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 346 of 349
Found at i:114055024 original size:23 final size:23
Alignment explanation
Indices: 114054998--114055072 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
114054988 ATTTAAATAT
114054998 TTTTGTCCAATAAATATTTTAAA
1 TTTTGTCCAATAAATATTTTAAA
** *
114055021 TTTT-TTTACATAAA-ATTTAAATA
1 TTTTGTCCA-ATAAATATTTTAA-A
114055044 TTTTTGTCCAATAAATATTTTAAAA
1 -TTTTGTCCAATAAATATTTT-AAA
114055069 TTTT
1 TTTT
114055073 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
22 8 0.20
23 10 0.25
24 13 0.32
25 7 0.17
26 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.52
Consensus pattern (23 bp):
TTTTGTCCAATAAATATTTTAAA
Found at i:114055051 original size:47 final size:47
Alignment explanation
Indices: 114054982--114055080 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
114054972 TAGATTCGAG
*
114054982 CATAAAATTTAAATATTTTTGTCCAATAAATATTTTAAATTTTTTTA
1 CATAAAATTTAAATATTTTTGTCCAATAAATATTTTAAAATTTTTTA
114055029 CATAAAATTTAAATATTTTTGTCCAATAAATATTTTAAAATTTTTTA
1 CATAAAATTTAAATATTTTTGTCCAATAAATATTTTAAAATTTTTTA
*
114055076 AATAA
1 CATAA
114055081 TTATATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.48
Consensus pattern (47 bp):
CATAAAATTTAAATATTTTTGTCCAATAAATATTTTAAAATTTTTTA
Found at i:114055079 original size:23 final size:23
Alignment explanation
Indices: 114055006--114055080 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
114054996 ATTTTTGTCC
*
114055006 AATAAATATTTTAAATTTTTTTA
1 AATAAATATTTTAAAATTTTTTA
* *
114055029 CATAAA-A-TTTAAATATTTTTGTCC
1 AATAAATATTTTAAA-ATTTTT-T-A
114055053 AATAAATATTTTAAAATTTTTTA
1 AATAAATATTTTAAAATTTTTTA
114055076 AATAA
1 AATAA
114055081 TTATATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
21 6 0.14
22 6 0.14
23 11 0.26
24 6 0.14
25 7 0.17
26 6 0.14
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (23 bp):
AATAAATATTTTAAAATTTTTTA
Found at i:114060970 original size:17 final size:19
Alignment explanation
Indices: 114060932--114060970 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
114060922 TTTATACATA
*
114060932 TTAAATTACACTTATCATT
1 TTAAATTACACTTATCAAT
114060951 TTAAATTA-AC-TATCAAT
1 TTAAATTACACTTATCAAT
114060968 TTA
1 TTA
114060971 TTATTATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATTACACTTATCAAT
Found at i:114067325 original size:25 final size:25
Alignment explanation
Indices: 114067278--114067325 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
114067268 TATTTGATAA
* * *
114067278 AGAATAATATAATATTAAATGAAAT
1 AGAATAAAATAAAAATAAATGAAAT
*
114067303 AGAATAAAATAAAAATAATTGAA
1 AGAATAAAATAAAAATAAATGAA
114067326 TTTATTATGT
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:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (25 bp):
AGAATAAAATAAAAATAAATGAAAT
Found at i:114068330 original size:32 final size:31
Alignment explanation
Indices: 114068282--114068363 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
114068272 ATAAATCTAA
*
114068282 AAATT-ATATATG-AACTTTTATT-CAATTTAC
1 AAATTGATACATGAAACTTTTATTGCAA-TT-C
*
114068312 AAATTGATACATGAAACTTTGATTGCAATTC
1 AAATTGATACATGAAACTTTTATTGCAATTC
114068343 AAA-TGTATACATGAAA-TTTTA
1 AAATTG-ATACATGAAACTTTTA
114068364 ATTTTGATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
30 11 0.24
31 20 0.44
32 11 0.24
33 3 0.07
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (31 bp):
AAATTGATACATGAAACTTTTATTGCAATTC
Found at i:114069663 original size:21 final size:22
Alignment explanation
Indices: 114069634--114069674 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
114069624 ATGGGTTTTC
114069634 AGTTCAGATTTATTT-GATTTA
1 AGTTCAGATTTATTTCGATTTA
*
114069655 AGTTTAGATTTATTTCGATT
1 AGTTCAGATTTATTTCGATT
114069675 ATCCCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.54
Consensus pattern (22 bp):
AGTTCAGATTTATTTCGATTTA
Found at i:114070859 original size:29 final size:31
Alignment explanation
Indices: 114070802--114070859 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
114070792 TTAAGTATAA
**
114070802 ACTACAATTCAAATTTTAAATATGTAATTAT
1 ACTACAATTCAAATTTTAAATATCAAATTAT
*
114070833 ACTA-AATT-AAATTTTATATATCAAATT
1 ACTACAATTCAAATTTTAAATATCAAATT
114070860 GCATATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 4 0.17
31 4 0.17
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (31 bp):
ACTACAATTCAAATTTTAAATATCAAATTAT
Found at i:114073261 original size:29 final size:30
Alignment explanation
Indices: 114073200--114073262 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
114073190 TGTATAAGAG
* * *
114073200 AATTGGATAAAATTAAAATTTCATGTATCA
1 AATTGCATAAAATTAAAATTTCATATATAA
114073230 AATTGCATAAAATTAAAA-TTCATATATAA
1 AATTGCATAAAATTAAAATTTCATATATAA
114073259 AATT
1 AATT
114073263 ACACATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (30 bp):
AATTGCATAAAATTAAAATTTCATATATAA
Found at i:114074136 original size:78 final size:78
Alignment explanation
Indices: 114074002--114074159 Score: 255
Period size: 78 Copynumber: 2.0 Consensus size: 78
114073992 CTTTGGGAAT
* *
114074002 CAATACTAAACAAAACCTAAATTAAGCTCTAAGTTTGAACCTAGCTTCTTATAGCTTGATA-TTG
1 CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGA-ACTCG
*
114074066 GTTTTACTCAATTA
65 ATTTTACTCAATTA
* *
114074080 CAATGCTAAACAAAACCTAAATTAAACTCTAAGTTTGGACCTAGCTTCTTATAGCTTGAACTCGA
1 CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGAACTCGA
114074145 TTTTACTCAATTA
66 TTTTACTCAATTA
114074158 CA
1 CA
114074160 CTTAAAAAGG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
77 1 0.01
78 73 0.99
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (78 bp):
CAATACTAAACAAAACCTAAATTAAACTCTAAGTTTGAACCTAGCTTCTTATAGCTTGAACTCGA
TTTTACTCAATTA
Found at i:114077945 original size:2 final size:2
Alignment explanation
Indices: 114077938--114077963 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114077928 AAAGAAGTTC
114077938 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
114077964 CCATTTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114090536 original size:18 final size:16
Alignment explanation
Indices: 114090499--114090541 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
114090489 TTTTTAAGTT
114090499 TGTAATGTTTTATATAA
1 TGTAAT-TTTTATATAA
*
114090516 TGTTATTTTTATATATGA
1 TGTAATTTTTATATA--A
114090534 TGTAATTT
1 TGTAATTT
114090542 ATAACTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (16 bp):
TGTAATTTTTATATAA
Found at i:114091552 original size:24 final size:25
Alignment explanation
Indices: 114091518--114091568 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
114091508 TTTTTAAAGT
*
114091518 CTAATATTAACATTTAATACCTGAA
1 CTAATATTAACATTTAATACCTAAA
*
114091543 CTAATA-TAACATTTGATACCTAAA
1 CTAATATTAACATTTAATACCTAAA
114091567 CT
1 CT
114091569 TGACATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.35
Consensus pattern (25 bp):
CTAATATTAACATTTAATACCTAAA
Found at i:114100071 original size:26 final size:26
Alignment explanation
Indices: 114100038--114100095 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
114100028 AATTTTTATT
*
114100038 TTTA-TTTTTAAAATTTTTAAA-ATA
1 TTTATTTTTTAAAATTATTAAACATA
*
114100062 TTATATTTTTTAATATTATTAAACATA
1 TT-TATTTTTTAAAATTATTAAACATA
114100089 TTTATTT
1 TTTATTT
114100096 AATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.07
25 2 0.07
26 20 0.69
27 5 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTATTTTTTAAAATTATTAAACATA
Found at i:114100144 original size:22 final size:22
Alignment explanation
Indices: 114100119--114100162 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
114100109 TAGTCTTATA
114100119 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
114100141 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
114100163 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:114100365 original size:23 final size:24
Alignment explanation
Indices: 114100339--114100383 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
114100329 GTAATTTAGT
* *
114100339 ATTTTGTACTTTTA-TTTTCAAGA
1 ATTTAGTACCTTTACTTTTCAAGA
*
114100362 ATTTAGTCCCTTTACTTTTCAA
1 ATTTAGTACCTTTACTTTTCAA
114100384 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (24 bp):
ATTTAGTACCTTTACTTTTCAAGA
Found at i:114103728 original size:13 final size:14
Alignment explanation
Indices: 114103710--114103739 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
114103700 TTAATATTAT
114103710 AATTATAATAAT-A
1 AATTATAATAATGA
114103723 AATTATAATAATGA
1 AATTATAATAATGA
114103737 AAT
1 AAT
114103740 AAAAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AATTATAATAATGA
Found at i:114105531 original size:4 final size:4
Alignment explanation
Indices: 114105522--114105547 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
114105512 TATTTCACTT
114105522 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
114105548 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:114108133 original size:29 final size:29
Alignment explanation
Indices: 114108099--114108154 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
114108089 ATAGAGACTT
* *
114108099 GATCAAATTAGTCCCTCTATTATTAAATG
1 GATCAAATTAATCCCTATATTATTAAATG
* *
114108128 GATCAATTTAATCTCTATATTATTAAA
1 GATCAAATTAATCCCTATATTATTAAA
114108155 AAGAATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (29 bp):
GATCAAATTAATCCCTATATTATTAAATG
Found at i:114112006 original size:19 final size:20
Alignment explanation
Indices: 114111970--114112012 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
114111960 TTATTTTATT
114111970 TAAATTTAATTATAAAATA-
1 TAAATTTAATTATAAAATAG
* * *
114111989 TAAATTTATTTTTTAAATAG
1 TAAATTTAATTATAAAATAG
114112009 TAAA
1 TAAA
114112013 ACGGGCCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TAAATTTAATTATAAAATAG
Found at i:114131440 original size:69 final size:69
Alignment explanation
Indices: 114131359--114131494 Score: 236
Period size: 69 Copynumber: 2.0 Consensus size: 69
114131349 TTTCCACAAT
*
114131359 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACTAAATT
1 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
114131424 TGAC
66 TGAC
* * *
114131428 AAGAAATCATACAATTCCATAAAAATGAGATACATAAAATAGTAGAAATCAACAATCACCAAATT
1 AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
114131493 TG
66 TG
114131495 GCAACAATAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (69 bp):
AAGAAAGCATACAATTCCATAAAAAAGAGATACATAAAAGAGTAGAAATCAACAATCACCAAATT
TGAC
Found at i:114141172 original size:16 final size:16
Alignment explanation
Indices: 114141148--114141181 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
114141138 AGCCTTCAGC
*
114141148 TATACATACATACACA
1 TATACATACAAACACA
*
114141164 TATATATACAAACACA
1 TATACATACAAACACA
114141180 TA
1 TA
114141182 CATGGAGATG
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:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (16 bp):
TATACATACAAACACA
Found at i:114146105 original size:21 final size:22
Alignment explanation
Indices: 114146076--114146122 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
114146066 CAGAAGGAGT
*
114146076 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
114146098 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
114146119 GAGT
1 GAGT
114146123 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:114149352 original size:18 final size:18
Alignment explanation
Indices: 114149325--114149391 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
114149315 AATATTTATT
*
114149325 TATAATAATTAATAATTG
1 TATAAGAATTAATAATTG
114149343 TATAAGAATTAA-AATT-
1 TATAAGAATTAATAATTG
* *
114149359 AAT-AG-TTTAATAATTG
1 TATAAGAATTAATAATTG
* *
114149375 TATAATAATTATTAATT
1 TATAAGAATTAATAATT
114149392 ATTATAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 4 0.11
15 6 0.16
16 4 0.11
17 5 0.13
18 19 0.50
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (18 bp):
TATAAGAATTAATAATTG
Found at i:114149389 original size:21 final size:20
Alignment explanation
Indices: 114149365--114149407 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
114149355 AATTAATAGT
* *
114149365 TTAATAATTGTATAATAATTA
1 TTAATAATTATA-AATAAATA
*
114149386 TTAATTATTATAAATAAATA
1 TTAATAATTATAAATAAATA
114149406 TT
1 TT
114149408 TAGTTTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAATAATTATAAATAAATA
Found at i:114150408 original size:23 final size:23
Alignment explanation
Indices: 114150381--114150429 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
114150371 TATAGACATC
*
114150381 AATGCATAGCAAATACAGATTCA
1 AATGCATAACAAATACAGATTCA
* *
114150404 AATGCATAACAGATATAGATTCA
1 AATGCATAACAAATACAGATTCA
114150427 AAT
1 AAT
114150430 CCTACCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.24
Consensus pattern (23 bp):
AATGCATAACAAATACAGATTCA
Found at i:114153208 original size:39 final size:39
Alignment explanation
Indices: 114153162--114153289 Score: 220
Period size: 39 Copynumber: 3.3 Consensus size: 39
114153152 GCTTTGATGA
*
114153162 GCTTCAGTTAGCCTCCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCAGGCTTCTGTTTAGCACTTATGT
*
114153201 GCTTCAGTTAGCCTCCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCAGGCTTCTGTTTAGCACTTATGT
* *
114153240 GCTTCAGTTAGCCTTCAGGCTTCTGTTTAACACTTATGT
1 GCTTCAGTTAGCCTCCAGGCTTCTGTTTAGCACTTATGT
114153279 GCTTCAGTTAG
1 GCTTCAGTTAG
114153290 ATTTCGGGCT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCAGGCTTCTGTTTAGCACTTATGT
Found at i:114155416 original size:22 final size:21
Alignment explanation
Indices: 114155387--114155433 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
114155377 AAATTTAATC
*
114155387 TTTATATTTTTATTTTAGGAA
1 TTTATATTTTTATTTTACGAA
*
114155408 TTTAGTATTTTTATTTTTCGAA
1 TTTA-TATTTTTATTTTACGAA
114155430 TTTA
1 TTTA
114155434 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTATATTTTTATTTTACGAA
Found at i:114159469 original size:18 final size:18
Alignment explanation
Indices: 114159446--114159728 Score: 144
Period size: 18 Copynumber: 15.3 Consensus size: 18
114159436 GAATAATTAT
114159446 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
114159464 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
114159482 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
**
114159500 TTATTCAGTATCGATCAATTGATTGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
114159526 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
114159544 TTATTCAGTAA-AATCAA
1 TTATTCAGTAACAGTCAG
* * *
114159561 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
114159580 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
114159597 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
114159616 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
114159634 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
114159652 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
114159670 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
114159688 TTA-TCTGGTAACAGTCAA
1 TTATTC-AGTAACAGTCAG
* *
114159706 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
114159724 TTATT
1 TTATT
114159729 TTATACCTTT
Statistics
Matches: 198, Mismatches: 49, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
17 19 0.10
18 145 0.73
19 19 0.10
21 2 0.01
22 1 0.01
23 2 0.01
26 10 0.05
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:114159488 original size:36 final size:36
Alignment explanation
Indices: 114159446--114159728 Score: 196
Period size: 36 Copynumber: 7.6 Consensus size: 36
114159436 GAATAATTAT
* *
114159446 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
114159482 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
114159518 TTGATTGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
114159561 ATATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* **
114159597 TTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
114159634 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
114159671 -TATCCAGTAACAGTCAATTA-TCTGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTC-AGTAACAATCAA
*
114159706 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
114159729 TTATACCTTT
Statistics
Matches: 188, Mismatches: 43, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
35 11 0.06
36 130 0.69
37 20 0.11
42 2 0.01
43 7 0.04
44 18 0.10
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:114159661 original size:72 final size:71
Alignment explanation
Indices: 114159527--114159728 Score: 228
Period size: 72 Copynumber: 2.8 Consensus size: 71
114159517 ATTGATTGGT
* * * *
114159527 TATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAGTAACTATTAAGTTATTCAGTAGC
1 TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAA-TATTCAGTTATTCAGTAAC
*
114159592 AGTC-AT
65 AGTCTAA
* * * *
114159598 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
114159663 CAGTCTAA
64 CAGTCTAA
* * * *
114159671 TATCCAGTAACAGTCAATTA-TCTGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTC-AGTAA-AATCAATTATTCAGTAATATTCAGTTATT
114159729 TTATACCTTT
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
71 3 0.03
72 89 0.82
73 17 0.16
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:114159844 original size:6 final size:6
Alignment explanation
Indices: 114159833--114159863 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
114159823 TCGAAGCCGG
*
114159833 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
114159864 CGGTACACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:114160090 original size:45 final size:45
Alignment explanation
Indices: 114159902--114160079 Score: 284
Period size: 45 Copynumber: 4.0 Consensus size: 45
114159892 ATCCGGAATA
* * * * *
114159902 GTAATAGTAACAGTATTCAACACACAAAGTGCTGAATCAGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
114159947 GTAACAGTAACAATATTCGACACACAAAGTGCAGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
114159992 GTAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
114160037 GTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAA
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAA
114160080 TAGTAGCAGT
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 124 1.00
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
Found at i:114160514 original size:10 final size:10
Alignment explanation
Indices: 114160500--114160534 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
114160490 AATTAATCAT
114160500 AATTCCATTC
1 AATTCCATTC
*
114160510 CATTCCATTC
1 AATTCCATTC
*
114160520 AATTCAATTC
1 AATTCCATTC
114160530 AATTC
1 AATTC
114160535 AAATTCACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTCCATTC
Found at i:114173759 original size:21 final size:21
Alignment explanation
Indices: 114173716--114173758 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
114173706 TTTTTACGGA
* *
114173716 TTAATATATAATTTTATTATT
1 TTAAAATATAATTTTAATATT
114173737 TTAAAATA-AATTTTAATATT
1 TTAAAATATAATTTTAATATT
114173757 TT
1 TT
114173759 TTTCATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAAATATAATTTTAATATT
Found at i:114176427 original size:25 final size:25
Alignment explanation
Indices: 114176399--114176485 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
114176389 ATTACATTGG
*
114176399 TTTTGTCCAGAGTTTCGTGATTTTA
1 TTTTGTCCAAAGTTTCGTGATTTTA
* *
114176424 TTTTGTCCAAAGTTTTGTTATTTTA
1 TTTTGTCCAAAGTTTCGTGATTTTA
* **
114176449 TTTTGTACACATTTTTCGTGATTTTTA
1 TTTTGTCCA-AAGTTTCGTGA-TTTTA
*
114176476 TTTTTTCCAA
1 TTTTGTCCAA
114176486 TTTGTTTTCT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 30 0.60
26 8 0.16
27 12 0.24
ACGTcount: A:0.18, C:0.11, G:0.13, T:0.57
Consensus pattern (25 bp):
TTTTGTCCAAAGTTTCGTGATTTTA
Found at i:114177606 original size:20 final size:20
Alignment explanation
Indices: 114177581--114177620 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
114177571 TTTAATTTAA
114177581 TATATGTATTT-TATTAAAAT
1 TATATGT-TTTGTATTAAAAT
114177601 TATATGTTTTGGTATTAAAA
1 TATATGTTTT-GTATTAAAA
114177621 GGTATCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 7 0.39
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (20 bp):
TATATGTTTTGTATTAAAAT
Found at i:114180316 original size:6 final size:6
Alignment explanation
Indices: 114180305--114180330 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
114180295 AACCCATCAA
114180305 AGTTTT AGTTTT AGTTTT AGTTTT AG
1 AGTTTT AGTTTT AGTTTT AGTTTT AG
114180331 AATACTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (6 bp):
AGTTTT
Found at i:114183429 original size:4 final size:4
Alignment explanation
Indices: 114183420--114183449 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
114183410 CTTCAACATG
114183420 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
114183450 CTACTACAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:114187226 original size:15 final size:16
Alignment explanation
Indices: 114187196--114187229 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
114187186 AAATTTATAA
114187196 AAATATTCAGAAAAAT
1 AAATATTCAGAAAAAT
*
114187212 AAATATT-ATAAAAAT
1 AAATATTCAGAAAAAT
114187227 AAA
1 AAA
114187230 AATAACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATATTCAGAAAAAT
Found at i:114188545 original size:35 final size:35
Alignment explanation
Indices: 114188498--114188576 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 35
114188488 GGCTGAACAA
*
114188498 AAAAACCGACCAG-AATATTATAAAATGCAAGTTC
1 AAAAACCAACCAGCAATATTATAAAATGCAAGTTC
** * *
114188532 ATAAAACCAACCAGTCTTTTTTATGAAATGCAAGTTC
1 A-AAAACCAACCAG-CAATATTATAAAATGCAAGTTC
114188569 AAAAACCA
1 AAAAACCA
114188577 CGATTACCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 1 0.03
35 11 0.30
36 7 0.19
37 18 0.49
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (35 bp):
AAAAACCAACCAGCAATATTATAAAATGCAAGTTC
Found at i:114192285 original size:16 final size:16
Alignment explanation
Indices: 114192264--114192297 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
114192254 TAACAAAATT
*
114192264 AATTTTTTTATTAAAA
1 AATTTTATTATTAAAA
*
114192280 AATTTTATTGTTAAAA
1 AATTTTATTATTAAAA
114192296 AA
1 AA
114192298 ATTGGCTTAG
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTTATTATTAAAA
Found at i:114193684 original size:3 final size:3
Alignment explanation
Indices: 114193676--114193700 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
114193666 GAAGTAAAGA
114193676 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
114193701 CTTATGGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:114196731 original size:14 final size:14
Alignment explanation
Indices: 114196712--114196738 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114196702 GGTAAGAAAT
114196712 ATGCATGTGTGTGC
1 ATGCATGTGTGTGC
114196726 ATGCATGTGTGTG
1 ATGCATGTGTGTG
114196739 TGTGAGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.37, T:0.37
Consensus pattern (14 bp):
ATGCATGTGTGTGC
Found at i:114205186 original size:14 final size:14
Alignment explanation
Indices: 114205167--114205199 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
114205157 TTAAGACCTA
*
114205167 ATATATACATATGT
1 ATATATACATATAT
114205181 ATATATACATATAT
1 ATATATACATATAT
114205195 ATATA
1 ATATA
114205200 GTTTTGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (14 bp):
ATATATACATATAT
Found at i:114206447 original size:19 final size:19
Alignment explanation
Indices: 114206423--114206461 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
114206413 AAGAATTGGA
114206423 ATTAATTAGTATTATACGG
1 ATTAATTAGTATTATACGG
*
114206442 ATTAATTAGTATTATTCGG
1 ATTAATTAGTATTATACGG
114206461 A
1 A
114206462 AGATCTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
ATTAATTAGTATTATACGG
Found at i:114211135 original size:31 final size:31
Alignment explanation
Indices: 114211100--114211160 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
114211090 ATTAATATAA
* *
114211100 ATTCAAAATAGATAAAATAAATCACCTCTAC
1 ATTCAAAACAAATAAAATAAATCACCTCTAC
114211131 ATTCAAAACAAATAAAATAAATCACCTCTA
1 ATTCAAAACAAATAAAATAAATCACCTCTA
114211161 GACAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.25
Consensus pattern (31 bp):
ATTCAAAACAAATAAAATAAATCACCTCTAC
Found at i:114211481 original size:22 final size:23
Alignment explanation
Indices: 114211456--114211500 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
114211446 ATACTCACAC
114211456 AACCA-TATCAACTTCAG-AAGCA
1 AACCATTATCAAC-TCAGTAAGCA
114211478 AACCATTATCAACTCAGTAAGCA
1 AACCATTATCAACTCAGTAAGCA
114211501 TACAGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.20
Consensus pattern (23 bp):
AACCATTATCAACTCAGTAAGCA
Found at i:114212161 original size:31 final size:30
Alignment explanation
Indices: 114212118--114212197 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
114212108 CATGTGTACT
*
114212118 TTAATATACTAAATTAAACAGTAAAATTAAA
1 TTAA-ATACTAAATTAAACAGTAAAATCAAA
**
114212149 CTTAAATACTAAATTAAACTTTAAAATCAAA
1 -TTAAATACTAAATTAAACAGTAAAATCAAA
114212180 TTAAAATACTAAATTAAA
1 TT-AAATACTAAATTAAA
114212198 AAAAATCTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.05
31 38 0.86
32 4 0.09
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (30 bp):
TTAAATACTAAATTAAACAGTAAAATCAAA
Found at i:114212988 original size:11 final size:11
Alignment explanation
Indices: 114212974--114213029 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
114212964 TCCGAATAAT
*
114212974 AATAATAATAA
1 AATAATAACAA
114212985 AATAATAACAA
1 AATAATAACAA
*
114212996 TATAATAACAA
1 AATAATAACAA
* *
114213007 CATGATAACAA
1 AATAATAACAA
*
114213018 AATAACAACAA
1 AATAATAACAA
114213029 A
1 A
114213030 CAACAAGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.68, C:0.11, G:0.02, T:0.20
Consensus pattern (11 bp):
AATAATAACAA
Found at i:114220344 original size:12 final size:12
Alignment explanation
Indices: 114220327--114220351 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114220317 AAACCCTCCT
114220327 ACTTTTTGAGCG
1 ACTTTTTGAGCG
114220339 ACTTTTTGAGCG
1 ACTTTTTGAGCG
114220351 A
1 A
114220352 GCCAAATGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ACTTTTTGAGCG
Found at i:114230659 original size:18 final size:18
Alignment explanation
Indices: 114230636--114230673 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
114230626 TGCCACGGCG
*
114230636 AGGTGAGCGAGATCTAAT
1 AGGTGAACGAGATCTAAT
114230654 AGGTGAACGAGATCTAAT
1 AGGTGAACGAGATCTAAT
114230672 AG
1 AG
114230674 AACATAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.21
Consensus pattern (18 bp):
AGGTGAACGAGATCTAAT
Found at i:114242505 original size:16 final size:16
Alignment explanation
Indices: 114242484--114242516 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
114242474 AAAATTTGTG
114242484 AGTACAACAATAATTC
1 AGTACAACAATAATTC
114242500 AGTACAACAATAATTC
1 AGTACAACAATAATTC
114242516 A
1 A
114242517 ATCTAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (16 bp):
AGTACAACAATAATTC
Found at i:114244222 original size:16 final size:16
Alignment explanation
Indices: 114244201--114244237 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
114244191 ATATAGGACA
114244201 TGGTTCAAACTACGAT
1 TGGTTCAAACTACGAT
114244217 TGGTTCAAACTACGAT
1 TGGTTCAAACTACGAT
114244233 TGGTT
1 TGGTT
114244238 GAATGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (16 bp):
TGGTTCAAACTACGAT
Found at i:114262252 original size:24 final size:25
Alignment explanation
Indices: 114262225--114262282 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
114262215 CACTAAATCT
**
114262225 TTAAAAAAAAG-CCTATTTAATTAA
1 TTAAAAAAAAGACCTATTTAACCAA
114262249 TT-AAAAAAAGACCTATTTAACCAA
1 TTAAAAAAAAGACCTATTTAACCAA
114262273 TTAAAAAAAA
1 TTAAAAAAAA
114262283 TCGACATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 8 0.27
24 15 0.50
25 7 0.23
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (25 bp):
TTAAAAAAAAGACCTATTTAACCAA
Found at i:114278029 original size:19 final size:19
Alignment explanation
Indices: 114277999--114278070 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
114277989 AAAAAAATAA
114277999 ATTTTGGAATTTTTAAAATT
1 ATTTT-GAATTTTTAAAATT
*
114278019 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
114278038 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTT-AAAATT
*
114278058 ACTTTGAATTTTT
1 ATTTTGAATTTTT
114278071 TTTTTTGTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
19 25 0.52
20 23 0.48
ACGTcount: A:0.35, C:0.01, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:114280391 original size:31 final size:33
Alignment explanation
Indices: 114280356--114280419 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
114280346 TTTAAAGTTG
114280356 AGTGACC-AAAATGTAAATTTA-CC-AATAATTT
1 AGTGACCTAAAATGT-AATTTACCCAAATAATTT
*
114280387 AGTGACCTTAAATGTAATTTACCCAAATAATTT
1 AGTGACCTAAAATGTAATTTACCCAAATAATTT
114280420 TATATAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 13 0.45
32 8 0.28
33 8 0.28
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.34
Consensus pattern (33 bp):
AGTGACCTAAAATGTAATTTACCCAAATAATTT
Found at i:114289335 original size:221 final size:220
Alignment explanation
Indices: 114288924--114289336 Score: 481
Period size: 221 Copynumber: 1.9 Consensus size: 220
114288914 AATTCAAAAC
* * *
114288924 AACTATATGATGTTTAACTTTTCAAATAATACGGCAAATTGAGTCTTAACTCGATTGGCATGAGT
1 AACTATATGATGTTTAACTTTTCAAATAATACGACAAATCGAGTCTTAACTCGATTGACATGAGT
* ** * * *
114288989 ATTATTGTTAATGTAGGAGGACATGGGTTTGAGTACGTCGAAGCGCATTATCCTCCTATCTATGG
66 AATATTACTAATGTAGGAGGACATGGGTTTAAGTACGTCAAAACGCATTATCCTCCTATCTATGG
* * * * * * * *
114289054 ATTGGGGAGGAACAATGAGTAGTTCTAGATATTGTATCATTAAAAGCATATATGATCAAAACATT
131 ATTAGGGAAGAACAATAAGTAGTTCTAGATATCGTATCATAAAAAACAGATATAATCAAAACATT
114289119 GTTAAAAAAATTCAAATAGTTTGAT
196 GTTAAAAAAATTCAAATAGTTTGAT
* * * * * * *
114289144 AACTATTTGATGTTTAACTTTTCAAATAGTATGAC-GATCGAGTACTTTAGCTCGATTGATATGT
1 AACTATATGATGTTTAACTTTTCAAATAATACGACAAATCGAGT-C-TTAACTCGATTGACATGA
* * * * * *
114289208 GTAATATTACTAATGTAGGAGGATATGGGTTTAAGTGCG-CTAAAACGCTTTCTTCTCCTATTTA
64 GTAATATTACTAATGTAGGAGGACATGGGTTTAAGTACGTC-AAAACGCATTATCCTCCTATCTA
* *
114289272 TGGGTTAGGGAAGAACTATAAGTAGTTCTAGATATCG-AGTCATAAAAAACAGATATAATCAAAA
128 TGGATTAGGGAAGAACAATAAGTAGTTCTAGATATCGTA-TCATAAAAAACAGATATAATCAAAA
114289336 C
192 C
114289337 TTATAACAAA
Statistics
Matches: 157, Mismatches: 32, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
219 6 0.04
220 34 0.22
221 117 0.75
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (220 bp):
AACTATATGATGTTTAACTTTTCAAATAATACGACAAATCGAGTCTTAACTCGATTGACATGAGT
AATATTACTAATGTAGGAGGACATGGGTTTAAGTACGTCAAAACGCATTATCCTCCTATCTATGG
ATTAGGGAAGAACAATAAGTAGTTCTAGATATCGTATCATAAAAAACAGATATAATCAAAACATT
GTTAAAAAAATTCAAATAGTTTGAT
Found at i:114293192 original size:13 final size:14
Alignment explanation
Indices: 114293170--114293199 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
114293160 TGAGTTTAAA
114293170 TTCAAGGTTTAGGG
1 TTCAAGGTTTAGGG
114293184 TTCAA-GTTTAGGG
1 TTCAAGGTTTAGGG
114293197 TTC
1 TTC
114293200 GAGATTCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (14 bp):
TTCAAGGTTTAGGG
Found at i:114296161 original size:27 final size:27
Alignment explanation
Indices: 114296116--114296167 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
114296106 TATTAGTTAC
*
114296116 GCATATATTCTTTACATTATCTTATGT
1 GCATATATTCTTTACATTATATTATGT
*
114296143 GCATATATT-TTTCATATTATATTAT
1 GCATATATTCTTT-ACATTATATTAT
114296168 ATACCTATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.54
Consensus pattern (27 bp):
GCATATATTCTTTACATTATATTATGT
Found at i:114306156 original size:21 final size:20
Alignment explanation
Indices: 114306119--114306157 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
114306109 AAAGAAGATT
*
114306119 TATATTTTTCAATAATTTTA
1 TATATTTTTCAAGAATTTTA
*
114306139 TATATTTTTAGAAGAATTT
1 TATATTTTT-CAAGAATTT
114306158 AAATAGCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATTTTTCAAGAATTTTA
Found at i:114307541 original size:24 final size:24
Alignment explanation
Indices: 114307514--114307559 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
114307504 TTTGTGTAAA
* *
114307514 TTTTGCATTAGTTTTTTTGTTTTT
1 TTTTGCATTAGATTTTATGTTTTT
* *
114307538 TTTTTCTTTAGATTTTATGTTT
1 TTTTGCATTAGATTTTATGTTT
114307560 AACAATACTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTGCATTAGATTTTATGTTTTT
Found at i:114307850 original size:196 final size:196
Alignment explanation
Indices: 114307182--114308079 Score: 880
Period size: 198 Copynumber: 4.6 Consensus size: 196
114307172 TATTTGATTG
** * * *
114307182 AATGGGTTTTTGTT-TTCCATTGAATTATGCTTATTTTAGATCTTTAACTTGGTGGGATTACAAG
1 AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAG
** * * ** ** * **
114307246 AAACTTGTGATGGGTAATCTTAATATGTTGAAGCTTGCAAAGAGACTAAAATTAATGGGGTTTTG
66 AAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTTG
* * * * * * * *** ****
114307311 TGTC-AGTTTTGCATTAGTTTTTGGTTTTTTCTCTTTACACTTCTATG-ATAGTTTATGTTATT-
131 TATCGA-ATTTGCATTAGGTTTTGGTGTTTT-TCTTTA-GCTTTTATGTTTA-ACAAAACCATTC
**
114307373 TGATT
192 AAATT
* * * * *
114307378 GAATGGGGTTTTGTTTTTTTATTGAATTATGCTTATTTAAGATCATTAACTTGGTGAGATTACAA
1 -AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAA
** * * * * *
114307443 GAAATTTATGATGGG-ACTCTTAATATGTTGAGGCTTGCAAAGAGAGTGAAATTAATGGGTTTTT
65 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTT
* * * * * * * *
114307507 GTGT-AAATTTTGCATTAGTTTTTTTGTTTTTTTTTTCTTTAGATTTTATGTTTAACAATACTAT
130 GTATCGAA-TTTGCATTAG--GTTTTG--GTGTTTTTCTTTAGCTTTTATGTTTAACAAAACCAT
* *
114307571 TCGAGTT
190 TCAAATT
* * *
114307578 AATGGGTTTTTGTT-TTTTATTGAATTATGCTTATTTGAGATCTTTAACTTAGTGAGATTACAAG
1 AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAG
* * * *
114307642 AGAAATGTGATGGGTACTATTGATATGTTGCGGCTTGCAAAGAGTGTGAATTTAATGGTTTTTTG
66 AAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTTG
* * * **
114307707 TATCGAGTTTGCATTAGGTTTTGGGGGTTTTCTTTAGCTTTTATGTTTAACAAAACGGTTCAAAT
131 TATCGAATTTGCATTAGGTTTTGGTGTTTTTCTTTAGCTTTTATGTTTAACAAAACCATTCAAAT
114307772 T
196 T
*
114307773 GATGGGTTTTTGTTATTGT-TTGAATTATTGCTTATTTGAGATCCTTAACTTGGTGAGATTACAA
1 AATGGGTTTTTGTTATTGTATTGAATTA-TGCTTATTTGAGATCCTTAACTTGGTGAGATTACAA
* * * *
114307837 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGTAAAGAGTGTAAAATTAGTGTTTTTTT
65 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTT
* * *
114307902 GTATCGAATTCGCATTAGGTTTTGGTGTTTTTCTTTTGCTTTTATGTTTAACGAAACCATTCAAA
130 GTATCGAATTTGCATTAGGTTTTGGTGTTTTTCTTTAGCTTTTATGTTTAACAAAACCATTC---
114307967 AAATT
192 AAATT
* *
114307972 AATGGGTTTTTGTTATTG-GTTGAATTATGTTTATTTGAGATCCTTAACTTGGTGA-AGTTACAA
1 AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGA-TTACAA
* * *
114308035 GACAAATGTGATGGGTACTCTTAACATGTTGGGGCTTGCAAAGAG
65 GAAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAG
114308080 AGTTGGGGCC
Statistics
Matches: 602, Mismatches: 81, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
195 54 0.09
196 148 0.25
197 78 0.13
198 188 0.31
199 117 0.19
200 11 0.02
201 6 0.01
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (196 bp):
AATGGGTTTTTGTTATTGTATTGAATTATGCTTATTTGAGATCCTTAACTTGGTGAGATTACAAG
AAAAATGTGATGGGTACTATTAATATGTTGGGGCTTGCAAAGAGTGTGAAATTAATGGTTTTTTG
TATCGAATTTGCATTAGGTTTTGGTGTTTTTCTTTAGCTTTTATGTTTAACAAAACCATTCAAAT
T
Found at i:114312978 original size:16 final size:15
Alignment explanation
Indices: 114312934--114312985 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
114312924 AATCTTTGAC
*
114312934 AATT-TTTTTATTTA
1 AATTATTTTAATTTA
*
114312948 ATTTACTTTTAATTTA
1 AATTA-TTTTAATTTA
114312964 AATTATTTTAGATTTA
1 AATTATTTTA-ATTTA
114312980 AATTAT
1 AATTAT
114312986 AAATCGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 3 0.09
15 5 0.16
16 24 0.75
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
AATTATTTTAATTTA
Found at i:114318151 original size:56 final size:55
Alignment explanation
Indices: 114318045--114318156 Score: 208
Period size: 55 Copynumber: 2.0 Consensus size: 55
114318035 AAATGGAATC
114318045 TTGATATAATAAAGGAACGAAAATTTTAAAAAAGAAAAAGAAGAAGAAAAAAACT
1 TTGATATAATAAAGGAACGAAAATTTTAAAAAAGAAAAAGAAGAAGAAAAAAACT
114318100 TTGATATAATAAAGGAACGAAAAATTTT-AAAAAGAAAAAGAAGAAGAAAAAAACT
1 TTGATATAATAAAGGAACG-AAAATTTTAAAAAAGAAAAAGAAGAAGAAAAAAACT
114318155 TT
1 TT
114318157 CTTTTGCCTC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 48 0.86
56 8 0.14
ACGTcount: A:0.62, C:0.04, G:0.14, T:0.20
Consensus pattern (55 bp):
TTGATATAATAAAGGAACGAAAATTTTAAAAAAGAAAAAGAAGAAGAAAAAAACT
Found at i:114321416 original size:23 final size:22
Alignment explanation
Indices: 114321364--114321418 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
114321354 TTATTTAGAA
*
114321364 TTTGAATTA-AAATGATGAATT
1 TTTGAATTATAAATGATAAATT
* *
114321385 TTGTAAATTATAAATGCTAAATT
1 TT-TGAATTATAAATGATAAATT
114321408 TGTTGAATTAT
1 T-TTGAATTAT
114321419 TTACAGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 6 0.22
23 18 0.67
24 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (22 bp):
TTTGAATTATAAATGATAAATT
Found at i:114331096 original size:76 final size:76
Alignment explanation
Indices: 114330966--114331118 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
114330956 CTAATTTAAA
114330966 ATCTTAATCATAATTTGAGATATATGATGCAATAAATCCTTTGTACTTGAGAACAATGCTCCCAA
1 ATCTTAATCATAATTTGAGATATATGATGCAATAAATCCTTTGTACTTGAGAACAATGCTCCCAA
114331031 AGTTGATCTTC
66 AGTTGATCTTC
* *
114331042 ATCTTAATCATAATTTGAGATATATGATGCAATTAATCCTTTGTACTTGGGAACAATGCTCCCAA
1 ATCTTAATCATAATTTGAGATATATGATGCAATAAATCCTTTGTACTTGAGAACAATGCTCCCAA
114331107 AGTTGATCTTC
66 AGTTGATCTTC
114331118 A
1 A
114331119 CATTGAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (76 bp):
ATCTTAATCATAATTTGAGATATATGATGCAATAAATCCTTTGTACTTGAGAACAATGCTCCCAA
AGTTGATCTTC
Found at i:114334307 original size:347 final size:347
Alignment explanation
Indices: 114333656--114334355 Score: 1391
Period size: 348 Copynumber: 2.0 Consensus size: 347
114333646 TATTCACATG
114333656 GCAATGAGCTATGTTAAAACATAGAAATTAATAGATGTGACCTAAAATATATGACAAACAATGCT
1 GCAATGAGCTATGTTAAAACATAGAAATTAATAGATGTGACCTAAAATATATGACAAACAATGCT
114333721 CACTAGCATATATTCACCATGAAAACACTAAATAGAACCTATTTTTTCAAAAGAAAATGCAGAAT
66 CACTAGCATATATTCACCATGAAAACACTAAATAGAACCTATTTTTTCAAAAGAAAATGCAGAAT
114333786 ATCAAGAAAGCTCATGTAAATGAATACATCATCAGTCATTAATCCCCAATCGAGACAGAGGATAT
131 ATCAAGAAAGCTCATGTAAATGAATACATCATCAGTCATTAATCCCCAATCGAGACAGAGGATAT
114333851 TTACATGGCAATGAGCTATATTAAAACATAGAAATCAATAGATACAACCTATGTATGATGAACAA
196 TTACATGGCAATGAGCTATATTAAAACATAGAAATCAATAGATACAACCTATGTATGATGAACAA
114333916 AGCTCACTGCCATAGTTCCACCATAAAAATAAAAAATAAAAAAAATACAAATAGGCCTTTCTTTT
261 AGCTCACTGCCATAGTTCCACCATAAAAATAAAAAATAAAAAAAATACAAATAGGCCTTTCTTTT
114333981 TACCGAATCAATCTCGCTTAAC
326 TACCGAATCAATCTCGCTTAAC
114334003 GCAATGAGCTATGTTAAAACATAGAAATTAATAGATGTGACCTAAAATATATGACAAACAATGCT
1 GCAATGAGCTATGTTAAAACATAGAAATTAATAGATGTGACCTAAAATATATGACAAACAATGCT
114334068 CACTAGCATATATTCACCATGAAAACACTAAATAGAACCTATTTTTTTCAAAAGAAAATGCAGAA
66 CACTAGCATATATTCACCATGAAAACACTAAATAGAACCTA-TTTTTTCAAAAGAAAATGCAGAA
114334133 TATCAAGAAAGCTCATGTAAATGAATACATCATCAGTCATTAATCCCCAATCGAGACAGAGGATA
130 TATCAAGAAAGCTCATGTAAATGAATACATCATCAGTCATTAATCCCCAATCGAGACAGAGGATA
114334198 TTTACATGGCAATGAGCTATATTAAAACATAGAAATCAATAGATACAACCTATGTATGATGAACA
195 TTTACATGGCAATGAGCTATATTAAAACATAGAAATCAATAGATACAACCTATGTATGATGAACA
114334263 AAGCTCACTGCCATAGTTCCACCATAAAAATAAAAAATAAAAAAAATACAAATAGGCCTTTCTTT
260 AAGCTCACTGCCATAGTTCCACCATAAAAATAAAAAATAAAAAAAATACAAATAGGCCTTTCTTT
114334328 TTACCGAATCAATCTCGCTTAAC
325 TTACCGAATCAATCTCGCTTAAC
114334351 GCAAT
1 GCAAT
114334356 TGAGTTAATA
Statistics
Matches: 352, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
347 106 0.30
348 246 0.70
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (347 bp):
GCAATGAGCTATGTTAAAACATAGAAATTAATAGATGTGACCTAAAATATATGACAAACAATGCT
CACTAGCATATATTCACCATGAAAACACTAAATAGAACCTATTTTTTCAAAAGAAAATGCAGAAT
ATCAAGAAAGCTCATGTAAATGAATACATCATCAGTCATTAATCCCCAATCGAGACAGAGGATAT
TTACATGGCAATGAGCTATATTAAAACATAGAAATCAATAGATACAACCTATGTATGATGAACAA
AGCTCACTGCCATAGTTCCACCATAAAAATAAAAAATAAAAAAAATACAAATAGGCCTTTCTTTT
TACCGAATCAATCTCGCTTAAC
Found at i:114337975 original size:45 final size:45
Alignment explanation
Indices: 114337924--114338084 Score: 157
Period size: 45 Copynumber: 3.5 Consensus size: 45
114337914 AACCATTAAC
114337924 ATTCTATCGATTTAATCTTAAATTCTATAAACCTTAACTGTTTAT
1 ATTCTATCGATTTAATCTTAAATTCTATAAACCTTAACTGTTTAT
* * * * *
114337969 ATTCTATCGATTTAAT-TTTAATTCTGTTAAA--ATAGTATTGATTCATCT
1 ATTCTATCGATTTAATCTTAAATTCT-ATAAACCTTA--ACTG-TT--TAT
* * * *
114338017 ATTCTATCAATTTAATCTTAAATTTTATAGACCTTAACTGTTTAC
1 ATTCTATCGATTTAATCTTAAATTCTATAAACCTTAACTGTTTAT
*
114338062 ATTCTATCGATTTAATCATAAAT
1 ATTCTATCGATTTAATCTTAAAT
114338085 CCATTAATAA
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.02
44 8 0.09
45 45 0.49
46 2 0.02
47 2 0.02
48 23 0.25
49 7 0.08
50 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.47
Consensus pattern (45 bp):
ATTCTATCGATTTAATCTTAAATTCTATAAACCTTAACTGTTTAT
Found at i:114342479 original size:59 final size:59
Alignment explanation
Indices: 114342375--114342492 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
114342365 GCATGGAGCG
* * * *
114342375 GCAAGAAACTCGTTGTTGATCATTTTAAGATGTTTTGATGCATTGCATATGCACATATA
1 GCAAGAAACCCATTGTTGATCATTTTAAGATATTTGGATGCATTGCATATGCACATATA
* *
114342434 GCAAGAAACCCATTGTTGATCATTTTAAGATATTTGGATGTATTGCATATGCACTTATA
1 GCAAGAAACCCATTGTTGATCATTTTAAGATATTTGGATGCATTGCATATGCACATATA
114342493 TCTAATGAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (59 bp):
GCAAGAAACCCATTGTTGATCATTTTAAGATATTTGGATGCATTGCATATGCACATATA
Found at i:114355654 original size:1 final size:1
Alignment explanation
Indices: 114355648--114355674 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
114355638 TTTGCTTCCT
114355648 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
114355675 GGACTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:114356915 original size:46 final size:45
Alignment explanation
Indices: 114356848--114357090 Score: 149
Period size: 46 Copynumber: 5.6 Consensus size: 45
114356838 ATAATACAGG
114356848 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAA-AGACCAAAGAATTTCAGA
* * * *
114356894 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGA-AAGACCAAAGAAT-TTCAGA
* * * * **
114356938 TCCTATCTCCTTGAGATTACAATGG--AG--C---GGATTAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAAAGACCAAAGAATTTCA-GA
* * * * * *
114356977 TCTTATCTCTCT-AAAGTTACAGTAGAGAAGATC--A-CA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-AAGACCAAAGAATTTCAGA
114357018 TCTTATCTCCCTGAGATTACAGTGCGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTG-GAA-AGACCAAAGAATTTCAGA
*
114357065 TCTTATCTCCCTGAGGTTACAGTGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
114357091 GCAGATTGAA
Statistics
Matches: 149, Mismatches: 27, Indels: 42
0.68 0.12 0.19
Matches are distributed among these distances:
36 1 0.01
37 3 0.02
38 2 0.01
39 18 0.12
41 22 0.15
42 11 0.07
44 25 0.17
45 4 0.03
46 36 0.24
47 27 0.18
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAAAGACCAAAGAATTTCAGA
Found at i:114357129 original size:44 final size:43
Alignment explanation
Indices: 114356848--114357177 Score: 203
Period size: 44 Copynumber: 7.6 Consensus size: 43
114356838 ATAATACAGG
** * * *
114356848 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCA---GAGA
* *
114356894 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCAGAG--A
* * * * *
114356938 TCCTATCTCCTTGAGATTACAATGGAGCGGAT-TAA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCAGAGA
* * * * * *
114356977 TCTTATCTCTCT-AAAGTTACAGTAGAGAAGATCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGCAGAGA
* * * *
114357018 TCTTATCTCCCTGAGATTACAGTGCGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTG-GAGCAGATCAAAGCA---GAGA
* **
114357065 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-CAGAGA
* * **
114357109 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-CAGAGA
*
114357152 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
114357178 ATGGATTAAA
Statistics
Matches: 222, Mismatches: 47, Indels: 33
0.74 0.16 0.11
Matches are distributed among these distances:
38 2 0.01
39 22 0.10
40 1 0.00
41 19 0.09
42 18 0.08
43 25 0.11
44 67 0.30
45 1 0.00
46 43 0.19
47 24 0.11
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGCAGAGA
Found at i:114359040 original size:3 final size:3
Alignment explanation
Indices: 114359032--114359060 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
114359022 GATTTAGTCC
114359032 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
114359061 CCTATTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:114359706 original size:24 final size:24
Alignment explanation
Indices: 114359679--114359725 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
114359669 ATTTTGCTAA
114359679 TTTATATATATATACATATTTTAG
1 TTTATATATATATACATATTTTAG
* * * *
114359703 TTTATGTCTATATATATCTTTTA
1 TTTATATATATATACATATTTTA
114359726 TATTTAATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTATATATATATACATATTTTAG
Found at i:114366423 original size:122 final size:122
Alignment explanation
Indices: 114366206--114366451 Score: 402
Period size: 122 Copynumber: 2.0 Consensus size: 122
114366196 CTCGAATATT
* *
114366206 TTTTCCTTCGAAACCCTTGGATAACTTTAAATCAATCAAACAAAAAGACAAGATAGTTTATAGCA
1 TTTTCCTTCGAAACCCTTGGATAACTTTAAATCAACCAAACAAAAAGACAAGATAGCTTATAGCA
* *
114366271 TGAAAGAAAGCTACTCTAAGCTATTCATTCTTCATATAACCCAAAATTCTAACTAGG
66 TGAAAAAAAGCTACTCTAAGCTATGCATTCTTCATATAACCCAAAATTCTAACTAGG
* * *
114366328 TTTTCCTTTGAAACCCTTGGATAATTTTAAATCAACCAAACAAAAAGACAGGATAGCTTATAGCA
1 TTTTCCTTCGAAACCCTTGGATAACTTTAAATCAACCAAACAAAAAGACAAGATAGCTTATAGCA
* * *
114366393 TGAAAAAAAGCTATTCTAAGCTATGCATTCTTCATATAACCCAAAGTTCTGACTAGG
66 TGAAAAAAAGCTACTCTAAGCTATGCATTCTTCATATAACCCAAAATTCTAACTAGG
114366450 TT
1 TT
114366452 CAAAATGATA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
122 114 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (122 bp):
TTTTCCTTCGAAACCCTTGGATAACTTTAAATCAACCAAACAAAAAGACAAGATAGCTTATAGCA
TGAAAAAAAGCTACTCTAAGCTATGCATTCTTCATATAACCCAAAATTCTAACTAGG
Found at i:114368220 original size:21 final size:20
Alignment explanation
Indices: 114368169--114368220 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
114368159 AAATCTAAAT
* *
114368169 TAAAATACTAAAATTCAGGA
1 TAAAATACTGAAATTCAGAA
* *
114368189 TAAAATCCTGAAATTCCGAA
1 TAAAATACTGAAATTCAGAA
114368209 TAAAAATACTGA
1 T-AAAATACTGA
114368221 TGTTGGCATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGAA
Found at i:114369041 original size:24 final size:24
Alignment explanation
Indices: 114369010--114369057 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
114369000 ATAAAAAAAT
114369010 ATACTAAAATTTAGATACCATAAA
1 ATACTAAAATTTAGATACCATAAA
114369034 ATACTAAAATTTAGATACCATAAA
1 ATACTAAAATTTAGATACCATAAA
114369058 TTGGATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.29
Consensus pattern (24 bp):
ATACTAAAATTTAGATACCATAAA
Found at i:114370004 original size:168 final size:168
Alignment explanation
Indices: 114369726--114370061 Score: 663
Period size: 168 Copynumber: 2.0 Consensus size: 168
114369716 ATGATCGGCA
114369726 TTTTTCCGGTATCAGCTCTACCTTCTTCTCCAACATCAATGTTCCTTTGAAGATCGTCAGTTGAA
1 TTTTTCCGGTATCAGCTCTACCTTCTTCTCCAACATCAATGTTCCTTTGAAGATCGTCAGTTGAA
114369791 GCTCCTTTTGGTACTTGGATAACTGAACATCAAATAAAGTTCACAATGGCTTAATTCTCTTAGTG
66 GCTCCTTTTGGTACTTGGATAACTGAACATCAAATAAAGTTCACAATGGCTTAATTCTCTTAGTG
*
114369856 ATTTGATATTCGGTATAAACAGATCAAAATGGACATGT
131 ATTTGATATTCGGTATAAACAGATCAAAATAGACATGT
114369894 TTTTTCCGGTATCAGCTCTACCTTCTTCTCCAACATCAATGTTCCTTTGAAGATCGTCAGTTGAA
1 TTTTTCCGGTATCAGCTCTACCTTCTTCTCCAACATCAATGTTCCTTTGAAGATCGTCAGTTGAA
114369959 GCTCCTTTTGGTACTTGGATAACTGAACATCAAATAAAGTTCACAATGGCTTAATTCTCTTAGTG
66 GCTCCTTTTGGTACTTGGATAACTGAACATCAAATAAAGTTCACAATGGCTTAATTCTCTTAGTG
114370024 ATTTGATATTCGGTATAAACAGATCAAAATAGACATGT
131 ATTTGATATTCGGTATAAACAGATCAAAATAGACATGT
114370062 CCATCATGTT
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 167 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (168 bp):
TTTTTCCGGTATCAGCTCTACCTTCTTCTCCAACATCAATGTTCCTTTGAAGATCGTCAGTTGAA
GCTCCTTTTGGTACTTGGATAACTGAACATCAAATAAAGTTCACAATGGCTTAATTCTCTTAGTG
ATTTGATATTCGGTATAAACAGATCAAAATAGACATGT
Found at i:114377593 original size:14 final size:14
Alignment explanation
Indices: 114377574--114377624 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
114377564 CTACAATTTA
*
114377574 ACTATTATGTTGTT
1 ACTATTTTGTTGTT
*
114377588 ACTATTTTCTTGTT
1 ACTATTTTGTTGTT
*
114377602 ATTATTTTGTTGTT
1 ACTATTTTGTTGTT
114377616 A--ATTTTGTT
1 ACTATTTTGTT
114377625 ATTGTTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 8 0.24
14 25 0.76
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (14 bp):
ACTATTTTGTTGTT
Found at i:114381155 original size:29 final size:30
Alignment explanation
Indices: 114381083--114381155 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
114381073 CTTCTAAAAC
*
114381083 TTTTAAAAATTTTAATTAGATCTCTCAGTT
1 TTTTAAAAATTTTAATTAGATCTCTCAGTA
*
114381113 TTTTAAAAATTTTAATTAGA-CTCTTA-TA
1 TTTTAAAAATTTTAATTAGATCTCTCAGTA
*
114381141 TTTTGAAAATCTTTA
1 TTTTAAAAAT-TTTA
114381156 TTAAACCCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 10 0.26
29 9 0.23
30 20 0.51
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (30 bp):
TTTTAAAAATTTTAATTAGATCTCTCAGTA
Found at i:114381177 original size:30 final size:29
Alignment explanation
Indices: 114381141--114381198 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
114381131 GACTCTTATA
114381141 TTTTGAAAATCTTTA-TTAAACCCCTAAAAG
1 TTTTGAAAAT-TTTAGTTAAACCCC-AAAAG
*
114381171 TTTTGAAAATTTTAGTTAATCCCCAAAA
1 TTTTGAAAATTTTAGTTAAACCCCAAAA
114381199 TTAGTGGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (29 bp):
TTTTGAAAATTTTAGTTAAACCCCAAAAG
Found at i:114382990 original size:42 final size:42
Alignment explanation
Indices: 114382929--114383082 Score: 254
Period size: 42 Copynumber: 3.7 Consensus size: 42
114382919 TCGTTTTCTC
** * *
114382929 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
114382971 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
* *
114383013 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
114383055 GATGCCATAGCCCAGCTATGGTCTTACA
1 GATGCCATAGCCCAGCTATGGTCTTACA
114383083 TGAATCACAT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 106 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
Found at i:114383121 original size:46 final size:47
Alignment explanation
Indices: 114383054--114383169 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 47
114383044 ATTCATATAT
* * * *
114383054 TGATGCCATAGCCCAGCTATGGT-CT-TACATGAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCCTATACA-GAAGCACATATCACAC
* *
114383100 TGATGCCATATCCCAGATATGGTCCTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCCTATACAGAAGCACATATCACAC
*
114383147 CGATGCCATATCCCAGATATGGT
1 TGATGCCATATCCCAGATATGGT
114383170 ATTATACGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 21 0.34
47 36 0.59
48 4 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCCTATACAGAAGCACATATCACAC
Found at i:114383245 original size:31 final size:31
Alignment explanation
Indices: 114383210--114383350 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
114383200 TTCTAACCGA
*
114383210 AGCTACCACTATTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
114383241 AGCTACCATTTTTCACTGATCAGGTAGCCAG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
114383272 AGCTACCACTTTTCACTGATTAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* * *
114383303 AACTACCACTTTTCACTGATCAGGTAGCAGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
114383334 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
114383351 TGTCATTTGT
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:114383432 original size:50 final size:50
Alignment explanation
Indices: 114383326--114383552 Score: 348
Period size: 50 Copynumber: 4.5 Consensus size: 50
114383316 CACTGATCAG
* * * *
114383326 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
114383377 GTAGCCTAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTGTCCTTGATCAGATAAGT
*
114383427 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
114383477 GAAACCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
114383527 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
114383553 GTTGCCATGG
Statistics
Matches: 162, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
49 3 0.02
50 134 0.83
51 25 0.15
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:114387494 original size:42 final size:42
Alignment explanation
Indices: 114387447--114387531 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
114387437 ATAAAACTAT
114387447 AACACCCCTTACCCGAGCAAAGGATGCCACATTTTCGAGTCA
1 AACACCCCTTACCCGAGCAAAGGATGCCACATTTTCGAGTCA
114387489 AACACCCCTTACCCGAGCAAAGGATGCCACATTTTCGAGTCA
1 AACACCCCTTACCCGAGCAAAGGATGCCACATTTTCGAGTCA
114387531 A
1 A
114387532 TCACTTCACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.19
Consensus pattern (42 bp):
AACACCCCTTACCCGAGCAAAGGATGCCACATTTTCGAGTCA
Found at i:114387527 original size:22 final size:22
Alignment explanation
Indices: 114387460--114387527 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
114387450 ACCCCTTACC
114387460 CGAGCAAAGGATGCCACATTTT
1 CGAGCAAAGGATGCCACATTTT
* * **
114387482 CGAGTCAAA-CA--CC-CCTTACC
1 CGAG-CAAAGGATGCCACATT-TT
114387502 CGAGCAAAGGATGCCACATTTT
1 CGAGCAAAGGATGCCACATTTT
114387524 CGAG
1 CGAG
114387528 TCAATCACTT
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
19 7 0.22
20 7 0.22
22 11 0.34
23 7 0.22
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (22 bp):
CGAGCAAAGGATGCCACATTTT
Found at i:114389301 original size:168 final size:168
Alignment explanation
Indices: 114389061--114389391 Score: 518
Period size: 168 Copynumber: 2.0 Consensus size: 168
114389051 CCCTCGCAGA
* * * * *
114389061 TTGTTTTTGGGTCATTTTCTGACATGCCAGCTGACGTATTCTATGATTCAACATTCGACGAAGCA
1 TTGTTTTTGGGTCATTTGCTGACATGCCAGCTCACGTATTCTATCATTCAACATTCAACCAAGCA
* * * * *
114389126 CCACCTTCCAAGGTGGCCCGTGTCTCACCTCGTCCACCTGCACCTTCAGCCCCGGCAGGGGCTTC
66 ACACCTTCCAAGGTGGCCCATGTCTCACCTCCTCCACCTGCACCTCCAGCACCGGCAGGGGCTTC
114389191 TGAAAATGTGGCCAAAGATGATGAGAAACCAAACAAGT
131 TGAAAATGTGGCCAAAGATGATGAGAAACCAAACAAGT
* * * *
114389229 TTGTTTTTGGGTCGTTTGGTGACATGTCAGGTCACGTATTCTATCATTCAACATTCAACCAAGCA
1 TTGTTTTTGGGTCATTTGCTGACATGCCAGCTCACGTATTCTATCATTCAACATTCAACCAAGCA
* *
114389294 ACACCTTCCAAGGTGGCCCATGTCTCACCTCCTCCACTTGCACCTCCAGCACCGGCAGGGGCTTT
66 ACACCTTCCAAGGTGGCCCATGTCTCACCTCCTCCACCTGCACCTCCAGCACCGGCAGGGGCTTC
114389359 TGAAAATGTGGCCAAAGATGATGAGAAACCAAA
131 TGAAAATGTGGCCAAAGATGATGAGAAACCAAA
114389392 AAATGCTAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
168 147 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (168 bp):
TTGTTTTTGGGTCATTTGCTGACATGCCAGCTCACGTATTCTATCATTCAACATTCAACCAAGCA
ACACCTTCCAAGGTGGCCCATGTCTCACCTCCTCCACCTGCACCTCCAGCACCGGCAGGGGCTTC
TGAAAATGTGGCCAAAGATGATGAGAAACCAAACAAGT
Found at i:114390127 original size:27 final size:28
Alignment explanation
Indices: 114390059--114390127 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
114390049 TGATAAAATA
*
114390059 ATTTCAATTTTATAAATACAAAAATTGT
1 ATTTCAATTTTAAAAATACAAAAATTGT
* * *
114390087 ATATCAATAGTTAAATAATA-AAATATT-T
1 ATTTCAAT-TTTAAA-AATACAAAAATTGT
114390115 ATTTCAATTTTAA
1 ATTTCAATTTTAA
114390128 TCAGTGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
27 4 0.12
28 15 0.45
29 10 0.30
30 4 0.12
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (28 bp):
ATTTCAATTTTAAAAATACAAAAATTGT
Found at i:114398009 original size:3 final size:3
Alignment explanation
Indices: 114398001--114398031 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
114397991 ATTCAGTCAT
114398001 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
114398032 CTAAAAGTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:114398645 original size:21 final size:19
Alignment explanation
Indices: 114398623--114398690 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 19
114398613 ATCAACAAAT
114398623 AATTTAAAAATTATAAAAAA
1 AATTTAAAAA-TATAAAAAA
*
114398643 TAA--TAAAAACATAAAAAGA
1 -AATTTAAAAATATAAAAA-A
*
114398662 AATTGTAAAAAGT-TGAAAAA
1 AATT-TAAAAA-TATAAAAAA
114398682 AATTTAAAA
1 AATTTAAAA
114398691 TTGATATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
18 9 0.23
19 12 0.31
20 5 0.13
21 13 0.33
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (19 bp):
AATTTAAAAATATAAAAAA
Found at i:114402074 original size:106 final size:103
Alignment explanation
Indices: 114401932--114402221 Score: 341
Period size: 106 Copynumber: 2.7 Consensus size: 103
114401922 ATAAAAACCA
* * * *
114401932 GACTGGATCTTCCTTTTTTTGTTGATTTTTTTAAGTTTAAAATTAATAGTTTATCCTTGAATTTA
1 GACTGGATCTTCTTTTTTTTGTTGA--TTTTAAAGTTTTAAATTAATAGTTTATTCTTGAATTTA
*
114401997 ATCGTATTTTTAAATATATTTGTGGAATTTCTAAGAAATAC-
64 ATCGTATTTCT-AATATATTTGTGGAATTTCTAAGAAAT-CG
* * * *
114402038 GACTGGATCGTCTTTTCTTTTGTTGATCTTTCAAGTTTTGAATTAATAGTTTATTCTTGAATTAA
1 GACTGGATCTTCTTTT-TTTTGTTGAT-TTTAAAGTTTTAAATTAATAGTTTATTCTTGAATT-T
* * * *
114402103 AAT-GTATTTCTAATATTTTTGTGTAATTTCTTAGCAATCG
63 AATCGTATTTCTAATATATTTGTGGAATTTCTAAGAAATCG
*
114402143 GACTGGATCCTTACTTTTTTCTGTTGTGATTTTAAAGTTTTAAATTAATAGTTTATTCTTGAATT
1 GACTGGAT-CTT-CTTTTTTTTG-T-TGATTTTAAAGTTTTAAATTAATAGTTTATTCTTGAATT
114402208 TAATCGTATTTCTA
62 TAATCGTATTTCTA
114402222 GTATTTTTTT
Statistics
Matches: 158, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
104 1 0.01
105 32 0.20
106 61 0.39
107 60 0.38
108 4 0.03
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.51
Consensus pattern (103 bp):
GACTGGATCTTCTTTTTTTTGTTGATTTTAAAGTTTTAAATTAATAGTTTATTCTTGAATTTAAT
CGTATTTCTAATATATTTGTGGAATTTCTAAGAAATCG
Found at i:114402199 original size:107 final size:106
Alignment explanation
Indices: 114401932--114402229 Score: 340
Period size: 107 Copynumber: 2.8 Consensus size: 106
114401922 ATAAAAACCA
* * * *
114401932 GACTGGATCTTCCTTTTTT-TGTTGAT-TTTTTTAAGTTTAAAATTAATAGTTTATCCTTGAATT
1 GACTGGATCTT-CTTTTTTCTGTTGATGATTTTAAAGTTTTAAATTAATAGTTTATTCTTGAATT
* *
114401995 TAATCGTATTTTTAAATATATTTGTGGAATTTCTAAGAAATAC
65 TAATCGTATTTCT-AATATTTTTGTGGAATTTCTAAGAAATAC
* * * * *
114402038 GACTGGATCGTCTTTTCTTTTGTTGAT--CTTTCAAGTTTTGAATTAATAGTTTATTCTTGAATT
1 GACTGGATCTTCTTTT-TTCTGTTGATGATTTTAAAGTTTTAAATTAATAGTTTATTCTTGAATT
* * * *
114402101 AAAAT-GTATTTCTAATATTTTTGTGTAATTTCTTAGCAAT-C
65 -TAATCGTATTTCTAATATTTTTGTGGAATTTCTAAGAAATAC
114402142 GGACTGGATCCTTACTTTTTTCTGTTG-TGATTTTAAAGTTTTAAATTAATAGTTTATTCTTGAA
1 -GACTGGAT-CTT-CTTTTTTCTGTTGATGATTTTAAAGTTTTAAATTAATAGTTTATTCTTGAA
*
114402206 TTTAATCGTATTTCTAGTATTTTT
63 TTTAATCGTATTTCTAATATTTTT
114402230 TTAGCAATCA
Statistics
Matches: 164, Mismatches: 19, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
104 1 0.01
105 37 0.23
106 62 0.38
107 64 0.39
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.51
Consensus pattern (106 bp):
GACTGGATCTTCTTTTTTCTGTTGATGATTTTAAAGTTTTAAATTAATAGTTTATTCTTGAATTT
AATCGTATTTCTAATATTTTTGTGGAATTTCTAAGAAATAC
Found at i:114405413 original size:105 final size:105
Alignment explanation
Indices: 114405304--114405504 Score: 253
Period size: 106 Copynumber: 1.9 Consensus size: 105
114405294 TTCAGCTGCC
* * **
114405304 TTTTT-TTTAAAAAAAAGTTTAAAATTAATAGTTTATCCTTGAA-TTAGATTGTATTTCTGATAT
1 TTTTTGTTGAAAAAAAAGTTTAAAATTAATAGTTTAACCTTGAATTTA-ATCCTATTTCTGAT-T
*
114405367 TTTTGTGTAATTTCTTAGCAATCCGACTGGATCGTCTTTTTA
64 TTTAGTGTAATTTCTTAGCAATCCGACTGGATCGTCTTTTTA
***** * *
114405409 TTTTTGTTGATTTTTAAGTTTTAAATTAATAGTTTAAGCTTGAATTTAATCCTATTTCTGATTTT
1 TTTTTGTTGAAAAAAAAGTTTAAAATTAATAGTTTAACCTTGAATTTAATCCTATTTCTGATTTT
*
114405474 TAGTGTAATTTCTTAGCAATCCGATTGGATC
66 TAGTGTAATTTCTTAGCAATCCGACTGGATC
114405505 TTTTTTTTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
105 37 0.46
106 41 0.51
107 3 0.04
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (105 bp):
TTTTTGTTGAAAAAAAAGTTTAAAATTAATAGTTTAACCTTGAATTTAATCCTATTTCTGATTTT
TAGTGTAATTTCTTAGCAATCCGACTGGATCGTCTTTTTA
Found at i:114405751 original size:109 final size:108
Alignment explanation
Indices: 114405591--114405918 Score: 381
Period size: 109 Copynumber: 3.0 Consensus size: 108
114405581 CTTACTTTTA
* * ** * * * *
114405591 AGTTTAAAATTAATAGTTTATCCTTTAATTGAATCGTAGT-TCTGGTATTTTTGTCTAATTTCTT
1 AGTTTTAAATTAATAGTGTATCCTAGAATTAAATCATA-TCTCTGGT-TTTTTGTGTAAATTCTT
114405655 AGCAATTCGACTGGATCGTCTCTTTTCTTGTTGATTTTTTTTTGT
64 AGCAATTCGACTGGATCGTCTCTTTTCTTGTTGATTTTTTTTTGT
* *
114405700 CGTTTTAAATTAATAGTGTATCCTAGAATTAAATCATATATCTCTGGTTTTTTGTGTAACTTCTT
1 AGTTTTAAATTAATAGTGTATCCTAGAATTAAATC--ATATCTCTGGTTTTTTGTGTAAATTCTT
* * *
114405765 AGCAATTCGACCGGATCGGCTCTTTTCCTGTTGA-TTTTTTTTGT
64 AGCAATTCGACTGGATCGTCTCTTTTCTTGTTGATTTTTTTTTGT
* *
114405809 AGTTTTAAATTAATAGTTTATCCTAGAATTAAATCATATCTCTGGTATCTTTGTGTAAATTCTTA
1 AGTTTTAAATTAATAGTGTATCCTAGAATTAAATCATATCTCTGGT-TTTTTGTGTAAATTCTTA
* * * * * *
114405874 GTAATCCAACTAGATCCTCTTCTTTTTTTTGTTGATTTTTCTTTT
65 GCAATTCGACTGGATCGTC-TC-TTTTCTTGTTGATTTTT-TTTT
114405919 TTAATTTTGT
Statistics
Matches: 186, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
107 11 0.06
108 28 0.15
109 74 0.40
110 57 0.31
111 12 0.06
112 4 0.02
ACGTcount: A:0.23, C:0.14, G:0.13, T:0.50
Consensus pattern (108 bp):
AGTTTTAAATTAATAGTGTATCCTAGAATTAAATCATATCTCTGGTTTTTTGTGTAAATTCTTAG
CAATTCGACTGGATCGTCTCTTTTCTTGTTGATTTTTTTTTGT
Found at i:114405788 original size:110 final size:109
Alignment explanation
Indices: 114405591--114405874 Score: 387
Period size: 109 Copynumber: 2.6 Consensus size: 109
114405581 CTTACTTTTA
* ** * * * *
114405591 AGTTTAAAATTAATAGTTTATCCTTTAATTGAATCGTA-GT-TCTGGTATTTTTGTCTAATTTCT
1 AGTTTTAAATTAATAGTTTATCCTAGAATTAAATC-TATATCTCTGGTATTTTTGTGTAAATTCT
* * *
114405654 TAGCAATTCGACTGGATCGTCTCTTTTCTTGTTGATTTTTTTTTGT
65 TAGCAATTCGACCGGATCGGCTCTTTTCCTGTTGA-TTTTTTTTGT
* * *
114405700 CGTTTTAAATTAATAGTGTATCCTAGAATTAAATCATATATCTCTGGT-TTTTTGTGTAACTTCT
1 AGTTTTAAATTAATAGTTTATCCTAGAATTAAATC-TATATCTCTGGTATTTTTGTGTAAATTCT
114405764 TAGCAATTCGACCGGATCGGCTCTTTTCCTGTTGATTTTTTTTGT
65 TAGCAATTCGACCGGATCGGCTCTTTTCCTGTTGATTTTTTTTGT
*
114405809 AGTTTTAAATTAATAGTTTATCCTAGAATTAAATC-ATATCTCTGGTATCTTTGTGTAAATTCTT
1 AGTTTTAAATTAATAGTTTATCCTAGAATTAAATCTATATCTCTGGTATTTTTGTGTAAATTCTT
114405873 AG
66 AG
114405875 TAATCCAACT
Statistics
Matches: 155, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
107 11 0.07
108 17 0.11
109 74 0.48
110 47 0.30
111 6 0.04
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.49
Consensus pattern (109 bp):
AGTTTTAAATTAATAGTTTATCCTAGAATTAAATCTATATCTCTGGTATTTTTGTGTAAATTCTT
AGCAATTCGACCGGATCGGCTCTTTTCCTGTTGATTTTTTTTGT
Found at i:114408605 original size:33 final size:31
Alignment explanation
Indices: 114408549--114408612 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
114408539 AGAAAGAAAG
*
114408549 AACATTATTATTTGGAATAGAGAT-ATAAAA
1 AACATTATTATTTGCAATAGAGATAATAAAA
114408579 AACATTATTATTTGCATGATACGAGATAATAAAA
1 AACATTATTATTTGCA--ATA-GAGATAATAAAA
114408613 TTTATAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 15 0.52
32 3 0.10
33 5 0.17
34 6 0.21
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (31 bp):
AACATTATTATTTGCAATAGAGATAATAAAA
Found at i:114412314 original size:267 final size:266
Alignment explanation
Indices: 114411824--114412329 Score: 717
Period size: 267 Copynumber: 1.9 Consensus size: 266
114411814 TTTTGGTCAT
* ** * *
114411824 CCAACTATAAAAAGTTACAAAATGGTTACTCAAATATTTAATTTTGTTTTTTAGTCACCCAACTA
1 CCAACTATAAAAAGTTACAAAATAGTTACTCAAATATACAATTGTCTTTTTTAGTCACCCAACTA
* * * * * * * * **
114411889 CCTTAGATTTTTGAGTGTTTCTATTTTTACGTTAGCTAGCTGGTGGCAGAAAAAGTGATCGAATT
66 CCTTAGATTTTTGAGTGTTGCCATTTTTACATTAGCCAACTGGTGACAAAAAAAGTGATCAAACA
* **
114411954 ATGAAAAGTTACAAAATAGTAACTCAACTGTTCATGTTTATCTATTTTAGTCACCCAACTATCTT
131 ATGAAAAGTTACAAAATAGTAACGCAACTAATCATGTTTATCTATTTTAGTCACCCAACTATCTT
*
114412019 GAATTTTTGGGTGTTTTACTGTTTTCATTTTTACGTTAGCCAACAAGACAAAATTGAATAGTCGT
196 GAATTTTTGGGTGTTTTACTGGTTTCATTTTTACGTTAGCCAACAAGACAAAATTGAATAGTCGT
114412084 GGTTAC
261 GGTTAC
*
114412090 CCAACTATAAAAAGTTACAAAATAGTTACTCAATTATACAATTGTCTTTTTTAGTCACCCAACTA
1 CCAACTATAAAAAGTTACAAAATAGTTACTCAAATATACAATTGTCTTTTTTAGTCACCCAACTA
* * * *
114412155 TCTTGGATTTTTGGGTGTTGCCATTTTTACATTAGCCAACTGGTGACAAAAAAAAGTTATCAAAC
66 CCTTAGATTTTTGAGTGTTGCCATTTTTACATTAGCCAACTGGTGAC-AAAAAAAGTGATCAAAC
* * * * *
114412220 AATGAAAAGTTACAAAATAGTAACGGAACTAATCAAT-TTTGTCTTTTTTAGTCACCCAATTCTC
130 AATGAAAAGTTACAAAATAGTAACGCAACTAATC-ATGTTTATCTATTTTAGTCACCCAACTATC
*
114412284 TTGGATTTTTGGGTGTTTTACTGGTTTCATTTTTACGTTAGCCAAC
194 TTGAATTTTTGGGTGTTTTACTGGTTTCATTTTTACGTTAGCCAAC
114412330 TGGTGATAAA
Statistics
Matches: 208, Mismatches: 30, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
266 97 0.47
267 109 0.52
268 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (266 bp):
CCAACTATAAAAAGTTACAAAATAGTTACTCAAATATACAATTGTCTTTTTTAGTCACCCAACTA
CCTTAGATTTTTGAGTGTTGCCATTTTTACATTAGCCAACTGGTGACAAAAAAAGTGATCAAACA
ATGAAAAGTTACAAAATAGTAACGCAACTAATCATGTTTATCTATTTTAGTCACCCAACTATCTT
GAATTTTTGGGTGTTTTACTGGTTTCATTTTTACGTTAGCCAACAAGACAAAATTGAATAGTCGT
GGTTAC
Found at i:114431863 original size:92 final size:90
Alignment explanation
Indices: 114431698--114431867 Score: 234
Period size: 92 Copynumber: 1.9 Consensus size: 90
114431688 TGGATCACTA
* * *
114431698 GATTTAGCACAACTTCCATTTAGGCCATAAACTTTTAATTTTGTTAAATTACTTAGTTGAACTTC
1 GATTTAGCACAACTTCCATTTAAGCCATAAACTTTTAATTTTATTAAATTACATAGTTGAACTTC
114431763 TATTATTAATAAAATAAGGATGATTG
66 TATTATTAA-AAAATAAGGATGATTG
* * * * *
114431789 GATTTAGTACAACTTTCATTTAAGTCATAAACTTTTTAATTTTATTAAATTACATGGTTGAATTT
1 GATTTAGCACAACTTCCATTTAAGCCATAAAC-TTTTAATTTTATTAAATTACATAGTTGAACTT
114431854 CTGA-TATTAAAAAA
65 CT-ATTATTAAAAAA
114431868 GTAAATCACT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 32 0.46
92 36 0.52
93 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (90 bp):
GATTTAGCACAACTTCCATTTAAGCCATAAACTTTTAATTTTATTAAATTACATAGTTGAACTTC
TATTATTAAAAAATAAGGATGATTG
Found at i:114435338 original size:23 final size:22
Alignment explanation
Indices: 114435302--114435346 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
114435292 CATTGACTCT
*
114435302 TATAAATATGGAAAGGATTAAAA
1 TATAAATATGGAAAAG-TTAAAA
114435325 TATAAATAAT-GAAAAGTTAAAA
1 TATAAAT-ATGGAAAAGTTAAAA
114435347 CATTCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 12 0.60
24 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (22 bp):
TATAAATATGGAAAAGTTAAAA
Found at i:114440730 original size:20 final size:20
Alignment explanation
Indices: 114440701--114440739 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
114440691 GGAGTAAATG
114440701 TGTTTAAAAT-TAGTTCTACA
1 TGTTTAAAATATA-TTCTACA
*
114440721 TGTTTTAAATATATTCTAC
1 TGTTTAAAATATATTCTAC
114440740 GTCATATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (20 bp):
TGTTTAAAATATATTCTACA
Found at i:114441063 original size:23 final size:24
Alignment explanation
Indices: 114441029--114441082 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
114441019 CAGCCACGTC
114441029 AATTTTTAATAGTAGAAATGGATG
1 AATTTTTAATAGTAGAAATGGATG
114441053 AATTTTT-ATAGTAGAAATGGATG
1 AATTTTTAATAGTAGAAATGGATG
114441076 AATTTTT
1 AATTTTT
114441083 TAACAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 23 0.77
24 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.43
Consensus pattern (24 bp):
AATTTTTAATAGTAGAAATGGATG
Found at i:114441092 original size:22 final size:23
Alignment explanation
Indices: 114441044--114441093 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
114441034 TTAATAGTAG
** *
114441044 AAATGGATGAATTTTTATAGTAG
1 AAATGGATGAATTTTTATAACAA
114441067 AAATGGATGAATTTTT-TAACAA
1 AAATGGATGAATTTTTATAACAA
114441089 AAATG
1 AAATG
114441094 ACTGATTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (23 bp):
AAATGGATGAATTTTTATAACAA
Found at i:114447304 original size:30 final size:31
Alignment explanation
Indices: 114447264--114447340 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
114447254 ATCTAAATTT
114447264 TTTAGTACTTAAACTTAACAATTTTTCTT-AA
1 TTTAG-ACTTAAACTTAACAATTTTTCTTAAA
* * *
114447295 TTTAGACTTAAAGTTGACACTTTTTCTTAAA
1 TTTAGACTTAAACTTAACAATTTTTCTTAAA
* *
114447326 TTGATACTTAAACTT
1 TTTAGACTTAAACTT
114447341 TTAAGAAATC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 20 0.51
31 19 0.49
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (31 bp):
TTTAGACTTAAACTTAACAATTTTTCTTAAA
Found at i:114453341 original size:15 final size:16
Alignment explanation
Indices: 114453321--114453351 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
114453311 AATTTATTTT
114453321 TATATTTGAT-TTAAA
1 TATATTTGATATTAAA
114453336 TATATTTGATATTAAA
1 TATATTTGATATTAAA
114453352 ATTTCAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TATATTTGATATTAAA
Found at i:114459293 original size:88 final size:88
Alignment explanation
Indices: 114459144--114459308 Score: 330
Period size: 88 Copynumber: 1.9 Consensus size: 88
114459134 GACAGAAGCT
114459144 GCAAAATCAAGCACAACAGAAAAATATTGAAGCTCAAGTGGCTGAAGATAGTAGTGACCATGAGG
1 GCAAAATCAAGCACAACAGAAAAATATTGAAGCTCAAGTGGCTGAAGATAGTAGTGACCATGAGG
114459209 AGCGGGTCTTTAGGCAGACCTAG
66 AGCGGGTCTTTAGGCAGACCTAG
114459232 GCAAAATCAAGCACAACAGAAAAATATTGAAGCTCAAGTGGCTGAAGATAGTAGTGACCATGAGG
1 GCAAAATCAAGCACAACAGAAAAATATTGAAGCTCAAGTGGCTGAAGATAGTAGTGACCATGAGG
114459297 AGCGGGTCTTTA
66 AGCGGGTCTTTA
114459309 CTGTGTCATG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.19
Consensus pattern (88 bp):
GCAAAATCAAGCACAACAGAAAAATATTGAAGCTCAAGTGGCTGAAGATAGTAGTGACCATGAGG
AGCGGGTCTTTAGGCAGACCTAG
Found at i:114463162 original size:16 final size:16
Alignment explanation
Indices: 114463126--114463167 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
114463116 CGGTTACAGA
*
114463126 TTATTTA-ATTTAATT
1 TTATTTATATTGAATT
*
114463141 TAATTTATATTGAATT
1 TTATTTATATTGAATT
114463157 TTATTTATATT
1 TTATTTATATT
114463168 TCATATGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATTTATATTGAATT
Found at i:114476170 original size:15 final size:15
Alignment explanation
Indices: 114476152--114476181 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114476142 AAATTTTAAT
*
114476152 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
114476167 TTTTTATAATTTATA
1 TTTTTATAATTTATA
114476182 AAGGATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:114476852 original size:13 final size:13
Alignment explanation
Indices: 114476834--114476858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114476824 ACTTGAATTT
114476834 AAAAAAATTGAAA
1 AAAAAAATTGAAA
114476847 AAAAAAATTGAA
1 AAAAAAATTGAA
114476859 GTGGAACGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAAAATTGAAA
Found at i:114477480 original size:26 final size:26
Alignment explanation
Indices: 114477431--114477482 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
114477421 AATTTTAATT
*
114477431 TAAAATTAATGATTTTTTAATAAAAAA
1 TAAAATAAATGATTTTTT-ATAAAAAA
114477458 TAAAATAATATGATTTTTT-TAAAAA
1 TAAAATAA-ATGATTTTTTATAAAAA
114477483 TGATTTAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 7 0.30
28 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
TAAAATAAATGATTTTTTATAAAAAA
Found at i:114479619 original size:31 final size:31
Alignment explanation
Indices: 114479562--114479628 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
114479552 ATTTTTTATC
* * *
114479562 CCTT-AATTTGATAATTAGGTTCATTTTGGT
1 CCTTGAATTTGACAATTAGATTCATTTTAGT
*
114479592 CTTTGAATTTGACAATTAGA-TCTATTTTAGT
1 CCTTGAATTTGACAATTAGATTC-ATTTTAGT
114479623 CCTTGA
1 CCTTGA
114479629 CTCGAATTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (31 bp):
CCTTGAATTTGACAATTAGATTCATTTTAGT
Found at i:114481537 original size:22 final size:22
Alignment explanation
Indices: 114481506--114481547 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
114481496 TAGAAAAAAG
114481506 TTTAATCAAAT-AAAAAATTAA
1 TTTAATCAAATCAAAAAATTAA
*
114481527 TTTAGATCAAATCAAATAATT
1 TTTA-ATCAAATCAAAAAATT
114481548 GAAGTGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTAATCAAATCAAAAAATTAA
Found at i:114487629 original size:18 final size:18
Alignment explanation
Indices: 114487598--114487632 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
114487588 ACAAAGATTT
114487598 TGTTTTTTTGAGTTTGAG
1 TGTTTTTTTGAGTTTGAG
114487616 TGTTTGTTTT-AGTTTGA
1 TGTTT-TTTTGAGTTTGA
114487633 AAGTGAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.11, C:0.00, G:0.26, T:0.63
Consensus pattern (18 bp):
TGTTTTTTTGAGTTTGAG
Found at i:114499938 original size:30 final size:30
Alignment explanation
Indices: 114499904--114499962 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
114499894 AAAGACTCTA
*
114499904 TGGCATGTCAATTATATCTAATTTAGTTTT
1 TGGCATGTCAACTATATCTAATTTAGTTTT
*
114499934 TGGCATGTCAACTATATCTGATTTAGTTT
1 TGGCATGTCAACTATATCTAATTTAGTTT
114499963 AACTTAGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (30 bp):
TGGCATGTCAACTATATCTAATTTAGTTTT
Found at i:114501032 original size:13 final size:13
Alignment explanation
Indices: 114501014--114501038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114501004 GAAAGATATC
114501014 TTTCTCTTTTATT
1 TTTCTCTTTTATT
114501027 TTTCTCTTTTAT
1 TTTCTCTTTTAT
114501039 ATATATATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTCTTTTATT
Found at i:114506289 original size:20 final size:21
Alignment explanation
Indices: 114506256--114506294 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
114506246 ATGGAATCAA
114506256 AAAAAATTCAAACTTTAATGC
1 AAAAAATTCAAACTTTAATGC
*
114506277 AAAAAATT-GAACTTTAAT
1 AAAAAATTCAAACTTTAAT
114506295 TGTAAATCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (21 bp):
AAAAAATTCAAACTTTAATGC
Found at i:114506706 original size:12 final size:12
Alignment explanation
Indices: 114506691--114506715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114506681 CCCAGCTTGC
114506691 GCCTCCGCCTCA
1 GCCTCCGCCTCA
114506703 GCCTCCGCCTCA
1 GCCTCCGCCTCA
114506715 G
1 G
114506716 GCCGGTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.56, G:0.20, T:0.16
Consensus pattern (12 bp):
GCCTCCGCCTCA
Found at i:114507984 original size:50 final size:51
Alignment explanation
Indices: 114507883--114508019 Score: 168
Period size: 50 Copynumber: 2.6 Consensus size: 51
114507873 TGGTACACTG
* * *
114507883 ATGGCCGGCACCAAACATGTAAAAAAAAAAGAATTTTTTGGGTGCTAGTCATGTA
1 ATGGCCGACACCAGATATGT-AAAAAAAAA-AA--TTTTGGGTGCTAGTCATGTA
* *
114507938 ATGGCCGACACCAGATATG-AAAAAAAAAAATTTTGGGTGCTGGTCATTTA
1 ATGGCCGACACCAGATATGTAAAAAAAAAAATTTTGGGTGCTAGTCATGTA
* *
114507988 ATGGCCGACACCAGCTATGTAAAAATAAAAAT
1 ATGGCCGACACCAGATATGTAAAAAAAAAAAT
114508020 AAAAATTTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 36 0.49
51 11 0.15
52 2 0.03
53 9 0.12
55 16 0.22
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.24
Consensus pattern (51 bp):
ATGGCCGACACCAGATATGTAAAAAAAAAAATTTTGGGTGCTAGTCATGTA
Found at i:114509874 original size:33 final size:32
Alignment explanation
Indices: 114509818--114509879 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
114509808 TTTAAAAAAA
114509818 AATATTTATATTATTTTTAATTTAATATTTAAT
1 AATATTTATATTATTTTTAATTTAA-ATTTAAT
114509851 AATATTATATATT-TTATTT-ATTTAAATTT
1 AATATT-TATATTATT-TTTAATTTAAATTT
114509880 TTATATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
32 4 0.15
33 14 0.52
34 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
AATATTTATATTATTTTTAATTTAAATTTAAT
Done.