Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 22 of 349
Found at i:6039774 original size:29 final size:28
Alignment explanation
Indices: 6039741--6039795 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
6039731 ATTCAAATAA
*
6039741 TATAAAAAAATAATTAGTTACAAAAATGG
1 TATAAAAAAA-AATTAATTACAAAAATGG
* *
6039770 TATAAAAATAAATTAATTACGAAAAT
1 TATAAAAAAAAATTAATTACAAAAAT
6039796 AGATGTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (28 bp):
TATAAAAAAAAATTAATTACAAAAATGG
Found at i:6040059 original size:17 final size:17
Alignment explanation
Indices: 6040039--6040072 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6040029 TTCAAAAAAA
*
6040039 ATTTTCTATCAAAAAGT
1 ATTTTCTATAAAAAAGT
*
6040056 ATTTTTTATAAAAAAGT
1 ATTTTCTATAAAAAAGT
6040073 CGATTCCAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (17 bp):
ATTTTCTATAAAAAAGT
Found at i:6047292 original size:21 final size:21
Alignment explanation
Indices: 6047263--6047317 Score: 51
Period size: 21 Copynumber: 2.5 Consensus size: 21
6047253 GATATATGAC
6047263 TAAAGAATTTAAATAAATT-TT
1 TAAA-AATTTAAATAAATTATT
*
6047284 TAAATAA-TTAGTATAAATTATT
1 TAAA-AATTTA-AATAAATTATT
6047306 TACAAAATTTAA
1 TA-AAAATTTAA
6047318 TTCAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 6 0.22
23 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAAAATTTAAATAAATTATT
Found at i:6050386 original size:11 final size:13
Alignment explanation
Indices: 6050361--6050387 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6050351 TAGTTGGATC
6050361 TAAATATATTATA
1 TAAATATATTATA
6050374 TAAATATATTATA
1 TAAATATATTATA
6050387 T
1 T
6050388 GTCACATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATATATTATA
Found at i:6051720 original size:46 final size:46
Alignment explanation
Indices: 6051653--6051742 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
6051643 GAGAATGTAC
*
6051653 AAGCCCAATCTGAACTAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
**
6051699 AAGCCCAATCTGAACCAGCCCAAACCCAAGACTTAAAACAGACC
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACC
6051743 TAACCCCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.43, C:0.38, G:0.11, T:0.08
Consensus pattern (46 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
Found at i:6052910 original size:26 final size:23
Alignment explanation
Indices: 6052846--6052910 Score: 60
Period size: 28 Copynumber: 2.7 Consensus size: 23
6052836 ATATTTCTTT
*
6052846 TATATATAAATATA-TTTTTCTA
1 TATATATACATATACTTTTTCTA
*
6052868 TATATTTACATGCATACTTTTTGTACTA
1 TATATATACAT--ATAC-TTTT-T-CTA
6052896 TATATATACATATAC
1 TATATATACATATAC
6052911 ACTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 9 0.26
24 3 0.09
26 8 0.24
27 1 0.03
28 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (23 bp):
TATATATACATATACTTTTTCTA
Found at i:6053126 original size:27 final size:25
Alignment explanation
Indices: 6053095--6053158 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
6053085 ATGTGTCCCC
*
6053095 TTTTTATATAT-ATGTAAATCTCCATA
1 TTTTTATATATCATATAAAT-T-CATA
*
6053121 TATTTTACATATGCATATAAATTCATA
1 T-TTTTATATAT-CATATAAATTCATA
6053148 TTTTTATATAT
1 TTTTTATATAT
6053159 TTTATAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 1 0.03
29 7 0.22
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATATATCATATAAATTCATA
Found at i:6053333 original size:5 final size:5
Alignment explanation
Indices: 6053319--6053349 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
6053309 ACATAAGTGC
6053319 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
6053350 GTTTCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:6065565 original size:44 final size:46
Alignment explanation
Indices: 6065451--6065570 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 46
6065441 ATACAGGTCT
* * * *
6065451 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
*
6065497 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAT-GTCAGATCC
* * *
6065541 TATCTCCTTGAGATTACAATGGAGCGGATC
1 TATCTCCCTGAGATTACAGTGGAGCAGATC
6065571 TTATCTCTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 29 0.45
45 3 0.05
46 32 0.50
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
Found at i:6065669 original size:42 final size:38
Alignment explanation
Indices: 6065567--6065759 Score: 118
Period size: 44 Copynumber: 4.7 Consensus size: 38
6065557 CAATGGAGCG
* * *
6065567 GATCTTATCTCTCTGAAGTTACAGTAGAGAGACGCATCA
1 GATCTTATCTCCCTGAGGTTACAGT-GAGAGACGAATCA
* *
6065606 GGTCTTATCT-CCTGAGATTACAGTGAGAGACCAGAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGAGAGA-C-GAA--TCA
* *
6065647 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 GATCTTATCTCCCTGAGGTTACAGT-GAG-AGA-CGAA-TC--A
* * *
6065691 GATCTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAGACA
1 GATCTTATCTCCCTGAGGTTACAG-TGAG-AGA-CGAA-TCA
* * *
6065733 CTATCCTATCTCCCTGAAGTTACAGTG
1 -GATCTTATCTCCCTGAGGTTACAGTG
6065760 GAGCGGATTA
Statistics
Matches: 122, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
37 6 0.05
38 12 0.10
39 11 0.09
41 12 0.10
42 16 0.13
43 26 0.21
44 39 0.32
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (38 bp):
GATCTTATCTCCCTGAGGTTACAGTGAGAGACGAATCA
Found at i:6065703 original size:44 final size:43
Alignment explanation
Indices: 6065646--6065852 Score: 177
Period size: 44 Copynumber: 4.8 Consensus size: 43
6065636 CCAGAATTTC
* *
6065646 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA
* * *
6065689 GAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAGACA
1 -AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA
** * * * * * *
6065733 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA-CA
* ** * * *
6065776 AGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCA-TCA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA
* *
6065819 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGAT
6065853 AGAGAATCCT
Statistics
Matches: 125, Mismatches: 35, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
41 26 0.21
42 4 0.03
43 30 0.24
44 64 0.51
45 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGACA
Found at i:6065755 original size:87 final size:85
Alignment explanation
Indices: 6065652--6065852 Score: 235
Period size: 87 Copynumber: 2.3 Consensus size: 85
6065642 TTTCAGATCT
* * * *
6065652 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
6065716 GGAGTAGATCGAAGACACTA-TCC
65 AGAGTAGATCGAA-ACA--AGTCC
* * * *
6065739 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
* * *
6065804 GAGTAGATCGCATCAAGTCT
66 GAGTAGATCGAAACAAGTCC
*
6065824 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TATCTCCCTGAAGTTACAGTGGAGCAGAT
6065853 AGAGAATCCT
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 29 0.30
86 2 0.02
87 64 0.65
88 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (85 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGTAGATCGAAACAAGTCC
Found at i:6065914 original size:121 final size:122
Alignment explanation
Indices: 6065735--6065972 Score: 363
Period size: 121 Copynumber: 2.0 Consensus size: 122
6065725 CGAAGACACT
* *
6065735 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTAC
1 ATCCTATCT-CCTGAAGTTACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
* *
6065800 AGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAGA
65 AGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAAGATGCAGTGGAACAGATAGAGA
* * *
6065858 ATCCTATCT-CTGAAGTTGCAGTAGAGCGGATTAAAATCACA-GATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCTGAAGTTACAGTAGAGCGGATTAAAAT-AAAGGATCTTATCTCTCTGAAGTTAC
* *
6065921 AGTAGAGTAGATCGCATCAAGTCTTATTTCCCTGAAGATGCAGTGGAACAGA
65 AGCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAAGATGCAGTGGAACAGA
6065973 CTGAAAACAA
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 94 0.90
122 2 0.02
123 9 0.09
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (122 bp):
ATCCTATCTCCTGAAGTTACAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
GCAGAGTAGATCGCATCAAGTCTTATCTCCCTGAAGATGCAGTGGAACAGATAGAGA
Found at i:6066521 original size:46 final size:46
Alignment explanation
Indices: 6066454--6066543 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
6066444 GCAGCTGTAC
*
6066454 AAGCCCAATCTGAACTAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
**
6066500 AAGCCCAATCTGAACCAGCCCAAACCCAAGACTTAAAACAGACC
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACC
6066544 TAACCCCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.43, C:0.38, G:0.11, T:0.08
Consensus pattern (46 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
Found at i:6067706 original size:26 final size:23
Alignment explanation
Indices: 6067642--6067706 Score: 60
Period size: 28 Copynumber: 2.7 Consensus size: 23
6067632 ATATTTCTTT
*
6067642 TATATATAAATATA-TTTTTCTA
1 TATATATACATATACTTTTTCTA
*
6067664 TATATTTACATGCATACTTTTTGTACTA
1 TATATATACAT--ATAC-TTTT-T-CTA
6067692 TATATATACATATAC
1 TATATATACATATAC
6067707 ACTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 9 0.26
24 3 0.09
26 8 0.24
27 1 0.03
28 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (23 bp):
TATATATACATATACTTTTTCTA
Found at i:6067922 original size:27 final size:25
Alignment explanation
Indices: 6067891--6067954 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
6067881 ATGTGTCCCC
*
6067891 TTTTTATATAT-ATGTAAATCTCCATA
1 TTTTTATATATCATATAAAT-T-CATA
*
6067917 TATTTTACATATGCATATAAATTCATA
1 T-TTTTATATAT-CATATAAATTCATA
6067944 TTTTTATATAT
1 TTTTTATATAT
6067955 TTTATAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 1 0.03
29 7 0.22
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATATATCATATAAATTCATA
Found at i:6068129 original size:5 final size:5
Alignment explanation
Indices: 6068115--6068145 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
6068105 ACATAAGTGC
6068115 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
6068146 GTTTCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:6070518 original size:19 final size:20
Alignment explanation
Indices: 6070482--6070519 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6070472 TTGAAGTCAT
6070482 TTTGAAATAAAATTGAAAAA
1 TTTGAAATAAAATTGAAAAA
*
6070502 TTTGAAA-AAACTTGAAAA
1 TTTGAAATAAAATTGAAAA
6070520 CAAGGGCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (20 bp):
TTTGAAATAAAATTGAAAAA
Found at i:6070969 original size:23 final size:23
Alignment explanation
Indices: 6070923--6070971 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
6070913 TATTTTAATT
*
6070923 AATTATTTATTTATAATAATTTTA
1 AATTATTTATTTAT-ATAAATTTA
6070947 AATTATTTATTGTAT-TAAATTTA
1 AATTATTTATT-TATATAAATTTA
6070970 AA
1 AA
6070972 CTTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 9 0.39
24 11 0.48
25 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTATTTATTTATATAAATTTA
Found at i:6074525 original size:22 final size:23
Alignment explanation
Indices: 6074500--6074545 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6074490 CAACCAAACC
6074500 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
6074522 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
6074545 A
1 A
6074546 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:6074551 original size:23 final size:23
Alignment explanation
Indices: 6074507--6074551 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6074497 ACCAATTCAA
*
6074507 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
6074530 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
6074552 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:6079691 original size:24 final size:24
Alignment explanation
Indices: 6079664--6079709 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
6079654 ATATTATTAA
6079664 TCCCATGTTAACTTATTTATAAAT
1 TCCCATGTTAACTTATTTATAAAT
6079688 TCCCATGTTAACTTATTTATAA
1 TCCCATGTTAACTTATTTATAA
6079710 CTTCTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (24 bp):
TCCCATGTTAACTTATTTATAAAT
Found at i:6080701 original size:127 final size:125
Alignment explanation
Indices: 6080475--6080789 Score: 461
Period size: 127 Copynumber: 2.5 Consensus size: 125
6080465 CGACTTTTTA
* * * *
6080475 AAAACAAAGGCGATATTTGACGTTTGGAAATTCGGGAAATCCTGTCCTAACGTGCTGAGTTTCGA
1 AAAAC-AAGGCGATATTTGATGTTTGGAAATTC-GGAAATCGTGCCCTAACGTGCTGGGTTTCGA
* *
6080540 TTTTCTGTTTGTCCAAATGATCAAATATCCCTTTAAAATTTCGTCCGCGTTTTCTAAACTTT
64 TTTTCTGTTTGTCCAAATGATCAAATATCCCTTTAAAATTTCGTCCGCGTTCTCTAAACTTC
* *
6080602 AAAACAACGGCGATGTTTGATGTTTGGAAATTCTGGAAATCGTGCCCTAACATGCTGGGTTTCGA
1 AAAACAA-GGCGATATTTGATGTTTGGAAATTC-GGAAATCGTGCCCTAACGTGCTGGGTTTCGA
6080667 TTTTCTGTTTGTCCAAATGATCAAATATCCCTTTAAAATTTCGTCCGCGTTCTCTAAACTTC
64 TTTTCTGTTTGTCCAAATGATCAAATATCCCTTTAAAATTTCGTCCGCGTTCTCTAAACTTC
* * * *
6080729 ACAACAAGGCAATATTCT-ATGTTTGGAAACTCGAGAAATCGTGCCCTAACGTGTTGGGTTT
1 AAAACAAGGCGATATT-TGATGTTTGGAAATTCG-GAAATCGTGCCCTAACGTGCTGGGTTT
6080790 TAGTTTTTCG
Statistics
Matches: 170, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
125 1 0.01
126 47 0.28
127 122 0.72
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (125 bp):
AAAACAAGGCGATATTTGATGTTTGGAAATTCGGAAATCGTGCCCTAACGTGCTGGGTTTCGATT
TTCTGTTTGTCCAAATGATCAAATATCCCTTTAAAATTTCGTCCGCGTTCTCTAAACTTC
Found at i:6082582 original size:5 final size:5
Alignment explanation
Indices: 6082572--6082606 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
6082562 CGTTTTAAGT
6082572 TTTTA TTTTA TTTTA TTTTA TTTTCA TTTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTT
6082607 AGTTTCACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 22 0.79
6 2 0.07
7 4 0.14
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:6088588 original size:64 final size:64
Alignment explanation
Indices: 6088510--6088637 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
6088500 TCATTCATAA
*
6088510 CACATCTAGTTAGGAGCATTTGTTTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
6088574 CACATCTAGTTAGGAGCATTTGATTCCTTTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
6088638 AGATACATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:6088832 original size:45 final size:44
Alignment explanation
Indices: 6088775--6088995 Score: 132
Period size: 45 Copynumber: 5.0 Consensus size: 44
6088765 GTAGCGAGGA
*
6088775 AGCAGA-CTAAAGATTGCAGATCTTGTCTCCCTAAAGTTGCAGTAG
1 AGCAGATC-AAAGATTGC-GATCTTGTCTCCCTAAAGTTGCAGTGG
* * * * * *
6088820 AGCAGATCAAAGATAGCGAATCTTGTTTTCCTGAAGTTACAGTGA
1 AGCAGATCAAAGATTGCG-ATCTTGTCTCCCTAAAGTTGCAGTGG
** * * *
6088865 AGCAGATTTAAGCCA-T-C-ATCCTATCTCCCT-AAGTTGTAGTGG
1 AGCAGATCAAAG--ATTGCGATCTTGTCTCCCTAAAGTTGCAGTGG
* * * * *
6088907 AGTAG-GCTAGAGATTGCAAATCTTGTCTCCCTGAAGTTGCAGTGG
1 AGCAGATC-AAAGATTGC-GATCTTGTCTCCCTAAAGTTGCAGTGG
* * *
6088952 AGCAGATCGAAGATGGCGAATCTTGTCTTCCTGAAA-TTGCAGTG
1 AGCAGATCAAAGATTGCG-ATCTTGTCTCCCT-AAAGTTGCAGTG
6088996 AAACAGATTT
Statistics
Matches: 130, Mismatches: 33, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 16 0.12
43 9 0.07
44 12 0.09
45 86 0.66
46 4 0.03
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
AGCAGATCAAAGATTGCGATCTTGTCTCCCTAAAGTTGCAGTGG
Found at i:6089022 original size:132 final size:132
Alignment explanation
Indices: 6088784--6089266 Score: 643
Period size: 132 Copynumber: 3.7 Consensus size: 132
6088774 AAGCAGACTA
* * * * *
6088784 AAGATTGCAGATCTTGTCTCCCTAAAGTTGCAGTAGAGCAGATCAAAGATAGCGAATCTTGTTTT
1 AAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACAGCAAATCTTGTCTT
* *
6088849 CCTGAAGTTACAGTGAAGCAGATTTAAGCCATCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGC
66 CCTGAAGTTACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGC
6088914 T-
131 TG
* * ** *
6088915 AGAGATTGCAAATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGCGAATCTTGTCT
1 A-AGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACAGCAAATCTTGTCT
* * * * *
6088980 TCCTGAAATTGCAGTGAAACAGATTTAAGCTACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
65 TCCTGAAGTTACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGG
6089045 CTG
130 CTG
* * * * * *
6089048 AAGATTGTAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAACAAATCTTGTCTC
1 AAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACAGCAAATCTTGTCTT
* * *
6089113 CCT-AAG-CAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGG
66 CCTGAAGTTA-CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGG
6089176 CTG
130 CTG
* * *
6089179 AAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTAGAGCAAATCGAAG-CCGCAAATCTTGTC-T
1 AAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACAGCAAATCTTGTCTT
6089242 CTCTGAAGTTACAGTGAAGCAGATT
66 C-CTGAAGTTACAGTGAAGCAGATT
6089267 GAAGTTGCAA
Statistics
Matches: 306, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
129 1 0.00
130 14 0.05
131 114 0.37
132 176 0.58
133 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (132 bp):
AAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGACAGCAAATCTTGTCTT
CCTGAAGTTACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGC
TG
Found at i:6089307 original size:44 final size:45
Alignment explanation
Indices: 6089149--6089536 Score: 184
Period size: 44 Copynumber: 8.6 Consensus size: 45
6089139 GCCACCATCC
* * * ** * *
6089149 TATCTCCCT-AAGTAGTAGTGGAGTAGGCTGAAGATTGTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAATCT
* * * * **
6089193 TGTCTCCCTGAAGTTGCAGTAGAGCAAATCGAAG-CCGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAATCT
* * * *
6089237 TGTCTCTCTGAAGTTACAGTGAAGCAGATTGAAG-TTGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAATCT
* *** *
6089281 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CCACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAATCT
* * * ** * **
6089325 TATAC-CTCTGAAGTTGTAGTAGG-TC-GAATCAAACCTATCATGGTGAATCT
1 TAT-CTCCCTGAAGTTGCAGT-GGAGCAG-ATTGAA--GAT--T-GCAAATCT
*** * *** *
6089375 TATCTCCCTGAAGTTATGGTGGAGTAGATTGAAG-CCACAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAATCT
* * * * *
6089419 TACCCCCCTGAAGTTGCAGTGGGGCA-AGTTGAAG-TTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATTGCAAATCT
* * * *
6089463 TATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAATCT
* *
6089508 TATCTCCTTGAAGTTGCAATGGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
6089537 CAAGCAACAA
Statistics
Matches: 251, Mismatches: 77, Indels: 31
0.70 0.21 0.09
Matches are distributed among these distances:
43 2 0.01
44 171 0.68
45 51 0.20
49 3 0.01
50 23 0.09
51 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTGCAAATCT
Found at i:6089338 original size:263 final size:263
Alignment explanation
Indices: 6088860--6089340 Score: 585
Period size: 263 Copynumber: 1.8 Consensus size: 263
6088850 CTGAAGTTAC
* *
6088860 AGTGAAGCAGATTTAAGCCATCATCCTATCTCCCTAAGTTGTAGTGGAGTAGGCTAGAGATTGCA
1 AGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTAGAGATTGCA
* * ** *
6088925 AATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGCGAATCTTGTCTTCCTGAAATT
66 AATCTTGTCTCCCTGAAGTTGCAGTAGAGCAAATCGAAGACCGCAAATCTTGTCTTCCTGAAATT
* * * * * * * ***
6088990 GCAGTGAAACAGATTTAAGCTACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
131 ACAGTGAAACAGATTGAAGCTACAATCCTATCTCCCTAAGCAGCAGTGGAGCAGACTAAAGACCA
* * * *
6089055 TAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAACAAATCTTGTCTCCCTAAGC
196 CAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAACAAATCTTGTCTCCCTAAGC
6089120 AGT
261 AGT
* *
6089123 AGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCT-GAAGATTGT
1 AGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTAG-AGATTGC
* *
6089187 AGATCTTGTCTCCCTGAAGTTGCAGTAGAGCAAATCGAAG-CCGCAAATCTTGTC-TCTCTGAAG
65 AAATCTTGTCTCCCTGAAGTTGCAGTAGAGCAAATCGAAGACCGCAAATCTTGTCTTC-CTGAAA
* * * * ** *
6089250 TTACAGTGAAGCAGATTGAAGTTGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
129 TTACAGTGAAACAGATTGAAGCTAC-AATCCTATCTCCCT-AAGCAGCAGTGGAGCAGACTAAAG
*
6089315 -CCACAAATCCTATAC-CTCTGAAGTTG
192 ACCACAAATCCTAT-CTCCCTGAAGTTG
6089341 TAGTAGGTCG
Statistics
Matches: 180, Mismatches: 33, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
261 2 0.01
262 37 0.21
263 123 0.68
264 18 0.10
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (263 bp):
AGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTAGAGATTGCA
AATCTTGTCTCCCTGAAGTTGCAGTAGAGCAAATCGAAGACCGCAAATCTTGTCTTCCTGAAATT
ACAGTGAAACAGATTGAAGCTACAATCCTATCTCCCTAAGCAGCAGTGGAGCAGACTAAAGACCA
CAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAACAAATCTTGTCTCCCTAAGC
AGT
Found at i:6092257 original size:75 final size:74
Alignment explanation
Indices: 6092097--6092260 Score: 175
Period size: 75 Copynumber: 2.2 Consensus size: 74
6092087 AATCTTACTG
* * * * *
6092097 AACTTGATCTTTCATCAAATAATTTTAATGGTGTAATCAACTCAGTTATGTTTTCAAAGTTAGAG
1 AACTTGATCTTTCATCAAATAATTTTAACGGTGTAATCAACTCAGATATGCTTTCAAAGCTAAAG
* *
6092162 AATCTTTTA
66 AAGCTTTGA
* * * * * *
6092171 ACACTTGATCTTTCATCAAATAGTTTTAGCGGTGTCATCAAGTTAGATGTGCTTTCAAAGCTAAA
1 A-ACTTGATCTTTCATCAAATAATTTTAACGGTGTAATCAACTCAGATATGCTTTCAAAGCTAAA
*
6092236 GAGGCTTATGA
65 GAAGCTT-TGA
*
6092247 AACTTAATCTTTCA
1 AACTTGATCTTTCA
6092261 AACAACACAT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
74 1 0.01
75 69 0.95
76 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (74 bp):
AACTTGATCTTTCATCAAATAATTTTAACGGTGTAATCAACTCAGATATGCTTTCAAAGCTAAAG
AAGCTTTGA
Found at i:6095560 original size:34 final size:34
Alignment explanation
Indices: 6095522--6095590 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
6095512 TTAGTTGCAA
*
6095522 ATTTTGACCTTGAAAAGTTCGTTTGATTTCTAAC
1 ATTTTGACCATGAAAAGTTCGTTTGATTTCTAAC
* *
6095556 ATTTTGGCCATGAAAAGTTGGTTTGATTTCTAAC
1 ATTTTGACCATGAAAAGTTCGTTTGATTTCTAAC
6095590 A
1 A
6095591 CCTCTGACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (34 bp):
ATTTTGACCATGAAAAGTTCGTTTGATTTCTAAC
Found at i:6097038 original size:21 final size:22
Alignment explanation
Indices: 6097012--6097053 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
6097002 TGACCTTTCC
6097012 AAGGTATGGGC-AGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
6097033 AAGGTATGGGCAAGGTATGGG
1 AAGGTATGGGCAAGGTATGGG
6097054 GTATATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.29, C:0.05, G:0.48, T:0.19
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:6097039 original size:11 final size:10
Alignment explanation
Indices: 6097012--6097053 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
6097002 TGACCTTTCC
6097012 AAGGTATGGG
1 AAGGTATGGG
*
6097022 CAGGTATGGG
1 AAGGTATGGG
6097032 AAAGGTATGGG
1 -AAGGTATGGG
6097043 CAAGGTATGGG
1 -AAGGTATGGG
6097054 GTATATTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.29, C:0.05, G:0.48, T:0.19
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:6101114 original size:18 final size:18
Alignment explanation
Indices: 6101091--6101165 Score: 96
Period size: 18 Copynumber: 4.2 Consensus size: 18
6101081 CAATCCCAAC
*
6101091 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
*
6101109 TACTGTATACGTAAATAG
1 TACTGTATACGTGAATAG
* *
6101127 TTCTGTATACATGAATAG
1 TACTGTATACGTGAATAG
* *
6101145 TGCTATATACGTGAATAG
1 TACTGTATACGTGAATAG
6101163 TAC
1 TAC
6101166 CATAAACGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:6101742 original size:11 final size:11
Alignment explanation
Indices: 6101701--6101743 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
6101691 TTGACCTTTC
6101701 CAAGGTATGGG
1 CAAGGTATGGG
* *
6101712 -TAGGTATGAG
1 CAAGGTATGGG
*
6101722 AAAGGTATGGG
1 CAAGGTATGGG
6101733 CAAGGTATGGG
1 CAAGGTATGGG
6101744 GTATATTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.30, C:0.05, G:0.44, T:0.21
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:6102376 original size:21 final size:20
Alignment explanation
Indices: 6102326--6102377 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
6102316 GAACTATAGG
6102326 ATTTAAATAAATTTTTAAATA
1 ATTT-AATAAATTTTTAAATA
*
6102347 ATTAGAATAAATTATTTACAA-A
1 ATT-TAATAAATT-TTTA-AATA
6102369 ATTTAATAA
1 ATTTAATAA
6102378 GAATATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 16 0.62
22 8 0.31
23 2 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTAATAAATTTTTAAATA
Found at i:6104429 original size:20 final size:18
Alignment explanation
Indices: 6104400--6104439 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
6104390 TATTTGTTCC
6104400 TTTTAAGTATTATATATATA
1 TTTTAAGTA-TAT-TATATA
*
6104420 TTTTACGTATATTATATA
1 TTTTAAGTATATTATATA
6104438 TT
1 TT
6104440 ATATGTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTAAGTATATTATATA
Found at i:6104447 original size:18 final size:18
Alignment explanation
Indices: 6104410--6104461 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
6104400 TTTTAAGTAT
* *
6104410 TATA-TATATATTTTACG
1 TATATTATATATTATATG
6104427 TATATTATATATTATATG
1 TATATTATATATTATATG
*
6104445 TATACTT-TATTTTATAT
1 TATA-TTATATATTATAT
6104462 ATTAAGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.13
18 24 0.80
19 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (18 bp):
TATATTATATATTATATG
Found at i:6104472 original size:34 final size:33
Alignment explanation
Indices: 6104418--6104483 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 33
6104408 ATTATATATA
6104418 TATTTTACGTATATTATATAT-TATATGTATACTT
1 TATTTTAC-TATATTATATATAT-TATGTATACTT
6104452 TATTTTA-TATATTAAGTATATATTATGTATAC
1 TATTTTACTATATT-A-TATATATTATGTATAC
6104484 GCTTTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
32 6 0.21
33 1 0.03
34 21 0.72
35 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.55
Consensus pattern (33 bp):
TATTTTACTATATTATATATATTATGTATACTT
Found at i:6116644 original size:43 final size:44
Alignment explanation
Indices: 6116581--6116664 Score: 134
Period size: 43 Copynumber: 1.9 Consensus size: 44
6116571 CTAGAATCAG
*
6116581 TGAATTCACCAGACCTTAACCCCCTAAGCAGTAGGGTAACACGT
1 TGAATTCACCAGACCTTAACCCCCTAAGCAGTAGGGAAACACGT
* *
6116625 TGAATTC-GCAGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 TGAATTCACCAGACCTTAACCCCCTAAGCAGTAGGGAAACA
6116665 GATCGAAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 30 0.81
44 7 0.19
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (44 bp):
TGAATTCACCAGACCTTAACCCCCTAAGCAGTAGGGAAACACGT
Found at i:6116893 original size:43 final size:44
Alignment explanation
Indices: 6116845--6116932 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
6116835 CGAAGTAGAT
* *
6116845 TGAAGTCACTAGCCTTATCTCCTTGAAGT-GCAGTGGAGCAGAC
1 TGAAGTCACAAGCCTCATCTCCTTGAAGTCGCAGTGGAGCAGAC
* *
6116888 TGAAGTTACAAGTCTCATCTCCTTGAAGTCGCAGTGGAGCAGAC
1 TGAAGTCACAAGCCTCATCTCCTTGAAGTCGCAGTGGAGCAGAC
6116932 T
1 T
6116933 AAATGTACAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 25 0.62
44 15 0.38
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (44 bp):
TGAAGTCACAAGCCTCATCTCCTTGAAGTCGCAGTGGAGCAGAC
Found at i:6117507 original size:42 final size:42
Alignment explanation
Indices: 6117455--6117541 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
6117445 GAGCAGCTAA
*
6117455 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATCG
1 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTAGAATTGATCG
* * *
6117497 AAGCTACAGCAGGTCTCCTTGAAGTTTCAGTAGAATTGATTG
1 AAGCCACAGCAGATCTCCTTGAAGTTTCAGTAGAATTGATCG
6117539 AAG
1 AAG
6117542 TCACGTGTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
AAGCCACAGCAGATCTCCTTGAAGTTTCAGTAGAATTGATCG
Found at i:6119212 original size:20 final size:18
Alignment explanation
Indices: 6119183--6119222 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
6119173 TATTTGTTCC
6119183 TTTTAAGTATTATATATATA
1 TTTTAAGTA-TAT-TATATA
*
6119203 TTTTACGTATATTATATA
1 TTTTAAGTATATTATATA
6119221 TT
1 TT
6119223 ATATGTATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTAAGTATATTATATA
Found at i:6119230 original size:18 final size:18
Alignment explanation
Indices: 6119193--6119244 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
6119183 TTTTAAGTAT
* *
6119193 TATA-TATATATTTTACG
1 TATATTATATATTATATG
6119210 TATATTATATATTATATG
1 TATATTATATATTATATG
*
6119228 TATACTT-TATTTTATAT
1 TATA-TTATATATTATAT
6119245 ATTACGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.13
18 24 0.80
19 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (18 bp):
TATATTATATATTATATG
Found at i:6122106 original size:22 final size:22
Alignment explanation
Indices: 6122081--6122126 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
6122071 TTCGCCTTGA
*
6122081 AACATAACAAATAAAATTCTTC
1 AACATAACAAATAAAATTCCTC
6122103 AACATAACAAATAAAATTCCTC
1 AACATAACAAATAAAATTCCTC
6122125 AA
1 AA
6122127 AGTTGCTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.24
Consensus pattern (22 bp):
AACATAACAAATAAAATTCCTC
Found at i:6124135 original size:394 final size:394
Alignment explanation
Indices: 6123407--6124198 Score: 1512
Period size: 394 Copynumber: 2.0 Consensus size: 394
6123397 CTCAAACCCG
6123407 AGAAGACCTCAAAGCACCGTAGAATAAATTTCATGTTTTCCACCCCCTGTTCCTCTGCTTTTAAA
1 AGAAGACCTCAAAGCACCGTAGAATAAATTTCATGTTTTCCACCCCCTGTTCCTCTGCTTTTAAA
*
6123472 AACAAGATAGTATCGTCTGCAAACTGTAAATGCATGATCATATAGCCCGGGATAACCCCATGAAT
66 AACAAGATAGTATCATCTGCAAACTGTAAATGCATGATCATATAGCCCGGGATAACCCCATGAAT
6123537 ACCCTTTATTAACCCCAACGCCCCAGCCTTTTCCAACAACAAGTGAAGCACTTTCGTAATCAGAA
131 ACCCTTTATTAACCCCAACGCCCCAGCCTTTTCCAACAACAAGTGAAGCACTTTCGTAATCAGAA
*
6123602 TAAACAGGAAAGGGGATAAGGGATCACCTTGTCGCAATCCTCTGCCTAAATAGAATTCGTTCGAA
196 TAAACAGGAAAGGGGATAAGGGATCACCTTGTCCCAATCCTCTGCCTAAATAGAATTCGTTCGAA
6123667 GCCGAACCATTTACAAGAACAGCCGCTCTCGCCGTAGAAACACATTCCATCATCCATCCAGACCA
261 GCCGAACCATTTACAAGAACAGCCGCTCTCGCCGTAGAAACACATTCCATCATCCATCCAGACCA
* * *
6123732 TTTGACTCCAAAACCCATCTTAAGTGGAACTAATTCTAGAAAATCCCATCGGACGCAATCATATG
326 TTTGACTCCAAAACCCATCTTAAGTAGAACTAATTCTAGAAAATCCCATCAGACGCAATCATACG
6123797 CCTT
391 CCTT
6123801 AGAAGACCTCAAAGCACCGTAGAATAAATTTCATGTTTTCCACCCCCTGTTCCTCTGCTTTTAAA
1 AGAAGACCTCAAAGCACCGTAGAATAAATTTCATGTTTTCCACCCCCTGTTCCTCTGCTTTTAAA
* *
6123866 AACAAGATAGTATCATCTGCAAACTGTAAATGCATGATCGTATAGCCCGGGATAACTCCATGAAT
66 AACAAGATAGTATCATCTGCAAACTGTAAATGCATGATCATATAGCCCGGGATAACCCCATGAAT
6123931 ACCCTTTATTAACCCCAACGCCCCAGCCTTTTCCAACAACAAGTGAAGCACTTTCGTAATCAGAA
131 ACCCTTTATTAACCCCAACGCCCCAGCCTTTTCCAACAACAAGTGAAGCACTTTCGTAATCAGAA
6123996 TAAACAGGAAAGGGGATAAGGGATCACCTTGTCCCAATCCTCTGCCTAAATAGAATTCGTTCGAA
196 TAAACAGGAAAGGGGATAAGGGATCACCTTGTCCCAATCCTCTGCCTAAATAGAATTCGTTCGAA
*
6124061 GCCGAACCATTTACAAGAACAGCCGTTCTCGCCGTAGAAACACATTCCATCATCCATCCAGACCA
261 GCCGAACCATTTACAAGAACAGCCGCTCTCGCCGTAGAAACACATTCCATCATCCATCCAGACCA
6124126 TTTGACTCCAAAACCCATCTTAAGTAGAACTAATTCTAGAAAATCCCATCAGACGCAATCATACG
326 TTTGACTCCAAAACCCATCTTAAGTAGAACTAATTCTAGAAAATCCCATCAGACGCAATCATACG
6124191 CCTT
391 CCTT
6124195 AGAA
1 AGAA
6124199 AAATCTAGTT
Statistics
Matches: 390, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
394 390 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (394 bp):
AGAAGACCTCAAAGCACCGTAGAATAAATTTCATGTTTTCCACCCCCTGTTCCTCTGCTTTTAAA
AACAAGATAGTATCATCTGCAAACTGTAAATGCATGATCATATAGCCCGGGATAACCCCATGAAT
ACCCTTTATTAACCCCAACGCCCCAGCCTTTTCCAACAACAAGTGAAGCACTTTCGTAATCAGAA
TAAACAGGAAAGGGGATAAGGGATCACCTTGTCCCAATCCTCTGCCTAAATAGAATTCGTTCGAA
GCCGAACCATTTACAAGAACAGCCGCTCTCGCCGTAGAAACACATTCCATCATCCATCCAGACCA
TTTGACTCCAAAACCCATCTTAAGTAGAACTAATTCTAGAAAATCCCATCAGACGCAATCATACG
CCTT
Found at i:6125364 original size:16 final size:16
Alignment explanation
Indices: 6125343--6125374 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6125333 TCTACCAAAG
6125343 ATCCTTAATCTTAATC
1 ATCCTTAATCTTAATC
6125359 ATCCTTAATCTTAATC
1 ATCCTTAATCTTAATC
6125375 TGTCAGGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (16 bp):
ATCCTTAATCTTAATC
Found at i:6129281 original size:31 final size:30
Alignment explanation
Indices: 6129236--6129303 Score: 102
Period size: 29 Copynumber: 2.2 Consensus size: 30
6129226 CTGCAGAGAA
*
6129236 AAAAAAAGGGAGAGAAAGCTGAGTTTTTTTTT
1 AAAAAAAGGAAGAGAAAG-TGA-TTTTTTTTT
6129268 AAAAAAA-GAAGAGAAAGTGATTTTTTTTT
1 AAAAAAAGGAAGAGAAAGTGATTTTTTTTT
6129297 AAAAAAA
1 AAAAAAA
6129304 ATTTGGCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 16 0.46
30 3 0.09
31 9 0.26
32 7 0.20
ACGTcount: A:0.50, C:0.01, G:0.19, T:0.29
Consensus pattern (30 bp):
AAAAAAAGGAAGAGAAAGTGATTTTTTTTT
Found at i:6129304 original size:31 final size:34
Alignment explanation
Indices: 6129234--6129304 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 34
6129224 ACCTGCAGAG
*
6129234 AAAAAAAAAGGGAGAGAAAGCTGAGTTTTTTTTT
1 AAAAAAAAAGGAAGAGAAAGCTGAGTTTTTTTTT
6129268 --AAAAAAA-GAAGAGAAAG-TGA-TTTTTTTTT
1 AAAAAAAAAGGAAGAGAAAGCTGAGTTTTTTTTT
6129297 AAAAAAAA
1 AAAAAAAA
6129305 TTTGGCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 9 0.26
30 3 0.09
31 15 0.44
32 7 0.21
ACGTcount: A:0.52, C:0.01, G:0.18, T:0.28
Consensus pattern (34 bp):
AAAAAAAAAGGAAGAGAAAGCTGAGTTTTTTTTT
Found at i:6130063 original size:14 final size:14
Alignment explanation
Indices: 6130039--6130080 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
6130029 CACATTTTTG
6130039 TTATCATTATTATTT
1 TTAT-ATTATTATTT
*
6130054 TTATATTATTATTA
1 TTATATTATTATTT
6130068 TTATATTA-TATTT
1 TTATATTATTATTT
6130081 AGTTATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATATTATTATTT
Found at i:6130136 original size:3 final size:3
Alignment explanation
Indices: 6130128--6130174 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
6130118 TATGCACATA
* * *
6130128 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT CAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6130175 GTACTAGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6130303 original size:23 final size:22
Alignment explanation
Indices: 6130248--6130386 Score: 103
Period size: 23 Copynumber: 6.2 Consensus size: 22
6130238 ATTAATAGTT
*
6130248 TTTTTATATATTATTGT-CAT-
1 TTTTTATATATTATTGTATATA
* * *
6130268 TTCTAATATATATATTGTATATG
1 TTTTTATATAT-TATTGTATATA
6130291 TTTTTATATA-TATTATGTATATA
1 TTTTTATATATTA-T-TGTATATA
6130314 TTTTTA-ATATTATTAGTTATATA
1 TTTTTATATATTATT-G-TATATA
6130337 TTTTTTATACTATT-TCATGTATATA
1 -TTTTTATA-TATTAT--TGTATATA
6130362 -TTTTATTATATTA-TGTATATA
1 TTTTTA-TATATTATTGTATATA
6130383 TTTT
1 TTTT
6130387 AATAACTATA
Statistics
Matches: 97, Mismatches: 6, Indels: 30
0.73 0.05 0.23
Matches are distributed among these distances:
20 9 0.09
21 17 0.18
22 11 0.11
23 38 0.39
24 8 0.08
25 8 0.08
26 5 0.05
27 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTTATATATTATTGTATATA
Found at i:6130360 original size:46 final size:46
Alignment explanation
Indices: 6130266--6130386 Score: 117
Period size: 47 Copynumber: 2.6 Consensus size: 46
6130256 TATTATTGTC
*
6130266 ATTTCTAATATATATATTGTATAT-GTTTTTATATATATTATG-TATAT
1 ATTT-TAATATAT-TA-TGTATATATTTTTTATATATATTATGATATAT
6130313 ATTTTTAATATTATTA-GTTATATATTTTTTATACTAT-TTCATG-TATAT
1 A-TTTTAATA-TATTATG-TATATATTTTTTATA-TATATT-ATGATATAT
*
6130361 ATTTTATTATATTATGTATATATTTT
1 ATTTTAATATATTATGTATATATTTT
6130387 AATAACTATA
Statistics
Matches: 65, Mismatches: 2, Indels: 15
0.79 0.02 0.18
Matches are distributed among these distances:
45 1 0.02
46 20 0.31
47 26 0.40
48 18 0.28
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.60
Consensus pattern (46 bp):
ATTTTAATATATTATGTATATATTTTTTATATATATTATGATATAT
Found at i:6130379 original size:21 final size:22
Alignment explanation
Indices: 6130273--6130404 Score: 119
Period size: 23 Copynumber: 5.7 Consensus size: 22
6130263 GTCATTTCTA
*
6130273 ATATATA-TATTGTATATGTTTTT
1 ATATATATTA-TGTATAT-ATTTT
6130296 ATATATATTATGTATATATTTT
1 ATATATATTATGTATATATTTT
6130318 -TA-ATATTATTAGTTATATATTTT
1 ATATATATTA-T-G-TATATATTTT
*
6130341 TTATACTATTTCATGTATATATTTT
1 ATATA-TA-TT-ATGTATATATTTT
6130366 AT-TATATTATGTATATATTTT
1 ATATATATTATGTATATATTTT
6130387 AATAACTATATTATGTAT
1 -AT-A-TATATTATGTAT
6130405 GTGTCGTAAC
Statistics
Matches: 94, Mismatches: 2, Indels: 24
0.78 0.02 0.20
Matches are distributed among these distances:
20 6 0.06
21 16 0.17
22 9 0.10
23 26 0.28
24 6 0.06
25 24 0.26
26 3 0.03
27 3 0.03
28 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.58
Consensus pattern (22 bp):
ATATATATTATGTATATATTTT
Found at i:6130395 original size:46 final size:48
Alignment explanation
Indices: 6130285--6130404 Score: 137
Period size: 46 Copynumber: 2.6 Consensus size: 48
6130275 ATATATATTG
*
6130285 TATATGTTTT-TATA-TATATTATGTATATATTTTTAATATTATTAGT
1 TATATATTTTATATACTATATTATGTATATATTTTTAATATTATTAGT
* *
6130331 TATATATTTTTTATACTAT-TTCATGTATATA-TTTTATTA-TATTA-T
1 TATATATTTTATATACTATATT-ATGTATATATTTTTAATATTATTAGT
6130376 GTATATATTTTA-ATAACTATATTATGTAT
1 -TATATATTTTATAT-ACTATATTATGTAT
6130405 GTGTCGTAAC
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
45 3 0.05
46 35 0.54
47 15 0.23
48 12 0.18
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (48 bp):
TATATATTTTATATACTATATTATGTATATATTTTTAATATTATTAGT
Found at i:6131611 original size:21 final size:22
Alignment explanation
Indices: 6131587--6131639 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
6131577 TATACAAAAC
*
6131587 AAAATATACGCATAATATA-TT
1 AAAATATACGCATAATATACAT
** *
6131608 AAAATATATACATAATGTACAT
1 AAAATATACGCATAATATACAT
6131630 AAAATATACG
1 AAAATATACG
6131640 TATATACATC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAATATACGCATAATATACAT
Found at i:6133151 original size:20 final size:22
Alignment explanation
Indices: 6133108--6133152 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
6133098 ATGTTTATAC
**
6133108 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTATGTACATA
6133130 TTTTAATA-TA-TATGTACATA
1 TTTTAATATTATTATGTACATA
6133150 TTT
1 TTT
6133153 ATGTAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 2 0.10
22 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTAATATTATTATGTACATA
Found at i:6133151 original size:24 final size:22
Alignment explanation
Indices: 6133108--6133177 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
6133098 ATGTTTATAC
**
6133108 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
6133130 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
* * *
6133154 -TGTAGTATTATTA-ATATATA
1 TTTTAATATTATTACATATTTA
6133174 TTTT
1 TTTT
6133178 TTATGTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
20 6 0.15
21 4 0.10
22 12 0.31
23 9 0.23
24 8 0.21
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:6133200 original size:31 final size:32
Alignment explanation
Indices: 6133119--6133215 Score: 96
Period size: 31 Copynumber: 3.1 Consensus size: 32
6133109 TTTAATATTA
*
6133119 TTATGTATTTATT-TTAATATATA-TGTACATAT-
1 TTATGTA-GTATTATTAATATATATTGT--ATATG
* *
6133151 TTATGTAGTATTATTAATATATATTTTTTATG
1 TTATGTAGTATTATTAATATATATTGTATATG
6133183 TTAT-TAGTATT-TCTAATATATATTGTATATG
1 TTATGTAGTATTAT-TAATATATATTGTATATG
6133214 TT
1 TT
6133216 TATTTTATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
30 1 0.02
31 32 0.57
32 21 0.38
33 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (32 bp):
TTATGTAGTATTATTAATATATATTGTATATG
Found at i:6135541 original size:15 final size:15
Alignment explanation
Indices: 6135512--6135557 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
6135502 AAAAATATAG
*
6135512 TAAT-ATGCATAGAA
1 TAATAATGCATGGAA
* *
6135526 TGATAGTGCATGGAA
1 TAATAATGCATGGAA
6135541 TAATAATGCAT-GAA
1 TAATAATGCATGGAA
6135555 TAA
1 TAA
6135558 AATATTACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (15 bp):
TAATAATGCATGGAA
Found at i:6136163 original size:20 final size:20
Alignment explanation
Indices: 6136109--6136163 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
6136099 TGAAATACAT
*
6136109 AATATACAATAACTTAAAATA
1 AATATAAAATAA-TTAAAATA
* *
6136130 TATATAAAAAAATTAAAATA
1 AATATAAAATAATTAAAATA
*
6136150 AATATATAATAATT
1 AATATAAAATAATT
6136164 TTTAAAGAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATAAAATAATTAAAATA
Found at i:6137345 original size:33 final size:33
Alignment explanation
Indices: 6137303--6137369 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
6137293 GGTGTCAGAC
*
6137303 GCGTGGAGCGTGGTGACTAAGGCTGACGGGTAT
1 GCGTGGAGCGTGGTGACCAAGGCTGACGGGTAT
*
6137336 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGTAT
1 GCGTGGAGCGTGGTGACCAAGGCTGACGGGTAT
6137369 G
1 G
6137370 GTTGCTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.15, G:0.48, T:0.19
Consensus pattern (33 bp):
GCGTGGAGCGTGGTGACCAAGGCTGACGGGTAT
Found at i:6138519 original size:206 final size:206
Alignment explanation
Indices: 6137933--6138766 Score: 1130
Period size: 206 Copynumber: 4.0 Consensus size: 206
6137923 ATCCGAGAGT
* * *
6137933 CAAATCTA-CTATGTCTTCGATTTGTTTCTTGCAAGCATAAGGATGCCAAATCATCTTGGATCTT
1 CAAATC-AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTT
** * * * ** *
6137997 TTTTCAGTATAAACA-CTTGAAGGTCAGATCTGTTATGTATCTGCTCTCTATTGAAGTGGAGATG
65 GCTTCAGTATAAACATC-CGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATG
* * * * *
6138061 CCAGACTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTA
129 CCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTA
*
6138126 AACACGTGAAAGC
194 ATCACGTGAAAGC
* * * **
6138139 CAAATCAGCTATGTCTTCGATTTGTTCCTTGCCGAA-TACAGAGAGATAAGATC-TGTCATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTG--TAAGCACA-AG-GAT--G-CCAAATCATCTTG
*
6138202 GATC-TGCTTCAGTATAAACATCCGAAGG-CGAGATCTGC--TGTGTCTGCTCTCCATCAAAGTG
59 GATCTTGCTTCAGTATAAACATCCGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATCAAAGTG
* ** * *
6138263 AAGATGCCAAACTTTGATTCACTCTCTGACAATACATAGACGAGAAATCATCTTAGATTTGCTTC
123 AAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTC
*
6138328 ATCGTAATCACGTGAAAGG
188 ATCGTAATCACGTGAAAGC
*
6138347 AAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTG
*
6138412 CTTCAGTATAAACATCCGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGATGC
66 CTTCAGTATAAACATCCGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATGC
6138476 CAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAA
130 CAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAA
6138541 TCACGTGAAAGC
195 TCACGTGAAAGC
6138553 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTG
* * **
6138618 CTTCAGTATAAACATCCGAAGGTCAAATCTGCTATGTATCGGCTCTCCATTGAAGTGAAGATGCC
66 CTTCAGTATAAACATCCGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATGCC
* * * * *
6138683 AGACTTCGATTTGTTCTTTAACAATATAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAA
131 AAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGT-AA
6138748 T-ACGTGAAAGC
195 TCACGTGAAAGC
6138759 CAAATCAG
1 CAAATCAG
6138767 TCATGTTTTT
Statistics
Matches: 562, Mismatches: 49, Indels: 34
0.87 0.08 0.05
Matches are distributed among these distances:
202 1 0.00
203 13 0.02
204 34 0.06
205 4 0.01
206 330 0.59
207 9 0.02
208 126 0.22
209 4 0.01
210 26 0.05
211 14 0.02
212 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (206 bp):
CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTG
CTTCAGTATAAACATCCGAAGGTCAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAGATGCC
AAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAT
CACGTGAAAGC
Found at i:6139761 original size:53 final size:54
Alignment explanation
Indices: 6139681--6139815 Score: 245
Period size: 53 Copynumber: 2.5 Consensus size: 54
6139671 CTTTTGGTCA
*
6139681 CAAGGTGCCCTTTGCGAGTTTTCACCTTGGCCTCTCCGTTTTTTA-TTTTTTTT
1 CAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCGTTTTTTATTTTTTTTT
6139734 CAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCGTTTTTTATTTTTTTTT
1 CAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCGTTTTTTATTTTTTTTT
*
6139788 CAAGGCGCCCTTTGCGGGTTTTCACCTT
1 CAAGGTGCCCTTTGCGGGTTTTCACCTT
6139816 AGATTCTCTT
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 44 0.56
54 35 0.44
ACGTcount: A:0.09, C:0.26, G:0.19, T:0.46
Consensus pattern (54 bp):
CAAGGTGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCGTTTTTTATTTTTTTTT
Found at i:6152628 original size:39 final size:39
Alignment explanation
Indices: 6152574--6152654 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
6152564 TTGTGTTTGC
6152574 AGGGTATAGGGGTGTCAGACGCATGGAGCGTGGTGACCA
1 AGGGTATAGGGGTGTCAGACGCATGGAGCGTGGTGACCA
6152613 AGGGTATAGGGGTGTCAGACGCATGGAGCGTGGTGACCA
1 AGGGTATAGGGGTGTCAGACGCATGGAGCGTGGTGACCA
6152652 AGG
1 AGG
6152655 CTGAGGGGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.23, C:0.15, G:0.44, T:0.17
Consensus pattern (39 bp):
AGGGTATAGGGGTGTCAGACGCATGGAGCGTGGTGACCA
Found at i:6177870 original size:18 final size:18
Alignment explanation
Indices: 6177847--6177889 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6177837 GAATAAAATT
6177847 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
6177865 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
6177883 TTAATTA
1 TTAATTA
6177890 CAACTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:6181615 original size:24 final size:24
Alignment explanation
Indices: 6181588--6181636 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
6181578 AAAGTCAATG
6181588 TAATAATA-AATAGTTAATTT-TATT
1 TAATAATATAA-A-TTAATTTATATT
6181612 TAATAATATAAATTAATTTATATT
1 TAATAATATAAATTAATTTATATT
6181636 T
1 T
6181637 TAATTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.30
24 14 0.61
25 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATAATATAAATTAATTTATATT
Found at i:6186010 original size:88 final size:88
Alignment explanation
Indices: 6185861--6186063 Score: 334
Period size: 88 Copynumber: 2.3 Consensus size: 88
6185851 TGACTCAGTC
* * *
6185861 ATGAAATTAGTTCCTTACCATGATGTTCCTATTGAAAATATTGAACAGGAAACTATTAGTCAAGT
1 ATGAAATTAGTTCCTTACCATGACGTACCTATTGAAAATATTGAACAGGAAACTATAAGTCAAGT
6185926 CGACAACAATTTTTATAAGAGTA
66 CGACAACAATTTTTATAAGAGTA
* *
6185949 ATGAAATTAGTTCCTTACCATGACGTACCTATTGAAAATATTGAATAGGAAATTATAAGTCAAGT
1 ATGAAATTAGTTCCTTACCATGACGTACCTATTGAAAATATTGAACAGGAAACTATAAGTCAAGT
* * *
6186014 TGACCACAATTTTTATAAGAGTC
66 CGACAACAATTTTTATAAGAGTA
6186037 ATGAAATTAGTTCCTTACCATGACGTA
1 ATGAAATTAGTTCCTTACCATGACGTA
6186064 TTAGGAAATT
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 107 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (88 bp):
ATGAAATTAGTTCCTTACCATGACGTACCTATTGAAAATATTGAACAGGAAACTATAAGTCAAGT
CGACAACAATTTTTATAAGAGTA
Found at i:6192059 original size:9 final size:9
Alignment explanation
Indices: 6192045--6192078 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
6192035 ATTGTTCTAA
6192045 TATTTGATT
1 TATTTGATT
6192054 TATTTGATT
1 TATTTGATT
6192063 TATTT-ATT
1 TATTTGATT
6192071 TAATTTGA
1 T-ATTTGA
6192079 CTTGGACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.17
9 18 0.78
10 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (9 bp):
TATTTGATT
Found at i:6192069 original size:13 final size:14
Alignment explanation
Indices: 6192046--6192078 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6192036 TTGTTCTAAT
*
6192046 ATTTGATTTATTTG
1 ATTTGATTTATTTA
6192060 ATTT-ATTTATTTA
1 ATTTGATTTATTTA
6192073 ATTTGA
1 ATTTGA
6192079 CTTGGACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (14 bp):
ATTTGATTTATTTA
Found at i:6193683 original size:50 final size:51
Alignment explanation
Indices: 6193595--6193692 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 51
6193585 CGACCGACCA
*
6193595 CACGCCCATGTGTCTAGGCCGTGCCAAATCTATAGGGTATACTGACTTATG
1 CACGCCCATGTGTCTAGGCCGTGCCAAATCTAGAGGGTATACTGACTTATG
*
6193646 CACGCCCATGTG-CTAGGCCGTGTGCC-AAT-TAGGGGGTATACTGACTT
1 CACGCCCATGTGTCTAGGCC--GTGCCAAATCTAGAGGGTATACTGACTT
6193693 GTACCACACG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 23 0.53
51 15 0.35
52 5 0.12
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.27
Consensus pattern (51 bp):
CACGCCCATGTGTCTAGGCCGTGCCAAATCTAGAGGGTATACTGACTTATG
Found at i:6194527 original size:27 final size:27
Alignment explanation
Indices: 6194489--6194543 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6194479 TAACACGAAG
6194489 TAAGCTTTTAAGCTTAGTAAGCTCGTA
1 TAAGCTTTTAAGCTTAGTAAGCTCGTA
6194516 TAAGCTTTTAAGCTTAGTAAGCTCGTA
1 TAAGCTTTTAAGCTTAGTAAGCTCGTA
6194543 T
1 T
6194544 GAGATAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (27 bp):
TAAGCTTTTAAGCTTAGTAAGCTCGTA
Found at i:6196717 original size:36 final size:36
Alignment explanation
Indices: 6196670--6196738 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
6196660 TTAATAAGCT
*
6196670 GCTGCCAAAACAAGTTGAAACCAAACCTTTTGAATG
1 GCTGCCAAAACAAGCTGAAACCAAACCTTTTGAATG
* * *
6196706 GCTGCCAAAACATGCTGAGACTAAACCTTTTGA
1 GCTGCCAAAACAAGCTGAAACCAAACCTTTTGA
6196739 GTGGAAAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (36 bp):
GCTGCCAAAACAAGCTGAAACCAAACCTTTTGAATG
Found at i:6199951 original size:16 final size:16
Alignment explanation
Indices: 6199918--6199951 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6199908 GGTCAATGTT
* *
6199918 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
6199934 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
6199950 AA
1 AA
6199952 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:6200536 original size:28 final size:28
Alignment explanation
Indices: 6200504--6200560 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
6200494 TCGTAGTATG
6200504 CTCTGTGGTTACAGTTTAAACTGATCTT
1 CTCTGTGGTTACAGTTTAAACTGATCTT
**
6200532 CTCTGTGGTTGTAGTTTAAACTGATCTT
1 CTCTGTGGTTACAGTTTAAACTGATCTT
6200560 C
1 C
6200561 CACATCAGAA
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:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (28 bp):
CTCTGTGGTTACAGTTTAAACTGATCTT
Found at i:6202802 original size:21 final size:21
Alignment explanation
Indices: 6202776--6202816 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6202766 AGACAAGCGA
* *
6202776 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6202797 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6202817 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:6209953 original size:134 final size:134
Alignment explanation
Indices: 6209708--6210013 Score: 443
Period size: 134 Copynumber: 2.3 Consensus size: 134
6209698 ATAGGCCGAG
* * * * * * * *
6209708 AATTACAGATCTTATCCCCATGTACCGGCTATGGAACATATCGAAAATGGCGAGTCTTATCTCCA
1 AATTGCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATAGCGAGTCCTATCTCCA
* ** *
6209773 TGTATCGGTTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGTAAGT
66 TGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGT
6209838 TGAA
131 TGAA
*
6209842 AATTGCAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCAAAAATAGCGAGTCCTATCTCCA
1 AATTGCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATAGCGAGTCCTATCTCCA
* * *
6209907 TGTATCGGCTATGGAGCAGATTTTAGCCACCAACTTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGT
6209972 TGAA
131 TGAA
*
6209976 AATTGTA-AGTCTTATCTCCATGTATCGGCTATGGAGCA
1 AATTGCAGA-TCTTATCTCCATGTATCGGCTATGGAGCA
6210014 CACTGAAAAT
Statistics
Matches: 153, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
133 1 0.01
134 152 0.99
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (134 bp):
AATTGCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATAGCGAGTCCTATCTCCA
TGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAAGT
TGAA
Found at i:6210128 original size:84 final size:83
Alignment explanation
Indices: 6210026--6210813 Score: 1182
Period size: 84 Copynumber: 9.4 Consensus size: 83
6210016 CTGAAAATTG
* * *
6210026 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTATGCCTTAATCCCCTAAGTAGTAG
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAA-CCCCTAAGCAGTAG
*
6210091 GGTAATAGGCTGGAAAATA
65 GGTAACAGGCTGGAAAATA
* *
6210110 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGATAGCAAGCCTTAACCCCCTAAACAGTAG
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAA-CCCCTAAGCAGTAG
6210175 GGTAACAGGCTGGAAAATA
65 GGTAACAGGCTGGAAAATA
* * *
6210194 CAGATCTCCCCTAAACAGTAGTGGAGTAGATCAAAGACAACAAGCCTTAACCCCCTAAGCAGTAG
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAA-CCCCTAAGCAGTAG
6210259 GGTAACAGGCTGGAAAATA
65 GGTAACAGGCTGGAAAATA
*
6210278 CATATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAATCCCCTAAGCAGTAG
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAA-CCCCTAAGCAGTAG
6210343 GGTAACAGGCTGGAAAATA
65 GGTAACAGGCTGGAAAATA
* * * *
6210362 CAGATATCCCCTAAATAGTCGTGGAGCAGATCGAAGATAGCAAGCCTTAACCCCCTAAGCAGTAG
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAA-CCCCTAAGCAGTAG
6210427 GGTAACAGGCTGGAAAATA
65 GGTAACAGGCTGGAAAATA
* *
6210446 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCAAAGACAGCAAGCCTTAACCCCTTAAGCGGTAG
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCC-TAAGCAGTAG
6210511 GGTAACAGGCTGGAAAATA
65 GGTAACAGGCTGGAAAATA
* * *
6210530 CAGATCTCCCCTAAACAGCAGTGGAGCAGATCGAAGGCAGCAAGCCTTAACTCCCTAAGAAGTAG
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAAC-CCCTAAGCAGTAG
6210595 GGTAACAGGCTGGAAAATTA
65 GGTAACAGGCTGGAAAA-TA
* *
6210615 CAGATCTTATCCCTAAACAGCAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCTTAAGCAGT
1 CAGATC-T-CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCC-TAAGCAGT
*
6210680 GGGGTAACAGGCTGGAAAATA
63 AGGGTAACAGGCTGGAAAATA
* ** * * *
6210701 CAGATCTCCCTTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCTTTAATCCTCTAAGCTGTAG
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAA-CCCCTAAGCAGTAG
* *
6210766 GGTAACAAGCTAGAAAATA
65 GGTAACAGGCTGGAAAATA
*
6210785 CAAATCT-CCCTAAACAGTAGTGGAGCAGA
1 CAGATCTCCCCTAAACAGTAGTGGAGCAGA
6210814 CTGAAGATTA
Statistics
Matches: 646, Mismatches: 51, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
83 25 0.04
84 527 0.82
85 15 0.02
86 12 0.02
87 67 0.10
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (83 bp):
CAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCTAAGCAGTAGG
GTAACAGGCTGGAAAATA
Found at i:6210130 original size:40 final size:40
Alignment explanation
Indices: 6210076--6210466 Score: 149
Period size: 40 Copynumber: 9.4 Consensus size: 40
6210066 TATGCCTTAA
** *
6210076 TCCCCTAAGTAGTAGGGTAATAGGCTGGAAAATACAGATC
1 TCCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATC
* * * * *
6210116 TCCCCTAAACAGTAGTGG-AGCA-GATCGAAGATAGCA-AGCC
1 TCCCCTAAACAGTAG-GGTAACAGGCTGGAAAATA-CAGA-TC
6210156 TTAACCCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATC
1 -T---CCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATC
** * * * *
6210200 TCCCCTAAACAGTAGTGG-AGTA-GAT-CAAAGACAACA-AGCC
1 TCCCCTAAACAGTAG-GGTAACAGGCTGGAAA-A-TACAGA-TC
* *
6210240 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACATATC
1 -T---CCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATC
* * * * * * *
6210284 TCCCCTAAACAGTAGTGG-AGCA-GATCGAAGACAGCAAGCCTTAA
1 TCCCCTAAACAGTAG-GGTAACAGGCTGGAAAATA-C-AG--AT-C
* *
6210328 TCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATA
1 TCCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATC
* * * * * * *
6210368 TCCCCTAAATAGTCGTGG-AGCA-GATCGAAGATAGCA-AGCC
1 TCCCCTAAACAGTAG-GGTAACAGGCTGGAAAATA-CAGA-TC
*
6210408 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAAATACAGATC
1 -T---CCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATC
6210452 TCCCCTAAACAGTAG
1 TCCCCTAAACAGTAG
6210467 TGGAGCAGAT
Statistics
Matches: 251, Mismatches: 60, Indels: 80
0.64 0.15 0.20
Matches are distributed among these distances:
38 3 0.01
39 29 0.12
40 86 0.34
41 13 0.05
43 14 0.06
44 74 0.29
45 29 0.12
46 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (40 bp):
TCCCCTAAACAGTAGGGTAACAGGCTGGAAAATACAGATC
Found at i:6211258 original size:5 final size:5
Alignment explanation
Indices: 6211248--6211274 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6211238 AAGATATTAT
6211248 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
6211275 ATTAAATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:6213070 original size:3 final size:3
Alignment explanation
Indices: 6213062--6213121 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
6213052 GAGTAAAAAT
* * * * *
6213062 ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ACA ATG GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6213109 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
6213122 ATAGTGATAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6213348 original size:3 final size:3
Alignment explanation
Indices: 6213340--6213399 Score: 102
Period size: 3 Copynumber: 19.7 Consensus size: 3
6213330 AGTGATTTAA
*
6213340 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6213388 AAT AAT AGAT AA
1 AAT AAT A-AT AA
6213400 CATTAAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6215382 original size:44 final size:44
Alignment explanation
Indices: 6215324--6215742 Score: 245
Period size: 44 Copynumber: 9.6 Consensus size: 44
6215314 TAAATTCAGC
* *
6215324 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTTCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCTCCTTCGAT
* * ** * ** **
6215368 CTGTTTTCCTACTGCTTA-GGGTGATAA-GATC-TGTAATTCGGC
1 CTGTTTCCCTACTGCTTAGGGGT-TTAAGGCCCATCTCCTTCGAT
*
6215410 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCTCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCTCCTTCGAT
* ** * * ** *
6215454 CTGTTTCCCTACTGCTTAGGGG-GTAA-GATCTTGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCT-CCTTCGA-T
* * *
6215497 CTGTTAT-CCTACTGCTTAAGGGTTTAAAGCCCATCGCCTTCGAT
1 CTGTT-TCCCTACTGCTTAGGGGTTTAAGGCCCATCTCCTTCGAT
* ** * ** *
6215541 CTGTTTCCCTACTGCTTA-GGGTGATAA-GATC-TGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGT-TTAAGGCCCATCT-CCTTCGA-T
* * * *
6215584 CTGTTACCTTACTGCTTAGGGGTTTAAGGCTCATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCTCCTTCGAT
* * *** * ** *
6215628 CTATTTCCCTACTGCTTAGGGGGTTAA-G-ATTTGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCT-CCTTCGA-T
* *
6215671 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCTCCTTCGAT
*
6215715 CTGTTTCCCTACTGCTTAGGGGGTTAAG
1 CTGTTTCCCTACTGCTTAGGGGTTTAAG
6215743 ATCTGTAAAT
Statistics
Matches: 271, Mismatches: 81, Indels: 46
0.68 0.20 0.12
Matches are distributed among these distances:
42 34 0.13
43 94 0.35
44 135 0.50
45 8 0.03
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGGTTTAAGGCCCATCTCCTTCGAT
Found at i:6215787 original size:87 final size:87
Alignment explanation
Indices: 6215281--6215778 Score: 793
Period size: 87 Copynumber: 5.7 Consensus size: 87
6215271 AATTTTCAGC
* * *
6215281 CTGTTACCCTACTACTTAGGGGGTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
**
6215346 TTTAAGGCCCATCTTCTTCGAT
66 TTTAAGGCCCATCACCTTCGAT
* * * *
6215368 CTGTTTTCCTACTGCTTAGGGTGATAAGATCTGT-AATTCGGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
*
6215432 TTTAAGGCCCATCTCCTTCGAT
66 TTTAAGGCCCATCACCTTCGAT
* *
6215454 CTGTTTCCCTACTGCTTAGGGGG-TAAGATCTTGTAAATTCAGCCTGTTATCCTACTGCTTAAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
* *
6215518 GTTTAAAGCCCATCGCCTTCGAT
65 GTTTAAGGCCCATCACCTTCGAT
* * *
6215541 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCTTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
*
6215606 TTTAAGGCTCATCACCTTCGAT
66 TTTAAGGCCCATCACCTTCGAT
* *
6215628 CTATTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
6215693 TTTAAGGCCCATCACCTTCGAT
66 TTTAAGGCCCATCACCTTCGAT
6215715 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
6215779 AGATAAGGCT
Statistics
Matches: 378, Mismatches: 30, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
85 7 0.02
86 74 0.20
87 290 0.77
88 7 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (87 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
TTTAAGGCCCATCACCTTCGAT
Found at i:6215797 original size:43 final size:42
Alignment explanation
Indices: 6215275--6215798 Score: 242
Period size: 43 Copynumber: 12.1 Consensus size: 42
6215265 ATCTATAATT
* **
6215275 TTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGATTTGTAAA
1 TTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGTAAA
* * **
6215318 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCT-TC
1 TTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGG--CTTGTAAA
* ** * *
6215362 TTC-GATCTGTTTTCCTACTGCTTAGGGTGATAA-GATCTGT-AA
1 TTCAG-CCTGTTACCCTACTGCTTAGGG-GTTAAGGCT-TGTAAA
* * * **
6215404 TTCGGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCT-CC
1 TTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGG--CTTGTAAA
* * * *
6215448 TTC-GATCTGTTTCCCTACTGCTTAGGGGGTAAGATCTTGTAAA
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGTTAAG-GCTTGTAAA
* * * *** ***
6215491 TTCAGCCTGTTATCCTACTGCTTAAGGGTTTAAAGCCCATCGCC
1 TTCAGCCTGTTACCCTACTGCTT-AGGGGTTAAGGCTTGT-AAA
* * * *
6215535 TTC-GATCTGTTTCCCTACTGCTTAGGGTGATAA-GATCTGTAAA
1 TTCAG-CCTGTTACCCTACTGCTTAGGG-GTTAAGGCT-TGTAAA
* ** **
6215578 TTCAGCCTGTTACCTTACTGCTTAGGGGTTTAAGGCTCATCACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGCTTGT-AAA
* * * **
6215622 TTC-GATCTATTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAA
1 TTCAG-CCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGTAAA
*** **
6215665 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACC
1 TTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGCTTGT-AAA
* * *
6215709 TTC-GATCTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGTAAA
1 TTCAG-CCTGTTACCCTACTGCTTA-GGGGTTAAGGCT-TGTAAA
* *
6215752 TTCAGCCTGTTACCCTACTGCTTAGGGAGATAAGGCTTGTGAA
1 TTCAGCCTGTTACCCTACTGCTTAGGG-GTTAAGGCTTGTAAA
6215795 TTCA
1 TTCA
6215799 CTGATTCCAC
Statistics
Matches: 346, Mismatches: 100, Indels: 70
0.67 0.19 0.14
Matches are distributed among these distances:
41 1 0.00
42 42 0.12
43 152 0.44
44 140 0.40
45 11 0.03
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (42 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTTGTAAA
Found at i:6224844 original size:3 final size:3
Alignment explanation
Indices: 6224836--6224895 Score: 111
Period size: 3 Copynumber: 19.7 Consensus size: 3
6224826 AGTGATTTAA
6224836 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6224884 AAT AAT AGAT AA
1 AAT AAT A-AT AA
6224896 CATTAAATTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6234122 original size:25 final size:27
Alignment explanation
Indices: 6234085--6234137 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6234075 TCAAACATGC
6234085 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6234111 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6234137 A
1 A
6234138 AAACTGTAAA
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:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6235655 original size:32 final size:32
Alignment explanation
Indices: 6235618--6235682 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
6235608 AATGCTTACC
*
6235618 ATGCCCATCATCTATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
6235650 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
6235682 A
1 A
6235683 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:6238761 original size:27 final size:27
Alignment explanation
Indices: 6238731--6238860 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
6238721 ATTACCAAAG
* * *
6238731 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
6238758 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
6238785 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
6238812 TACCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
6238839 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
6238861 TAAAATACCC
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:6238840 original size:54 final size:54
Alignment explanation
Indices: 6238731--6238889 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 54
6238721 ATTACCAAAG
* * ** * * *
6238731 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCATTT
* * **
6238785 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCATTT
*** * *
6238839 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCA
6238890 AAATACCCTC
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCATTT
Found at i:6238869 original size:27 final size:27
Alignment explanation
Indices: 6238785--6239061 Score: 161
Period size: 27 Copynumber: 10.2 Consensus size: 27
6238775 ATTACCGTTT
* * ***
6238785 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ***
6238812 TACCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
6238839 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
6238866 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * *
6238893 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACTAAAA
* ** *
6238920 TACCCT-GGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
6238946 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
6238973 TACCC-CTAATTTACAAAATTAC-ATAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
6239000 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
6239029 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
6239056 TGCCCT
1 TACCCT
6239062 TATGTTCCGT
Statistics
Matches: 207, Mismatches: 31, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
26 25 0.12
27 156 0.75
28 7 0.03
29 19 0.09
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:6238897 original size:54 final size:54
Alignment explanation
Indices: 6238785--6239050 Score: 234
Period size: 54 Copynumber: 4.9 Consensus size: 54
6238775 ATTACCGTTT
* *** * * ** ***
6238785 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTATTATTT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
*
6238839 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
* * **
6238893 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * * **
6238946 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA-CATAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA-AAA
* * *
6239000 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTAC
1 TACCCTCGA-TTTAT-AAAATTACTA-AAATACCCTTGGTTTACAAAATTAC
6239051 TGAAATGCCC
Statistics
Matches: 172, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
53 50 0.29
54 90 0.52
55 5 0.03
56 27 0.16
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:6238952 original size:53 final size:54
Alignment explanation
Indices: 6238853--6239005 Score: 202
Period size: 53 Copynumber: 2.9 Consensus size: 54
6238843 CTCGATTTAC
* *
6238853 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAGT
** **
6238907 AAAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAGT
* **
6238960 AAAATTACCAAAATACCCCTAATTTACAAAATTA-CATAAATACCCT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAATACCCT
6239006 TGACTTTCTA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 50 0.57
54 37 0.43
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAGT
Found at i:6240252 original size:25 final size:25
Alignment explanation
Indices: 6240205--6240252 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6240195 TTATAATATG
* * * *
6240205 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
6240230 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
6240253 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:6240303 original size:9 final size:9
Alignment explanation
Indices: 6240291--6240347 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
6240281 TTTGATAAAC
6240291 ATGATATGT
1 ATGATATGT
*
6240300 ATGATATGCAC
1 ATGATATG--T
*
6240311 ATGACATGT
1 ATGATATGT
*
6240320 ATGATATGCAC
1 ATGATATG--T
6240331 ATGATATGT
1 ATGATATGT
6240340 ATGATATG
1 ATGATATG
6240348 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:6240314 original size:20 final size:20
Alignment explanation
Indices: 6240289--6240359 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
6240279 ATTTTGATAA
6240289 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
6240309 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
6240329 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
6240349 ACATGAGATGT
1 ACATGATATGT
6240360 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:6240336 original size:11 final size:11
Alignment explanation
Indices: 6240300--6240354 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
6240290 CATGATATGT
6240300 ATGATATGCAC
1 ATGATATGCAC
* *
6240311 ATGACATG--T
1 ATGATATGCAC
6240320 ATGATATGCAC
1 ATGATATGCAC
*
6240331 ATGATATG--T
1 ATGATATGCAC
6240340 ATGATATGCAC
1 ATGATATGCAC
6240351 ATGA
1 ATGA
6240355 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:6240489 original size:25 final size:25
Alignment explanation
Indices: 6240406--6240610 Score: 301
Period size: 25 Copynumber: 8.2 Consensus size: 25
6240396 AGGAAGTGCA
*
6240406 AAAGGGCTTATGCCCTAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
*
6240429 AAAGGGCTTATGCCTCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
6240454 AAAAGGGCTTATGCCCCAGTTATGAT
1 -AAAGGGCTTATGCCCCAGTTATGAT
6240480 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
6240505 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
6240530 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
6240555 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
6240579 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
6240607 AAAG
1 AAAG
6240611 CAGCTATGCT
Statistics
Matches: 168, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
23 20 0.12
24 9 0.05
25 106 0.63
26 25 0.15
27 4 0.02
28 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:6240831 original size:31 final size:31
Alignment explanation
Indices: 6240796--6240859 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
6240786 CGTTTACAGT
*
6240796 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
6240827 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
6240858 AA
1 AA
6240860 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:6246401 original size:3 final size:3
Alignment explanation
Indices: 6246379--6246447 Score: 54
Period size: 3 Copynumber: 22.7 Consensus size: 3
6246369 ACATTATAAG
* *
6246379 ATT ATT -TT ATT A-T ATAT ATT ATT ATTT ATT ATAT ATT ATT TTT CATC
1 ATT ATT ATT ATT ATT AT-T ATT ATT A-TT ATT AT-T ATT ATT ATT -ATT
*
6246426 ATT ATT TTT A-T ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
6246448 ATTTTACTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
2 6 0.11
3 37 0.70
4 10 0.19
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6246401 original size:17 final size:17
Alignment explanation
Indices: 6246379--6246489 Score: 66
Period size: 17 Copynumber: 6.2 Consensus size: 17
6246369 ACATTATAAG
6246379 ATTATTTTATTATATAT
1 ATTATTTTATTATATAT
*
6246396 ATTATTAT-TTATTATAT
1 ATTATTTTATTA-TATAT
*
6246413 ATTATTTT-TCATCATTATT
1 ATTATTTTATTAT-A-TA-T
* *
6246432 TTTATATTATTATTATAT
1 ATTATTTTATTA-TATAT
* *
6246450 TTTACTTGTATTATATAT
1 ATTA-TTTTATTATATAT
6246468 -TTATTAATTATTTATATAT
1 ATTATT--TTA-TTATATAT
6246487 ATT
1 ATT
6246490 GTTCTTACAT
Statistics
Matches: 74, Mismatches: 9, Indels: 19
0.73 0.09 0.19
Matches are distributed among these distances:
16 6 0.08
17 25 0.34
18 14 0.19
19 23 0.31
20 5 0.07
21 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (17 bp):
ATTATTTTATTATATAT
Found at i:6246431 original size:13 final size:11
Alignment explanation
Indices: 6246388--6246450 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
6246378 GATTATTTTA
*
6246388 TTATATATATTA
1 TTATAT-TATTT
6246400 TTAT-TTA-TT
1 TTATATTATTT
*
6246409 ATATATTATTT
1 TTATATTATTT
6246420 TTCATCATTATTT
1 TT-AT-ATTATTT
*
6246433 TTATATTATTA
1 TTATATTATTT
6246444 TTATATT
1 TTATATT
6246451 TTACTTGTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
9 4 0.09
10 5 0.12
11 17 0.40
12 8 0.19
13 9 0.21
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATTATTT
Found at i:6246462 original size:72 final size:71
Alignment explanation
Indices: 6246322--6246486 Score: 178
Period size: 72 Copynumber: 2.3 Consensus size: 71
6246312 TATATATTTT
* * *
6246322 TATATATTATTATTTGTT-T-TATTTTTTTTACCTTACTTTTATATTATACATTATAAGATTATT
1 TATATATTATTATTTATTATATATTTTTTTCACATTACTTTTATATTATACATTATAAGATTATT
*
6246385 TTATTA
66 GTATTA
* * **
6246391 TATATATTATTATTTATTATATATTATTTTTCATCATTATTTTTATATTAT-TATTAT-ATTTTA
1 TATATATTATTATTTATTATATATT-TTTTTCA-CATTACTTTTATATTATACATTATAAGATTA
6246454 CTTGTATTA
64 -TTGTATTA
*
6246463 TATAT-TTATTAATTATTTATATAT
1 TATATATTATTATTTA-TTATATAT
6246487 ATTGTTCTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
69 17 0.21
70 1 0.01
71 17 0.21
72 31 0.38
73 15 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (71 bp):
TATATATTATTATTTATTATATATTTTTTTCACATTACTTTTATATTATACATTATAAGATTATT
GTATTA
Found at i:6250694 original size:14 final size:16
Alignment explanation
Indices: 6250675--6250711 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6250665 CAATATCCTT
6250675 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
6250689 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
6250705 TTT-CATC
1 TTTGCATC
6250712 ACATCGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:6259152 original size:206 final size:206
Alignment explanation
Indices: 6258819--6259295 Score: 882
Period size: 206 Copynumber: 2.3 Consensus size: 206
6258809 CGGAGAGCAG
6258819 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
*
6258884 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACACA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGATACACA
*
6258949 GCAGATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
131 GCAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
6259014 ACAAGGAACAA
196 ACAAGGAACAA
6259025 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* * *
6259090 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGTAGATACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGATACACA
*
6259155 GCAGATCTGACCTTCAAATGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
131 GCAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
6259220 ACAAGGAACAA
196 ACAAGGAACAA
* *
6259231 ATCGAAGACATAGCTGATTTGGCTTACACGTGCTTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
6259296 GAGAACAAAT
Statistics
Matches: 263, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
206 263 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (206 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGATACACA
GCAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
ACAAGGAACAA
Found at i:6261114 original size:13 final size:11
Alignment explanation
Indices: 6261071--6261125 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
6261061 GATTATTTTA
*
6261071 TTATATATATTA
1 TTATAT-TATTT
6261083 TTAT-TTA-TT
1 TTATATTATTT
*
6261092 ATATATTATTT
1 TTATATTATTT
6261103 TTCATCATTATTT
1 TT-AT-ATTATTT
6261116 TTATATTATT
1 TTATATTATT
6261126 ATATTTTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
9 4 0.11
10 5 0.14
11 10 0.28
12 8 0.22
13 9 0.25
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATTATTT
Found at i:6263172 original size:21 final size:21
Alignment explanation
Indices: 6263148--6263188 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6263138 AGGTATATGT
6263148 ATGACCATTAAAATATAATTA
1 ATGACCATTAAAATATAATTA
6263169 ATGACCATTAAAATATAATT
1 ATGACCATTAAAATATAATT
6263189 TAGAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (21 bp):
ATGACCATTAAAATATAATTA
Found at i:6266806 original size:22 final size:21
Alignment explanation
Indices: 6266764--6266824 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
6266754 CCTTTTTGAG
* * *
6266764 TATTTTTATTATTCTCTTCAT
1 TATTTTAATTATTATCATCAT
6266785 TATTTTAATATATTATCATCAT
1 TATTTTAAT-TATTATCATCAT
6266807 TATTATTATCATTATTAT
1 TATT-TTA--ATTATTAT
6266825 TATTAACCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 8 0.24
22 14 0.42
23 3 0.09
24 6 0.18
25 2 0.06
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTAATTATTATCATCAT
Found at i:6266815 original size:15 final size:15
Alignment explanation
Indices: 6266795--6266829 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6266785 TATTTTAATA
6266795 TATTATCATCATTAT
1 TATTATCATCATTAT
*
6266810 TATTATCATTATTAT
1 TATTATCATCATTAT
6266825 TATTA
1 TATTA
6266830 ACCTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATCATCATTAT
Found at i:6266825 original size:12 final size:12
Alignment explanation
Indices: 6266795--6266827 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
6266785 TATTTTAATA
*
6266795 TATTATCATCAT
1 TATTATTATCAT
6266807 TATTATTATCAT
1 TATTATTATCAT
6266819 TATTATTAT
1 TATTATTAT
6266828 TAACCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTATTATCAT
Found at i:6266836 original size:15 final size:15
Alignment explanation
Indices: 6266795--6266841 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6266785 TATTTTAATA
* *
6266795 TATTATCATCATTAT
1 TATTAACATTATTAT
*
6266810 TATTATCATTATTAT
1 TATTAACATTATTAT
*
6266825 TATTAACCTTATTAT
1 TATTAACATTATTAT
6266840 TA
1 TA
6266842 CTAGTAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTAACATTATTAT
Found at i:6277777 original size:82 final size:81
Alignment explanation
Indices: 6277661--6277816 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
6277651 AAATTGTACA
* * * *
6277661 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
6277725 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
6277742 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
6277807 TGCGAGTTGA
65 TGCGAATTGA
6277817 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6277784 original size:55 final size:52
Alignment explanation
Indices: 6277660--6277813 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
6277650 TAAATTGTAC
* *
6277660 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
6277713 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
6277768 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
6277814 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:6277818 original size:27 final size:27
Alignment explanation
Indices: 6277661--6277816 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
6277651 AAATTGTACA
*
6277661 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
6277688 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
6277715 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
6277742 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
6277770 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
6277797 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
6277817 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:6277827 original size:27 final size:27
Alignment explanation
Indices: 6277653--6277837 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
6277643 GCGGGATTAA
*
6277653 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
6277680 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
6277707 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
6277734 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
6277762 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
6277789 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
6277816 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
6277838 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:6277828 original size:82 final size:81
Alignment explanation
Indices: 6277653--6277837 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
6277643 GCGGGATTAA
* * * *
6277653 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
6277718 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
6277734 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
6277798 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
6277816 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
6277838 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:6282717 original size:46 final size:46
Alignment explanation
Indices: 6282664--6282910 Score: 170
Period size: 46 Copynumber: 5.7 Consensus size: 46
6282654 ATTATACAGG
6282664 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * * * *
6282710 TCTTATCTCCCTGAGATTACAGCGGAGCGGATCAAAG-ATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAT-TTCAGA
* * * **
6282754 TCCTATCTCCTTGAGATTACAATGG---AG--C---GAATTAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCA-GA
* * * * *
6282793 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-CA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGACCAAAGAATTTCAGA
6282834 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
* * *
6282880 TCTTATCTCCCTGAGGTTACAATGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGA
6282911 TTGAAGCCAG
Statistics
Matches: 153, Mismatches: 29, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
36 1 0.01
37 3 0.02
38 1 0.01
39 20 0.13
40 1 0.01
41 28 0.18
42 4 0.03
43 1 0.01
44 25 0.16
45 3 0.02
46 66 0.43
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
Found at i:6282944 original size:44 final size:44
Alignment explanation
Indices: 6282877--6282960 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
6282867 AAAGAATTTC
* * *
6282877 AGATCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAACGGAGCAGATCGAAGCCAG
*
6282921 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
1 AGATCTTATCTCCCTGAGATTACAACGGAGCAGATCGAAG
6282961 ACACTATCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAACGGAGCAGATCGAAGCCAG
Found at i:6282987 original size:43 final size:44
Alignment explanation
Indices: 6282877--6282993 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
6282867 AAAGAATTTC
* * * * *
6282877 AGATCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAG
* *
6282921 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACAG
**
6282964 CTATCCTATCTCCCTGAAGTTACAGTGGAG
1 AGATCCTATCTCCCTGAAGTTACAGTGGAG
6282994 TGGATTAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
43 24 0.39
44 38 0.61
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACAG
Found at i:6283155 original size:218 final size:214
Alignment explanation
Indices: 6282714--6283114 Score: 452
Period size: 218 Copynumber: 1.9 Consensus size: 214
6282704 TTCAGATCTT
* * * *
6282714 ATCTCCCTGAGATTACAGCGGAGCGGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATTACAATGG
* *
6282779 AGCGAATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCC
66 AGCGAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCTTATCTCC
*** * *
6282844 CTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAATGGAGCA
131 CTGAGATTACAGTGGAACAGACCAAAGAACAACAGATCTTATCCCCCTGAAGTTACAATGGAGCA
* **
6282909 GATTGAAGCCAGAGATCTT
196 GATTGAAGACAGAGATCCG
* *
6282928 ATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGTTACAGTG
1 ATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-TTACAATG
* * * * *
6282991 GAGTGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCAGGTCTT
65 GAG-CG----AAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCTT
* * * ***
6283056 ATTTCCCTGAAGA-TGCAGTGGAATAGATTGAA-AACAAC-GAATCTTATCCCCCTGAAGTT
125 ATCTCCCTG-AGATTACAGTGGAACAGACCAAAGAACAACAG-ATCTTATCCCCCTGAAGTT
6283115 GTAGTGGGGG
Statistics
Matches: 155, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
212 1 0.01
213 24 0.15
214 35 0.23
216 1 0.01
217 20 0.13
218 71 0.46
219 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (214 bp):
ATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATTACAATGG
AGCGAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCTTATCTCC
CTGAGATTACAGTGGAACAGACCAAAGAACAACAGATCTTATCCCCCTGAAGTTACAATGGAGCA
GATTGAAGACAGAGATCCG
Done.