5962079 ATTTTTGTTTCTTTTTTTT
1 ATTTTTGTTTCTTTTTTTT
5962098 AATGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.07, C:0.03, G:0.05, T:0.85
Consensus pattern (20 bp):
ATTTTTGTTTCTTTTTTTTT
Found at i:5962083 original size:8 final size:9
Alignment explanation
Indices: 5962065--5962098 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
5962055 TTAATTTTTG
5962065 TTTTTATTT
1 TTTTTATTT
5962074 TTTTTATTT
1 TTTTTATTT
*
5962083 TTGTTTCTTT
1 TT-TTTATTT
5962093 TTTTTA
1 TTTTTA
5962099 ATGATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTATTT
Found at i:5962186 original size:58 final size:57
Alignment explanation
Indices: 5962102--5962233 Score: 162
Period size: 56 Copynumber: 2.3 Consensus size: 57
5962092 TTTTTTAATG
* ** *
5962102 ATTTTTAT-AAAATAAAATTTTCAAAAAATATATTTTTAAGG-GAAAGTTGAAAGTATCA
1 ATTTTTCTAAAAATAAAAAGTTC-AAAAA-ATATTTTT-AGGAAAAAGTTGAAAGTATCA
5962160 ATTTTTCTAAAAATAAAAAGTT-AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCA
1 ATTTTTCTAAAAATAAAAAGTTCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCA
*
5962216 ATTTTCCTTAAAAATAAA
1 ATTTTTC-TAAAAATAAA
5962234 GTTTCTAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
55 3 0.05
56 30 0.45
57 15 0.23
58 7 0.11
59 11 0.17
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (57 bp):
ATTTTTCTAAAAATAAAAAGTTCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCA
Found at i:5962210 original size:56 final size:58
Alignment explanation
Indices: 5962125--5962233 Score: 170
Period size: 56 Copynumber: 1.9 Consensus size: 58
5962115 AAAATTTTCA
* *
5962125 AAAAATATATTTTTAAGGGAAAGTTGAAAGTATCAATTTTTC-TAAAAATAAAAAGTT
1 AAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAAGTT
5962182 AAAAA-ATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 AAAAATATATTTTTAAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
5962234 GTTTCTAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
55 3 0.06
56 30 0.62
57 15 0.31
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (58 bp):
AAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAAGTT
Found at i:5962304 original size:59 final size:59
Alignment explanation
Indices: 5962240--5962365 Score: 148
Period size: 59 Copynumber: 2.1 Consensus size: 59
5962230 TAAAGTTTCT
* * * * * *
5962240 AAAATAAAAATTTTTTAAAAACA-TTTTGGGGAGGAAAGTTGAAAGTTTCAATTTCTC-TG
1 AAAATAAAAAGTTTTAAAAAACATTTTTAGGGA--AAAGTTAAAAGTATCAATTTCTCTTA
* *
5962299 AAAATAAAAAGTTTTAAAAAATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTTCTTA
1 AAAATAAAAAGTTTTAAAAAACATTTTTAGGGAAAAGTTAAAAGTATCAATTTCTCTTA
5962358 AAAATAAA
1 AAAATAAA
5962366 GTTTCTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
58 20 0.35
59 29 0.51
60 8 0.14
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAATAAAAAGTTTTAAAAAACATTTTTAGGGAAAAGTTAAAAGTATCAATTTCTCTTA
Found at i:5962314 original size:58 final size:57
Alignment explanation
Indices: 5962240--5962375 Score: 141
Period size: 58 Copynumber: 2.3 Consensus size: 57
5962230 TAAAGTTTCT
* * * *
5962240 AAAATAAAAATTTTTTAAAAACA-TTTTGGGGAGGAAAGTTGAAAGTTTCAATTTCTCTG
1 AAAATAAAAA-GTTTTAAAAACATTTTTAGGGA--AAAGTTAAAAGTATCAATTTCTCTG
* * *
5962299 AAAATAAAAAGTTTTAAAAAATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTTCTT
1 AAAATAAAAAGTTTT-AAAAACATTTTTAGGGAAAAGTTAAAAGTATCAATTTCTCTG
*
5962357 AAAA-ATAAAGTTTCTAAAA
1 AAAATAAAAAGTTT-TAAAA
5962376 TAAAAAATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
57 12 0.18
58 30 0.45
59 16 0.24
60 8 0.12
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (57 bp):
AAAATAAAAAGTTTTAAAAACATTTTTAGGGAAAAGTTAAAAGTATCAATTTCTCTG
Found at i:5962352 original size:132 final size:130
Alignment explanation
Indices: 5962142--5962482 Score: 540
Period size: 132 Copynumber: 2.6 Consensus size: 130
5962132 TATTTTTAAG
* *
5962142 GGAAAGTTGAAAGTATCAATTTTTCTAAAAATAAAAAG-TTAAAAAATATTTTTAGGAAAAAGTT
1 GGAAAGTTGAAAGTATCAATTTCTCTGAAAATAAAAAGTTTAAAAAATATTTTTAGGAAAAAGTT
* **
5962206 GAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAATAAAAATTTTTTAAAAACATTTTGGGG
66 GAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAATAAAAAATTTCCAAAAACATTTT-GGG
5962271 A
130 A
* *
5962272 GGAAAGTTGAAAGTTTCAATTTCTCTGAAAATAAAAAGTTTTAAAAAATATTTTTAGGGAAAAGT
1 GGAAAGTTGAAAGTATCAATTTCTCTGAAAATAAAAAG-TTTAAAAAATATTTTTAGGAAAAAGT
* * *
5962337 TAAAAGTATCAATTTTTCTTAAAAATAAAGTTTCTAAAATAAAAAATTTCCAAAAATATTTTGGG
65 TGAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAATAAAAAATTTCCAAAAACATTTTGGG
5962402 A
130 A
* *
5962403 GGAAAGTTAAAAGTATCAATTTCTCTGAAAATAAAAAGTTTAAAAAATATTCTTAGGAAAAAGTT
1 GGAAAGTTGAAAGTATCAATTTCTCTGAAAATAAAAAGTTTAAAAAATATTTTTAGGAAAAAGTT
*
5962468 GAAAGTAACAATTTT
66 GAAAGTATCAATTTT
5962483 TCCTATATAG
Statistics
Matches: 193, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
130 73 0.38
131 40 0.21
132 80 0.41
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.34
Consensus pattern (130 bp):
GGAAAGTTGAAAGTATCAATTTCTCTGAAAATAAAAAGTTTAAAAAATATTTTTAGGAAAAAGTT
GAAAGTATCAATTTTCCTTAAAAATAAAGTTTCTAAAATAAAAAATTTCCAAAAACATTTTGGGA
Found at i:5962376 original size:73 final size:73
Alignment explanation
Indices: 5962299--5962443 Score: 195
Period size: 73 Copynumber: 2.0 Consensus size: 73
5962289 AATTTCTCTG
* * * *
5962299 AAAATAAAAAGTTTTAAAAAATATTTTTAGGGA-AAAGTTAAAAGTATCAATTTTTCTTAAAA-A
1 AAAATAAAAAATTTCAAAAAATA-TTTT-GGGAGAAAGTTAAAAGTATCAATTTCTCTGAAAATA
*
5962362 TAAAGTTTCT
64 AAAAGTTTCT
*
5962372 AAAATAAAAAATTTCCAAAAATATTTTGGGAGGAAAGTTAAAAGTATCAATTTCTCTGAAAATAA
1 AAAATAAAAAATTTCAAAAAATATTTTGGGA-GAAAGTTAAAAGTATCAATTTCTCTGAAAATAA
5962437 AAAGTTT
65 AAAGTTT
5962444 AAAAAATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
71 4 0.06
72 4 0.06
73 47 0.75
74 8 0.13
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.34
Consensus pattern (73 bp):
AAAATAAAAAATTTCAAAAAATATTTTGGGAGAAAGTTAAAAGTATCAATTTCTCTGAAAATAAA
AAGTTTCT
Found at i:5962449 original size:57 final size:58
Alignment explanation
Indices: 5962372--5962481 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
5962362 TAAAGTTTCT
* * * *
5962372 AAAATAAAAAATTTCCAAAAATATT-TTGGGAGGAAAGTTAAAAGTATCAATTTCTCTG
1 AAAATAAAAAATTTCAAAAAATATTCTTAGGA-AAAAGTTAAAAGTAACAATTTCTCTG
* *
5962430 AAAATAAAAAGTTT-AAAAAATATTCTTAGGAAAAAGTTGAAAGTAACAATTT
1 AAAATAAAAAATTTCAAAAAATATTCTTAGGAAAAAGTTAAAAGTAACAATTT
5962482 TTCCTATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 27 0.60
58 18 0.40
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (58 bp):
AAAATAAAAAATTTCAAAAAATATTCTTAGGAAAAAGTTAAAAGTAACAATTTCTCTG
Found at i:5962572 original size:22 final size:24
Alignment explanation
Indices: 5962546--5962592 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
5962536 AAAAGGTGAA
*
5962546 TCATT-ATTTTTTT-TATTTTTTT
1 TCATTAATTTTTTTGTAATTTTTT
5962568 TCATTAATTTTTTTGTAATTTTTT
1 TCATTAATTTTTTTGTAATTTTTT
5962592 T
1 T
5962593 AATGTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 8 0.36
24 9 0.41
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (24 bp):
TCATTAATTTTTTTGTAATTTTTT
Found at i:5972887 original size:8 final size:8
Alignment explanation
Indices: 5972874--5972918 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
5972864 CTATGCTTGA
5972874 AAAAAAAT
1 AAAAAAAT
5972882 AAAAAAAT
1 AAAAAAAT
*
5972890 GAAAAAA-
1 AAAAAAAT
* *
5972897 AAACAAAG
1 AAAAAAAT
5972905 AAAAAAAT
1 AAAAAAAT
5972913 AAAAAA
1 AAAAAA
5972919 TGAAGACTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 5 0.16
8 26 0.84
ACGTcount: A:0.87, C:0.02, G:0.04, T:0.07
Consensus pattern (8 bp):
AAAAAAAT
Found at i:5972908 original size:23 final size:21
Alignment explanation
Indices: 5972873--5972918 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
5972863 ACTATGCTTG
*
5972873 AAAAAAAATAAAAAAATGAAAA
1 AAAAAAAAGAAAAAAAT-AAAA
5972895 AAAAACAAAGAAAAAAATAAAA
1 AAAAA-AAAGAAAAAAATAAAA
5972917 AA
1 AA
5972919 TGAAGACTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.87, C:0.02, G:0.04, T:0.07
Consensus pattern (21 bp):
AAAAAAAAGAAAAAAATAAAA
Found at i:5973649 original size:16 final size:16
Alignment explanation
Indices: 5973628--5973658 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5973618 CATTTGAATA
5973628 GCATGCATTGAATTTT
1 GCATGCATTGAATTTT
*
5973644 GCATGCATTGCATTT
1 GCATGCATTGAATTT
5973659 CACATAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (16 bp):
GCATGCATTGAATTTT
Found at i:5973994 original size:43 final size:43
Alignment explanation
Indices: 5973929--5974030 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 43
5973919 TGAGCATTTT
** *
5973929 TTTATTTTTTTC-AAAGTTATGGTAT-TTCTGTTTAGAAGAGCAA
1 TTTA-TTTTTTCAAAAGAAATGGT-TCTTCTGTTTAGAAAAGCAA
*
5973972 TTTATTTTTTCAAAAGAAATGGTTGCTTCTGTTTAGAAAAGTAA
1 TTTATTTTTTCAAAAGAAATGGTT-CTTCTGTTTAGAAAAGCAA
5974016 TTT-TTTTTTCCAAAA
1 TTTATTTTTT-CAAAA
5974031 TTATGATGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
42 8 0.16
43 19 0.37
44 24 0.47
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (43 bp):
TTTATTTTTTCAAAAGAAATGGTTCTTCTGTTTAGAAAAGCAA
Found at i:5974139 original size:43 final size:43
Alignment explanation
Indices: 5974088--5974474 Score: 456
Period size: 43 Copynumber: 8.9 Consensus size: 43
5974078 TAGACTCTTA
* **
5974088 TTAGAGGAGCTTTGTTTATTTCTCAAAGTCGTTGAGCCTCTAC
1 TTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGT
* *
5974131 TTAGAGGAG-TCTTATTTACTTTTTAAAAGTCGTTGAGCCTCT-T
1 TTAGAGGAGCT-TTGTTTA-TTTTTCAAAGTCGTTGAGCCTCTGT
5974174 ATTAGAGGAG-TGTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGT
1 -TTAGAGGAGCT-TTGTTTATTTTTCAAAGTCGTTGAGCCTCTGT
* * * *
5974218 TTAGAGGAGTTTTGTTTATTTCTCAAAGTCGTTGAGCCTATGC
1 TTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGT
* *
5974261 TTAAAGGAGCCTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGT
1 TTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGT
* * *
5974304 TTAGAGGAGCTTTATTTATTTCTCAAAGTCGTTGAGCCTCTGC
1 TTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGT
* * * * * * *
5974347 TTAAAGGAGCCTTATTTATTTGTCCAAAATCATTGAGCCTTTGT
1 TTAGAGGAGCTTTGTTTATTT-TTCAAAGTCGTTGAGCCTCTGT
*
5974391 TTAGAGGAGCTTTGTTTATCTTTTCAAAGTCATTGAGCCTCTGT
1 TTAGAGGAGCTTTGTTTAT-TTTTCAAAGTCGTTGAGCCTCTGT
* ** *
5974435 TTAAAGGAGCCCTATTTATTTTTTCAAAGTCGTTGAGCCT
1 TTAGAGGAGCTTTGTTTA-TTTTTCAAAGTCGTTGAGCCT
5974475 TTAATTATAA
Statistics
Matches: 296, Mismatches: 40, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
42 1 0.00
43 169 0.57
44 123 0.42
45 3 0.01
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (43 bp):
TTAGAGGAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGT
Found at i:5974156 original size:86 final size:86
Alignment explanation
Indices: 5974042--5974474 Score: 430
Period size: 86 Copynumber: 5.0 Consensus size: 86
5974032 TATGATGCCA
* * *
5974042 CTGTTTAGAGGA-TC-AATTTATTTCTTTAAAAGTTGTT-AGACTCTTATTAGAGGAGCTTTGTT
1 CTGTTTAGAGGAGTCTTATTTA-TT-TTTAAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTGTT
*
5974104 TATTTCTCAAAGTCGTTGAGCCT
64 TATTTTTCAAAGTCGTTGAGCCT
**
5974127 CTACTTAGAGGAGTCTTATTTACTTTTTAAAAGTCGTTGAGCCTCTTATTAGAGGAG-TGTTGTT
1 CTGTTTAGAGGAGTCTTATTTA-TTTTTAAAAGTCGTTGAGCCTCTTATTAGAGGAGCT-TTGTT
5974191 TATTTTTCAAAGTCGTTGAGCCT
64 TATTTTTCAAAGTCGTTGAGCCT
* * * * * ** * *
5974214 CTGTTTAGAGGAGTTTTGTTTATTTCTCAAAGTCGTTGAGCCTATGCTTAAAGGAGCCTTGTTTA
1 CTGTTTAGAGGAGTCTTATTTATTTTTAAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTGTTTA
5974279 TTTTTCAAAGTCGTTGAGCCT
66 TTTTTCAAAGTCGTTGAGCCT
* * ** * * *
5974300 CTGTTTAGAGGAG-CTTTATTTATTTCTCAAAGTCGTTGAGCCTCTGCTTAAAGGAGCCTTATTT
1 CTGTTTAGAGGAGTC-TTATTTATTTTTAAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTGTTT
* * *
5974364 ATTTGTCCAAAATCATTGAGCCT
65 ATTT-TTCAAAGTCGTTGAGCCT
* * * * * ** *
5974387 TTGTTTAGAGGAG-CTTTGTTTATCTTTTCAAAGTCATTGAGCCTCTGT-TTAAAGGAGCCCTAT
1 CTGTTTAGAGGAGTC-TTATTTAT-TTTTAAAAGTCGTTGAGCCTCT-TATTAGAGGAGCTTTGT
5974450 TTATTTTTTCAAAGTCGTTGAGCCT
63 TTA-TTTTTCAAAGTCGTTGAGCCT
5974475 TTAATTATAA
Statistics
Matches: 304, Mismatches: 34, Indels: 17
0.86 0.10 0.05
Matches are distributed among these distances:
85 10 0.03
86 134 0.44
87 105 0.35
88 52 0.17
89 3 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (86 bp):
CTGTTTAGAGGAGTCTTATTTATTTTTAAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTGTTTA
TTTTTCAAAGTCGTTGAGCCT
Found at i:5974692 original size:9 final size:9
Alignment explanation
Indices: 5974673--5974831 Score: 54
Period size: 9 Copynumber: 17.2 Consensus size: 9
5974663 GCCCATATTT
5974673 TTTATTTTA
1 TTTATTTTA
5974682 TTT-TATTTA
1 TTTAT-TTTA
5974691 TTTA-TTTA
1 TTTATTTTA
5974699 TTTATTATTA
1 TTTATT-TTA
*
5974709 GTATTATTTTT
1 -T-TTATTTTA
*
5974720 TTTCTCGTTTA
1 TTTAT--TTTA
5974731 -TTA-TTTA
1 TTTATTTTA
5974738 TTT-TTATTA
1 TTTATT-TTA
5974747 -TTACTTATTA
1 TTTA-TT-TTA
*
5974757 CTTATTATTA
1 TTTATT-TTA
*
5974767 -TTATCATTA
1 TTTAT-TTTA
5974776 TTTATTTTA
1 TTTATTTTA
5974785 -TTATTATTA
1 TTTATT-TTA
5974794 -TTATTATTA
1 TTTATT-TTA
5974803 -TTATCATTT-
1 TTTAT--TTTA
5974812 TTTATTTTA
1 TTTATTTTA
5974821 TGTT-TTTTA
1 T-TTATTTTA
5974830 TT
1 TT
5974832 AATTAGGAGA
Statistics
Matches: 122, Mismatches: 6, Indels: 45
0.71 0.03 0.26
Matches are distributed among these distances:
7 4 0.03
8 23 0.19
9 50 0.41
10 30 0.25
11 10 0.08
12 5 0.04
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTATTTTA
Found at i:5974734 original size:3 final size:3
Alignment explanation
Indices: 5974728--5974806 Score: 97
Period size: 3 Copynumber: 25.3 Consensus size: 3
5974718 TTTTTCTCGT
* *
5974728 TTA TTA TTTA TTT TTA TTA TTA CTTA TTA CTTA TTA TTA TTA TCA TTA
1 TTA TTA -TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA
5974776 TTTA TT- TTA TTA TTA TTA TTA TTA TTA TTA T
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5974807 CATTTTTTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
2 2 0.03
3 53 0.79
4 12 0.18
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5974765 original size:61 final size:61
Alignment explanation
Indices: 5974668--5974783 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 61
5974658 GATAGGCCCA
* * * *
5974668 TATTTTTTATTTTATTTTATTTATTTATTTATTTATTATTAGT-ATTATTTTTTTTCTCGTT
1 TATTATTTATTTTATTTTACTTATTTACTTATTTATTATTA-TCATTATTTATTTTCTCGTT
5974729 TATTATTTATTTTTATTATTACTTA-TTACTTA-TTATTATTATCATTATTTATTTT
1 TATTATTTA-TTTTATT-TTACTTATTTACTTATTTATTATTATCATTATTTATTTT
5974784 ATTATTATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
60 1 0.02
61 28 0.58
62 13 0.27
63 6 0.12
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (61 bp):
TATTATTTATTTTATTTTACTTATTTACTTATTTATTATTATCATTATTTATTTTCTCGTT
Found at i:5974832 original size:36 final size:36
Alignment explanation
Indices: 5974728--5974821 Score: 131
Period size: 36 Copynumber: 2.6 Consensus size: 36
5974718 TTTTTCTCGT
5974728 TTATTAT--TTATTT-TTATTATTACTTATTACTTATTA
1 TTATTATCATTATTTATT-TTATTA-TTATTA-TTATTA
5974764 TTATTATCATTATTTATTTTATTATTATTATTATTA
1 TTATTATCATTATTTATTTTATTATTATTATTATTA
*
5974800 TTATTATCATTTTTTATTTTAT
1 TTATTATCATTATTTATTTTAT
5974822 GTTTTTTATT
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 34 0.63
37 6 0.11
38 12 0.22
39 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (36 bp):
TTATTATCATTATTTATTTTATTATTATTATTATTA
Found at i:5975580 original size:3 final size:3
Alignment explanation
Indices: 5975572--5975603 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
5975562 ATTAATTAAT
5975572 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5975604 GAATTAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5975768 original size:63 final size:63
Alignment explanation
Indices: 5975686--5975811 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 63
5975676 TTCCCAAAAA
*
5975686 ATATATTTTTAAGAAAAAGTT-AAAAGTATCAATTTTCCTTG-AAAAT-AAAATTTTAAAAAATA
1 ATATATTTTTAAGAAAAAGTTGAAAA-TATCAA-TTT-CTTGAAAAATAAAAAGTTTAAAAAATA
5975748 T
63 T
*
5975749 ATATATTTTTAA-AGGAAAGTTGAAAATATCAATTTCTTGAAAAATAAAAAGTTTAAAAAATAT
1 ATATATTTTTAAGA-AAAAGTTGAAAATATCAATTTCTTGAAAAATAAAAAGTTTAAAAAATAT
5975812 TTTTAAGGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
61 4 0.07
62 9 0.16
63 40 0.70
64 4 0.07
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (63 bp):
ATATATTTTTAAGAAAAAGTTGAAAATATCAATTTCTTGAAAAATAAAAAGTTTAAAAAATAT
Found at i:5975972 original size:72 final size:72
Alignment explanation
Indices: 5975789--5976004 Score: 290
Period size: 73 Copynumber: 3.0 Consensus size: 72
5975779 AATTTCTTGA
* ** ** * *
5975789 AAAATAAAAAGTTTAAAAAATATTTTTAAGGAAAAGTTGAAAGTAACAATTTTTCTTTAAAATAA
1 AAAATAAAAAATTTTCAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
5975854 AGTTTCT
66 AGTTTCT
5975861 AAAATAAAAAATTTTCAAAAATATTTTGG-GCGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAAATAAAAAATTTTC-AAAATATTTTGGAG-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
5975925 AAAGTTTCT
64 AAAGTTTCT
* * * * *
5975934 AAAATAAAAAATTTTCAAAACATTTTGGAGGGAAAGTTGAAAGTATCAATTTCTCTGAAAATAAA
1 AAAATAAAAAATTTTCAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAA-ATA
5975999 AAGTTT
65 AAGTTT
5976005 AAAAAATATT
Statistics
Matches: 128, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
72 53 0.41
73 75 0.59
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (72 bp):
AAAATAAAAAATTTTCAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
AGTTTCT
Found at i:5976195 original size:13 final size:13
Alignment explanation
Indices: 5976177--5976210 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
5976167 AAGGTGAATC
5976177 ATTATTCTT-TTTT
1 ATTATT-TTATTTT
5976190 ATTATTTTATTTT
1 ATTATTTTATTTT
5976203 ATTATTTT
1 ATTATTTT
5976211 TCTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTATTTTATTTT
Found at i:5977010 original size:3 final size:3
Alignment explanation
Indices: 5977002--5977033 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
5976992 AACATTTTAC
5977002 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5977034 CTTAAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5978445 original size:41 final size:41
Alignment explanation
Indices: 5978393--5978473 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
5978383 ATAGTTACTA
*
5978393 TATATATATATGTAATAAAAGAATAATAATATTGTAGACAT
1 TATATATATATGTAACAAAAGAATAATAATATTGTAGACAT
5978434 TATATATATATGTAACAAAAGAATAATAATATTGTAGACA
1 TATATATATATGTAACAAAAGAATAATAATATTGTAGACA
5978474 CTTCAATCTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.35
Consensus pattern (41 bp):
TATATATATATGTAACAAAAGAATAATAATATTGTAGACAT
Found at i:5979052 original size:6 final size:6
Alignment explanation
Indices: 5979041--5979069 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5979031 GTGGATAGAG
5979041 AGAGAA AGAGAA AGAGAA AGAGAA A-AGAA
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA
5979070 GAAGTAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:5979460 original size:18 final size:17
Alignment explanation
Indices: 5979437--5979483 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
5979427 TCCTTAATTT
5979437 TTTTATTTTTAATTTTAA
1 TTTTATTTTTAATTTT-A
5979455 TTTTA--TTTAATTTTA
1 TTTTATTTTTAATTTTA
*
5979470 TTATTCTTTTTAAT
1 TT-TTATTTTTAAT
5979484 GATTTTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.12
16 11 0.44
18 11 0.44
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTTTTAATTTTA
Found at i:5979591 original size:26 final size:26
Alignment explanation
Indices: 5979505--5979592 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
5979495 AATAAAATTT
*
5979505 TTAAAAAATATATTTTT-AAGGAAAAG
1 TTAAAAAATATATTTTTAAAAG-AAAG
* * * *
5979531 TTAAAAGTATCAATTTTCTTTGAAAATAAAA
1 TTAAAA-AAT--ATATT-TTT-AAAAGAAAG
5979562 TTAAAAAATATATTTTTAAAAGAAAG
1 TTAAAAAATATATTTTTAAAAGAAAG
5979588 TTAAA
1 TTAAA
5979593 TGTATCAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
26 18 0.38
27 5 0.11
28 4 0.09
29 4 0.09
30 5 0.11
31 9 0.19
32 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.36
Consensus pattern (26 bp):
TTAAAAAATATATTTTTAAAAGAAAG
Done.