Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 18 of 141
Found at i:5744312 original size:20 final size:20
Alignment explanation
Indices: 5744287--5744324 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5744277 AGAGCTGGTT
5744287 TATATGAATGAATGTATGCA
1 TATATGAATGAATGTATGCA
* *
5744307 TATATGTATGTATGTATG
1 TATATGAATGAATGTATG
5744325 TATCTATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (20 bp):
TATATGAATGAATGTATGCA
Found at i:5744316 original size:4 final size:4
Alignment explanation
Indices: 5744298--5744339 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
5744288 ATATGAATGA
* * *
5744298 ATGT ATGC ATAT ATGT ATGT ATGT ATGT ATCT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
5744340 CTATATACGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:5744332 original size:12 final size:12
Alignment explanation
Indices: 5744309--5744343 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
5744299 TGTATGCATA
*
5744309 TATGTATGTATG
1 TATGTATCTATG
5744321 TATGTATCTATG
1 TATGTATCTATG
5744333 TATGTATCTAT
1 TATGTATCTAT
5744344 ATACGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (12 bp):
TATGTATCTATG
Found at i:5750482 original size:4 final size:4
Alignment explanation
Indices: 5750473--5750497 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
5750463 CATATTGTTT
5750473 ATGG ATGG ATGG ATGG ATGG ATGG A
1 ATGG ATGG ATGG ATGG ATGG ATGG A
5750498 CTTAAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (4 bp):
ATGG
Found at i:5754903 original size:14 final size:14
Alignment explanation
Indices: 5754884--5754913 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5754874 ACACTTGGTT
5754884 AACTCCATTACTGG
1 AACTCCATTACTGG
*
5754898 AACTCCTTTACTGG
1 AACTCCATTACTGG
5754912 AA
1 AA
5754914 GCAGTATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (14 bp):
AACTCCATTACTGG
Found at i:5756733 original size:30 final size:30
Alignment explanation
Indices: 5756699--5756757 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
5756689 CCGTTATTTT
5756699 TACACTAACAGCAAGTAAACGCACCGCACA
1 TACACTAACAGCAAGTAAACGCACCGCACA
5756729 TACACTAACAGCAAGTAAACGCACCGCAC
1 TACACTAACAGCAAGTAAACGCACCGCAC
5756758 GTCCAAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.34, G:0.14, T:0.10
Consensus pattern (30 bp):
TACACTAACAGCAAGTAAACGCACCGCACA
Found at i:5757236 original size:22 final size:22
Alignment explanation
Indices: 5757187--5757241 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
5757177 TTTAATTAAA
* * **
5757187 ATTAAAATTAAAATTATTTTTT
1 ATTAAAATTAAAACTAATTGAT
*
5757209 AATAAAATTAAAACTAATTGAT
1 ATTAAAATTAAAACTAATTGAT
5757231 ATTAAAATTAA
1 ATTAAAATTAA
5757242 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATTAAAATTAAAACTAATTGAT
Found at i:5757252 original size:16 final size:16
Alignment explanation
Indices: 5757217--5757256 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5757207 TTAATAAAAT
* *
5757217 TAAAACTAATTGATAT
1 TAAAATTAATTGATAG
*
5757233 TAAAATTAATTGTTAG
1 TAAAATTAATTGATAG
5757249 TAAAATTA
1 TAAAATTA
5757257 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (16 bp):
TAAAATTAATTGATAG
Found at i:5757256 original size:22 final size:21
Alignment explanation
Indices: 5757189--5757256 Score: 56
Period size: 22 Copynumber: 3.4 Consensus size: 21
5757179 TAATTAAAAT
* *
5757189 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAATTAATTGTT-A
*
5757211 TAAAATTAAAACTAATTG--A
1 TAAAATTAAAATTAATTGTTA
5757230 T---ATTAAAATTAATTGTTA
1 TAAAATTAAAATTAATTGTTA
5757248 GTAAAATTA
1 -TAAAATTA
5757257 TCAAATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
16 13 0.36
18 1 0.03
19 3 0.08
22 19 0.53
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (21 bp):
TAAAATTAAAATTAATTGTTA
Found at i:5757451 original size:59 final size:59
Alignment explanation
Indices: 5757267--5757432 Score: 323
Period size: 59 Copynumber: 2.8 Consensus size: 59
5757257 TCAAATTATT
*
5757267 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
5757326 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
5757385 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAG
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAG
5757433 ACGTGACACG
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 106 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.46
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:5758879 original size:103 final size:104
Alignment explanation
Indices: 5758759--5758967 Score: 402
Period size: 103 Copynumber: 2.0 Consensus size: 104
5758749 ATTAATTTAT
5758759 TTTATATTTAAATAATTTTTGAAGAATTATATTTAAATATTTACTTGATTTTAAAAAGATTGGAA
1 TTTATATTT-AATAATTTTTGAAGAATTATATTTAAATATTTACTTGATTTTAAAAAGATTGGAA
5758824 ATATTTAAGATGATTAACAAAATTTTAAATTAAAGTGGAG
65 ATATTTAAGATGATTAACAAAATTTTAAATTAAAGTGGAG
5758864 TTTATATTT-ATAATTTTTGAAGAATTATATTTAAATATTTACTTGATTTTAAAAAGATTGGAAA
1 TTTATATTTAATAATTTTTGAAGAATTATATTTAAATATTTACTTGATTTTAAAAAGATTGGAAA
5758928 TATTTAAGATGATTAACAAAATTTTAAATTAAAGTGGAG
66 TATTTAAGATGATTAACAAAATTTTAAATTAAAGTGGAG
5758967 T
1 T
5758968 GGAGTGGAGT
Statistics
Matches: 104, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
103 95 0.91
105 9 0.09
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (104 bp):
TTTATATTTAATAATTTTTGAAGAATTATATTTAAATATTTACTTGATTTTAAAAAGATTGGAAA
TATTTAAGATGATTAACAAAATTTTAAATTAAAGTGGAG
Found at i:5763638 original size:91 final size:91
Alignment explanation
Indices: 5763483--5763666 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
5763473 TACTAGGGTT
5763483 ACACAGGGAGCCGAGACAAACCACATAAAACGGACATATCGAGCAACCACAACAGCCACAAGCTA
1 ACACAGGGAGCCGAGACAAACCACATAAAACGGACATATCGAGCAACCACAACAGCCACAAGCTA
5763548 AGCGATCGAATCACTTCCACAGTTTA
66 AGCGATCGAATCACTTCCACAGTTTA
5763574 ACACAGGGAGCCGAGACAAACCACATAAAACGGACATATCGAGCAACCACAACAGCCACAAGCTA
1 ACACAGGGAGCCGAGACAAACCACATAAAACGGACATATCGAGCAACCACAACAGCCACAAGCTA
5763639 AGCGATCGAATCACTTCCACAGTTTA
66 AGCGATCGAATCACTTCCACAGTTTA
5763665 AC
1 AC
5763667 GAACTTGTCA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.41, C:0.30, G:0.17, T:0.12
Consensus pattern (91 bp):
ACACAGGGAGCCGAGACAAACCACATAAAACGGACATATCGAGCAACCACAACAGCCACAAGCTA
AGCGATCGAATCACTTCCACAGTTTA
Found at i:5768218 original size:12 final size:14
Alignment explanation
Indices: 5768189--5768221 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
5768179 TCTTAGAGTT
5768189 TTTTTATGTTTCTA
1 TTTTTATGTTTCTA
5768203 TTTTTAT-TTT-TA
1 TTTTTATGTTTCTA
5768215 TTTTTAT
1 TTTTTAT
5768222 ATACGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
13 3 0.16
14 7 0.37
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTATGTTTCTA
Found at i:5785518 original size:20 final size:21
Alignment explanation
Indices: 5785472--5785517 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
5785462 AAAGTAAGTC
5785472 TATTTTT-T-AAAAATATATA
1 TATTTTTATAAAAAATATATA
5785491 TATTTTTATAAAAAATA-ATAA
1 TATTTTTATAAAAAATATAT-A
5785512 TATTTT
1 TATTTT
5785518 AAATAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 3 0.12
21 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTTTTATAAAAAATATATA
Found at i:5785525 original size:18 final size:18
Alignment explanation
Indices: 5785476--5785527 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
5785466 TAAGTCTATT
*
5785476 TTTTAAAAATATATATATT
1 TTTTAAAAATA-ATATATA
5785495 TTTATAAAAAATAATA-ATA
1 TTT-T-AAAAATAATATATA
5785514 TTTTAAATAATAAT
1 TTTTAAA-AATAAT
5785528 CAAATTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.10
18 7 0.24
19 8 0.28
20 4 0.14
21 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTTAAAAATAATATATA
Found at i:5785534 original size:18 final size:18
Alignment explanation
Indices: 5785475--5785527 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
5785465 GTAAGTCTAT
* *
5785475 TTTTTAAAAATATATATATT
1 TTTTAAAAAATA-ATA-ATA
5785495 TTTATAAAAAATAATAATA
1 TTT-TAAAAAATAATAATA
*
5785514 TTTTAAATAATAAT
1 TTTTAAAAAATAAT
5785528 CAAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 10 0.34
19 5 0.17
20 6 0.21
21 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTAAAAAATAATAATA
Found at i:5795261 original size:22 final size:24
Alignment explanation
Indices: 5795236--5795280 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
5795226 TATAATTTAA
*
5795236 TTATTTTTATAAT-TTA-TATTTT
1 TTATTTTTAAAATATTACTATTTT
5795258 TTATTTTTAAAATATTACTATTT
1 TTATTTTTAAAATATTACTATTT
5795281 GGTATATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 3 0.15
24 5 0.25
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TTATTTTTAAAATATTACTATTTT
Found at i:5799379 original size:6 final size:6
Alignment explanation
Indices: 5799368--5799399 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5799358 TATTTCCCTT
5799368 TGCATG TGCATG TGCATG TGCATG TGCATG TG
1 TGCATG TGCATG TGCATG TGCATG TGCATG TG
5799400 TCTCAGTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (6 bp):
TGCATG
Found at i:5804385 original size:384 final size:385
Alignment explanation
Indices: 5803968--5804736 Score: 1531
Period size: 384 Copynumber: 2.0 Consensus size: 385
5803958 TTACAATTTA
5803968 CTTCAATATATATATATATATATATATATGAAAATTGGTTGCTTTACTGGTGAGTGAGTGCGCAG
1 CTTCAATATATATATATATATATATATATGAAAATTGGTTGCTTTACTGGTGAGTGAGTGCGCAG
5804033 TGGGGTATATACATATAATACAGCCAGATAGGTGAAGGAAAGCAAAATTAAACTCAAGCTCAACA
66 TGGGGTATATACATATAATACAGCCAGATAGGTGAAGGAAAGCAAAATTAAACTCAAGCTCAACA
5804098 TTGAATAAAATTTTAAGGACAAATTTAAACATGAAAGAGAATTTAAAAGATACCCTGCCCCCATA
131 TTGAATAAAATTTTAAGGACAAATTTAAACATGAAAGAGAATTTAAAAGATACCCTGCCCCCATA
5804163 ATCAAAGGGATAAAATTTATGGGTTAATTGCATTTTCATCTTCAAACTATTTTTTTCTAGATTTT
196 ATCAAAGGGATAAAATTTATGGGTTAATTGCATTTTCATCTTCAAACTATTTTTTTCTAGATTTT
5804228 AGATTGATCTCAACTCACTTTAAAGTATTATTATCATATCAATTAGATTATTATGTTGTTAGGTT
261 AGATTGATCTCAACTCACTTTAAAGTATTATTATCATATCAATTAGATTATTATGTTGTTAGGTT
5804293 GGGCATTAAATGTTAAGTTAGATATGATGTGAAGTACTTGGATTAAACATATATTTTTTC
326 GGGCATTAAATGTTAAGTTAGATATGATGTGAAGTACTTGGATTAAACATATATTTTTTC
5804353 CTTCAATATA-ATATATATATATATATATGAAAATTGGTTGCTTTACTGGTGAGTGAGTGCGCAG
1 CTTCAATATATATATATATATATATATATGAAAATTGGTTGCTTTACTGGTGAGTGAGTGCGCAG
5804417 TGGGGTATATACATATAATACAGCCAGATAGGTGAAGGAAAGCAAAATTAAACTCAAGCTCAACA
66 TGGGGTATATACATATAATACAGCCAGATAGGTGAAGGAAAGCAAAATTAAACTCAAGCTCAACA
5804482 TTGAATAAAATTTTAAGGACAAATTTAAACATGAAAGAGAATTTAAAAGATACCCTGCCCCCATA
131 TTGAATAAAATTTTAAGGACAAATTTAAACATGAAAGAGAATTTAAAAGATACCCTGCCCCCATA
5804547 ATCAAAGGGATAAAATTTATGGGTTAATTGCATTTTCATCTTCAAACTATTTTTTTCTAGATTTT
196 ATCAAAGGGATAAAATTTATGGGTTAATTGCATTTTCATCTTCAAACTATTTTTTTCTAGATTTT
5804612 AGATTGATCTCAACTCACTTTAAAGTATTATTATCATATCAATTAGATTATTATGTTGTTAGGTT
261 AGATTGATCTCAACTCACTTTAAAGTATTATTATCATATCAATTAGATTATTATGTTGTTAGGTT
5804677 GGGCATTAAATGTTAAGTTAGATATGATGTGAAGTACTTGGATTAAACATATATTTTTTC
326 GGGCATTAAATGTTAAGTTAGATATGATGTGAAGTACTTGGATTAAACATATATTTTTTC
5804737 ATTTTGGGGG
Statistics
Matches: 384, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
384 374 0.97
385 10 0.03
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (385 bp):
CTTCAATATATATATATATATATATATATGAAAATTGGTTGCTTTACTGGTGAGTGAGTGCGCAG
TGGGGTATATACATATAATACAGCCAGATAGGTGAAGGAAAGCAAAATTAAACTCAAGCTCAACA
TTGAATAAAATTTTAAGGACAAATTTAAACATGAAAGAGAATTTAAAAGATACCCTGCCCCCATA
ATCAAAGGGATAAAATTTATGGGTTAATTGCATTTTCATCTTCAAACTATTTTTTTCTAGATTTT
AGATTGATCTCAACTCACTTTAAAGTATTATTATCATATCAATTAGATTATTATGTTGTTAGGTT
GGGCATTAAATGTTAAGTTAGATATGATGTGAAGTACTTGGATTAAACATATATTTTTTC
Found at i:5806547 original size:35 final size:36
Alignment explanation
Indices: 5806489--5806561 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 36
5806479 TTGAAATTTT
5806489 TATATTTTTATAAAATTAAAATAAATAAATAAACCC
1 TATATTTTTATAAAATTAAAATAAATAAATAAACCC
*
5806525 TATATTTTTA-AAAATTATAATAAATAAATAAACCC
1 TATATTTTTATAAAATTAAAATAAATAAATAAACCC
5806560 TA
1 TA
5806562 AACTACAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 26 0.72
36 10 0.28
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (36 bp):
TATATTTTTATAAAATTAAAATAAATAAATAAACCC
Found at i:5806573 original size:35 final size:35
Alignment explanation
Indices: 5806500--5806573 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
5806490 ATATTTTTAT
* * ***
5806500 AAAATTAAAATAAATAAATAAACCCTATATTTTTA
1 AAAATTAAAATAAATAAATAAACCCTAAACTACAA
*
5806535 AAAATTATAATAAATAAATAAACCCTAAACTACAA
1 AAAATTAAAATAAATAAATAAACCCTAAACTACAA
5806570 AAAA
1 AAAA
5806574 AGGTATCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (35 bp):
AAAATTAAAATAAATAAATAAACCCTAAACTACAA
Found at i:5808204 original size:19 final size:20
Alignment explanation
Indices: 5808161--5808204 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
5808151 AATACAATTT
5808161 TAAAAATTAAAAAAAAGGAC
1 TAAAAATTAAAAAAAAGGAC
* * *
5808181 GAAAAA-TAAAATAAATGAC
1 TAAAAATTAAAAAAAAGGAC
5808200 TAAAA
1 TAAAA
5808205 TGATTTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (20 bp):
TAAAAATTAAAAAAAAGGAC
Found at i:5808441 original size:2 final size:2
Alignment explanation
Indices: 5808434--5808459 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5808424 CTTGCGGTAA
5808434 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
5808460 GCGCTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5816976 original size:11 final size:11
Alignment explanation
Indices: 5816960--5816984 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5816950 TCATTTCCTT
5816960 TTTTTATATTA
1 TTTTTATATTA
5816971 TTTTTATATTA
1 TTTTTATATTA
5816982 TTT
1 TTT
5816985 CGGTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:5817235 original size:25 final size:25
Alignment explanation
Indices: 5817206--5817262 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
5817196 TTTAAAAAAT
*
5817206 TAATATAT-TAATTTATTTTTATA-G
1 TAATATATATAA-TTATTTGTATATG
*
5817230 TCAATAAATATAATTATTTGTATATG
1 T-AATATATATAATTATTTGTATATG
5817256 TAATATA
1 TAATATA
5817263 AAAATGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.04
25 21 0.78
26 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (25 bp):
TAATATATATAATTATTTGTATATG
Found at i:5822684 original size:19 final size:19
Alignment explanation
Indices: 5822660--5822772 Score: 181
Period size: 19 Copynumber: 5.8 Consensus size: 19
5822650 AAATTTTGAG
5822660 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
5822679 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
5822698 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5822717 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
**
5822738 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5822757 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
5822773 ATATATGATT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 67 0.78
21 19 0.22
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5822727 original size:59 final size:59
Alignment explanation
Indices: 5822661--5822772 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 59
5822651 AATTTTGAGG
*
5822661 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATATGAT
* *
5822720 ATATGCAATCTTAGATATGATATATAATCTTAGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGA
5822773 ATATATGATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATATGAT
Found at i:5823551 original size:24 final size:26
Alignment explanation
Indices: 5823509--5823557 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 26
5823499 TATGTACATG
5823509 TATATTTTTTTTAACGAATATTTTCC
1 TATATTTTTTTTAACGAATATTTTCC
5823535 TATA-TTTTTTTAA-GAATATTTTC
1 TATATTTTTTTTAACGAATATTTTC
5823558 ATATTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 10 0.43
25 9 0.39
26 4 0.17
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (26 bp):
TATATTTTTTTTAACGAATATTTTCC
Found at i:5824752 original size:3 final size:3
Alignment explanation
Indices: 5824739--5824777 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
5824729 ATTTTACCCA
* * *
5824739 TAT TGT TAT TAT TAT TAG TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5824778 CGTTCATGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5825772 original size:42 final size:42
Alignment explanation
Indices: 5825715--5825796 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
5825705 TCTAGTAATT
* *
5825715 GTATTTGGGGATAATTGTTTGTAATTACATAAGGGTGGCAAA
1 GTATTTCGGGATAATTGCTTGTAATTACATAAGGGTGGCAAA
* * *
5825757 GTATTTCGGGCTAATTGCTTGTAATTATATAATGGTGGCA
1 GTATTTCGGGATAATTGCTTGTAATTACATAAGGGTGGCA
5825797 TGGCTGGATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.28, C:0.07, G:0.27, T:0.38
Consensus pattern (42 bp):
GTATTTCGGGATAATTGCTTGTAATTACATAAGGGTGGCAAA
Found at i:5826288 original size:17 final size:18
Alignment explanation
Indices: 5826249--5826289 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
5826239 ATTTTGGATA
5826249 ATTATA-TATAAATTATT
1 ATTATATTATAAATTATT
*
5826266 A-CATATTATAAATT-TT
1 ATTATATTATAAATTATT
5826282 ATTATATT
1 ATTATATT
5826290 TTTTACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATATTATAAATTATT
Found at i:5827271 original size:17 final size:16
Alignment explanation
Indices: 5827239--5827280 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
5827229 AATTTTGTAA
5827239 AAAAATATATAAAAATT
1 AAAAATATATAAAAA-T
5827256 AAAAATATCAT-AAAAT
1 AAAAATAT-ATAAAAAT
5827272 -AAAATATAT
1 AAAAATATAT
5827281 GAAATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 7 0.29
16 1 0.04
17 12 0.50
18 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATATATAAAAAT
Found at i:5830108 original size:5 final size:5
Alignment explanation
Indices: 5830098--5830123 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5830088 TTCGTTGCAA
5830098 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
5830124 AAATTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:5830864 original size:22 final size:21
Alignment explanation
Indices: 5830838--5830899 Score: 54
Period size: 23 Copynumber: 2.9 Consensus size: 21
5830828 TTCCCAAAAA
*
5830838 AATAATTTATAATTTTTACGAT
1 AATAATTTATAATTTTTA-AAT
**
5830860 AATAAAAATATAATTTTTAAAT
1 AAT-AATTTATAATTTTTAAAT
*
5830882 AATTATATTA-AATTTTTA
1 AATAAT-TTATAATTTTTA
5830900 TCATTTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 13 0.41
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
AATAATTTATAATTTTTAAAT
Found at i:5832910 original size:29 final size:29
Alignment explanation
Indices: 5832876--5832932 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
5832866 TATTGGGATG
*
5832876 GGATCAATTTAGCCATTCCATTATTAAGT
1 GGATCAATTTAGCCATTACATTATTAAGT
* *
5832905 GGATCAATTTAGCCTTTATATTATTAAG
1 GGATCAATTTAGCCATTACATTATTAAG
5832933 AAGAATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (29 bp):
GGATCAATTTAGCCATTACATTATTAAGT
Found at i:5833412 original size:26 final size:25
Alignment explanation
Indices: 5833375--5833431 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
5833365 TTATCATTAC
*
5833375 TTAATTAATATTAAATTT-AATTATG
1 TTAATTAATATT-AATTTGAATAATG
* *
5833400 TTAATTAGTTATTATTTTGAATAATG
1 TTAATTA-ATATTAATTTGAATAATG
5833426 TTAATT
1 TTAATT
5833432 TGCTTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (25 bp):
TTAATTAATATTAATTTGAATAATG
Found at i:5837306 original size:21 final size:21
Alignment explanation
Indices: 5837280--5837334 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
5837270 AATAGCGGTG
*
5837280 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
5837301 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
* *
5837322 ACAGTGAGATTAG
1 GCGGTGAGATTAG
5837335 AAACAGCGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:5842606 original size:24 final size:24
Alignment explanation
Indices: 5842579--5842628 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5842569 GAGGACTTGA
5842579 AGTTCCACGCG-AGCTGGAGCTCGG
1 AGTTCCACGCGTAGC-GGAGCTCGG
* *
5842603 AGTTCCAGGCGTAGCGGCGCTCGG
1 AGTTCCACGCGTAGCGGAGCTCGG
5842627 AG
1 AG
5842629 GAGGAGGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (24 bp):
AGTTCCACGCGTAGCGGAGCTCGG
Found at i:5842662 original size:39 final size:39
Alignment explanation
Indices: 5842619--5842857 Score: 385
Period size: 39 Copynumber: 6.2 Consensus size: 39
5842609 AGGCGTAGCG
5842619 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
1 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
5842658 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
1 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
5842697 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
1 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
5842736 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
1 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
* * * *
5842775 GCTCTCGGAGGAGGAGGACTTGAAGTTCCACGAGGGGTG
1 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
* * *
5842814 GCGCTC---GGACGAGGACTTGAAGTTCCATGCGGGGTG
1 GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
*
5842850 GGGCTCGG
1 GCGCTCGG
5842858 CGTGGCGGTG
Statistics
Matches: 189, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
36 32 0.17
39 157 0.83
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.16
Consensus pattern (39 bp):
GCGCTCGGAGGAGGAGGACTTGAAGTTCCAGGCGGGGTA
Found at i:5846801 original size:20 final size:20
Alignment explanation
Indices: 5846771--5846815 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
5846761 AAATTTTTTA
5846771 TTTTTTATTTTTAAAATA-T
1 TTTTTTATTTTTAAAATACT
5846790 TTTTTTATTTTTAAAATACT
1 TTTTTTATTTTTAAAATACT
5846810 TTTTTT
1 TTTTTT
5846816 TTTGTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTATTTTTAAAATACT
Found at i:5846884 original size:11 final size:11
Alignment explanation
Indices: 5846870--5846915 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
5846860 AATTTTTTAA
5846870 TTTTAAAATAT
1 TTTTAAAATAT
5846881 TTTTAAAATAT
1 TTTTAAAATAT
*
5846892 TTTT---TTAT
1 TTTTAAAATAT
5846900 TTTTAAAATACT
1 TTTTAAAATA-T
5846912 TTTT
1 TTTT
5846916 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
8 7 0.24
11 17 0.59
12 5 0.17
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:5846914 original size:20 final size:19
Alignment explanation
Indices: 5846878--5846934 Score: 98
Period size: 20 Copynumber: 3.0 Consensus size: 19
5846868 AATTTTAAAA
5846878 TATTTTTAAAATATTTTTT
1 TATTTTTAAAATATTTTTT
5846897 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATA-TTTTTT
5846917 TATTTTTAAAAT-TTTTTT
1 TATTTTTAAAATATTTTTT
5846935 GGTGTTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
18 6 0.16
19 13 0.35
20 18 0.49
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTTAAAATATTTTTT
Found at i:5846967 original size:122 final size:120
Alignment explanation
Indices: 5846771--5846990 Score: 270
Period size: 122 Copynumber: 1.8 Consensus size: 120
5846761 AAATTTTTTA
* *
5846771 TTTTTTATTTTTAAAATATTTTTTTATTTTTAAAATACTTTTTTTTTTGTGTTTATTTAAAAATC
1 TTTTTTATTTTTAAAATATTTTTTTATTTTTAAAATA--TTTTTTTTGGTGTTTATTTAAAAAGC
*
5846836 GGGACGGGCCAGGC-CAGGTTTA-GTAATTTTTTAATTTTAAAATATTTTTAAAATAT
64 GGGACGGGCCAGGCTCAGGCTTATG-AATTTTTTAATTTTAAAATATTTTTAAAATAT
5846892 TTTTTTATTTTTAAAATACTTTTTTTATTTTT-AAA-A-TTTTTTTGGTGTTTATTTAAAAAAGG
1 TTTTTTATTTTTAAAATA-TTTTTTTATTTTTAAAATATTTTTTTTGGTGTTTATTT-AAAAA--
* * *
5846954 GGCTTGGCCGGGCCGGGCTCAGGCTTATGAATTTTTT
62 -GC-GGGACGGGCCAGGCTCAGGCTTATGAATTTTTT
5846991 CCCGGGCTGG
Statistics
Matches: 85, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
117 17 0.20
118 5 0.06
120 1 0.01
121 22 0.26
122 24 0.28
123 15 0.18
124 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.52
Consensus pattern (120 bp):
TTTTTTATTTTTAAAATATTTTTTTATTTTTAAAATATTTTTTTTGGTGTTTATTTAAAAAGCGG
GACGGGCCAGGCTCAGGCTTATGAATTTTTTAATTTTAAAATATTTTTAAAATAT
Found at i:5849567 original size:451 final size:451
Alignment explanation
Indices: 5848529--5850101 Score: 2188
Period size: 454 Copynumber: 3.5 Consensus size: 451
5848519 CGGTTGCCAT
* * * * *
5848529 TTCGGACTTCGACCTTGAGTTTTTGGCCGGCGGAACAATGACCGGGGATACTGCAAATGAAGTAG
1 TTCGAACTTCAACCTTGAGCTTTTGGCCGGCGGAACAATGACCGGGGACACTGCAAATGAAGTAA
* *
5848594 TGGTCACCGGTCCTGTTGAGGGTAATCCTTGCCGGGCCGGTGGTCAAAGTAGATATGGCATTTGC
66 TGGTCACCGGTCCTGTTAAGGGTAATCCTTGCCGGACCGGTGGTCAAAGTAGATATGGCATTTGC
* *
5848659 AGCGTTGCAGTCGTCGTAACCATCTTCAGTCACCTCTGCAACATTATGCTGTCCGGTCGTAAAAT
131 AGCGTTGCAGTCATCGTAACCATCTTCCGTCACCTCTGCAACATTATGCTGTCCGGTCGTAAAAT
* *
5848724 TAAACACTGCAAGAAAAGAAGAAAAAATCAAACAGTTAGATCAAACAGCATTTACATATCATAAT
196 TAAACACTGCAA-AAAAGAAGAAAAAATCAAACAGTTAGATCAAAAAACATTTACATATCATAAT
*
5848789 TAATATCAAAATTTTTAAATTTAAAAGCTGACCTAAAACATCCCCAACAACGAAGTCTTTATGAT
260 TAATATCAAAATTTTTAAATTTAAAAGCTGACCTAAAACATCCCCAACAACGAAGTGTTTATGAT
*
5848854 CAGCCCAATCCTCATAAAAATCATCATTATTGGTAGGGACACGCCAACCGGTAGAGTCACCCACC
325 CAGCCCAATCCTCATAAAAATCATC--TATTGGTAGGGACACGCCAACCAGTAGAGTCACCCACC
5848919 GTAAAAGTGGTGGTGCTTGGAGTTACAGGCGGCGACGGAGCAACGCCACCGGTGGTGTTACCAG
388 GTAAAAGTGGTGGTGCTTGGAGTTACAGGCGGCGACGGAGCAACGCCACCGGTGGTGTTACCAG
*
5848983 TTCGAACTTCAACCTTGAGCTTTTGGCCGGCTGAACAATGACCGGGGACACTGCAAATGAAGTAA
1 TTCGAACTTCAACCTTGAGCTTTTGGCCGGCGGAACAATGACCGGGGACACTGCAAATGAAGTAA
*
5849048 TGGTCACCGGTCTTGTTAAGGGTAATCCTTGCCGGACCGGTGGTCAAAGTAGATATGGCATTTGC
66 TGGTCACCGGTCCTGTTAAGGGTAATCCTTGCCGGACCGGTGGTCAAAGTAGATATGGCATTTGC
* * *
5849113 AGTGTTGCAGTCATCGTAAGCATCTTCCGTCACTTCTGCAACATTATGCTGTCCGGTCGTAAAAT
131 AGCGTTGCAGTCATCGTAACCATCTTCCGTCACCTCTGCAACATTATGCTGTCCGGTCGTAAAAT
5849178 TAAACACTGCAAGAAAAGAAGAAAAAATCAAACAGTTAGATCAAAAAACATTTACATATCATAAT
196 TAAACACTGCAA-AAAAGAAGAAAAAATCAAACAGTTAGATCAAAAAACATTTACATATCATAAT
5849243 TAATATCAAAATTTTTAAATTTAAAAGCTGACCTAAAACATCCCCAACAACGAAGTGTTTATGAT
260 TAATATCAAAATTTTTAAATTTAAAAGCTGACCTAAAACATCCCCAACAACGAAGTGTTTATGAT
*
5849308 CAGCCCAATCCTCATAAAAATCATC-ATTGGTAGGGACACGCCAACCAGTAGAGTCACCCACTGT
325 CAGCCCAATCCTCATAAAAATCATCTATTGGTAGGGACACGCCAACCAGTAGAGTCACCCACCGT
5849372 AAAAGTGGTGGTGCTTGGAGTTACAGGCGGCGACGGAGCAACGCCACCGGTGGTGTTACCAG
390 AAAAGTGGTGGTGCTTGGAGTTACAGGCGGCGACGGAGCAACGCCACCGGTGGTGTTACCAG
5849434 TTCGAACTTCAACCTTGAGCTTTTGGCCGGCGGAACAATGACCGGGGACACTGCAAATGAAGTAA
1 TTCGAACTTCAACCTTGAGCTTTTGGCCGGCGGAACAATGACCGGGGACACTGCAAATGAAGTAA
*
5849499 TGGTCACCGGTCTTGTTAAGGGTAATCCTTGCCGGACCGGTGGTCAAAGTAGATATGGCATTTGC
66 TGGTCACCGGTCCTGTTAAGGGTAATCCTTGCCGGACCGGTGGTCAAAGTAGATATGGCATTTGC
* *
5849564 AGTGTTGCAGTCATCGTAAGCATCTTCCGTCACCTCTGCAACATTATGCTGTCCGGTCGTAAAAT
131 AGCGTTGCAGTCATCGTAACCATCTTCCGTCACCTCTGCAACATTATGCTGTCCGGTCGTAAAAT
* * *
5849629 TAAACACTGCAAAAAGAAAAGAAAAAAATCAAACAGTTGGAT-AAAAAA-A---GC--ATCA-AA
196 TAAACACTGCAAAAA-AGAAG-AAAAAATCAAACAGTTAGATCAAAAAACATTTACATATCATAA
* * * * * * *
5849686 TTTCGAT-TC-AAA-TGTT-GACTTAAGAAACTGACCTAAAACATCTCCGACAACGAAGTGTTTA
259 -TT-AATATCAAAATTTTTAAATTTAA-AAGCTGACCTAAAACATCCCCAACAACGAAGTGTTTA
* * * *
5849747 TTATCAGCCCAATCCTCATAAAAATCATCATTATTAGTAGGGACTCGCCAACCAGTGGAGTCACC
321 TGATCAGCCCAATCCTCATAAAAATCATC--TATTGGTAGGGACACGCCAACCAGTAGAGTCACC
* * * * * *
5849812 CACCGTATAAGTGGTGGTGGTTGGAGTTACAGGCGTCGACGGAGTAACACCGCCGGTGGTGTTAC
384 CACCGTAAAAGTGGTGGTGCTTGGAGTTACAGGCGGCGACGGAGCAACGCCACCGGTGGTGTTAC
*
5849877 CAT
449 CAG
* * * * * * * * * ** * *
5849880 TTCGTACTTCCACGTTTAGCTTCTGGCCGGCAGAACAGTGACCAGGGATACCACAAATAAAGTAG
1 TTCGAACTTCAACCTTGAGCTTTTGGCCGGCGGAACAATGACCGGGGACACTGCAAATGAAGTAA
** * * * * * * *** *
5849945 TACTCCCCTGTCCTGTTAAGCGTAATCCTCGCCGGTCCGGTGCTCCCCGTAGATACAGG-ATTTG
66 TGGTCACCGGTCCTGTTAAGGGTAATCCTTGCCGGACCGGTGGTCAAAGTAGATA-TGGCATTTG
* * * * * ** *
5850009 CAGCGTTGCAAG-CATCGTAACCAGCTTCGGTCACTTC-GACAACATTATGTTGCCCATTAGTAA
130 CAGCGTTGC-AGTCATCGTAACCATCTTCCGTCACCTCTG-CAACATTATGCTGTCCGGTCGTAA
* * *
5850072 AGTTGAACACTGCAAAACGAGAAGAAAAAA
193 AATTAAACACTGCAAAA-AAGAAGAAAAAA
5850102 GAAGGAAAAA
Statistics
Matches: 1024, Mismatches: 83, Indels: 33
0.90 0.07 0.03
Matches are distributed among these distances:
442 5 0.00
443 65 0.06
444 5 0.00
445 15 0.01
446 259 0.25
447 5 0.00
450 4 0.00
451 314 0.31
452 19 0.02
454 333 0.33
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (451 bp):
TTCGAACTTCAACCTTGAGCTTTTGGCCGGCGGAACAATGACCGGGGACACTGCAAATGAAGTAA
TGGTCACCGGTCCTGTTAAGGGTAATCCTTGCCGGACCGGTGGTCAAAGTAGATATGGCATTTGC
AGCGTTGCAGTCATCGTAACCATCTTCCGTCACCTCTGCAACATTATGCTGTCCGGTCGTAAAAT
TAAACACTGCAAAAAAGAAGAAAAAATCAAACAGTTAGATCAAAAAACATTTACATATCATAATT
AATATCAAAATTTTTAAATTTAAAAGCTGACCTAAAACATCCCCAACAACGAAGTGTTTATGATC
AGCCCAATCCTCATAAAAATCATCTATTGGTAGGGACACGCCAACCAGTAGAGTCACCCACCGTA
AAAGTGGTGGTGCTTGGAGTTACAGGCGGCGACGGAGCAACGCCACCGGTGGTGTTACCAG
Found at i:5854338 original size:7 final size:7
Alignment explanation
Indices: 5854326--5854351 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5854316 AGAAATTACC
5854326 TATTTTA
1 TATTTTA
5854333 TATTTTA
1 TATTTTA
5854340 TATTTTA
1 TATTTTA
5854347 TATTT
1 TATTT
5854352 AATTGAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TATTTTA
Found at i:5864097 original size:125 final size:126
Alignment explanation
Indices: 5863696--5864112 Score: 631
Period size: 126 Copynumber: 3.3 Consensus size: 126
5863686 TAATTTAAAA
* * * *
5863696 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCAAGAAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
**
5863761 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAATAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* * *
5863822 AAGCTCCCACGTGGAAGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTATACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
**
5863887 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCATTATGCTTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* * *
5863948 AAGCTCCCACGTGAACGCGTTTTTGCTACAGTAGCTCCT-AAAACAATAATTTTGAGTAGACGTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAA-AATAATTTCGAGTAGACGTT
** *
5864012 TGGGAGCAAATAGTGTC-AAAACGCTTTAAGCAGGATGCTTTTTCAGCAAAAGTACTGAAAG
65 TCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
** *
5864073 AAGCTCCCATATGGACGCGCTTTTGCTATAGTAGCTCCTG
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
5864113 TTTGGCCTGA
Statistics
Matches: 263, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 79 0.30
126 184 0.70
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
Found at i:5869125 original size:2 final size:2
Alignment explanation
Indices: 5869118--5869145 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5869108 TGAAACTATG
5869118 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
5869146 GACTCCCGAA
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:5870034 original size:24 final size:24
Alignment explanation
Indices: 5869990--5870035 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5869980 ACTCGTTAGT
* **
5869990 TTTATAAAATATTTTTCAAATTTC
1 TTTATAAAATATATTAAAAATTTC
5870014 TTTATAAAATATATTAAAAATT
1 TTTATAAAATATATTAAAAATT
5870036 AAATTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTATAAAATATATTAAAAATTTC
Found at i:5882687 original size:27 final size:26
Alignment explanation
Indices: 5882648--5882699 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
5882638 TTAGGTCAAT
*
5882648 TTTTAACTAATAATTATATTCTAAATG
1 TTTTAAATAATAATTAT-TTCTAAATG
* *
5882675 TTTTAAATTATAATTATTTTTAAAT
1 TTTTAAATAATAATTATTTCTAAAT
5882700 ATAAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTTAAATAATAATTATTTCTAAATG
Found at i:5882721 original size:23 final size:23
Alignment explanation
Indices: 5882678--5882721 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
5882668 CTAAATGTTT
* *
5882678 TAAATTATAATTATTTTTAAATA
1 TAAATTATAATAATTTATAAATA
5882701 TAAATT-TAATAATATTATAAA
1 TAAATTATAATAAT-TTATAAA
5882722 AAATAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAATTATAATAATTTATAAATA
Found at i:5886084 original size:20 final size:20
Alignment explanation
Indices: 5886046--5886084 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5886036 CAAGTAAAAA
*
5886046 AACAATAAAAGATATTTTTT
1 AACAATAAAAGATAATTTTT
* *
5886066 AACAATAAATGTTAATTTT
1 AACAATAAAAGATAATTTT
5886085 GTTCAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
AACAATAAAAGATAATTTTT
Found at i:5890520 original size:3 final size:3
Alignment explanation
Indices: 5890514--5890539 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5890504 AAAAAAAAAA
5890514 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
5890540 AGAAACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:5897820 original size:40 final size:40
Alignment explanation
Indices: 5897771--5897855 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
5897761 AAATATATTT
5897771 ATTTTTTTAATTTTAAAATATTTTTAAAAT-ATATTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATGAT-TTTTTTA
*
5897811 ATTTTTTTAATTTTAAAATATTTTTAAAATGCTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATGATTTTTTTA
5897851 ATTTT
1 ATTTT
5897856 AAAAATAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATGATTTTTTTA
Found at i:5898970 original size:5 final size:5
Alignment explanation
Indices: 5898960--5898984 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5898950 CACGAAATTG
5898960 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
5898985 TGCAGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:5900468 original size:17 final size:19
Alignment explanation
Indices: 5900446--5900485 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5900436 TTTAAATTAT
5900446 AAATTA-ACAATA-ATAAA
1 AAATTATACAATATATAAA
*
5900463 AAATTATACAATATTTAAA
1 AAATTATACAATATATAAA
5900482 AAAT
1 AAAT
5900486 AATAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 6 0.30
19 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATTATACAATATATAAA
Found at i:5902660 original size:42 final size:42
Alignment explanation
Indices: 5902601--5902686 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
5902591 TAAAAGAATA
*
5902601 TCACAAAGATTATAAAATAAACATAAATTAATATCCCAATCC
1 TCACAAAGATTATAAAATAAACATAAATTAATAACCCAATCC
* *
5902643 TCACAAAGATTATAAAATAAATATAAATTAATAACCTAATCC
1 TCACAAAGATTATAAAATAAACATAAATTAATAACCCAATCC
5902685 TC
1 TC
5902687 TCTTTTTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.28
Consensus pattern (42 bp):
TCACAAAGATTATAAAATAAACATAAATTAATAACCCAATCC
Found at i:5903529 original size:10 final size:10
Alignment explanation
Indices: 5903514--5903538 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5903504 GATCAAAGTG
5903514 GAATTATCTA
1 GAATTATCTA
5903524 GAATTATCTA
1 GAATTATCTA
5903534 GAATT
1 GAATT
5903539 CTCTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (10 bp):
GAATTATCTA
Found at i:5916161 original size:27 final size:27
Alignment explanation
Indices: 5916131--5916326 Score: 198
Period size: 27 Copynumber: 7.3 Consensus size: 27
5916121 CCCCATAGGA
*
5916131 TAAAATGACCGAAACACTCC-CGAAGGG
1 TAAAATGACCGAAATAC-CCTCGAAGGG
* * * *
5916158 TAAAATGGCCGAAATACCCCCAAATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
5916185 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*** **
5916212 TAAAATGACTTCAATACCCTTAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
5916239 TAAAATGACCAAAATACCC-CTAGAGGA
1 TAAAATGACCGAAATACCCTCGA-AGGG
*
5916266 TAAAATGACCGAAATACCCACGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
** *
5916293 TAAAATGATAGAAATACCCTCGTAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
5916320 TAAAATG
1 TAAAATG
5916327 TCTGATATAC
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.02
27 134 0.96
28 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:5916189 original size:54 final size:54
Alignment explanation
Indices: 5916106--5916326 Score: 223
Period size: 54 Copynumber: 4.1 Consensus size: 54
5916096 AGAGGTTGAT
** * * * *
5916106 AAATGACTAAAATACCCCCATAGGATAAAATGACCGAAACACTCC-CGAAGGGTA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGACCAAAATAC-CCTCGAAGGGTA
* *
5916160 AAATGGCCGAAATACCCCCAAATGGTAAAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTA
*** ** * *
5916214 AAATGACTTCAATACCCTTAAAGGGTAAAATGACCAAAATACCC-CTAGAGGATA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGACCAAAATACCCTCGA-AGGGTA
* * * *
5916268 AAATGACCGAAATACCCACGAAGGGTAAAATGA-TAGAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCCCCAAAGGGTAAAATGACCA-AAATACCCTCGAAGGGTA
5916322 AAATG
1 AAATG
5916327 TCTGATATAC
Statistics
Matches: 136, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
53 5 0.04
54 130 0.96
55 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (54 bp):
AAATGACCGAAATACCCCCAAAGGGTAAAATGACCAAAATACCCTCGAAGGGTA
Found at i:5916338 original size:81 final size:81
Alignment explanation
Indices: 5916106--5916326 Score: 225
Period size: 81 Copynumber: 2.7 Consensus size: 81
5916096 AGAGGTTGAT
* * * * * * *
5916106 AAATGACTAAAATACCC-CCATAGGATAAAATGACCGAAACACTCC-CGAAGGGTAAAATGGCCG
1 AAATGACCAAAATACCCACGA-AGGGTAAAATGACTGAAATAC-CCTCAAAGGGTAAAATGACCG
5916169 AAATACCCCCAAATGGTA
64 AAATACCCCCAAATGGTA
* ** * *
5916187 AAATGACCAAAATACCCTCGAAGGGTAAAATGACTTCAATACCCTTAAAGGGTAAAATGACCAAA
1 AAATGACCAAAATACCCACGAAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGACCGAA
* *
5916252 ATACCCCTAGA-GGATA
66 ATACCCCCAAATGG-TA
* **
5916268 AAATGACCGAAATACCCACGAAGGGTAAAATGA-TAGAAATACCCTCGTAGGGTAAAATG
1 AAATGACCAAAATACCCACGAAGGGTAAAATGACT-GAAATACCCTCAAAGGGTAAAATG
5916327 TCTGATATAC
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
80 5 0.04
81 109 0.94
82 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (81 bp):
AAATGACCAAAATACCCACGAAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATGACCGAA
ATACCCCCAAATGGTA
Found at i:5916764 original size:27 final size:28
Alignment explanation
Indices: 5916726--5916805 Score: 135
Period size: 28 Copynumber: 2.9 Consensus size: 28
5916716 ATTGCACTGT
5916726 ACTGTTACTGTATTGGGCT-AGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* *
5916753 ACTGTTACTGTATTGGGCTAAAGCTCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
5916781 ACTGTTACTGTATTGGGCTAAGGCC
1 ACTGTTACTGTATTGGGCTAAGGCC
5916806 AACATTACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
27 19 0.40
28 29 0.60
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:5918888 original size:25 final size:25
Alignment explanation
Indices: 5918860--5918951 Score: 130
Period size: 25 Copynumber: 3.7 Consensus size: 25
5918850 TCCTGTAATA
5918860 CAACTCGCATGAGCTTCTCGATATT
1 CAACTCGCATGAGCTTCTCGATATT
5918885 CAACTCGCATGAGCTTCTCGATATT
1 CAACTCGCATGAGCTTCTCGATATT
* * * *
5918910 CAGCTCGCATGAGCTTTTTGTTATT
1 CAACTCGCATGAGCTTCTCGATATT
* *
5918935 CAGCTCACATGAGCTTC
1 CAACTCGCATGAGCTTC
5918952 CTATTATTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (25 bp):
CAACTCGCATGAGCTTCTCGATATT
Found at i:5918958 original size:25 final size:25
Alignment explanation
Indices: 5918843--5918978 Score: 114
Period size: 25 Copynumber: 5.4 Consensus size: 25
5918833 CACAGCTCAT
* * * *
5918843 ATGAGCTTCCTGTAATACAACTCGC
1 ATGAGCTTCCTATTATTCAGCTCGC
* *
5918868 ATGAGCTTCTCGA-TATTCAACTCGC
1 ATGAGCTTC-CTATTATTCAGCTCGC
*
5918893 ATGAGCTTCTCGA-TATTCAGCTCGC
1 ATGAGCTTC-CTATTATTCAGCTCGC
** * *
5918918 ATGAGCTTTTTGTTATTCAGCTCAC
1 ATGAGCTTCCTATTATTCAGCTCGC
* *
5918943 ATGAGCTTCCTATTATTCATCTCGG
1 ATGAGCTTCCTATTATTCAGCTCGC
*
5918968 AGGAGCTTCCT
1 ATGAGCTTCCT
5918979 GTTTATAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 91 0.99
26 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCTATTATTCAGCTCGC
Found at i:5918960 original size:50 final size:50
Alignment explanation
Indices: 5918835--5918976 Score: 142
Period size: 50 Copynumber: 2.8 Consensus size: 50
5918825 GGATACACCA
* * * *
5918835 CAGCTCATATGAGCTTCCTGTAATACAACTCGCATGAGCTTCTCGATATT
1 CAGCTCACATGAGCTTCCTATTATTCAACTCGCATGAGCTTCTCGATATT
* * * * * * *
5918885 CAACTCGCATGAGCTTCTCGA-TATTCAGCTCGCATGAGCTTTTTGTTATT
1 CAGCTCACATGAGCTTC-CTATTATTCAACTCGCATGAGCTTCTCGATATT
* * *
5918935 CAGCTCACATGAGCTTCCTATTATTCATCTCGGAGGAGCTTC
1 CAGCTCACATGAGCTTCCTATTATTCAACTCGCATGAGCTTC
5918977 CTGTTTATAG
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.03
50 69 0.96
51 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (50 bp):
CAGCTCACATGAGCTTCCTATTATTCAACTCGCATGAGCTTCTCGATATT
Found at i:5921843 original size:5 final size:5
Alignment explanation
Indices: 5921835--5921862 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
5921825 ATTTTTAAAC
5921835 ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATA
5921863 AGGTTTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:5923074 original size:12 final size:12
Alignment explanation
Indices: 5923057--5923082 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5923047 AGGTGTTTTT
5923057 AAAAAAATTTGA
1 AAAAAAATTTGA
5923069 AAAAAAATTTGA
1 AAAAAAATTTGA
5923081 AA
1 AA
5923083 TACCGGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AAAAAAATTTGA
Found at i:5927923 original size:43 final size:43
Alignment explanation
Indices: 5927854--5927981 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
5927844 AGCTCGTACA
* *
5927854 ATGCCAAAGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
* * *
5927897 ATGTC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAAACACATATCG
* *
5927940 ATGCCAACGTCCCTGACGTGGTCTTACATGAAAACACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATC
5927982 AAAAATACTA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.03
43 66 0.93
44 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:5931079 original size:23 final size:23
Alignment explanation
Indices: 5931049--5931203 Score: 256
Period size: 23 Copynumber: 6.7 Consensus size: 23
5931039 AATGTTATTG
5931049 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
5931072 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
5931095 ATTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
5931118 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
5931141 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
5931164 ATTAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
5931187 ATCAGTGGTAGCTTCGG
1 ATCAGTGGTAGCTTCGG
5931204 GTGCTAATTC
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 121 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:5931161 original size:69 final size:69
Alignment explanation
Indices: 5931049--5931203 Score: 292
Period size: 69 Copynumber: 2.2 Consensus size: 69
5931039 AATGTTATTG
5931049 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTACGGCTACATATTAGTGGTAGCTTCGGCT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTACGGCTACATATTAGTGGTAGCTTCGGCT
5931114 ACAT
66 ACAT
*
5931118 TTCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTACGGCTACATATTAGTGGTAGCTTCGGCT
1 ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTACGGCTACATATTAGTGGTAGCTTCGGCT
*
5931183 ACGT
66 ACAT
5931187 ATCAGTGGTAGCTTCGG
1 ATCAGTGGTAGCTTCGG
5931204 GTGCTAATTC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 83 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (69 bp):
ATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTACGGCTACATATTAGTGGTAGCTTCGGCT
ACAT
Found at i:5935601 original size:13 final size:13
Alignment explanation
Indices: 5935552--5935617 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
5935542 CATAAAATCG
*
5935552 ATTCATATCACCA
1 ATTCATATAACCA
* *
5935565 ATTCATATATCTA
1 ATTCATATAACCA
*
5935578 TTTCCATATAACCA
1 ATT-CATATAACCA
*
5935592 ATTCATATAAACA
1 ATTCATATAACCA
* *
5935605 CTTAATATAACCA
1 ATTCATATAACCA
5935618 TTTCCATTTA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 31 0.76
14 10 0.24
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (13 bp):
ATTCATATAACCA
Found at i:5935613 original size:40 final size:40
Alignment explanation
Indices: 5935526--5935624 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
5935516 AATGTTTCAT
* * * *
5935526 TTAATATATCTATTTCCATAAAATCGATTCATATCACCAA
1 TTAATATATCTATTTCCATAAAACCAATTCATATAAACAA
* * *
5935566 TTCATATATCTATTTCCATATAACCAATTCATATAAACAC
1 TTAATATATCTATTTCCATAAAACCAATTCATATAAACAA
* *
5935606 TTAATATAACCATTTCCAT
1 TTAATATATCTATTTCCAT
5935625 TTACTCTTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.38
Consensus pattern (40 bp):
TTAATATATCTATTTCCATAAAACCAATTCATATAAACAA
Found at i:5941305 original size:3 final size:3
Alignment explanation
Indices: 5941297--5941353 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
5941287 ACAAATTTCA
*
5941297 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5941345 TAT TAT TAT
1 TAT TAT TAT
5941354 ACTCTTTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5942757 original size:2 final size:2
Alignment explanation
Indices: 5942746--5942793 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
5942736 ATAAAAAAAA
*
5942746 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5942788 AT AT AT
1 AT AT AT
5942794 GATTTCAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5947137 original size:16 final size:16
Alignment explanation
Indices: 5947116--5947153 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
5947106 ACATAATGTA
5947116 TAATAATTATTAAAAT
1 TAATAATTATTAAAAT
5947132 TAATAATTATTAAAAT
1 TAATAATTATTAAAAT
*
5947148 TTATAA
1 TAATAA
5947154 AATTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATAATTATTAAAAT
Found at i:5947658 original size:5 final size:5
Alignment explanation
Indices: 5947644--5947675 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5947634 ATATATAAAC
5947644 TATT- TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT
5947676 AGTAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:5951425 original size:15 final size:16
Alignment explanation
Indices: 5951395--5951427 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5951385 TGTACTGCAT
5951395 TGAACTATGAAATTAC
1 TGAACTATGAAATTAC
*
5951411 TGAAGTATG-AATTAC
1 TGAACTATGAAATTAC
5951426 TG
1 TG
5951428 TAATACTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (16 bp):
TGAACTATGAAATTAC
Found at i:5951716 original size:45 final size:45
Alignment explanation
Indices: 5951612--5951716 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
5951602 ATATGCCAAC
**
5951612 TACTGTTACTGTTATTGATTCAACACTTTGTGTGTTGAATACTAT
1 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTAT
* * * * *
5951657 TACCGTTACAGTTACAGATTCAGCACTTTGTGTGTTGAATATTGT
1 TACTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTAT
*
5951702 TATTGTTACTGTTAC
1 TACTGTTACTGTTAC
5951717 TGCTACCGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTAT
Found at i:5956049 original size:25 final size:26
Alignment explanation
Indices: 5956008--5956061 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
5955998 TTTTTTAAAA
* *
5956008 AATTTAAAAACATATAATTTTA-ATT
1 AATTTAAAAACAAATAAATTTATATT
5956033 AATTTAAATAA-AAATAAATTTATATT
1 AATTTAAA-AACAAATAAATTTATATT
5956059 AAT
1 AAT
5956062 AAATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTAAAAACAAATAAATTTATATT
Found at i:5956052 original size:20 final size:21
Alignment explanation
Indices: 5956029--5956075 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
5956019 ATATAATTTT
5956029 AATTAAT-TTAAATAAA-AATA
1 AATTAATATT-AATAAATAATA
*
5956049 AATTTATATTAATAAATAATA
1 AATTAATATTAATAAATAATA
*
5956070 ATTTAA
1 AATTAA
5956076 ACCTATTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTAATATTAATAAATAATA
Found at i:5959848 original size:53 final size:53
Alignment explanation
Indices: 5959768--5959875 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
5959758 TTCATGCCCA
*
5959768 GATATGTAAACAGCAAAAGAGATGTTCACTTCAGTCGGGTTTATTAGTCTATT
1 GATATGTAAACAGCAAAAGAGATGTTCACTTCAGTCAGGTTTATTAGTCTATT
5959821 GATATGTAAACAGCAAAAGAGATGTTCACTTCAGTCAGGTTTATTAGTCTATT
1 GATATGTAAACAGCAAAAGAGATGTTCACTTCAGTCAGGTTTATTAGTCTATT
5959874 GA
1 GA
5959876 GGACACAAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (53 bp):
GATATGTAAACAGCAAAAGAGATGTTCACTTCAGTCAGGTTTATTAGTCTATT
Found at i:5963882 original size:23 final size:23
Alignment explanation
Indices: 5963854--5963904 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
5963844 ATTTAATAAG
* *
5963854 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
5963877 TGTAATACCCCAAAAATTTCTAC
1 TGTAATACCCCAAAAATTACTAC
*
5963900 AGTAA
1 TGTAA
5963905 GAAAGTAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:5964337 original size:4 final size:4
Alignment explanation
Indices: 5964328--5964353 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
5964318 GATATTTTAG
5964328 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
5964354 AGTTTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:5975626 original size:2 final size:2
Alignment explanation
Indices: 5975619--5975645 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5975609 TTTGAGTTCA
5975619 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 A
5975646 GAATGTCGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5976690 original size:28 final size:29
Alignment explanation
Indices: 5976641--5976701 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
5976631 AGATATGGAA
* *
5976641 AATACCAAAAAAATGATAATTTTAATAAT
1 AATACCAAAAAAATCATAATTTTAAAAAT
*
5976670 AATACCATAAAAA-CATAATTTTAAAAAT
1 AATACCAAAAAAATCATAATTTTAAAAAT
5976698 AATA
1 AATA
5976702 TATATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.30
Consensus pattern (29 bp):
AATACCAAAAAAATCATAATTTTAAAAAT
Found at i:5983805 original size:16 final size:16
Alignment explanation
Indices: 5983773--5983810 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5983763 GTAATTTTGA
*
5983773 AAGAAAAGAAGATGAG
1 AAGAAAAGAAGAGGAG
5983789 AAGAAAAGAA-AGGGAG
1 AAGAAAAGAAGA-GGAG
5983805 AAGAAA
1 AAGAAA
5983811 TAAAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (16 bp):
AAGAAAAGAAGAGGAG
Found at i:5985800 original size:2 final size:2
Alignment explanation
Indices: 5985795--5985822 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5985785 TTTTTATCGA
5985795 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
5985823 GTGAGAGAAG
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:5989120 original size:21 final size:20
Alignment explanation
Indices: 5989081--5989121 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
5989071 ATTTGTAATC
*
5989081 ATTTAATTGAATATAAAATT
1 ATTTAATTCAATATAAAATT
*
5989101 ATTTAATTACAATTTAAAATT
1 ATTTAATT-CAATATAAAATT
5989122 TTAACATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTAATTCAATATAAAATT
Found at i:5993444 original size:40 final size:40
Alignment explanation
Indices: 5993358--5993444 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
5993348 GAATTTTAAT
* * * *
5993358 TTAATATATAATTATATTTTTTTAATTTTGTGTAATTTGA
1 TTAATATAAAATTATATTTATTTAATTTTGTATAAATTGA
5993398 TT--TATAAAATTATAATTTAATTTAATTTT-TATAAATT-A
1 TTAATATAAAATTAT-ATTT-ATTTAATTTTGTATAAATTGA
5993436 TTAATATAA
1 TTAATATAA
5993445 TTATTGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
38 13 0.33
39 10 0.26
40 16 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (40 bp):
TTAATATAAAATTATATTTATTTAATTTTGTATAAATTGA
Found at i:5993447 original size:38 final size:38
Alignment explanation
Indices: 5993363--5993448 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
5993353 TTAATTTAAT
* * * *
5993363 ATATAATTATATTTTTTTAATTTTGTGTAATTTGATTT
1 ATATAATTATATTTATTTAATTTTGTATAAATTGATTA
*
5993401 ATAAAATTATAATTTAATTTAATTTT-TATAAATT-ATTA
1 ATATAATTAT-ATTT-ATTTAATTTTGTATAAATTGATTA
5993439 ATATAATTAT
1 ATATAATTAT
5993449 TGATATAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 21 0.52
39 10 0.25
40 9 0.22
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (38 bp):
ATATAATTATATTTATTTAATTTTGTATAAATTGATTA
Found at i:5994413 original size:59 final size:60
Alignment explanation
Indices: 5994340--5994463 Score: 223
Period size: 59 Copynumber: 2.1 Consensus size: 60
5994330 TTAGATACTA
*
5994340 ATTAATGCAATATACTATTAAATGCTTAGGGTAATTTTCTTTTATTTT-AAAAATAAATT
1 ATTAATGAAATATACTATTAAATGCTTAGGGTAATTTTCTTTTATTTTAAAAAATAAATT
*
5994399 ATTAATGAAATATACTATTAAATGCTTAGTGTAATTTTCTTTTATTTTAAAAAATAAATT
1 ATTAATGAAATATACTATTAAATGCTTAGGGTAATTTTCTTTTATTTTAAAAAATAAATT
5994459 ATTAA
1 ATTAA
5994464 AATAGTAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 46 0.74
60 16 0.26
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (60 bp):
ATTAATGAAATATACTATTAAATGCTTAGGGTAATTTTCTTTTATTTTAAAAAATAAATT
Found at i:5996353 original size:40 final size:40
Alignment explanation
Indices: 5996267--5996353 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
5996257 GAATTTTAAT
* * * *
5996267 TTAATATATAATTATATTTTTTTAATTTTGTGTAATTTGA
1 TTAATATAAAATTATATTTATTTAATTTTGTATAAATTGA
5996307 TT--TATAAAATTATAATTTAATTTAATTTT-TATAAATT-A
1 TTAATATAAAATTAT-ATTT-ATTTAATTTTGTATAAATTGA
5996345 TTAATATAA
1 TTAATATAA
5996354 TTATTGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
38 13 0.33
39 10 0.26
40 16 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (40 bp):
TTAATATAAAATTATATTTATTTAATTTTGTATAAATTGA
Found at i:5996356 original size:38 final size:38
Alignment explanation
Indices: 5996272--5996357 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
5996262 TTAATTTAAT
* * * *
5996272 ATATAATTATATTTTTTTAATTTTGTGTAATTTGATTT
1 ATATAATTATATTTATTTAATTTTGTATAAATTGATTA
*
5996310 ATAAAATTATAATTTAATTTAATTTT-TATAAATT-ATTA
1 ATATAATTAT-ATTT-ATTTAATTTTGTATAAATTGATTA
5996348 ATATAATTAT
1 ATATAATTAT
5996358 TGATATAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 21 0.52
39 10 0.25
40 9 0.22
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (38 bp):
ATATAATTATATTTATTTAATTTTGTATAAATTGATTA
Found at i:5997322 original size:59 final size:60
Alignment explanation
Indices: 5997249--5997377 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 60
5997239 TTAGATACTA
*
5997249 ATTAATGCAATATACTATTAAATGCTTAGGGTAATTTTCTTTTATTTT-AAAAATAAATT
1 ATTAATGAAATATACTATTAAATGCTTAGGGTAATTTTCTTTTATTTTAAAAAATAAATT
*
5997308 ATTAATGAAATATACTATTAAATGCTTAGTGTAATTTTCTTTTATTTTAAAAAATAAATT
1 ATTAATGAAATATACTATTAAATGCTTAGGGTAATTTTCTTTTATTTTAAAAAATAAATT
5997368 ACTTATATGA
1 A-TTA-ATGA
5997378 TTCTATTAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
59 46 0.71
60 12 0.18
61 3 0.05
62 4 0.06
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (60 bp):
ATTAATGAAATATACTATTAAATGCTTAGGGTAATTTTCTTTTATTTTAAAAAATAAATT
Found at i:5997806 original size:20 final size:18
Alignment explanation
Indices: 5997771--5997814 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
5997761 TTTTAGTTAA
**
5997771 AATTTTATTTTTAATAATAT
1 AATTTTATTTGAAAT-AT-T
5997791 AATTTTATTTGAAATATT
1 AATTTTATTTGAAATATT
5997809 AATTTT
1 AATTTT
5997815 CAAATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 2 0.09
20 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
AATTTTATTTGAAATATT
Found at i:5997832 original size:13 final size:14
Alignment explanation
Indices: 5997816--5997845 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5997806 ATTAATTTTC
5997816 AAATTT-AATTAAA
1 AAATTTAAATTAAA
5997829 AAATTTAAATTAAA
1 AAATTTAAATTAAA
5997843 AAA
1 AAA
5997846 AAACGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATTTAAATTAAA
Found at i:6003555 original size:48 final size:49
Alignment explanation
Indices: 6003499--6003596 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
6003489 TGATGAACTA
*
6003499 ATGATTTTGATGT-CATACATCTTTTAGAATTTAATCCCTCTATTTTGC
1 ATGATTTTGATGTCCATACATCTTTTAAAATTTAATCCCTCTATTTTGC
*
6003547 ATGATTTTGATGTCCATACATCTTTTAAAATTTGATCCCTCTATTTTGC
1 ATGATTTTGATGTCCATACATCTTTTAAAATTTAATCCCTCTATTTTGC
6003596 A
1 A
6003597 CTTTTTAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 13 0.28
49 34 0.72
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (49 bp):
ATGATTTTGATGTCCATACATCTTTTAAAATTTAATCCCTCTATTTTGC
Found at i:6007103 original size:30 final size:30
Alignment explanation
Indices: 6007067--6007127 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
6007057 TAGTAAGATA
6007067 GATTAATGGGTTTCAATATGGGCCAAATCG
1 GATTAATGGGTTTCAATATGGGCCAAATCG
6007097 GATTAATGGGTTTCAATATGGGCCAAATCG
1 GATTAATGGGTTTCAATATGGGCCAAATCG
6007127 G
1 G
6007128 GTCCAACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
GATTAATGGGTTTCAATATGGGCCAAATCG
Found at i:6012049 original size:31 final size:30
Alignment explanation
Indices: 6012013--6012085 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
6012003 GATTAAATAA
*
6012013 AAATTAAAGTTTCAAGTATATATTTGA-ACC
1 AAATTAAAGTTTCAAGTATATAATT-ATACC
* * *
6012043 ACAATTAGAGTTTCACGTTTATAATTATACC
1 A-AATTAAAGTTTCAAGTATATAATTATACC
6012074 AAATTAAAGTTT
1 AAATTAAAGTTT
6012086 ATATATACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 12 0.33
31 24 0.67
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTATACC
Found at i:6014546 original size:13 final size:13
Alignment explanation
Indices: 6014528--6014552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6014518 TTTTGTATGG
6014528 AAACAATAAAAAT
1 AAACAATAAAAAT
6014541 AAACAATAAAAA
1 AAACAATAAAAA
6014553 CAGGACGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (13 bp):
AAACAATAAAAAT
Found at i:6018580 original size:16 final size:16
Alignment explanation
Indices: 6018561--6018595 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
6018551 AAAGGATCCA
6018561 TTTAAACTTGGTTCCG
1 TTTAAACTTGGTTCCG
6018577 TTTAAACTTGGTTCCG
1 TTTAAACTTGGTTCCG
6018593 TTT
1 TTT
6018596 TTCTTAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTAAACTTGGTTCCG
Found at i:6026696 original size:2 final size:2
Alignment explanation
Indices: 6026689--6026729 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6026679 ATGGAGTTTT
6026689 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
6026730 TATGTATGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6036673 original size:1 final size:1
Alignment explanation
Indices: 6036667--6036695 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
6036657 AGCATTGAGC
6036667 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6036696 TGTTGATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6036823 original size:14 final size:14
Alignment explanation
Indices: 6036804--6036830 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6036794 ATTTTTTATT
6036804 TATTTTGTAATTTG
1 TATTTTGTAATTTG
6036818 TATTTTGTAATTT
1 TATTTTGTAATTT
6036831 TATAAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (14 bp):
TATTTTGTAATTTG
Found at i:6051222 original size:3 final size:3
Alignment explanation
Indices: 6051208--6051328 Score: 138
Period size: 3 Copynumber: 40.7 Consensus size: 3
6051198 AAAGATATAC
*
6051208 ATG ATG ACG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG -TG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
* * * * * * *
6051255 ATG AAG AAGG ATG -TT ATG ATG ATG ATG ATG ACG ATG ACG ACG ACG
1 ATG ATG -ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
6051300 ACG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
6051329 AATAATAACA
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
2 3 0.03
3 99 0.95
4 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.33, T:0.28
Consensus pattern (3 bp):
ATG
Found at i:6051333 original size:3 final size:3
Alignment explanation
Indices: 6051327--6051396 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
6051317 GATGATGATG
* *
6051327 ATA ATA ATA ACA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6051375 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
6051397 AAGGATAGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6058142 original size:2 final size:2
Alignment explanation
Indices: 6058135--6058164 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6058125 CTTAAGCATC
*
6058135 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6058165 TCATTAGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6064769 original size:36 final size:36
Alignment explanation
Indices: 6064722--6064798 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
6064712 ATAATTTATC
6064722 CACTATCAAAGTATCCTAACCGTTGGACTACAAACG
1 CACTATCAAAGTATCCTAACCGTTGGACTACAAACG
6064758 CACTATCAAAGTATCCTAACCGTTGGACTACAAACG
1 CACTATCAAAGTATCCTAACCGTTGGACTACAAACG
6064794 C-CTAT
1 CACTAT
6064799 TGGCACAATC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (36 bp):
CACTATCAAAGTATCCTAACCGTTGGACTACAAACG
Found at i:6077837 original size:28 final size:25
Alignment explanation
Indices: 6077782--6077880 Score: 74
Period size: 26 Copynumber: 3.7 Consensus size: 25
6077772 ATGTGTTTTT
6077782 TATTAAATTTTTTATAAATTATTAA
1 TATTAAATTTTTTATAAATTATTAA
* * *
6077807 TATTAATATTTTTTTTGAATCTTTTACA
1 TATTAA-ATTTTTTATAAAT-TATTA-A
*
6077835 TATTTGAATCTTTTTATAAAATT-TATAA
1 TA-TTAAAT-TTTTTAT-AAATTAT-TAA
*
6077863 TTTTTAAATTTTTTATAA
1 -TATTAAATTTTTTATAA
6077881 TTTTACACTC
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
25 6 0.10
26 13 0.22
27 11 0.19
28 12 0.21
29 13 0.22
30 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TATTAAATTTTTTATAAATTATTAA
Found at i:6078350 original size:8 final size:9
Alignment explanation
Indices: 6078321--6078359 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
6078311 ATTTAAAACT
6078321 TTTTTATAA
1 TTTTTATAA
*
6078330 TCTTTATAA
1 TTTTTATAA
6078339 TTTTTA-AA
1 TTTTTATAA
*
6078347 TTTTTATAG
1 TTTTTATAA
6078356 TTTT
1 TTTT
6078360 ACACTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6078851 original size:29 final size:30
Alignment explanation
Indices: 6078790--6078852 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
6078780 TTATCATAAA
* * * *
6078790 AAAAAGTTAATTTTAGTACTATTTTTATTT
1 AAAAAGTTAATTTTAATACTAGTATTAATT
*
6078820 AAAAAGTTAATTTTAATA-TCGTATTAATT
1 AAAAAGTTAATTTTAATACTAGTATTAATT
6078849 AAAA
1 AAAA
6078853 TATATTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (30 bp):
AAAAAGTTAATTTTAATACTAGTATTAATT
Found at i:6079197 original size:21 final size:19
Alignment explanation
Indices: 6079155--6079194 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
6079145 TTAAATCTTT
*
6079155 ATATATGTACTAATTTATA
1 ATATATGTAATAATTTATA
*
6079174 ATATATGTAAATATTTTATA
1 ATATATGT-AATAATTTATA
6079194 A
1 A
6079195 ATACAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (19 bp):
ATATATGTAATAATTTATA
Found at i:6095749 original size:108 final size:109
Alignment explanation
Indices: 6095544--6095762 Score: 422
Period size: 108 Copynumber: 2.0 Consensus size: 109
6095534 TTGTAGTATC
6095544 TAGGTCTATTTGAGCTTTTTGTATATTGGATACAATTATATGTGTTAGTGAACTTTTATCCAGCA
1 TAGGTCTATTTGAGCTTTTTGTATATTGGATACAATTATATGTGTTAGTGAACTTTTATCCAGCA
*
6095609 TTTATAATTTATCCAATCAAATAACTATTTTTTATCATCTAAAA
66 TTTATAATTTATCCAATCAAATAACTAATTTTTATCATCTAAAA
6095653 TAGGTCTATTT-AGCTTTTTGTATATTGGATACAATTATATGTGTTAGTGAACTTTTATCCAGCA
1 TAGGTCTATTTGAGCTTTTTGTATATTGGATACAATTATATGTGTTAGTGAACTTTTATCCAGCA
6095717 TTTATAATTTATCCAATCAAATAACTAATTTTTATCATCTAAAA
66 TTTATAATTTATCCAATCAAATAACTAATTTTTATCATCTAAAA
6095761 TA
1 TA
6095763 TTTTTAATTT
Statistics
Matches: 109, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
108 98 0.90
109 11 0.10
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (109 bp):
TAGGTCTATTTGAGCTTTTTGTATATTGGATACAATTATATGTGTTAGTGAACTTTTATCCAGCA
TTTATAATTTATCCAATCAAATAACTAATTTTTATCATCTAAAA
Found at i:6095787 original size:18 final size:18
Alignment explanation
Indices: 6095766--6095803 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6095756 TAAAATATTT
* *
6095766 TTAATTTAATTTAATTAA
1 TTAATTTAACTAAATTAA
6095784 TTAATTTAACTAAATTAA
1 TTAATTTAACTAAATTAA
6095802 TT
1 TT
6095804 TTTCAATTAA
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:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTTAACTAAATTAA
Found at i:6106230 original size:17 final size:18
Alignment explanation
Indices: 6106205--6106238 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6106195 GTGAAAAAAA
6106205 AATTATTTT-TAATTTTT
1 AATTATTTTATAATTTTT
*
6106222 AATTTTTTTATAATTTT
1 AATTATTTTATAATTTT
6106239 AGACTCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
AATTATTTTATAATTTTT
Found at i:6106501 original size:10 final size:10
Alignment explanation
Indices: 6106486--6106527 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
6106476 AAATGTGTTG
6106486 TTTTTATTAT
1 TTTTTATTAT
* *
6106496 TTTTTATAAA
1 TTTTTATTAT
6106506 TTTTTATTAT
1 TTTTTATTAT
6106516 TTTTTATT-T
1 TTTTTATTAT
6106525 TTT
1 TTT
6106528 AATATTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 4 0.14
10 24 0.86
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:6106526 original size:17 final size:18
Alignment explanation
Indices: 6106486--6106535 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
6106476 AAATGTGTTG
6106486 TTTTTATTATTTTTTATAAA
1 TTTTTATTATTTTTTAT--A
6106506 TTTTTATTATTTTTTAT-
1 TTTTTATTATTTTTTATA
*
6106523 TTTTTAATATTTT
1 TTTTTATTATTTT
6106536 ACATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 12 0.41
20 17 0.59
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATTATTTTTTATA
Found at i:6106579 original size:27 final size:27
Alignment explanation
Indices: 6106486--6106583 Score: 71
Period size: 27 Copynumber: 3.6 Consensus size: 27
6106476 AAATGTGTTG
*
6106486 TTTTTATTATTTTTTATAA-ATTTTT-A
1 TTTTTAAT-TTTTTTATAATATTTTTAA
*
6106512 TTATTT--TTTATTTTTTAATA-TTTTACA
1 TT-TTTAATTT-TTTTATAATATTTTTA-A
* **
6106539 TATTTAAAACTTTTTATAATATTTTTAA
1 T-TTTTAATTTTTTTATAATATTTTTAA
6106567 TTTTTAATTTTTTTATA
1 TTTTTAATTTTTTTATA
6106584 GTTTTACACT
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
24 2 0.04
25 12 0.22
26 3 0.05
27 20 0.36
28 12 0.22
29 6 0.11
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTTAATTTTTTTATAATATTTTTAA
Found at i:6107270 original size:6 final size:6
Alignment explanation
Indices: 6107261--6107309 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
6107251 TATTAAAAAA
*
6107261 TAATTT TAA-TT TAA-TT TAATTT TAATTT T-ATATT T-ATTT TTATTT
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAAT-TT TAATTT TAATTT
6107306 TAAT
1 TAAT
6107310 ANNNNNNNNN
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
5 15 0.38
6 24 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TAATTT
Found at i:6107277 original size:11 final size:11
Alignment explanation
Indices: 6107261--6107309 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
6107251 TATTAAAAAA
6107261 TAATTTTAATT
1 TAATTTTAATT
6107272 TAA-TTTAATTT
1 TAATTTTAA-TT
6107283 TAATTTTATATT
1 TAATTTTA-ATT
* *
6107295 TATTTTTATTT
1 TAATTTTAATT
6107306 TAAT
1 TAAT
6107310 ANNNNNNNNN
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 5 0.16
11 13 0.41
12 13 0.41
13 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TAATTTTAATT
Found at i:6107665 original size:14 final size:15
Alignment explanation
Indices: 6107595--6107666 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 15
6107585 NNNTATTCAC
*
6107595 TAATTATATTTATATT
1 TAATAATATTTA-ATT
*
6107611 TAATATAATATAATAATT
1 T-A-ATAATAT-TTAATT
* *
6107629 TTATAA-AATT-ATT
1 TAATAATATTTAATT
6107642 TAATAATATTTAATT
1 TAATAATATTTAATT
6107657 TAA-AATATTT
1 TAATAATATTT
6107667 TTAGTTTATC
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
13 8 0.18
14 11 0.25
15 7 0.16
16 5 0.11
17 1 0.02
18 10 0.23
19 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATAATATTTAATT
Done.