Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 322 of 356
Found at i:104216229 original size:18 final size:18
Alignment explanation
Indices: 104216193--104216228 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
104216183 TATGCTGAGG
*
104216193 TATTTTCAATTTCTATTT
1 TATTTTCAATTTATATTT
104216211 TATTTT-AATTTATATTT
1 TATTTTCAATTTATATTT
104216228 T
1 T
104216229 TCAAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTTCAATTTATATTT
Found at i:104216304 original size:14 final size:14
Alignment explanation
Indices: 104216285--104216320 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
104216275 CGCTGAGGTA
* *
104216285 TTTTCAATTTCTGC
1 TTTTCAAATTCAGC
104216299 TTTTCAAATTCAGC
1 TTTTCAAATTCAGC
104216313 TTTTCAAA
1 TTTTCAAA
104216321 AAAATCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (14 bp):
TTTTCAAATTCAGC
Found at i:104216456 original size:87 final size:88
Alignment explanation
Indices: 104216122--104216619 Score: 516
Period size: 88 Copynumber: 5.6 Consensus size: 88
104216112 CGTTGAGGTA
*
104216122 TTTTCAATTTATG--TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCAT
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-TC--
* *
104216184 ATGCTGAGGTATTTTCAATTTCTATTT
63 ACGCTGAGGTATTTTCAATTTCT-TGT
* ** *
104216211 TATTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCGCAAGTCAC
1 T-TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCAC
*
104216276 GCTGAGGTATTTTCAATTTC-TGC
65 GCTGAGGTATTTTCAATTTCTTGT
* * * *
104216299 TTTTCAAATTCA-GCTTTTCAAAAAAATCAACTCATATTGCAAGAGCTGAGTTGAGCCTCAAGAC
1 TTTTC-AATTTATGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTC
*
104216363 ACGCTGAGGTATTTTCAATTTC-CGT
63 ACGCTGAGGTATTTTCAATTTCTTGT
* * * * *
104216388 TTTTCAAGTTATGCTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCATG
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACG
*
104216453 CTGAGGTATTTTCAATTTCTTTT
66 CTGAGGTATTTTCAATTTCTTGT
** * *
104216476 TTTTCAATTTATATTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTC-GGATCAC
1 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-TCAC
** *
104216540 ATG-TCGAGGTATTTTCAAAATC-TGC
65 --GCT-GAGGTATTTTCAATTTCTTGT
* * **
104216565 TTTTCAAATTAAG--TTTCAAAGAA-CTAACTCATATTGCGAGAAATGAGTTGAGCCT
1 TTTTCAATTTATGCTTTTCAAA-AATC-AACTCATATTGCGAGAGGTGAGTTGAGCCT
104216620 TGGCTCACGT
Statistics
Matches: 352, Mismatches: 42, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
87 79 0.22
88 95 0.27
89 87 0.25
90 47 0.13
92 43 0.12
93 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACG
CTGAGGTATTTTCAATTTCTTGT
Found at i:104216766 original size:21 final size:21
Alignment explanation
Indices: 104216740--104216794 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
104216730 GAATAAAGAT
104216740 TGGAGCTAATCGAAGTTACAG
1 TGGAGCTAATCGAAGTTACAG
*
104216761 TGGAGCTAATCGAAGTTGCAG
1 TGGAGCTAATCGAAGTTACAG
*
104216782 TGGAACTAATCGA
1 TGGAGCTAATCGA
104216795 GGATATCAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (21 bp):
TGGAGCTAATCGAAGTTACAG
Found at i:104218370 original size:24 final size:24
Alignment explanation
Indices: 104218334--104218381 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
104218324 TATTATATTA
*
104218334 GTGTATATTATATTTACATACGTAT
1 GTGTATATTATATCTACATA-GTAT
104218359 GTGTAT-TTATATCTACATAGTAT
1 GTGTATATTATATCTACATAGTAT
104218382 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 12 0.55
25 6 0.27
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.48
Consensus pattern (24 bp):
GTGTATATTATATCTACATAGTAT
Found at i:104218469 original size:13 final size:13
Alignment explanation
Indices: 104218443--104218477 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
104218433 TGAATTTCTA
104218443 TATTATTA-TTAT
1 TATTATTACTTAT
*
104218455 TATTGTTACTTAT
1 TATTATTACTTAT
104218468 TATTATTACT
1 TATTATTACT
104218478 GTTATGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTATTACTTAT
Found at i:104218469 original size:19 final size:19
Alignment explanation
Indices: 104218445--104218481 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
104218435 AATTTCTATA
*
104218445 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
104218464 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
104218482 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:104218855 original size:26 final size:26
Alignment explanation
Indices: 104218826--104218907 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
104218816 TGATACAAAT
104218826 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
104218852 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104218878 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104218904 TGAT
1 TGAT
104218908 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104220422 original size:26 final size:26
Alignment explanation
Indices: 104220393--104220445 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
104220383 TTTACAGTTT
104220393 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
104220419 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
104220445 T
1 T
104220446 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:104227719 original size:20 final size:20
Alignment explanation
Indices: 104227694--104227734 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
104227684 TTTATCACAA
104227694 CTTAAGCACGACATATCTAG
1 CTTAAGCACGACATATCTAG
104227714 CTTAAGCACGACATATCTAG
1 CTTAAGCACGACATATCTAG
104227734 C
1 C
104227735 GTGATTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (20 bp):
CTTAAGCACGACATATCTAG
Found at i:104231256 original size:22 final size:21
Alignment explanation
Indices: 104231228--104231273 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
104231218 AATAAGAAAT
104231228 AAAAGGA-ACAATTTAAATATAA
1 AAAAGGACA-AATTTAAA-ATAA
104231250 AAAAGGACTAAATTTAAAATAA
1 AAAAGGAC-AAATTTAAAATAA
104231272 AA
1 AA
104231274 TATCTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 13 0.59
23 8 0.36
24 1 0.05
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.22
Consensus pattern (21 bp):
AAAAGGACAAATTTAAAATAA
Found at i:104234010 original size:31 final size:31
Alignment explanation
Indices: 104233975--104234038 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
104233965 ATAATACTGG
104233975 CAATGCTTGATATTCTCTCGACCTTCTGCAA
1 CAATGCTTGATATTCTCTCGACCTTCTGCAA
104234006 CAATGCTTGATATTCTCTCGACCTTCTGCAA
1 CAATGCTTGATATTCTCTCGACCTTCTGCAA
104234037 CA
1 CA
104234039 TTGATCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.34
Consensus pattern (31 bp):
CAATGCTTGATATTCTCTCGACCTTCTGCAA
Found at i:104236927 original size:131 final size:131
Alignment explanation
Indices: 104236640--104237016 Score: 395
Period size: 131 Copynumber: 2.9 Consensus size: 131
104236630 AGAAAAATAC
* *
104236640 GAGTGAAATTCCGAAGAGACATTCGATTATTTTGAACAAATGGGAAATTGCAACCCAACACGATA
1 GAGTGAAATTCCGAAG-GACTTTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGATA
* * * * *** *
104236705 GGGCACT-ATTCCCCGAATCGCCAAACATAGAGTATTTTTTTCGTTTTAAAGGGTTTTTAGAAAA
65 GGGCA-TGATTCCACGAATTGTCAAACATCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAAA
104236769 TGT
129 TGT
* * ** *
104236772 GAGTGAAATTCCGAA-GAATATTCGATTGTTTTGAACAAATGAGAAATCACAACCCAGCACGATA
1 GAGTGAAATTCCGAAGGACT-TTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGATA
* * *
104236836 GGGCATGATT-CGCGAATTGTCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTGGAAGAC
65 GGGCATGATTCCACGAATTGTCAAACATCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAA-A-
104236900 ATG-
128 ATGT
** * * * *
104236903 G-GTGAAATTTTGAAGGGACTTTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTCCGAA-GGACTTTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGATA
* * * * * *
104236967 GGGCACGATTCCACGACTTGTCAAATATCGAATATCGCCTTTGTTTTAAA
65 GGGCATGATTCCACGAATTGTCAAACATCGAGTATTGCCTTCGTTTTAAA
104237017 TAATGGTGAA
Statistics
Matches: 202, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
130 55 0.27
131 94 0.47
132 53 0.26
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (131 bp):
GAGTGAAATTCCGAAGGACTTTCGATTATTTTGAACAAATGAGAAATTGCAACCCAACACGATAG
GGCATGATTCCACGAATTGTCAAACATCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAAATG
T
Found at i:104238552 original size:4 final size:4
Alignment explanation
Indices: 104238543--104238570 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
104238533 TATTGTATGC
104238543 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
104238571 TCATATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:104260344 original size:86 final size:87
Alignment explanation
Indices: 104260206--104260397 Score: 300
Period size: 86 Copynumber: 2.2 Consensus size: 87
104260196 CAGCTCTCTG
* * * *
104260206 CTCTC-AT-CTGCCTCTGCTTCCCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGTTCTTTA
1 CTCTCGATGCTGCCTCTGCTTCCCTCACCGCTGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCA
104260269 TATTTTCTTTGAACCTCAGCTT
66 TATTTTCTTTGAACCTCAGCTT
**
104260291 CTCTCGATGCTGCCTCTGCTT-CCTCACCGCTGCATTTGCTCTAAGTTGTAGCTGGAGTTCTTCA
1 CTCTCGATGCTGCCTCTGCTTCCCTCACCGCTGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCA
*
104260355 TATTTTCTTTGAACCTTAGCTT
66 TATTTTCTTTGAACCTCAGCTT
104260377 CTCTCGATGCTGCCTCTGCTT
1 CTCTCGATGCTGCCTCTGCTT
104260398 TAAGTTGAGT
Statistics
Matches: 98, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
85 5 0.05
86 81 0.83
87 12 0.12
ACGTcount: A:0.13, C:0.29, G:0.17, T:0.41
Consensus pattern (87 bp):
CTCTCGATGCTGCCTCTGCTTCCCTCACCGCTGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCA
TATTTTCTTTGAACCTCAGCTT
Found at i:104262500 original size:36 final size:37
Alignment explanation
Indices: 104262458--104262531 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
104262448 AGTTAGGGGG
104262458 TTTAGAAGATGATGAAAAGGATGC-AAAAGTGGGGTT
1 TTTAGAAGATGATGAAAAGGATGCAAAAAGTGGGGTT
*
104262494 TTTAGAAGATGATGAACAGGATGCAAAAAGTGGGGTT
1 TTTAGAAGATGATGAAAAGGATGCAAAAAGTGGGGTT
104262531 T
1 T
104262532 CTTATTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 23 0.64
37 13 0.36
ACGTcount: A:0.38, C:0.04, G:0.32, T:0.26
Consensus pattern (37 bp):
TTTAGAAGATGATGAAAAGGATGCAAAAAGTGGGGTT
Found at i:104265130 original size:35 final size:36
Alignment explanation
Indices: 104265064--104265134 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
104265054 GCTAGATGTA
104265064 TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
1 TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
104265100 TAGTTTGTATACTAACATC-GCAAAGTGTAAAGAAG
1 TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
104265135 GCTTGAGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 16 0.46
36 19 0.54
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (36 bp):
TAGTTTGTATACTAACATCGGCAAAGTGTAAAGAAG
Found at i:104265728 original size:23 final size:23
Alignment explanation
Indices: 104265702--104265755 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
104265692 AAAATTGAAT
* *
104265702 TTCGAGTT-AATTGAATCGAGTTA
1 TTCGAGTTAAATTGAAT-AAGTAA
104265725 TTCGA-TTCAAATTGAATAAGTAA
1 TTCGAGTT-AAATTGAATAAGTAA
104265748 TTCGAGTT
1 TTCGAGTT
104265756 TCGAATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.08
23 14 0.54
24 10 0.38
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (23 bp):
TTCGAGTTAAATTGAATAAGTAA
Found at i:104267855 original size:21 final size:21
Alignment explanation
Indices: 104267825--104267864 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104267815 CCTCAATGCA
*
104267825 ATTGGGTCATTGCGAGATGAC
1 ATTGGGTCATTACGAGATGAC
*
104267846 ATTGGTTCATTACGAGATG
1 ATTGGGTCATTACGAGATG
104267865 TAGTTAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGGGTCATTACGAGATGAC
Found at i:104273811 original size:55 final size:55
Alignment explanation
Indices: 104273746--104273861 Score: 187
Period size: 55 Copynumber: 2.1 Consensus size: 55
104273736 TCTGTGAGTT
* *
104273746 ACACGGTTTAATACACGGGCTGGGACACAGCCGTGTGTCCCTTTGTTCGAGCATC
1 ACACGGTTTAAGACACGGGCTGGGACACAGCCATGTGTCCCTTTGTTCGAGCATC
* **
104273801 ACACGGTTTAAGACATGGGCTGGGACATGGCCATGTGTCCCTTTGTTCGAGCATC
1 ACACGGTTTAAGACACGGGCTGGGACACAGCCATGTGTCCCTTTGTTCGAGCATC
104273856 ACACGG
1 ACACGG
104273862 CCTGCCACAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (55 bp):
ACACGGTTTAAGACACGGGCTGGGACACAGCCATGTGTCCCTTTGTTCGAGCATC
Found at i:104276351 original size:62 final size:62
Alignment explanation
Indices: 104276273--104276398 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
104276263 TGAACTTAGG
104276273 TGAATTTGGTTAATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
1 TGAATTTGGTTAATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
*
104276335 TGAATTTGGTTCATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
1 TGAATTTGGTTAATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
104276397 TG
1 TG
104276399 GGACTGAATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (62 bp):
TGAATTTGGTTAATTGAAAAAAGATATGGGAATTGAAAAAAAACAAGTCTTTGTTGTGTTGA
Found at i:104277336 original size:168 final size:164
Alignment explanation
Indices: 104277038--104277342 Score: 353
Period size: 168 Copynumber: 1.8 Consensus size: 164
104277028 GCTGTTCTGT
* * **
104277038 CTTTGCACTTATGGTGATAATCAAGTATGCTATTGATTATATATGAGGTAATCTTAGCTTGATTG
1 CTTTGCACATATGGTGATAATAAAGTATGCTATTGATTATATATGAGGTAATCTTAGCCCGATTG
* ** *
104277103 GCATCGAGATGGTCCGTAGAAGGCTTGCATAGAATTGTTTTCATTATCGAACTGTATGAGGAAGA
66 GCATCGAGATGGTCCGTAGAAGGCTTGCATAGAAATGTTTTCATTATCGAAAAGTAAGAGGAAGA
*
104277168 ATGAATTACGGTATACGTTTTATTGCTCTCCTCA
131 ATAAATTACGGTATACGTTTTATTGCTCTCCTCA
* * * *
104277202 CTTTGCACATATTGTGATGATAAAAGTATGCTATTGATTATATATAATGAGTTAATCTTGGCCCG
1 CTTTGCACATATGGTGATAAT-AAAGTATGCTATTGA-T-TATAT-ATGAGGTAATCTTAGCCCG
* * * * * ** *
104277267 ATTGGCATCTAGCTGGTCCGTGGAGGGCTTGCCTAGAAATGTTTTTGTTGT-GAAAAAGTACAG-
62 ATTGGCATCGAGATGGTCCGTAGAAGGCTTGCATAGAAATGTTTTCATTATCG-AAAAGTA-AGA
104277330 GGAAGAATAAATT
125 GGAAGAATAAATT
104277343 GGGGGTCAGT
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
164 18 0.16
165 14 0.12
166 1 0.01
167 6 0.05
168 74 0.65
169 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (164 bp):
CTTTGCACATATGGTGATAATAAAGTATGCTATTGATTATATATGAGGTAATCTTAGCCCGATTG
GCATCGAGATGGTCCGTAGAAGGCTTGCATAGAAATGTTTTCATTATCGAAAAGTAAGAGGAAGA
ATAAATTACGGTATACGTTTTATTGCTCTCCTCA
Found at i:104279222 original size:5 final size:6
Alignment explanation
Indices: 104279199--104279278 Score: 54
Period size: 6 Copynumber: 13.0 Consensus size: 6
104279189 TAAAAGAATC
** ** *
104279199 ATTTTAT ATTTTT ATTTTT ATTTTT ATTTTT -TTAAT ATTTAA ATTTCT
1 ATTTT-T ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* * *
104279247 ATTTTT TTTTTT AATATTTA AATTTT ATTTTT
1 ATTTTT ATTTTT -AT-TTTT ATTTTT ATTTTT
104279279 TTGTAAACTA
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
5 3 0.05
6 44 0.77
7 7 0.12
8 3 0.05
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:104279254 original size:26 final size:26
Alignment explanation
Indices: 104279214--104279280 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 26
104279204 ATATTTTTAT
104279214 TTTTATTTTTATTTTTTTAATATTTAAA
1 TTTTA-TTTT-TTTTTTTAATATTTAAA
104279242 TTTCTATTTTTTTTTTTAATATTTAAA
1 TTT-TATTTTTTTTTTTAATATTTAAA
104279269 TTTTATTTTTTT
1 TTTTATTTTTTT
104279281 GTAAACTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
26 9 0.24
27 20 0.53
28 7 0.18
29 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTATTTTTTTTTTTAATATTTAAA
Found at i:104281130 original size:21 final size:21
Alignment explanation
Indices: 104281093--104281141 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
104281083 TTCACCGTGC
*
104281093 AATATTTTTTTAGATTTTATA
1 AATATTTTTTGAGATTTTATA
*
104281114 AATATTTTTCTGA-ATTTTTTA
1 AATATTTTT-TGAGATTTTATA
*
104281135 CATATTT
1 AATATTT
104281142 ATTTCTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
AATATTTTTTGAGATTTTATA
Found at i:104290474 original size:21 final size:21
Alignment explanation
Indices: 104290448--104290488 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104290438 AGACAAGCGA
* *
104290448 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
104290469 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
104290489 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:104295648 original size:16 final size:16
Alignment explanation
Indices: 104295623--104295662 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
104295613 ATTTACATAG
104295623 TATTTT-TTTTAAAAT
1 TATTTTATTTTAAAAT
*
104295638 TATTTTATTTTAATAT
1 TATTTTATTTTAAAAT
*
104295654 TATTATATT
1 TATTTTATT
104295663 ATGTTTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTATTTTAAAAT
Found at i:104295742 original size:3 final size:3
Alignment explanation
Indices: 104295688--104295723 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
104295678 TTAATTTCTA
*
104295688 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA
104295724 CTCTTATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:104295881 original size:21 final size:21
Alignment explanation
Indices: 104295855--104295896 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
104295845 TTTTTTAACA
* * *
104295855 TTATTATGTTTACTATTTTAT
1 TTATTATCTTTAATATATTAT
104295876 TTATTATCTTTAATATATTAT
1 TTATTATCTTTAATATATTAT
104295897 ATTTTACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATTATCTTTAATATATTAT
Found at i:104303579 original size:21 final size:21
Alignment explanation
Indices: 104303553--104303593 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104303543 AGACGAGCGA
* *
104303553 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
104303574 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
104303594 TTGAGCAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:104312859 original size:16 final size:16
Alignment explanation
Indices: 104312826--104312859 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
104312816 CGTATGTGTT
* *
104312826 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
104312842 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
104312858 AA
1 AA
104312860 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:104317637 original size:16 final size:16
Alignment explanation
Indices: 104317604--104317637 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
104317594 GGAGATTGTT
* *
104317604 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
104317620 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
104317636 AA
1 AA
104317638 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:104321471 original size:69 final size:69
Alignment explanation
Indices: 104321365--104322032 Score: 491
Period size: 69 Copynumber: 9.7 Consensus size: 69
104321355 AAGTTTGCAA
* * * * **
104321365 CTCCAAAATAGCTCGCGAACCTACGTTCCCAGTTGATATTATAAAAACTCGCCGGTTTAAGATCG
1 CTCCAAAACAGCTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATCG
*
104321430 CAAC
66 CAGC
* * * ** * *
104321434 CTCCAAGACAACTCGCGGACCTAAGTTCCTAGCTGATATTATAAAGGCTCTTCGGTTTAATATTG
1 CTCCAAAACAGCTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATCG
*
104321499 CAGG
66 CAGC
* ** **
104321503 CTCCAAAATAGCTCATGGACCTACGTTTCCT-GCTGATATTATAAAGGCTCGCTAGTTTAAGA-C
1 CTCCAAAACAGCTCGCGGACCTACG-TTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATC
*
104321566 TGTAGC
65 -GCAGC
* * * * *
104321572 CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGATCTAAGATCG
1 CTCCAAAACAGCTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATCG
*
104321637 CATC
66 CAGC
* **** ** * * * ** * *
104321641 CTCCAAAACAACTCAAAAACCTATATTCCCAACTGATATTATAAAGGTTCGAAGATTTAAGATCA
1 CTCCAAAACAGCTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATCG
104321706 CAGC
66 CAGC
* * * * * ** * *
104321710 CTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTAATATTGTAAAGGCTCGCTAGTTTAAAATCA
1 CTCCAAAACAGCTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATCG
104321775 CAGC
66 CAGC
* * * * * * * **
104321779 CTCCAAAGCAGCTTGTGGACCTATGCT-CTCAGCTGATATTGTAAAGGCTCACCGAATTAAGATC
1 CTCCAAAACAGCTCGCGGACCTACGTTCCT-AGCTGATATTATAAAGGCTCGCCGGTTTAAGATC
*
104321843 GTAGC
65 GCAGC
* * * * * * * * * * *
104321848 CTTCAAAACAACTCACGAACCTATGTTCCTAGCTAATATTGTAAAGGCTTGCCAGATTAAGATCA
1 CTCCAAAACAGCTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATCG
*
104321913 CAGT
66 CAGC
* * * * * * * *
104321917 CTCCAAAACAGCTTGCAGACCTATGTTCCCAGCTGATATTATAAAGGCTAGACGGTTTAATACCG
1 CTCCAAAACAGCTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATCG
* *
104321982 TAAC
66 CAGC
* * *
104321986 CTCCAAAACAAG-TCACGGGCCTACGTT-CTCAACTGATATTATAAAGG
1 CTCCAAAAC-AGCTCGCGGACCTACGTTCCT-AGCTGATATTATAAAGG
104322033 TTAGTTGATT
Statistics
Matches: 460, Mismatches: 131, Indels: 16
0.76 0.22 0.03
Matches are distributed among these distances:
68 6 0.01
69 444 0.97
70 10 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (69 bp):
CTCCAAAACAGCTCGCGGACCTACGTTCCTAGCTGATATTATAAAGGCTCGCCGGTTTAAGATCG
CAGC
Found at i:104321720 original size:207 final size:205
Alignment explanation
Indices: 104321365--104321965 Score: 620
Period size: 207 Copynumber: 2.9 Consensus size: 205
104321355 AAGTTTGCAA
* * * * ** * *
104321365 CTCCAAAATAGCTCGCGAACCTACGTTCCCAGTTGATATTATAAAAACTCGCCGGTTTAAGATCG
1 CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACC-GATTAAGATCG
* * * * *** *
104321430 CAACCTCCAAGACAACTCGCGGACCTA-AGTTCCTAGCTGATATTATAAAGGCTCTTCGGTTTAA
65 CAACCTCCAAAACAACTCACGAACCTATA-TTCCTAGCTGATATTATAAAGGTTCGAAGATTTAA
* ** * * *
104321494 TATTGCAGGCTCCAAAATAGCTCATGGACCTACGTTTCCTGCTGATATTATAAAGGCTCGCTAGT
129 GATCACAGCCTCCAAAATAGCTC-TGGACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGT
* **
104321559 TTAAGA-CTGTAGC
193 TTAAAATC-ACAGC
104321572 CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGATCTAAGATCG
1 CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGAT-TAAGATCG
* ** * *
104321637 CATCCTCCAAAACAACTCAAAAACCTATATTCCCAACTGATATTATAAAGGTTCGAAGATTTAAG
65 CAACCTCCAAAACAACTCACGAACCTATATTCCTAGCTGATATTATAAAGGTTCGAAGATTTAAG
* *
104321702 ATCACAGCCTCCAAAATAGCTCGTGGACCTACGTTCCCAGCTAATATTGTAAAGGCTCGCTAGTT
130 ATCACAGCCTCCAAAATAGCTC-TGGACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGTT
104321767 TAAAATCACAGC
194 TAAAATCACAGC
* * * * * *
104321779 CTCCAAAGCAGCTTGTGGACCTATGCT-CTCAGCTGATATTGTAAAGGCTCACCGAATTAAGATC
1 CTCCAAAACAGCTCGCGAACCTACGCTCCT-AGCTGATATTATAAAGGCTCACCG-ATTAAGATC
* * * * * * *
104321843 GTAGCCTTCAAAACAACTCACGAACCTATGTTCCTAGCTAATATTGTAAAGGCTT-GCCAGA-TT
64 GCAACCTCCAAAACAACTCACGAACCTATATTCCTAGCTGATATTATAAAGG-TTCG-AAGATTT
* * *
104321906 AAGATCACAGTCTCCAAAACAGCT-TGCAGACCTATGTTCCCAGCTGATATTATAAAGGCT
127 AAGATCACAGCCTCCAAAATAGCTCTG--GACCTACGTTCCCAGCTGATATTATAAAGGCT
104321966 AGACGGTTTA
Statistics
Matches: 330, Mismatches: 55, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
205 2 0.01
206 4 0.01
207 315 0.95
208 9 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (205 bp):
CTCCAAAACAGCTCGCGAACCTACGCTCCTAGCTGATATTATAAAGGCTCACCGATTAAGATCGC
AACCTCCAAAACAACTCACGAACCTATATTCCTAGCTGATATTATAAAGGTTCGAAGATTTAAGA
TCACAGCCTCCAAAATAGCTCTGGACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGTTTA
AAATCACAGC
Found at i:104322024 original size:207 final size:206
Alignment explanation
Indices: 104321520--104322032 Score: 543
Period size: 207 Copynumber: 2.5 Consensus size: 206
104321510 ATAGCTCATG
* * * *
104321520 GACCTACGTTTCCTGCTGATATTATAAAGGCTCGCTAGTTTAAGACTGTAGCCTCCAAAACAGCT
1 GACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGTTTAAAACCGTAGCCTCCAAAACAG-T
* ** *
104321585 CGCGAACCTACGCTC-CTAGCTGATATTATAAAGGCTCACCGATCTAAGATCGCATCCTCCAAAA
65 CACGGGCCTACGCTCTC-AGCTGATATTATAAAGGCTCACCGATCTAAGATCGCAGCCTCCAAAA
*
104321649 CAACTCAAAAACCTATATTCCCAACTGATATTATAAAGGTTCGAAGATTTAAGATCACAGCCTCC
129 CAACTCAAAAACCTATATTCCCAACTAATATTATAAAGGTTCGAAGATTTAAGATCACAGCCTCC
* **
104321714 AAAATAGCTCGTG
194 AAAACAGCTCGCA
* * * ** *
104321727 GACCTACGTTCCCAGCTAATATTGTAAAGGCTCGCTAGTTTAAAATCACAGCCTCCAAAGCAG-C
1 GACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGTTTAAAACCGTAGCCTCCAAAACAGTC
** * * * *
104321791 TTGTGGACCTATGCTCTCAGCTGATATTGTAAAGGCTCACCGAAT-TAAGATCGTAGCCTTCAAA
66 ACG-GG-CCTACGCTCTCAGCTGATATTATAAAGGCTCACCG-ATCTAAGATCGCAGCCTCCAAA
** * * * * * *
104321855 ACAACTCACGAACCTATGTTCCTAGCTAATATTGTAAAGGCTT-GCCAGA-TTAAGATCACAGTC
128 ACAACTCAAAAACCTATATTCCCAACTAATATTATAAAGG-TTCG-AAGATTTAAGATCACAGCC
*
104321918 TCCAAAACAGCTTGCA
191 TCCAAAACAGCTCGCA
* * * * *
104321934 GACCTATGTTCCCAGCTGATATTATAAAGGCTAGAC-GGTTTAATACCGTAACCTCCAAAACAAG
1 GACCTACGTTCCCAGCTGATATTATAAAGGCTCG-CTAGTTTAAAACCGTAGCCTCCAAAAC-AG
* *
104321998 TCACGGGCCTACGTTCTCAACTGATATTATAAAGG
64 TCACGGGCCTACGCTCTCAGCTGATATTATAAAGG
104322033 TTAGTTGATT
Statistics
Matches: 248, Mismatches: 49, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
205 2 0.01
207 231 0.93
208 13 0.05
209 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (206 bp):
GACCTACGTTCCCAGCTGATATTATAAAGGCTCGCTAGTTTAAAACCGTAGCCTCCAAAACAGTC
ACGGGCCTACGCTCTCAGCTGATATTATAAAGGCTCACCGATCTAAGATCGCAGCCTCCAAAACA
ACTCAAAAACCTATATTCCCAACTAATATTATAAAGGTTCGAAGATTTAAGATCACAGCCTCCAA
AACAGCTCGCA
Found at i:104322845 original size:18 final size:18
Alignment explanation
Indices: 104322806--104322879 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
104322796 GAAAGATTAT
* * *
104322806 TTATTCAGTAACAGTTAG
1 TTATTCAGTAACAATCAA
*
104322824 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
104322842 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
* *
104322860 TTACTCAGTATCAATCAA
1 TTATTCAGTAACAATCAA
104322878 TT
1 TT
104322880 GATCGGTTAT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:104323080 original size:6 final size:6
Alignment explanation
Indices: 104323069--104323099 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
104323059 CCGAAGTCGG
104323069 AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
104323100 CGGTACACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:104324523 original size:5 final size:5
Alignment explanation
Indices: 104324502--104324545 Score: 70
Period size: 5 Copynumber: 8.4 Consensus size: 5
104324492 TTTAGTTTAT
104324502 ATATA TATATAA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA -ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA AT
104324546 TAAAACATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 28 0.76
6 8 0.22
7 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:104325938 original size:21 final size:21
Alignment explanation
Indices: 104325893--104325964 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
104325883 CAATGCATTA
104325893 TAATTTTATTATTTTAAGTCAAATT
1 TAATTTTATTA-TTT-A-T-AAATT
104325918 TAATTTTGA-TATTTATAAATT
1 TAATTTT-ATTATTTATAAATT
* *
104325939 TAAATTTATTTTTTATACAATT
1 TAATTTTATTATTTATA-AATT
104325961 TAAT
1 TAAT
104325965 AATCATCCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 18 0.44
22 8 0.20
23 1 0.02
24 3 0.07
25 9 0.22
26 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TAATTTTATTATTTATAAATT
Found at i:104327063 original size:20 final size:20
Alignment explanation
Indices: 104327038--104327083 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
104327028 CAAAAAAAAA
* *
104327038 TCAAAATAATTT-TCAAATTT
1 TCAAAAT-ATTTATAAAAATT
104327058 TCAAAATATTTATAAAAATT
1 TCAAAATATTTATAAAAATT
104327078 TCAAAA
1 TCAAAA
104327084 AATATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (20 bp):
TCAAAATATTTATAAAAATT
Found at i:104330277 original size:20 final size:20
Alignment explanation
Indices: 104330214--104330277 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
104330204 ATAGAATTAT
104330214 TATTAAATATAATTTAATAA
1 TATTAAATATAATTTAATAA
* * * * *
104330234 TA-AATAATTTAATATATTAT
1 TATTA-AATATAATTTAATAA
*
104330254 TATTAAATATAATTTACTAA
1 TATTAAATATAATTTAATAA
104330274 TATT
1 TATT
104330278 CTTAATATGA
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTAAATATAATTTAATAA
Found at i:104331280 original size:68 final size:68
Alignment explanation
Indices: 104331207--104331344 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
104331197 ATATATATAT
104331207 GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
1 GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
104331272 TTC
66 TTC
104331275 GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
1 GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
104331340 TTC
66 TTC
104331343 GT
1 GT
104331345 TCACACGTGA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (68 bp):
GTATATATATATTTGTTATTAATTATATATTATTCATATAAAAGGAAAGGTCCTTTGGACTTTCC
TTC
Found at i:104332284 original size:17 final size:14
Alignment explanation
Indices: 104332241--104332286 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 14
104332231 TTTTTTTAGA
104332241 TTAAAATATTATTT
1 TTAAAATATTATTT
104332255 TTAAAAT-TTATTT
1 TTAAAATATTATTT
104332268 TTATTGAAATATTATTT
1 TTA---AAATATTATTT
104332285 TT
1 TT
104332287 CATAAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.32
14 7 0.25
16 4 0.14
17 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
TTAAAATATTATTT
Found at i:104332873 original size:16 final size:16
Alignment explanation
Indices: 104332849--104332902 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
104332839 TTTGGTTCGC
*
104332849 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
104332865 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
*
104332881 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
104332897 TGTAAT
1 TGTAAT
104332903 AGCAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:104333169 original size:17 final size:17
Alignment explanation
Indices: 104333128--104333268 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
104333118 AACATAATTA
104333128 TTATT-AAATATAT--T
1 TTATTAAAATATATAAT
* *
104333142 TTTTTATAATATATAAT
1 TTATTAAAATATATAAT
104333159 TTGA-TAAAATATATGAAT
1 TT-ATTAAAATATAT-AAT
104333177 TTATTAAAAT-TATAAT
1 TTATTAAAATATATAAT
* * *
104333193 ATA-TAATATTATAAAAT
1 TTATTAA-AATATATAAT
* *
104333210 ATAATTTAAAATA-ATTA-
1 -TTA-TTAAAATATATAAT
104333227 TTATT--AA-ATATAAT
1 TTATTAAAATATATAAT
**
104333241 TTAACAAAAATATATAAT
1 TT-ATTAAAATATATAAT
*
104333259 TTAATAAAAT
1 TTATTAAAAT
104333269 TCTTAGTATT
Statistics
Matches: 92, Mismatches: 18, Indels: 31
0.65 0.13 0.22
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 6 0.07
15 13 0.14
16 9 0.10
17 29 0.32
18 23 0.25
19 3 0.03
20 3 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
TTATTAAAATATATAAT
Found at i:104333196 original size:24 final size:22
Alignment explanation
Indices: 104333166--104333214 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
104333156 AATTTGATAA
104333166 AATATATGAAT-TTATTAAAATTAT
1 AATATAT-AATATTA-TAAAA-TAT
104333190 AATATATAATATTATAAAATAT
1 AATATATAATATTATAAAATAT
104333212 AAT
1 AAT
104333215 TTAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATAATATTATAAAATAT
Found at i:104333205 original size:15 final size:15
Alignment explanation
Indices: 104333185--104333240 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
104333175 ATTTATTAAA
*
104333185 ATTATAATATATAAT
1 ATTATAAAATATAAT
104333200 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
104333213 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
104333226 ATTATTAAATATAAT
1 ATTATAAAATATAAT
104333241 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:104333235 original size:26 final size:25
Alignment explanation
Indices: 104333195--104333257 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
104333185 ATTATAATAT
104333195 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
104333220 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
104333247 AAAATA-TATAA
1 ATAATATTATAA
104333258 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:104345072 original size:18 final size:18
Alignment explanation
Indices: 104345049--104345137 Score: 99
Period size: 18 Copynumber: 4.9 Consensus size: 18
104345039 TCATCAATAT
104345049 TAATCAGTTATTCAGTAA
1 TAATCAGTTATTCAGTAA
*
104345067 TAATCATTTATTCAGTAA
1 TAATCAGTTATTCAGTAA
* *
104345085 CAGTC-GTTTATTCAGTAA
1 TAATCAG-TTATTCAGTAA
* * *
104345103 CAGTCAATTATTCAGTAA
1 TAATCAGTTATTCAGTAA
*
104345121 TAATCATTTATTCAGTA
1 TAATCAGTTATTCAGTA
104345138 CCTTTATTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
TAATCAGTTATTCAGTAA
Found at i:104345098 original size:36 final size:36
Alignment explanation
Indices: 104345050--104345137 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
104345040 CATCAATATT
* * *
104345050 AATCAGTTATTCAGTAATAATCATTTATTCAGTAAC
1 AATCATTTATTCAGTAACAATCAATTATTCAGTAAC
* * * *
104345086 AGTCGTTTATTCAGTAACAGTCAATTATTCAGTAAT
1 AATCATTTATTCAGTAACAATCAATTATTCAGTAAC
104345122 AATCATTTATTCAGTA
1 AATCATTTATTCAGTA
104345138 CCTTTATTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (36 bp):
AATCATTTATTCAGTAACAATCAATTATTCAGTAAC
Found at i:104351515 original size:2 final size:2
Alignment explanation
Indices: 104351508--104351532 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104351498 CTCTTTATTT
104351508 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
104351533 TAAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104352194 original size:45 final size:45
Alignment explanation
Indices: 104352105--104352205 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
104352095 GTAACAGTAG
* *
104352105 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCAATTTGATAA
1 CAGTAACAGTAACAATATTCGACACACAAAGTGCCAATTAGATAA
* * * *
104352150 TAGTAATAGTAACAATATTCGACACATAAAGTGCTGAA-TAGATAA
1 CAGTAACAGTAACAATATTCGACACACAAAGTGC-CAATTAGATAA
104352195 CAGTAACAGTA
1 CAGTAACAGTA
104352206 GCAGTAACAG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 45 0.96
46 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (45 bp):
CAGTAACAGTAACAATATTCGACACACAAAGTGCCAATTAGATAA
Found at i:104352884 original size:15 final size:15
Alignment explanation
Indices: 104352858--104352896 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
104352848 CCCATTTTCG
104352858 TTTCTGTTCCTTTATT
1 TTTCT-TTCCTTTATT
* *
104352874 TTTGTTTCCTTTCTT
1 TTTCTTTCCTTTATT
104352889 TTTCTTTC
1 TTTCTTTC
104352897 TTTCTTTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.03, C:0.21, G:0.05, T:0.72
Consensus pattern (15 bp):
TTTCTTTCCTTTATT
Found at i:104355222 original size:20 final size:20
Alignment explanation
Indices: 104355182--104355233 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
104355172 AAATACAAAT
* *
104355182 ATAATCATAATATATATTCAA
1 ATAATTATAA-ATATAATCAA
104355203 ATAATTATAAATATAATCAA
1 ATAATTATAAATATAATCAA
104355223 ATCAA-TATAAA
1 AT-AATTATAAA
104355234 ATACTATGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATTATAAATATAATCAA
Found at i:104364128 original size:22 final size:22
Alignment explanation
Indices: 104364086--104364128 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
104364076 ACAAAAAAAT
*
104364086 ATATTATTTTTTTCGTTTTTTA
1 ATATTATTTTCTTCGTTTTTTA
104364108 ATATTATTTTCTT-GTTGTTTT
1 ATATTATTTTCTTCGTT-TTTT
104364129 CTTCCTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (22 bp):
ATATTATTTTCTTCGTTTTTTA
Found at i:104364244 original size:30 final size:30
Alignment explanation
Indices: 104364210--104364271 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
104364200 ACTTATTTTA
104364210 TTGTTAATTTTGTTATTATTTCAAAGGCAT
1 TTGTTAATTTTGTTATTATTTCAAAGGCAT
* *
104364240 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTCAAAGGCAT
104364270 TT
1 TT
104364272 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTCAAAGGCAT
Found at i:104366209 original size:15 final size:15
Alignment explanation
Indices: 104366157--104366272 Score: 58
Period size: 14 Copynumber: 8.1 Consensus size: 15
104366147 TTTATACTAC
*
104366157 AAAATATTT-TTATC
1 AAAATATTTATTATT
*
104366171 AATATATTTATTAATGT
1 AAAATATTTATT-AT-T
104366188 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
*
104366205 AAAATA-TTAATATT
1 AAAATATTTATTATT
*
104366219 -AAATA-TT-TTGTT
1 AAAATATTTATTATT
104366231 AAGAATA-TTA-T-TT
1 AA-AATATTTATTATT
104366244 AAAAT-TATTATT-TT
1 AAAATAT-TTATTATT
104366258 -AAA-ATTTATTATT
1 AAAATATTTATTATT
104366271 AA
1 AA
104366273 TATAATAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 28
0.71 0.05 0.24
Matches are distributed among these distances:
12 11 0.13
13 21 0.26
14 26 0.32
15 7 0.09
16 3 0.04
17 1 0.01
18 3 0.04
19 10 0.12
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:104366218 original size:14 final size:14
Alignment explanation
Indices: 104366191--104366286 Score: 60
Period size: 14 Copynumber: 7.1 Consensus size: 14
104366181 TTAATGTAAT
*
104366191 AAATATTTATTATTA
1 AAATA-TTAATATTA
104366206 AAATATTAATATT-
1 AAATATTAATATTA
* *
104366219 AAATATT-TTGTTA
1 AAATATTAATATTA
104366232 AGAATATT-AT-TTA
1 A-AATATTAATATTA
*
104366245 AAATTATT-ATTTTA
1 AAA-TATTAATATTA
*
104366259 AAAT-TTATTATTA
1 AAATATTAATATTA
* *
104366272 ATATAATAATATTA
1 AAATATTAATATTA
104366286 A
1 A
104366287 GTTTGATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
12 7 0.11
13 26 0.39
14 28 0.42
15 5 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
AAATATTAATATTA
Found at i:104368011 original size:72 final size:73
Alignment explanation
Indices: 104367929--104368065 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 73
104367919 TTTAAATTCA
104367929 TGTTTTCTTTGCATTTTCCGA-TTTTTCCTGGGTTTTTTACAACTGCGATAGCTGGTAAATGTTA
1 TGTTTTCTTTGCATTTTCCGATTTTTTCCTGGGTTTTTTACAACTGCGATAGCTGGTAAATGTTA
104367993 TTTTTCTC
66 TTTTTCTC
* * * * *
104368001 TGTTTTCTTTGCATTTTTCGATTTTTTCCTGGTTTTTTTACAACTTCGTTATCTGGTAAATGTTA
1 TGTTTTCTTTGCATTTTCCGATTTTTTCCTGGGTTTTTTACAACTGCGATAGCTGGTAAATGTTA
104368066 ATTACTTGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 20 0.34
73 39 0.66
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (73 bp):
TGTTTTCTTTGCATTTTCCGATTTTTTCCTGGGTTTTTTACAACTGCGATAGCTGGTAAATGTTA
TTTTTCTC
Found at i:104369478 original size:28 final size:28
Alignment explanation
Indices: 104369446--104369502 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
104369436 AATCTTTGCA
*
104369446 ACGCCTGAAAGAGAATATTCATACAGTC
1 ACGCCTGAAAGAGAATATTAATACAGTC
*
104369474 ACGCCTGAAAGAGCATATTAATACAGTC
1 ACGCCTGAAAGAGAATATTAATACAGTC
104369502 A
1 A
104369503 TCTAAACTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (28 bp):
ACGCCTGAAAGAGAATATTAATACAGTC
Found at i:104372182 original size:18 final size:18
Alignment explanation
Indices: 104372159--104372196 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
104372149 TATTGTTTTC
104372159 AAAATTTATTATTAAAAT
1 AAAATTTATTATTAAAAT
*
104372177 AAAATTTATTATTAATAT
1 AAAATTTATTATTAAAAT
104372195 AA
1 AA
104372197 TTATATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTTATTATTAAAAT
Found at i:104376145 original size:15 final size:16
Alignment explanation
Indices: 104376125--104376157 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
104376115 ATATATTTTT
104376125 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
104376140 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
104376157 T
1 T
104376158 ATAACAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:104376230 original size:21 final size:22
Alignment explanation
Indices: 104376204--104376262 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
104376194 GTTTTAAGAA
*
104376204 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
104376225 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
104376247 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
104376263 AATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:104376289 original size:26 final size:25
Alignment explanation
Indices: 104376233--104376293 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
104376223 ATTTGTTTTA
* *
104376233 ATATTTGTTT-TTATGTTTTTAAAT
1 ATATTTATTTATTATATTTTTAAAT
104376257 ATATTTAATTTATTATATTTTTAAAT
1 ATATTT-ATTTATTATATTTTTAAAT
* *
104376283 TTTTTTATTTA
1 ATATTTATTTA
104376294 ATGAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (25 bp):
ATATTTATTTATTATATTTTTAAAT
Found at i:104385490 original size:15 final size:15
Alignment explanation
Indices: 104385472--104385501 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104385462 AAATTTTAAT
*
104385472 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
104385487 TTTTTATAATTTATA
1 TTTTTATAATTTATA
104385502 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:104400623 original size:22 final size:21
Alignment explanation
Indices: 104400585--104400630 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
104400575 AATACCATTA
*
104400585 AAATAGTAGAGACATAATAGTG
1 AAATAGTAGAGAAATAATAG-G
104400607 AAATAGTAGCA-AAATAATAGG
1 AAATAGTAG-AGAAATAATAGG
104400628 AAA
1 AAA
104400631 AAGAAGAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 17 0.77
23 1 0.05
ACGTcount: A:0.57, C:0.04, G:0.20, T:0.20
Consensus pattern (21 bp):
AAATAGTAGAGAAATAATAGG
Found at i:104401846 original size:31 final size:31
Alignment explanation
Indices: 104401788--104401846 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
104401778 CATACTGCTT
*
104401788 AACATTAATCATCAATAATGATGTAAAAAAA
1 AACATTAATCATCAATAATGATCTAAAAAAA
* * *
104401819 AACATTTATCATGAATAATGCTCTAAAA
1 AACATTAATCATCAATAATGATCTAAAA
104401847 TTCACGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.29
Consensus pattern (31 bp):
AACATTAATCATCAATAATGATCTAAAAAAA
Found at i:104402689 original size:21 final size:21
Alignment explanation
Indices: 104402660--104402702 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
104402650 TAGTGAAATG
* *
104402660 ATAGCAAAATAGTGAAAAAAA
1 ATAGCAAAAAACTGAAAAAAA
*
104402681 ATAGTAAAAAACTGAAAAAAA
1 ATAGCAAAAAACTGAAAAAAA
104402702 A
1 A
104402703 CTGAAGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.14
Consensus pattern (21 bp):
ATAGCAAAAAACTGAAAAAAA
Found at i:104403235 original size:31 final size:31
Alignment explanation
Indices: 104403186--104403264 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
104403176 CATGAATTTG
* * *
104403186 ACAATTGTTCCAATATTAGGAT-TTGAACTTA
1 ACAATTGTTCCCACATTA-GATATTAAACTTA
*
104403217 ACAATTGTTCCCACATTAGATATTAAACTTG
1 ACAATTGTTCCCACATTAGATATTAAACTTA
* *
104403248 ATAATTATTCCCACATT
1 ACAATTGTTCCCACATT
104403265 GGGGTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 3 0.07
31 38 0.93
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (31 bp):
ACAATTGTTCCCACATTAGATATTAAACTTA
Found at i:104404869 original size:7 final size:7
Alignment explanation
Indices: 104404857--104404881 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
104404847 CAATCAACTA
104404857 TAAACCC
1 TAAACCC
104404864 TAAACCC
1 TAAACCC
104404871 TAAACCC
1 TAAACCC
104404878 TAAA
1 TAAA
104404882 AAACTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:104414688 original size:88 final size:88
Alignment explanation
Indices: 104414493--104414878 Score: 582
Period size: 88 Copynumber: 4.4 Consensus size: 88
104414483 TTTTTTTTTT
* * ** * * * * *
104414493 GATCTGCTTTGCTGTTAATGCAGGAAGGCAAGATCTGCT-TCTTTAACTAGCTCCA-CTGCAATC
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATC-ACAACC
** *
104414556 GATGGACGCAAGGCTTTGT-T-TTC
65 GAAAGAGGCAAGG-TTTGTGTCTTC
* * *
104414579 AATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
104414644 AAAGAGGCAAGGTTTGTGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
*
104414667 GATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
104414732 AAAGAGGCAAGGTTTGTGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
104414755 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
104414820 AAAGAGGCAAGGTTTGTGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
104414843 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
104414879 GTAACTTCAT
Statistics
Matches: 280, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
86 39 0.14
87 28 0.10
88 213 0.76
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (88 bp):
GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
AAAGAGGCAAGGTTTGTGTCTTC
Found at i:104414696 original size:44 final size:44
Alignment explanation
Indices: 104414648--104414874 Score: 165
Period size: 44 Copynumber: 5.2 Consensus size: 44
104414638 CAACCGAAAG
*
104414648 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
* * * * * ** ** * *
104414692 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGAAGGA
*
104414736 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
* * * * * ** ** * *
104414780 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGAAGGA
*
104414824 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
104414868 AGGCAAG
1 AGGCAAG
104414875 ATCTGTAACT
Statistics
Matches: 127, Mismatches: 48, Indels: 16
0.66 0.25 0.08
Matches are distributed among these distances:
43 32 0.25
44 63 0.50
45 32 0.25
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
Found at i:104419692 original size:19 final size:20
Alignment explanation
Indices: 104419663--104419711 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
104419653 CACTTCGTGA
* *
104419663 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
104419682 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
104419702 AAATG-AATGC
1 AAATGTAATGC
104419712 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:104431462 original size:40 final size:39
Alignment explanation
Indices: 104431330--104431466 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 39
104431320 CTCGAGAATA
* * *
104431330 TAAAGTGGATAGGATTCATTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTATTCCTGATTCACTA-AGTAACT
* * * * * *
104431370 CAAAGTGGATAGAATTTGTTCCTGATTCACCATCGTAATT
1 TAAAGTGGATAGGATTTATTCCTGATTCACTA-AGTAACT
*
104431410 TAAAGTGAATAGGATTTATTCCTGATTCACTAAGGTAACT
1 TAAAGTGGATAGGATTTATTCCTGATTCACTAA-GTAACT
* *
104431450 TAAGGCGGATAGGATTT
1 TAAAGTGGATAGGATTT
104431467 GACCTGAAAA
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (39 bp):
TAAAGTGGATAGGATTTATTCCTGATTCACTAAGTAACT
Found at i:104451256 original size:46 final size:46
Alignment explanation
Indices: 104451206--104451294 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
104451196 TATTTTTTTT
104451206 AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGATTTA
1 AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGATTTA
104451252 AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGAT
1 AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGAT
104451295 CTTGTTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.47
Consensus pattern (46 bp):
AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGATTTA
Found at i:104457959 original size:17 final size:17
Alignment explanation
Indices: 104457937--104457969 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
104457927 TCCCAAATTT
104457937 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
104457954 TGATACCCATATCTTT
1 TGATACCCATATCTTT
104457970 GACATTCCAT
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:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:104472817 original size:16 final size:16
Alignment explanation
Indices: 104472796--104472848 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
104472786 TGACATACAT
*
104472796 TAATTTTAATTTTGTG
1 TAATTTTAATTTTATG
*
104472812 TAATTTT-A-TATATG
1 TAATTTTAATTTTATG
* *
104472826 TAATTTTAATTTAATT
1 TAATTTTAATTTTATG
104472842 TAATTTT
1 TAATTTT
104472849 TACAAATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.37
15 2 0.07
16 17 0.57
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
TAATTTTAATTTTATG
Found at i:104475182 original size:7 final size:7
Alignment explanation
Indices: 104475170--104475194 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
104475160 TCTTGAGTTT
104475170 TTTAGGG
1 TTTAGGG
104475177 TTTAGGG
1 TTTAGGG
104475184 TTTAGGG
1 TTTAGGG
104475191 TTTA
1 TTTA
104475195 TAGTTGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:104476840 original size:31 final size:31
Alignment explanation
Indices: 104476787--104476873 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
104476777 TTTAAACCCC
* * *
104476787 AATGTGGGAATAATTATCAAGTTTAATAT-CT
1 AATGTGGGAACAATTGTCAAGTTCAA-ATCCT
*
104476818 AATGTGGGAACAATTGTTAAGTTCAAATCCT
1 AATGTGGGAACAATTGTCAAGTTCAAATCCT
* * *
104476849 AATATTGGAACAATTGTCAAATTCA
1 AATGTGGGAACAATTGTCAAGTTCA
104476874 TGTACTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 2 0.04
31 45 0.96
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (31 bp):
AATGTGGGAACAATTGTCAAGTTCAAATCCT
Found at i:104477385 original size:21 final size:21
Alignment explanation
Indices: 104477348--104477390 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
104477338 AAAACTTCAG
* *
104477348 TTTTTTTTCAGTTTTTTACTA
1 TTTTTTTTCACTATTTTACTA
*
104477369 TTTTTTTTCACTATTTTGCTA
1 TTTTTTTTCACTATTTTACTA
104477390 T
1 T
104477391 CATTTCACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTTTTTCACTATTTTACTA
Found at i:104478239 original size:31 final size:31
Alignment explanation
Indices: 104478204--104478262 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
104478194 AAAACGTGAA
*
104478204 TTTTAGAGCATTATTCATGATAAATGTTTTT
1 TTTTACAGCATTATTCATGATAAATGTTTTT
* * *
104478235 TTTTACATCATTATTGATGATTAATGTT
1 TTTTACAGCATTATTCATGATAAATGTT
104478263 AAGCAGTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.53
Consensus pattern (31 bp):
TTTTACAGCATTATTCATGATAAATGTTTTT
Found at i:104479077 original size:27 final size:27
Alignment explanation
Indices: 104479047--104479105 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
104479037 TTGACTGGAT
*
104479047 TTTAATAAATTTT-ATTTTAATATTTCA
1 TTTAAT-AATTTTGATATTAATATTTCA
* *
104479074 TTTAATATTTTTGGTATTAATATTTCA
1 TTTAATAATTTTGATATTAATATTTCA
104479101 TTTAA
1 TTTAA
104479106 GTTATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTAATAATTTTGATATTAATATTTCA
Found at i:104479462 original size:22 final size:21
Alignment explanation
Indices: 104479433--104479478 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
104479423 CTTCTTCTTT
*
104479433 TTTCCTATTAT-TTTGCTACTA
1 TTTCCTATTATGTCT-CTACTA
104479454 TTTCACTATTATGTCTCTACTA
1 TTTC-CTATTATGTCTCTACTA
104479476 TTT
1 TTT
104479479 TAATGGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 16 0.73
23 2 0.09
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTCCTATTATGTCTCTACTA
Found at i:104490240 original size:13 final size:13
Alignment explanation
Indices: 104490218--104490247 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
104490208 TCTTTTTTAA
*
104490218 TTTTTGTATAATT
1 TTTTTATATAATT
104490231 TTTTTATATAATT
1 TTTTTATATAATT
104490244 TTTT
1 TTTT
104490248 CACTCACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTATATAATT
Found at i:104491378 original size:20 final size:21
Alignment explanation
Indices: 104491355--104491393 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
104491345 GTTTTTATTT
*
104491355 TATTTTAGAATGT-TTTGATA
1 TATTTAAGAATGTGTTTGATA
*
104491375 TATTTAAGGATGTGTTTGA
1 TATTTAAGAATGTGTTTGA
104491394 GTTGAGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (21 bp):
TATTTAAGAATGTGTTTGATA
Found at i:104502295 original size:83 final size:83
Alignment explanation
Indices: 104502156--104502322 Score: 316
Period size: 83 Copynumber: 2.0 Consensus size: 83
104502146 TTATAGATCA
* *
104502156 CAATAACTAAGTGCACTACTTGGGGTAATAAATTTTCATTGATGTGCAATGATTGAAGGGAATTC
1 CAATAACTAAGTGCACTACTTGGGGTAATAAATTTTCATTGATGTGAAATGATTGAAGGGAATCC
104502221 AGTTTGCCATTTTTTCCC
66 AGTTTGCCATTTTTTCCC
104502239 CAATAACTAAGTGCACTACTTGGGGTAATAAATTTTCATTGATGTGAAATGATTGAAGGGAATCC
1 CAATAACTAAGTGCACTACTTGGGGTAATAAATTTTCATTGATGTGAAATGATTGAAGGGAATCC
104502304 AGTTTGCCATTTTTTCCC
66 AGTTTGCCATTTTTTCCC
104502322 C
1 C
104502323 TTCACCGTAG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (83 bp):
CAATAACTAAGTGCACTACTTGGGGTAATAAATTTTCATTGATGTGAAATGATTGAAGGGAATCC
AGTTTGCCATTTTTTCCC
Found at i:104510456 original size:25 final size:26
Alignment explanation
Indices: 104510399--104510482 Score: 93
Period size: 25 Copynumber: 3.3 Consensus size: 26
104510389 CTTTCCAATA
* *
104510399 TGCAAGCTGCAAGCTCAACAAAAATG
1 TGCAAGCTGCAAGCTTAGCAAAAATG
*
104510425 TGCAAGCTGCAAGCTTAGC-AAGATG
1 TGCAAGCTGCAAGCTTAGCAAAAATG
* *
104510450 T-CAAAGCTGCAAGCTTAGCGAGAA-G
1 TGC-AAGCTGCAAGCTTAGCAAAAATG
104510475 TGCAAGCT
1 TGCAAGCT
104510483 ATGAGCTCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.02
25 29 0.58
26 20 0.40
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
TGCAAGCTGCAAGCTTAGCAAAAATG
Found at i:104510658 original size:80 final size:79
Alignment explanation
Indices: 104510525--104510681 Score: 278
Period size: 80 Copynumber: 2.0 Consensus size: 79
104510515 GTTGCGAGCT
104510525 AAGACACCTTAAGAGACAGTAAGCAAAAATGCGAGCCTGTCAAAGGTGCAAGCTCAGCCTAGTGC
1 AAGACACCTTAAGAGACAGTAAGCAAAAATGCGAGCCTGTCAAAGGTGCAAGCTCAGCCTAGTGC
*
104510590 GAGCAGCAAAGTTG
66 GAGCAACAAAGTTG
* *
104510604 AAGACACCTTAAGAGACAGTAAGCAAAAAATGTGAGCCTGTCAAAGGTGCAAGCTCAGCCTGGTG
1 AAGACACCTTAAGAGACAGTAAGC-AAAAATGCGAGCCTGTCAAAGGTGCAAGCTCAGCCTAGTG
104510669 CGAGCAACAAAGT
65 CGAGCAACAAAGT
104510682 GCAAACCTGT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 24 0.32
80 50 0.68
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (79 bp):
AAGACACCTTAAGAGACAGTAAGCAAAAATGCGAGCCTGTCAAAGGTGCAAGCTCAGCCTAGTGC
GAGCAACAAAGTTG
Found at i:104515612 original size:12 final size:11
Alignment explanation
Indices: 104515588--104515622 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
104515578 TTTTCTTTTT
104515588 ATATTTTTAAA
1 ATATTTTTAAA
104515599 ATATTTTTATAA
1 ATATTTTTA-AA
*
104515611 ATATATTTAAA
1 ATATTTTTAAA
104515622 A
1 A
104515623 ATGTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:104515634 original size:20 final size:20
Alignment explanation
Indices: 104515609--104515647 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
104515599 ATATTTTTAT
104515609 AAATATATTTAAAAATGTAA
1 AAATATATTTAAAAATGTAA
104515629 AAATATATTTAAAAATGTA
1 AAATATATTTAAAAATGTA
104515648 TAAACATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
AAATATATTTAAAAATGTAA
Found at i:104517143 original size:29 final size:29
Alignment explanation
Indices: 104517111--104517178 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
104517101 TATAGGAAAA
*
104517111 TTATTAAAATAATATATATTTAATATTT-T
1 TTATTAAAATAATAT-TAATTAATATTTAT
* *
104517140 TTATCAAAATAATATTAATTGATATTTAT
1 TTATTAAAATAATATTAATTAATATTTAT
104517169 TTATTAAAAT
1 TTATTAAAAT
104517179 GATTTGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TTATTAAAATAATATTAATTAATATTTAT
Found at i:104518695 original size:30 final size:30
Alignment explanation
Indices: 104518661--104518724 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
104518651 AATGATAATC
104518661 AACCGGTATATTAATCCAAATAAAGAATTG
1 AACCGGTATATTAATCCAAATAAAGAATTG
*
104518691 AACCGGTATATTAATTCAAATAAAGAATTG
1 AACCGGTATATTAATCCAAATAAAGAATTG
104518721 AACC
1 AACC
104518725 AATCTCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (30 bp):
AACCGGTATATTAATCCAAATAAAGAATTG
Found at i:104521576 original size:18 final size:17
Alignment explanation
Indices: 104521553--104521588 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
104521543 CTTAATAAAT
*
104521553 ATTATAAATATATATTTA
1 ATTATAAAAATAT-TTTA
104521571 ATTATAAAAATATTTTA
1 ATTATAAAAATATTTTA
104521588 A
1 A
104521589 ATAGTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATAAAAATATTTTA
Found at i:104521596 original size:18 final size:18
Alignment explanation
Indices: 104521555--104521597 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
104521545 TAATAAATAT
* *
104521555 TATAAATATATATTTAAT
1 TATAAAAATATATTTAAA
104521573 TATAAAAATAT-TTTAAA
1 TATAAAAATATATTTAAA
104521590 TAGTAAAA
1 TA-TAAAA
104521598 TAAAAAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TATAAAAATATATTTAAA
Found at i:104525777 original size:29 final size:30
Alignment explanation
Indices: 104525745--104525802 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
104525735 TTACTACTAA
* *
104525745 ACTTTGA-ATTTTATTAAAATTTTCCACCG
1 ACTTTGATATTTAATTAAAATTTACCACCG
104525774 ACTTTGATTATTTAATTAAAATTTACCAC
1 ACTTTGA-TATTTAATTAAAATTTACCAC
104525803 TTGATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
31 18 0.72
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (30 bp):
ACTTTGATATTTAATTAAAATTTACCACCG
Found at i:104527941 original size:34 final size:34
Alignment explanation
Indices: 104527878--104527978 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
104527868 CGAGTTGATA
**
104527878 TGTTATAAGCATATTATTTGCTATTGTATTGAAC
1 TGTTATAAGCATATTATTTGCTACCGTATTGAAC
**
104527912 TGTTATAAGCATATTGA-TTGCTACCGTATTGTTC
1 TGTTATAAGCATATT-ATTTGCTACCGTATTGAAC
* * ** *
104527946 TGTTAAAAGTATAGTTACATGCAACCGTATTGA
1 TGTTATAAGCATA-TTATTTGCTACCGTATTGA
104527979 TTTGTTTGAG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
34 40 0.73
35 15 0.27
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTTATAAGCATATTATTTGCTACCGTATTGAAC
Found at i:104528150 original size:46 final size:45
Alignment explanation
Indices: 104528055--104528152 Score: 108
Period size: 46 Copynumber: 2.2 Consensus size: 45
104528045 TGAGCAATTT
* **
104528055 ATTTGCACCATTGAGTGGTTTATCCACACCGTTTAAGAAACTTTT
1 ATTTGCACCATTGAGTGGTTTAACCACACCGTTTAAGAAACTTCA
* * * *
104528100 ATTTGCACCGTTTGAGTGGTTTAACTACACCGTATT-GGCAACTTCA
1 ATTTGCACC-ATTGAGTGGTTTAACCACACCGT-TTAAGAAACTTCA
104528146 ATTTGCA
1 ATTTGCA
104528153 AACATGTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 9 0.20
46 33 0.75
47 2 0.05
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (45 bp):
ATTTGCACCATTGAGTGGTTTAACCACACCGTTTAAGAAACTTCA
Found at i:104530878 original size:17 final size:20
Alignment explanation
Indices: 104530851--104530894 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
104530841 CGTTTGTGTA
104530851 TTTATATTATTT-T-TTATT
1 TTTATATTATTTATCTTATT
104530869 TTTA-ATTATTTATCTTA-T
1 TTTATATTATTTATCTTATT
104530887 TTTATATT
1 TTTATATT
104530895 CGTATTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 10 0.43
19 6 0.26
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTATATTATTTATCTTATT
Found at i:104531314 original size:13 final size:11
Alignment explanation
Indices: 104531278--104531308 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
104531268 CCGCCTGTAT
104531278 TAATTTTTATA
1 TAATTTTTATA
*
104531289 TTATTTTTATA
1 TAATTTTTATA
104531300 TAATTTTTA
1 TAATTTTTA
104531309 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:104531473 original size:30 final size:30
Alignment explanation
Indices: 104531429--104531491 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
104531419 ACTTAACAAG
*
104531429 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
104531459 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
104531489 CAA
1 CAA
104531492 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:104531541 original size:14 final size:14
Alignment explanation
Indices: 104531522--104531552 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
104531512 ATCCAAACAA
104531522 TAACAACAAAATAG
1 TAACAACAAAATAG
*
104531536 TAACAACATAATAG
1 TAACAACAAAATAG
104531550 TAA
1 TAA
104531553 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:104533068 original size:18 final size:18
Alignment explanation
Indices: 104533045--104533082 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
104533035 CCGGATTCCC
*
104533045 CTCTCTTCTCTCTCCCTT
1 CTCTCTTCCCTCTCCCTT
*
104533063 CTCTCTTCCCTCTCTCTT
1 CTCTCTTCCCTCTCCCTT
104533081 CT
1 CT
104533083 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CTCTCTTCCCTCTCCCTT
Found at i:104533080 original size:11 final size:12
Alignment explanation
Indices: 104533049--104533081 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
104533039 ATTCCCCTCT
104533049 CTTCTCTC-TCC
1 CTTCTCTCTTCC
104533060 CTTCTCTCTTCC
1 CTTCTCTCTTCC
104533072 C-TCTCTCTTC
1 CTTCTCTCTTC
104533082 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:104533568 original size:3 final size:3
Alignment explanation
Indices: 104533544--104533614 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
104533534 AATATCCTTG
* * * *
104533544 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
104533591 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
104533615 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:104533611 original size:23 final size:22
Alignment explanation
Indices: 104533556--104533617 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
104533546 ATTTTTATAT
*
104533556 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
104533577 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
104533599 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
104533618 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:104533624 original size:23 final size:23
Alignment explanation
Indices: 104533551--104533625 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
104533541 TTGTTATTTT
* *
104533551 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
104533574 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
104533599 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
104533622 TATA
1 TATA
104533626 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:104535317 original size:32 final size:31
Alignment explanation
Indices: 104535281--104535358 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
104535271 ACATTTGTAA
104535281 TATTTATAACTAATTAG-TAAATAGATATTTAT
1 TATTTATAA-TAATTAGTTAAA-AGATATTTAT
* *
104535313 TATTTATTATTATTAAGTTAAAAGATATTTAT
1 TATTTATAATAATT-AGTTAAAAGATATTTAT
*
104535345 TAATTA-AATAATTA
1 TATTTATAATAATTA
104535359 TATTATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 1 0.03
31 9 0.23
32 25 0.64
33 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (31 bp):
TATTTATAATAATTAGTTAAAAGATATTTAT
Found at i:104535450 original size:12 final size:12
Alignment explanation
Indices: 104535435--104535489 Score: 74
Period size: 12 Copynumber: 4.5 Consensus size: 12
104535425 AAATAGATAT
*
104535435 TTATTATAATAA
1 TTATTATAATTA
104535447 TTATTATAATGTA
1 TTATTATAAT-TA
*
104535460 TTATTATGATTA
1 TTATTATAATTA
*
104535472 TTATTATTATTA
1 TTATTATAATTA
104535484 TTATTA
1 TTATTA
104535490 ACTAATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
12 29 0.74
13 10 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:104535452 original size:3 final size:3
Alignment explanation
Indices: 104535435--104535489 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
104535425 AAATAGATAT
* * * *
104535435 TTA TTA TAA TAA TTA TTA TAA TGTA TTA TTA TGA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
104535481 TTA TTA TTA
1 TTA TTA TTA
104535490 ACTAATATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:104535944 original size:22 final size:24
Alignment explanation
Indices: 104535916--104535960 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
104535906 CATATGGCAA
104535916 AAATTAAG-TAGAAAAG-AAGTAT
1 AAATTAAGTTAGAAAAGTAAGTAT
104535938 AAATTAAGTTAGAAAAGTAAGTA
1 AAATTAAGTTAGAAAAGTAAGTA
104535961 AACTTAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (24 bp):
AAATTAAGTTAGAAAAGTAAGTAT
Found at i:104535962 original size:22 final size:22
Alignment explanation
Indices: 104535916--104535971 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
104535906 CATATGGCAA
104535916 AAATTAAG-TAGAAAAGAAGTAT
1 AAATTAAGTTAGAAAAGAAG-AT
104535938 AAATTAAGTTAGAAAAGTAAG-T
1 AAATTAAGTTAGAAAAG-AAGAT
104535960 AAACTT-AGTTAG
1 AAA-TTAAGTTAG
104535972 GATTAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
22 18 0.58
23 10 0.32
24 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.18, T:0.27
Consensus pattern (22 bp):
AAATTAAGTTAGAAAAGAAGAT
Found at i:104536347 original size:10 final size:10
Alignment explanation
Indices: 104536332--104536359 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
104536322 GTGAATTGTA
104536332 GTTAATATGT
1 GTTAATATGT
104536342 GTTAATATGT
1 GTTAATATGT
104536352 GTTAATAT
1 GTTAATAT
104536360 TGAATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (10 bp):
GTTAATATGT
Found at i:104541127 original size:33 final size:32
Alignment explanation
Indices: 104541062--104541128 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
104541052 GTTAAAGTAT
* **
104541062 AAAAAAATTGGAGTATAAATAAAGAAGTGGTC
1 AAAAAAATTGGAGCATAAATAAAGAAACGGTC
*
104541094 AAAAAGAATTGGAGCATAAATCAAGAAACGGTC
1 AAAAA-AATTGGAGCATAAATAAAGAAACGGTC
104541127 AA
1 AA
104541129 CTGAAGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.54, C:0.07, G:0.21, T:0.18
Consensus pattern (32 bp):
AAAAAAATTGGAGCATAAATAAAGAAACGGTC
Found at i:104541492 original size:25 final size:25
Alignment explanation
Indices: 104541454--104541501 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
104541444 TCTTATTAAA
*
104541454 AATAAGAAAAAAAAATTATAAAAAT
1 AATAAGAAAAAAAAATTAGAAAAAT
*
104541479 AATAA-AAAATAAAATTTAGAAAA
1 AATAAGAAAA-AAAAATTAGAAAA
104541502 TTATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (25 bp):
AATAAGAAAAAAAAATTAGAAAAAT
Found at i:104541509 original size:25 final size:23
Alignment explanation
Indices: 104541450--104541502 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
104541440 CTGGTCTTAT
*
104541450 TAAAAATAA-GAAAAAAAAATTA
1 TAAAAATAATAAAAAAAAAATTA
104541472 TAAAAATAATAAAAAATAAAATT-
1 TAAAAATAATAAAAAA-AAAATTA
104541495 TAGAAAAT
1 TA-AAAAT
104541503 TATTAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 9 0.33
23 7 0.26
24 11 0.41
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (23 bp):
TAAAAATAATAAAAAAAAAATTA
Found at i:104541526 original size:17 final size:17
Alignment explanation
Indices: 104541465--104541537 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
104541455 ATAAGAAAAA
*
104541465 AAAATTATAAAA-ATAAT
1 AAAA-TATAAAATTTAAT
*
104541482 AAAAAATAAAATTTAGA-
1 AAAATATAAAATTTA-AT
* *
104541499 AAATTATTAAATTTTAAT
1 AAAATA-TAAAATTTAAT
*
104541517 AAAATATAAAATTTATT
1 AAAATATAAAATTTAAT
104541534 AAAA
1 AAAA
104541538 ATTAGAATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
16 6 0.14
17 24 0.55
18 14 0.32
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (17 bp):
AAAATATAAAATTTAAT
Found at i:104541528 original size:18 final size:18
Alignment explanation
Indices: 104541478--104541530 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
104541468 ATTATAAAAA
*
104541478 TAATAAAAAATAAAA-TT
1 TAATAAAATATAAAATTT
* *
104541495 TAGA-AAATTATTAAATTT
1 TA-ATAAAATATAAAATTT
104541513 TAATAAAATATAAAATTT
1 TAATAAAATATAAAATTT
104541531 ATTAAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TAATAAAATATAAAATTT
Found at i:104541538 original size:18 final size:18
Alignment explanation
Indices: 104541481--104541539 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
104541471 ATAAAAATAA
104541481 TAAAAA-ATAAAATTTA-
1 TAAAAATATAAAATTTAT
* * *
104541497 GAAAATTATTAAATTT-T
1 TAAAAATATAAAATTTAT
*
104541514 AATAAAATATAAAATTTAT
1 TA-AAAATATAAAATTTAT
104541533 TAAAAAT
1 TAAAAAT
104541540 TAGAATTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 17 0.53
19 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TAAAAATATAAAATTTAT
Found at i:104541547 original size:35 final size:34
Alignment explanation
Indices: 104541478--104541548 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 34
104541468 ATTATAAAAA
104541478 TAATAAAAAATAAAATTTAGAAAATTATTAAATTT
1 TAATAAAAAATAAAATTTAGAAAA-TATTAAATTT
* *
104541513 TAATAAAATATAAAATTTATTAAAA-ATTAGAATTT
1 TAATAAAAAATAAAATTTA-GAAAATATTA-AATTT
104541548 T
1 T
104541549 TTTATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.12
35 24 0.75
36 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (34 bp):
TAATAAAAAATAAAATTTAGAAAATATTAAATTT
Found at i:104541711 original size:11 final size:11
Alignment explanation
Indices: 104541687--104541720 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
104541677 ATAAAAGAAT
*
104541687 AAAAATTA-AT
1 AAAAATTATAA
104541697 AAAAATTATAA
1 AAAAATTATAA
104541708 AAAAATTATAA
1 AAAAATTATAA
104541719 AA
1 AA
104541721 TGCTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Done.