Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 61 of 130
Found at i:12857691 original size:52 final size:54
Alignment explanation
Indices: 12857646--12857747 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
12857636 TTAAGTTATG
*
12857646 TTTTTGGTATATT-AAGAAAAAAGTTGAAATATCAAATTTTCCTTAAAAATAACT
1 TTTTTGGTAAATTAAAGAAAAAAGTTGAAATATCAAATTTTCCTT-AAAATAACT
** *
12857700 TTTTTTTTAAATTAAAGAAAAAA-TTGAAATATCAAATTTT-TTTAAAAT
1 TTTTTGGTAAATTAAAGAAAAAAGTTGAAATATCAAATTTTCCTTAAAAT
12857748 TTTGAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 5 0.12
53 2 0.05
54 27 0.63
55 9 0.21
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (54 bp):
TTTTTGGTAAATTAAAGAAAAAAGTTGAAATATCAAATTTTCCTTAAAATAACT
Found at i:12862515 original size:29 final size:29
Alignment explanation
Indices: 12862460--12862515 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
12862450 TCATTACATA
* * *
12862460 TTTTTCTTATTATCCTTATTTTTATATAT
1 TTTTTCATATTATCCTTATTCTCATATAT
12862489 TTTTTCATATT-TCACTTATTCTCATAT
1 TTTTTCATATTATC-CTTATTCTCATAT
12862516 TCGAAATACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTTCATATTATCCTTATTCTCATATAT
Found at i:12868016 original size:14 final size:14
Alignment explanation
Indices: 12867997--12868052 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
12867987 TCAATTAAAA
12867997 ATAAATATTTTATT
1 ATAAATATTTTATT
12868011 ATAAATATTTATAAATAT
1 ATAAATATTT-T--AT-T
* *
12868029 ATAATTTTTTTATT
1 ATAAATATTTTATT
12868043 ATAAATATTT
1 ATAAATATTT
12868053 ATTTTATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 19 0.56
15 3 0.09
17 3 0.09
18 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATAAATATTTTATT
Found at i:12868059 original size:18 final size:18
Alignment explanation
Indices: 12868002--12868060 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 18
12867992 TAAAAATAAA
12868002 TATTTTATTATAAATATT
1 TATTTTATTATAAATATT
* * *
12868020 TA--TAAATATATA-ATT
1 TATTTTATTATAAATATT
12868035 T-TTTTATTATAAATATT
1 TATTTTATTATAAATATT
12868052 TATTTTATT
1 TATTTTATT
12868061 TCAAATAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
15 4 0.13
16 14 0.45
17 4 0.13
18 9 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTATTATAAATATT
Found at i:12868252 original size:2 final size:2
Alignment explanation
Indices: 12868240--12868288 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
12868230 TATTAATGTG
* * * *
12868240 AT AT A- AT AT AT AT AT AC AT AT AT AT AT AT AT GT AT GT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12868281 AT AT AT AT
1 AT AT AT AT
12868289 TGCAGCATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12872241 original size:27 final size:27
Alignment explanation
Indices: 12872211--12872265 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
12872201 TGGTTATACA
*
12872211 TGCAAGATATGTATGCTTTCTTCGTAT
1 TGCAAGATATATATGCTTTCTTCGTAT
*
12872238 TGCAAGATATATATGCTTTCTTTGTAT
1 TGCAAGATATATATGCTTTCTTCGTAT
12872265 T
1 T
12872266 AGTGTTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (27 bp):
TGCAAGATATATATGCTTTCTTCGTAT
Found at i:12872643 original size:20 final size:20
Alignment explanation
Indices: 12872618--12872659 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12872608 TTTCTCTATG
12872618 TTTTTTCTATAACTTT-TTTT
1 TTTTTTCTATAA-TTTATTTT
*
12872638 TTTTTTTTATAATTTATTTT
1 TTTTTTCTATAATTTATTTT
12872658 TT
1 TT
12872660 CAAACTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTCTATAATTTATTTT
Found at i:12880491 original size:9 final size:9
Alignment explanation
Indices: 12880477--12880504 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12880467 AGACATTGGG
12880477 GTAGTTGAT
1 GTAGTTGAT
12880486 GTAGTTGAT
1 GTAGTTGAT
12880495 GTAGTTGAT
1 GTAGTTGAT
12880504 G
1 G
12880505 ATACGGTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (9 bp):
GTAGTTGAT
Found at i:12891018 original size:31 final size:31
Alignment explanation
Indices: 12890982--12891045 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
12890972 ATTTGGAAGC
12890982 CTAAGAGAAATCTTTGCAATCCTCATTGAGT
1 CTAAGAGAAATCTTTGCAATCCTCATTGAGT
12891013 CTAAGAGAAATCTTTGCAATCCTCATTGAGT
1 CTAAGAGAAATCTTTGCAATCCTCATTGAGT
12891044 CT
1 CT
12891046 TCCTTGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (31 bp):
CTAAGAGAAATCTTTGCAATCCTCATTGAGT
Found at i:12892023 original size:41 final size:41
Alignment explanation
Indices: 12891978--12892078 Score: 132
Period size: 41 Copynumber: 2.5 Consensus size: 41
12891968 AAAAGATTCA
12891978 CATTTGCATCACTAGCATCTGCATCATGAAAAAAATATTTG
1 CATTTGCATCACTAGCATCTGCATCATGAAAAAAATATTTG
** * *
12892019 CATTTGCATCACTAATATCTGCATCATGAGAAAGATATTTG
1 CATTTGCATCACTAGCATCTGCATCATGAAAAAAATATTTG
* *
12892060 TATTTACATCATCT-GCATC
1 CATTTGCATCA-CTAGCATC
12892079 CTAACCAAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 49 0.96
42 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.35
Consensus pattern (41 bp):
CATTTGCATCACTAGCATCTGCATCATGAAAAAAATATTTG
Found at i:12892238 original size:14 final size:14
Alignment explanation
Indices: 12892215--12892265 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
12892205 TATACATCAA
*
12892215 GCATTTGCATTCTT
1 GCATTCGCATTCTT
12892229 GCATTCGCA---TT
1 GCATTCGCATTCTT
*
12892240 GACATTTGCATTCTT
1 G-CATTCGCATTCTT
12892255 GCATTCGCATT
1 GCATTCGCATT
12892266 GACATTTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 3 0.10
12 7 0.23
14 17 0.57
15 3 0.10
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.43
Consensus pattern (14 bp):
GCATTCGCATTCTT
Found at i:12892245 original size:26 final size:26
Alignment explanation
Indices: 12892216--12892278 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
12892206 ATACATCAAG
12892216 CATTTGCATTCTTGCATTCGCATTGA
1 CATTTGCATTCTTGCATTCGCATTGA
12892242 CATTTGCATTCTTGCATTCGCATTGA
1 CATTTGCATTCTTGCATTCGCATTGA
12892268 CATTTGCATTC
1 CATTTGCATTC
12892279 ACATCGACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (26 bp):
CATTTGCATTCTTGCATTCGCATTGA
Found at i:12892276 original size:18 final size:18
Alignment explanation
Indices: 12892253--12892295 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12892243 ATTTGCATTC
* *
12892253 TTGCATTCGCATTGACAT
1 TTGCATTCACATCGACAT
12892271 TTGCATTCACATCGACAT
1 TTGCATTCACATCGACAT
12892289 TTGCATT
1 TTGCATT
12892296 TGTATCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (18 bp):
TTGCATTCACATCGACAT
Found at i:12892800 original size:49 final size:50
Alignment explanation
Indices: 12892646--12893563 Score: 289
Period size: 50 Copynumber: 17.6 Consensus size: 50
12892636 AAAACATTTT
* * * * * *
12892646 AGATTTTAAAATTTCAAA-ACTTTTCTTT-GAAAAGAGCCATTTTCACACA
1 AGATTTTAAAGTTTCAAAGCCTTTTGTTTAGGAGA-AGCCATTTTCAAACA
* ** * * *
12892695 TGATTTTAAAGTTTCAACTCCTTTTGTTTAGGATAAGCCATTTTTAGACA
1 AGATTTTAAAGTTTCAAAGCCTTTTGTTTAGGAGAAGCCATTTTCAAACA
* * *
12892745 AGATTTTAAAGTTTTAAAGCC-TTTGTTTTGGAGAAGTCATTTTCAAACA
1 AGATTTTAAAGTTTCAAAGCCTTTTGTTTAGGAGAAGCCATTTTCAAACA
* * * * * * *
12892794 AAATTTTTTTAAAAGTTTCAAA-ACATCTATTCAGGATG-AGCCATTTTCGAACA
1 AGA---TTTT-AAAGTTTCAAAGCCTTTTGTTTAGGA-GAAGCCATTTTCAAACA
* * * * * *
12892847 AGATTTTTAAAGTTTCAAAACC-TCTGTCTAAGAGGAGCCATTTTCAAATA
1 AGA-TTTTAAAGTTTCAAAGCCTTTTGTTTAGGAGAAGCCATTTTCAAACA
* * * ** *
12892897 AAATTTTTAAAATTTCAAAGCC-TTTATTCGGGATAAGCCATTTTCAAACA
1 AGA-TTTTAAAGTTTCAAAGCCTTTTGTTTAGGAGAAGCCATTTTCAAACA
* *
12892947 AGATTTTTTAAGAAAAAAGTTTCAAAGCC-TCTGTTTAGG-GAGAGCCATTTTTAAACA
1 AGA--TTTT------AAAGTTTCAAAGCCTTTTGTTTAGGAGA-AGCCATTTTCAAACA
* *
12893004 AGATTTTTAAAGTTTCAAAGCC-TGTATTTAGGATG-AGCCATTTTCAAACA
1 AGA-TTTTAAAGTTTCAAAGCCTTTTGTTTAGGA-GAAGCCATTTTCAAACA
* * * * *
12893054 AGATTTTTTTAAAAAAATTTCAAAG-CTTCTGCTTAAAGG-G-AGCTATTTTCAAATA
1 AGA---TTTT---AAAGTTTCAAAGCCTTTTG-TT-TAGGAGAAGCCATTTTCAAACA
* * * * * * *
12893109 AAATTTTTTTTAAAAAAAAGTTTTAAAGCC-TCTGTTTAGGGGGAGTCATTTTCAAATA
1 AGA----TTTT-----AAAGTTTCAAAGCCTTTTGTTTAGGAGAAGCCATTTTCAAACA
* * * **
12893167 AGAATTTTTTTTAAAGTTTTAAAG--TTTCTATTTAAGATG-AGCCATTTTCGGACA
1 AG-A----TTTTAAAGTTTCAAAGCCTTT-TGTTTAGGA-GAAGCCATTTTCAAACA
* * *
12893221 AGATTTTTAAAGTTTCAAAGCC-TCTATTTAGGA-AGAGCCATTTTCAAATA
1 AGA-TTTTAAAGTTTCAAAGCCTTTTGTTTAGGAGA-AGCCATTTTCAAACA
*
12893271 AGATTTTTTAAA-TTTCAGAA-CC-TATGTTTAGGATG-AGCCATTTTCAAACA
1 AGA--TTTTAAAGTTTCA-AAGCCTTTTGTTTAGGA-GAAGCCATTTTCAAACA
* * * * * *
12893321 AGATTTTTAAAATTTCAAAGCC-TCTATTT-GTGAGGAGCTATTTTCTAACAATA
1 AGA-TTTTAAAGTTTCAAAGCCTTTTGTTTAG-GAGAAGCCATTTTC--A-AACA
* * *
12893374 AGTTTTTAAAAAAGTTTCAAAGCC-TTTATTTAGGAGGAGCCATTTTCAAACA
1 AGATTTT---AAAGTTTCAAAGCCTTTTGTTTAGGAGAAGCCATTTTCAAACA
* * * * *
12893426 AGATTTTTTTAAAAAAAGTTTCAAAACC-TCTGTTTA-GAGGGAGTCATATTCAAACA
1 AGA---TTTT----AAAGTTTCAAAGCCTTTTGTTTAGGA-GAAGCCATTTTCAAACA
* * *
12893482 AGATTTTAAAAGTTTTAAAGCC-TCTGTTT-GGAAAAAGCCATTTTCAAACA
1 AGATTTT-AAAGTTTCAAAGCCTTTTGTTTAGG-AGAAGCCATTTTCAAACA
* *
12893532 AGAATTTTTAAAGTTTCAATG-CTTTTGATTAG
1 AG-A-TTTTAAAGTTTCAAAGCCTTTTGTTTAG
12893564 AGGAGCATTA
Statistics
Matches: 688, Mismatches: 113, Indels: 133
0.74 0.12 0.14
Matches are distributed among these distances:
49 53 0.08
50 280 0.41
51 42 0.06
52 26 0.04
53 44 0.06
54 33 0.05
55 68 0.10
56 59 0.09
57 42 0.06
58 31 0.05
59 10 0.01
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.38
Consensus pattern (50 bp):
AGATTTTAAAGTTTCAAAGCCTTTTGTTTAGGAGAAGCCATTTTCAAACA
Found at i:12893153 original size:58 final size:58
Alignment explanation
Indices: 12893012--12893181 Score: 186
Period size: 58 Copynumber: 3.0 Consensus size: 58
12893002 CAAGATTTTT
* * ** * * *
12893012 AAAGTTTCAAAGCCTGTATTTAGGATGAGCCATTTTCAAACAAGA-TTTTTTT-AAAA
1 AAAGTTTCAAAGCCTCTGTTTAGGGGGAGCTATTTTCAAATAAAATTTTTTTTAAAAA
* * **
12893068 AAA-TTTCAAAGCTTCTGCTTAAAGGGAGCTATTTTCAAATAAAATTTTTTTTAAAAA
1 AAAGTTTCAAAGCCTCTGTTTAGGGGGAGCTATTTTCAAATAAAATTTTTTTTAAAAA
*
12893125 AAAGTTTTAAAGCCTCTGTTTAGGGGGAG-TCATTTTCAAATAAGAATTTTTTTTAAA
1 AAAGTTTCAAAGCCTCTGTTTAGGGGGAGCT-ATTTTCAAATAA-AATTTTTTTTAAA
12893182 GTTTTAAAGT
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
55 30 0.32
56 10 0.11
57 8 0.09
58 32 0.34
59 13 0.14
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (58 bp):
AAAGTTTCAAAGCCTCTGTTTAGGGGGAGCTATTTTCAAATAAAATTTTTTTTAAAAA
Found at i:12893434 original size:317 final size:316
Alignment explanation
Indices: 12892782--12893550 Score: 777
Period size: 317 Copynumber: 2.4 Consensus size: 316
12892772 TTGGAGAAGT
* * * * * * *
12892782 CATTTTCAAACAAAATTTTTTT---AAAAGTTTCAAAACATCTATTCAG-GATGAGCCATTTTCG
1 CATTTTCAAACAAAATTTTTTTAAAAAAAGTTTCAAAACCTCTGTTTAGAG-GGAGTCATATTCA
* *** * * *
12892843 AACAAGA---TTTTTAAAGTTTCAAAACCTCTGTCTAAGAGGAGCCATTTTCAAATAAAATTTTT
65 AACAAGATTTTTTTTAAAGTTTTAAAGTTTCTATTTAAGAGGAGCCATTTTCAAACAAAATTTTT
* *
12892905 AAAATTTCAAAGCCTTTATTCGGGATAAGCCATTTTCAAACAAGATTTTTTAAGAAAAAAGTTTC
130 AAAATTTCAAAGCCTCTATTCAGGATAAGCCATTTTCAAACAAGATTTTTT-----AAAAGTTTC
* * * *
12892970 AAAGCCTCTGTTTAGGGAGAGCCATTTTTAAACAAGATTTTTAAAGTTTCAAAGCCTGTATTTAG
190 AAAGCCTATGTTTAGGGAGAGCCATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTATTTAG
* ** *
12893035 GATGAGCCATTTTCAAACAAGATTTTTTTAAAAAAATTTCAAAGCTTCTGCTTAAAGGGAGC
255 GAGGAGCCATTTTCAAACAAGAAGTTTTTAAAAAAATTTCAAAGCTTCTACTTAAAGGGAGC
* * * * * *
12893097 TATTTTCAAATAAAATTTTTTTTAAAAAAAAGTTTTAAAGCCTCTGTTTAGGGGGAGTCATTTTC
1 CATTTTCAAACAAAA-TTTTTTT-AAAAAAAGTTTCAAAACCTCTGTTTAGAGGGAGTCATATTC
* * ** *
12893162 AAATAAGAATTTTTTTTAAAGTTTTAAAGTTTCTATTTAAGATGAGCCATTTTCGGACAAGATTT
64 AAACAAG-ATTTTTTTTAAAGTTTTAAAGTTTCTATTTAAGAGGAGCCATTTTCAAACAAAATTT
* * *
12893227 TTAAAGTTTCAAAGCCTCTATTTAGGA-AGAGCCATTTTCAAATAAGATTTTTT-AAA-TTTCAG
128 TTAAAATTTCAAAGCCTCTATTCAGGATA-AGCCATTTTCAAACAAGATTTTTTAAAAGTTTCA-
12893289 AA-CCTATGTTTA-GGATGAGCCATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTATTT-G
191 AAGCCTATGTTTAGGGA-GAGCCATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTATTTAG
* * * * * *
12893351 TGAGGAGCTATTTTCTAACAATAAGTTTTTAAAAAAGTTTCAAAGCCTT-TA-TTTAGGAGGAGC
255 -GAGGAGCCATTTTCAAACAAGAAGTTTTTAAAAAAATTTCAAAG-CTTCTACTTAAAG-GGAGC
*
12893414 CATTTTCAAACAAGATTTTTTTAAAAAAAGTTTCAAAACCTCTGTTTAGAGGGAGTCATATTCAA
1 CATTTTCAAACAAAATTTTTTTAAAAAAAGTTTCAAAACCTCTGTTTAGAGGGAGTCATATTCAA
* ** * *
12893479 ACAAGA---TTTTAAAAGTTTTAAAGCCTCTGTTTGGAA-A-AAGCCATTTTCAAACAAGAATTT
66 ACAAGATTTTTTTTAAAGTTTTAAAGTTTCTATTT--AAGAGGAGCCATTTTCAAACAA-AATTT
*
12893539 TTAAAGTTTCAA
128 TTAAAATTTCAA
12893551 TGCTTTTGAT
Statistics
Matches: 378, Mismatches: 57, Indels: 41
0.79 0.12 0.09
Matches are distributed among these distances:
311 36 0.10
312 17 0.04
313 2 0.01
314 1 0.00
315 56 0.15
316 22 0.06
317 111 0.29
318 8 0.02
320 34 0.09
321 2 0.01
323 1 0.00
324 88 0.23
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (316 bp):
CATTTTCAAACAAAATTTTTTTAAAAAAAGTTTCAAAACCTCTGTTTAGAGGGAGTCATATTCAA
ACAAGATTTTTTTTAAAGTTTTAAAGTTTCTATTTAAGAGGAGCCATTTTCAAACAAAATTTTTA
AAATTTCAAAGCCTCTATTCAGGATAAGCCATTTTCAAACAAGATTTTTTAAAAGTTTCAAAGCC
TATGTTTAGGGAGAGCCATTTTCAAACAAGATTTTTAAAATTTCAAAGCCTCTATTTAGGAGGAG
CCATTTTCAAACAAGAAGTTTTTAAAAAAATTTCAAAGCTTCTACTTAAAGGGAGC
Found at i:12898973 original size:17 final size:18
Alignment explanation
Indices: 12898951--12898997 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
12898941 GTTTGGATTT
*
12898951 TTTTAATTTTTTCAAA-A
1 TTTTAATTTTTTAAAATA
*
12898968 TTTTAATTTGTTAAAATA
1 TTTTAATTTTTTAAAATA
*
12898986 TTTTTATTTTTT
1 TTTTAATTTTTT
12898998 TAGGTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTAATTTTTTAAAATA
Found at i:12900666 original size:18 final size:17
Alignment explanation
Indices: 12900646--12900691 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
12900636 TTTAAAACTT
12900646 TTTTAAAAATTAT-AATA
1 TTTTAAAAATTATGAA-A
*
12900663 TTTTAAAATTTATGAAAA
1 TTTTAAAAATTATG-AAA
12900681 TTTTAAAAATT
1 TTTTAAAAATT
12900692 CAAAAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 12 0.48
18 11 0.44
19 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTTAAAAATTATGAAA
Found at i:12900668 original size:17 final size:18
Alignment explanation
Indices: 12900646--12900691 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
12900636 TTTAAAACTT
*
12900646 TTTTAAAAATTAT-AATA
1 TTTTAAAAATTATGAAAA
*
12900663 TTTTAAAATTTATGAAAA
1 TTTTAAAAATTATGAAAA
12900681 TTTTAAAAATT
1 TTTTAAAAATT
12900692 CAAAAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTTAAAAATTATGAAAA
Found at i:12900698 original size:18 final size:17
Alignment explanation
Indices: 12900646--12900698 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
12900636 TTTAAAACTT
* *
12900646 TTTTAAAAATTATAATA
1 TTTTAAAAATTAAAAAA
* *
12900663 TTTTAAAATTTATGAAAA
1 TTTTAAAAATTA-AAAAA
12900681 TTTTAAAAATTCAAAAAA
1 TTTTAAAAATT-AAAAAA
12900699 ATCTAATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 11 0.38
18 17 0.59
19 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTTAAAAATTAAAAAA
Found at i:12900759 original size:28 final size:28
Alignment explanation
Indices: 12900685--12900764 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
12900675 TGAAAATTTT
*
12900685 AAAAATTCAAAAAAATCTAATAATTTTAAA
1 AAAAAATCAAAAAAA-CTAA-AATTTTAAA
* * * *
12900715 AAACAATTATAAGAACTAAAATTTTAAA
1 AAAAAATCAAAAAAACTAAAATTTTAAA
*
12900743 AAAAAATCACAAAAACTTAAAA
1 AAAAAATCAAAAAAAC-TAAAA
12900765 AACTAAAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 21 0.52
29 9 0.22
30 10 0.25
ACGTcount: A:0.65, C:0.09, G:0.01, T:0.25
Consensus pattern (28 bp):
AAAAAATCAAAAAAACTAAAATTTTAAA
Found at i:12900806 original size:20 final size:21
Alignment explanation
Indices: 12900777--12900841 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
12900767 CTAAAATTTA
*
12900777 AAAAAAATCT-AAAATTTTTT
1 AAAAATATCTAAAAATTTTTT
*
12900797 GAAAATATCTAAAAATTTTTT
1 AAAAATATCTAAAAATTTTTT
* * *
12900818 AAAAATTTCTCACAA-TTTTT
1 AAAAATATCTAAAAATTTTTT
12900838 AAAA
1 AAAA
12900842 TTTTTTGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 17 0.45
21 21 0.55
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAATATCTAAAAATTTTTT
Found at i:12900919 original size:18 final size:18
Alignment explanation
Indices: 12900896--12900935 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12900886 AAAAAAAATG
*
12900896 AAAATTTTCATAATTTTT
1 AAAATTTTCAGAATTTTT
* *
12900914 AAAATTTTTAGATTTTTT
1 AAAATTTTCAGAATTTTT
12900932 AAAA
1 AAAA
12900936 AAATTTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
AAAATTTTCAGAATTTTT
Found at i:12900952 original size:21 final size:20
Alignment explanation
Indices: 12900914--12900951 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12900904 CATAATTTTT
*
12900914 AAAATTTTTAGATTTTTTAA
1 AAAAATTTTAGATTTTTTAA
12900934 AAAAATTTTAGATTTTTT
1 AAAAATTTTAGATTTTTT
12900952 TTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
AAAAATTTTAGATTTTTTAA
Found at i:12901174 original size:22 final size:20
Alignment explanation
Indices: 12901128--12901165 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12901118 TTTTTTTATA
* *
12901128 ATTTTTTAAAAATATTTTAG
1 ATTTTTTAAAAAAATTTAAG
12901148 ATTTTTTAAAAAAATTTA
1 ATTTTTTAAAAAAATTTA
12901166 CAAGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTTTTAAAAAAATTTAAG
Found at i:12902573 original size:14 final size:14
Alignment explanation
Indices: 12902550--12902580 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12902540 TTTTCTTTTT
*
12902550 AAATATATTTTATA
1 AAATACATTTTATA
12902564 AAATACATTTTATA
1 AAATACATTTTATA
12902578 AAA
1 AAA
12902581 AAAGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATACATTTTATA
Found at i:12902739 original size:31 final size:32
Alignment explanation
Indices: 12902673--12902775 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
12902663 TCTATTTTTG
* * *
12902673 AAAATGATCTAAAAATTTTTACATAATATT-AT
1 AAAATGATATAAAAATTTTTACTTAAT-TTCTT
* * *
12902705 AAAATGATAT-AGAGTTTTTATTTAATTTCTT
1 AAAATGATATAAAAATTTTTACTTAATTTCTT
** *
12902736 AAAACAATATAAAAATTTTTACTTAATTTTTT
1 AAAATGATATAAAAATTTTTACTTAATTTCTT
12902768 AAAATGAT
1 AAAATGAT
12902776 CTGTAATTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
30 2 0.04
31 21 0.38
32 32 0.58
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (32 bp):
AAAATGATATAAAAATTTTTACTTAATTTCTT
Found at i:12903058 original size:32 final size:30
Alignment explanation
Indices: 12903021--12903091 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 30
12903011 TAAAGATATT
12903021 TAATATTTTAAAATATAT-ATTTATGTAG-AAAA
1 TAATATTTT--AAT-TATGATTTATG-AGTAAAA
*
12903053 TAATATTTTTATTATGATTTATGAGTAAAA
1 TAATATTTTAATTATGATTTATGAGTAAAA
12903083 TAATATTTT
1 TAATATTTT
12903092 TAATAGAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 5 0.14
30 22 0.61
32 9 0.25
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (30 bp):
TAATATTTTAATTATGATTTATGAGTAAAA
Found at i:12903947 original size:25 final size:25
Alignment explanation
Indices: 12903918--12903967 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
12903908 GTTGTATACA
12903918 ATAAAAATTTAAATTATTTAAATTT
1 ATAAAAATTTAAATTATTTAAATTT
** **
12903943 ATAAATTTTTTTATTATTTAAATTT
1 ATAAAAATTTAAATTATTTAAATTT
12903968 TATTAATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATAAAAATTTAAATTATTTAAATTT
Found at i:12904024 original size:27 final size:29
Alignment explanation
Indices: 12903993--12904056 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 29
12903983 AAATTTATTC
*
12903993 AAATTATTTATT-ACTATTTTAAA-TAAT
1 AAATTATTTATTCACTATATTAAATTAAT
12904020 AAA-T-TTTATTCACTATATTAAATTAAT
1 AAATTATTTATTCACTATATTAAATTAAT
12904047 AAAGTTATTT
1 AAA-TTATTT
12904057 TATAATTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 6 0.19
26 11 0.35
27 10 0.32
29 1 0.03
30 3 0.10
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (29 bp):
AAATTATTTATTCACTATATTAAATTAAT
Found at i:12904570 original size:22 final size:20
Alignment explanation
Indices: 12904526--12904574 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
12904516 CAATCAATTA
*
12904526 AATAATT-AATTATTATATC
1 AATAATTAAATTATAATATC
12904545 -ATAATTAAATTATAATTATTC
1 AATAATTAAATTATAA-TA-TC
12904566 AATAATTAA
1 AATAATTAA
12904575 CAAACAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.24
19 7 0.28
20 2 0.08
21 2 0.08
22 8 0.32
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATTAAATTATAATATC
Found at i:12905316 original size:35 final size:35
Alignment explanation
Indices: 12905277--12905346 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
12905267 CCTAATAATT
12905277 AAATTAGATAATATGAATAAAAATAATTGGTTTTA
1 AAATTAGATAATATGAATAAAAATAATTGGTTTTA
12905312 AAATTAGATAATATGAATAAAAATAATTGGTTTTA
1 AAATTAGATAATATGAATAAAAATAATTGGTTTTA
12905347 TTAACACTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (35 bp):
AAATTAGATAATATGAATAAAAATAATTGGTTTTA
Found at i:12907449 original size:23 final size:24
Alignment explanation
Indices: 12907398--12907450 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
12907388 TAATTATGAA
* *
12907398 TACATGTCAAAATTTTAAATTATC
1 TACATGTCAAAATTATAAACTATC
* *
12907422 CACATGTCAAAA-TATAAACTATT
1 TACATGTCAAAATTATAAACTATC
12907445 TACATG
1 TACATG
12907451 AAATTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (24 bp):
TACATGTCAAAATTATAAACTATC
Found at i:12913673 original size:21 final size:19
Alignment explanation
Indices: 12913619--12913676 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
12913609 TTTTTATGTT
12913619 ATATAATAATTTTATTAATA
1 ATATAATAA-TTTATTAATA
12913639 A-ATAATTAAAATTTATTATATA
1 ATATAA-T--AATTTATTA-ATA
12913661 ATATAATATATTTATT
1 ATATAATA-ATTTATT
12913677 TATTATTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 14 0.44
22 7 0.22
23 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATAATAATTTATTAATA
Found at i:12915117 original size:13 final size:11
Alignment explanation
Indices: 12915071--12915138 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 11
12915061 TTTTATCAAA
12915071 TTTATATATGAT
1 TTTATATAT-AT
12915083 TTTAT-TATAATT
1 TTTATATAT-A-T
12915095 TTTAATTATATCATT
1 TTT-A-TATAT-A-T
12915110 TTTATATATAT
1 TTTATATATAT
12915121 TTTATAT-TAT
1 TTTATATATAT
*
12915131 TTCATATA
1 TTTATATA
12915139 ATATCTTAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
10 9 0.19
11 12 0.25
12 10 0.21
13 6 0.12
14 2 0.04
15 9 0.19
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (11 bp):
TTTATATATAT
Found at i:12915129 original size:27 final size:24
Alignment explanation
Indices: 12915087--12915135 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
12915077 TATGATTTTA
12915087 TTATAATTTTTAATTATATCATTT
1 TTATAATTTTTAATTATATCATTT
*
12915111 TTATATATATTTTATATTATTTCAT
1 TTATA-AT-TTTTA-ATTATATCAT
12915136 ATAATATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 5 0.24
27 9 0.43
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATAATTTTTAATTATATCATTT
Found at i:12915143 original size:37 final size:39
Alignment explanation
Indices: 12915071--12915143 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 39
12915061 TTTTATCAAA
* *
12915071 TTTATATATGATTTTATTATAATTTTTAATTATATCATT
1 TTTATATATGATTTTATTATAATTTATAATAATATCATT
*
12915110 TTTATATAT-ATTTTA-TATTATTTCAT-ATAATATC
1 TTTATATATGATTTTATTATAATTT-ATAATAATATC
12915144 TTAGGTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
37 14 0.47
38 7 0.23
39 9 0.30
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (39 bp):
TTTATATATGATTTTATTATAATTTATAATAATATCATT
Found at i:12915607 original size:13 final size:14
Alignment explanation
Indices: 12915584--12915610 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12915574 CTGGTGTACA
12915584 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
12915598 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
12915611 CAAGCATTTT
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:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:12918061 original size:31 final size:32
Alignment explanation
Indices: 12918012--12918082 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
12918002 ATTACTTACG
* * * *
12918012 AATTATTGGAATGTATATAAAACTATAATTGA
1 AATTATTAGAATATATATAAAACTACAATTAA
*
12918044 AA-TATTAGAATATATATAGAACTACAATTAA
1 AATTATTAGAATATATATAAAACTACAATTAA
12918075 AATTATTA
1 AATTATTA
12918083 TTTATGTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (32 bp):
AATTATTAGAATATATATAAAACTACAATTAA
Found at i:12928500 original size:13 final size:13
Alignment explanation
Indices: 12928482--12928531 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
12928472 TGATTTTTGC
12928482 TTCTAAATAAGCA
1 TTCTAAATAAGCA
12928495 TTCTAAATAAGC-
1 TTCTAAATAAGCA
12928507 TTCTAAATAAGCA
1 TTCTAAATAAGCA
12928520 TTCTAAATAAGC
1 TTCTAAATAAGC
12928532 TTTTAGGTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.33
13 24 0.67
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TTCTAAATAAGCA
Found at i:12928508 original size:25 final size:25
Alignment explanation
Indices: 12928480--12928533 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
12928470 TTTGATTTTT
12928480 GCTTCTAAATAAGCATTCTAAATAA
1 GCTTCTAAATAAGCATTCTAAATAA
12928505 GCTTCTAAATAAGCATTCTAAATAA
1 GCTTCTAAATAAGCATTCTAAATAA
12928530 GCTT
1 GCTT
12928534 TTAGGTCCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (25 bp):
GCTTCTAAATAAGCATTCTAAATAA
Found at i:12930003 original size:145 final size:144
Alignment explanation
Indices: 12929708--12930047 Score: 437
Period size: 145 Copynumber: 2.4 Consensus size: 144
12929698 TAAAACACTA
* * * * **
12929708 AAAATCATGAGATATTATAAAATTGAGATATAAAAAATTTCATGAAAATCCGAGCTCAAGAAGGT
1 AAAATCATGAAATATTATAAAATTAAGATATAAAGAGTTTCATGAAAATCCGAGCTCAAGAAGAC
* * * * * *
12929773 CAGATGACGAAAATACCCTTATAGGGTATTTTGGTAATTTCATACTTTTTGAGGTAATGCTGTGA
66 CAAATGACAAAAATAACCTTATAGGGTATTTTGGTAATTTCACACTTTTCGAGGTAATGCTATGA
*
12929838 TTTCAAATGCACAT
131 TTTCAAATGCACAG
* ** ** * *
12929852 AAAATCATGAAATATTATAAAATTAAGATCTGGAGAGTTTCATGAAAATTTGTGCTCAGGAAGAC
1 AAAATCATGAAATATTATAAAATTAAGATATAAAGAGTTTCATGAAAATCCGAGCTCAAGAAGAC
* * * *
12929917 CAAATTACAAAAATAATCTTATAAGGGTATTTTGGTAATTTTACACTTTTCGAGGTACTGCTATG
66 CAAATGACAAAAATAACCTTAT-AGGGTATTTTGGTAATTTCACACTTTTCGAGGTAATGCTATG
*
12929982 ATTTCAAATGCACCG
130 ATTTCAAATGCACAG
*
12929997 AAAATCATGAAATTTTATAAAATTAAGATATAAAGAGTTTCATGAAAATCC
1 AAAATCATGAAATATTATAAAATTAAGATATAAAGAGTTTCATGAAAATCC
12930048 AAGTTTGAAA
Statistics
Matches: 164, Mismatches: 31, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
144 69 0.42
145 95 0.58
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (144 bp):
AAAATCATGAAATATTATAAAATTAAGATATAAAGAGTTTCATGAAAATCCGAGCTCAAGAAGAC
CAAATGACAAAAATAACCTTATAGGGTATTTTGGTAATTTCACACTTTTCGAGGTAATGCTATGA
TTTCAAATGCACAG
Found at i:12930065 original size:145 final size:144
Alignment explanation
Indices: 12929708--12930087 Score: 417
Period size: 145 Copynumber: 2.6 Consensus size: 144
12929698 TAAAACACTA
* * * * *
12929708 AAAATCATGAGATATTATAAAATTGAGATATAAAAAATTTCATGAAAATCCGAG-CTCAAGAAGG
1 AAAATCATGAAATATTATAAAATTAAGATATAAAGAGTTTCATGAAAATCCAAGTCTCAA-AAGG
* * * * * * * *
12929772 TCAGATGACGAAAATACCCTTATAGGGTATTTTGGTAATTTCATACTTTTTGAGGTAATGCTGTG
65 CCAAATTACAAAAATAACCTTATAGGGTATTTTGGTAATTTCACACTTTTCGAGGTAATGCTATG
*
12929837 ATTTCAAATGCACAT
130 ATTTCAAATGCACAG
* ** ** *
12929852 AAAATCATGAAATATTATAAAATTAAGATCTGGAGAGTTTCATGAAAAT--TTGTGCTCAGGAAG
1 AAAATCATGAAATATTATAAAATTAAGATATAAAGAGTTTCATGAAAATCCAAGT-CTCA-AAAG
* * * *
12929915 ACCAAATTACAAAAATAATCTTATAAGGGTATTTTGGTAATTTTACACTTTTCGAGGTACTGCTA
64 GCCAAATTACAAAAATAACCTTAT-AGGGTATTTTGGTAATTTCACACTTTTCGAGGTAATGCTA
*
12929980 TGATTTCAAATGCACCG
128 TGATTTCAAATGCACAG
* * *
12929997 AAAATCATGAAATTTTATAAAATTAAGATATAAAGAGTTTCATGAAAATCCAAGTTTGAAAAGGC
1 AAAATCATGAAATATTATAAAATTAAGATATAAAGAGTTTCATGAAAATCCAAGTCTCAAAAGGC
**
12930062 CAAATTATGAAAAT-ACCTTTATAGGG
66 CAAATTACAAAAATAACC-TTATAGGG
12930088 AGGTACTTTA
Statistics
Matches: 192, Mismatches: 37, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
142 1 0.01
144 72 0.38
145 115 0.60
146 2 0.01
147 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (144 bp):
AAAATCATGAAATATTATAAAATTAAGATATAAAGAGTTTCATGAAAATCCAAGTCTCAAAAGGC
CAAATTACAAAAATAACCTTATAGGGTATTTTGGTAATTTCACACTTTTCGAGGTAATGCTATGA
TTTCAAATGCACAG
Found at i:12930680 original size:37 final size:37
Alignment explanation
Indices: 12930600--12930705 Score: 115
Period size: 37 Copynumber: 2.9 Consensus size: 37
12930590 GTAAATGGTT
* * **
12930600 TCCCCC-AAATAGAGGTTTTAAAACTTTGAAAACGGT
1 TCCCCCTAAACAGAGGTTTTGAAACTTTGAAAACGAC
* *
12930636 TCCCCCTACACAGAGGTTTTGAAACTTTGAAAATGAC
1 TCCCCCTAAACAGAGGTTTTGAAACTTTGAAAACGAC
* * * *
12930673 TCGCCCTAAATAGAGGCTTTGAAACTTTTAAAA
1 TCCCCCTAAACAGAGGTTTTGAAACTTTGAAAA
12930706 ATAAAATCTT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
36 6 0.10
37 52 0.90
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (37 bp):
TCCCCCTAAACAGAGGTTTTGAAACTTTGAAAACGAC
Found at i:12930833 original size:38 final size:37
Alignment explanation
Indices: 12930730--12930874 Score: 159
Period size: 37 Copynumber: 3.9 Consensus size: 37
12930720 GAAAATTCCT
* * *
12930730 CCCTCTAAATAGAGG-TTTCGAAACTTTGAAAATGGCTC
1 CCCT-TAAATAGAGGCTTT-GAAATTTTAAAAATGGTTC
* * *
12930768 CCTTTAAACAGAGGCTTTGAAACTTTAAAAATGGTTC
1 CCCTTAAATAGAGGCTTTGAAATTTTAAAAATGGTTC
*
12930805 CCCTTAAATAGAGACTTTGAAAGTTTTAAAAATGGTTC
1 CCCTTAAATAGAGGCTTTGAAA-TTTTAAAAATGGTTC
* *
12930843 CTCTTAAAT-GAGGTTTTGAAACTTTTAAAAAT
1 CCCTTAAATAGAGGCTTTGAAA-TTTTAAAAAT
12930875 CTTGTTTGAA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
37 65 0.70
38 28 0.30
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (37 bp):
CCCTTAAATAGAGGCTTTGAAATTTTAAAAATGGTTC
Found at i:12943654 original size:245 final size:240
Alignment explanation
Indices: 12943357--12943810 Score: 567
Period size: 240 Copynumber: 1.9 Consensus size: 240
12943347 TTTATTTATT
* *
12943357 TTTTAATTTTTAAAAGTCATGTAATAATATAATTATCTACAAATACATTTATTTCCAAAAAAACA
1 TTTTAATTTTTAAAAGTCATGTAATAATATAATTATCTACAAACAAATTTATTTCCAAAAAAACA
* * *
12943422 TATTCTT-ATTTATTAAAAAAACTGT-TCAAATTAAAGAAAATAATTATAAAATAGAAAATTTTT
66 TATT-TTCATATA-AAAAAAAACT-TCTCAAATT-AAG--AATAATGATAAAATA-AAAATTTTT
* * * *
12943485 -GTATTGAAAAGAAACTTCTAGATATTCTAATACTTCGACAACTTTTAGAAGACTTTTCTCACTT
124 CATATTGAAAAGAAACTTCTAAATATTC-AATACTTCAACAACTTTTAGAAGACTTTTCTCACCT
*
12943549 AAG-AAATTCTCAGGAATCACTATTTAGACTTCTCGAAGTCTCATCATCAAAAA
188 -AGTAAATTCTCAAGAATCACTATTTAGACTTCTCGAAGTCTCATCATCAAAAA
* * * ****
12943602 TTTTATTTCTTTAAAA-TCATGTAATAATATTATTATCTATAAACAAATTTATTTCCAAAAGTGT
1 TTTTAATT-TTTAAAAGTCATGTAATAATATAATTATCTACAAACAAATTTATTTCCAAAAAAAC
* * *
12943666 GTCTTTTCATATAAAAAAAAACTTCTCGAATTAAGAATAATGATAAAATAAAAATTTTTCATATT
65 ATATTTTCATATAAAAAAAAACTTCTCAAATTAAGAATAATGATAAAATAAAAATTTTTCATATT
* * * *
12943731 GAAAAGAAACTTCTAAATATTCAATACTTTAACAATTTTTAGAAGACTTTTCTTACCTAGTAGAT
130 GAAAAGAAACTTCTAAATATTCAATACTTCAACAACTTTTAGAAGACTTTTCTCACCTAGTAAAT
12943796 TCTCAAGAATCACTA
195 TCTCAAGAATCACTA
12943811 CTCGGACTTT
Statistics
Matches: 180, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
239 2 0.01
240 57 0.32
241 39 0.22
243 4 0.02
244 17 0.09
245 54 0.30
246 7 0.04
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.38
Consensus pattern (240 bp):
TTTTAATTTTTAAAAGTCATGTAATAATATAATTATCTACAAACAAATTTATTTCCAAAAAAACA
TATTTTCATATAAAAAAAAACTTCTCAAATTAAGAATAATGATAAAATAAAAATTTTTCATATTG
AAAAGAAACTTCTAAATATTCAATACTTCAACAACTTTTAGAAGACTTTTCTCACCTAGTAAATT
CTCAAGAATCACTATTTAGACTTCTCGAAGTCTCATCATCAAAAA
Found at i:12946287 original size:142 final size:145
Alignment explanation
Indices: 12945968--12946346 Score: 442
Period size: 142 Copynumber: 2.6 Consensus size: 145
12945958 TCATTTTTGG
* * * ** *
12945968 GATTTTAAA-ACATCAAAAATCATGAAATATAAAAAAATTAAGATATGAAAAGTTTCATGAAAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAAT
* * * * *
12946032 CTGAGCTTAGGAAGGCCAAATTACAAAAATACCCTAATAATGATATTTTGGTAATTTAATACTTT
66 CTGAGCTCAAGAAGGCCAAATTACAAAAATACCATAATAAGGATATTTTAGTAATTTAATACTTT
* *
12946097 TTAGGGTACTGTTGT
131 TTAGGGTACTGCTAT
* * * * * * *
12946112 AATTTTAAATGCACCAAAATTTATGAAATATTATGAAATTAAAATCTGCAAAGTTTCGTGAGAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAAT
* * ** * * * * *
12946177 TTGACCTCAAGAAGGCCAAATTA-TGAAATGCCATTATAGGGGTATTTTAGTAATTTCATA-TTT
66 CTGAGCTCAAGAAGGCCAAATTACAAAAATACCATAATAAGGATATTTTAGTAATTTAATACTTT
12946240 TTA-GGTACTGCTAT
131 TTAGGGTACTGCTAT
*
12946254 GATTTTAAATGCACCAAAAATCATGAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAAT
* *
12946319 CTAAGCTCGAGAAGGCCAAATTACAAAA
66 CTGAGCTCAAGAAGGCCAAATTACAAAA
12946347 CTAATCTTAT
Statistics
Matches: 190, Mismatches: 43, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
142 85 0.45
143 8 0.04
144 35 0.18
145 62 0.33
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.32
Consensus pattern (145 bp):
GATTTTAAATGCACCAAAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAAT
CTGAGCTCAAGAAGGCCAAATTACAAAAATACCATAATAAGGATATTTTAGTAATTTAATACTTT
TTAGGGTACTGCTAT
Found at i:12949912 original size:77 final size:77
Alignment explanation
Indices: 12949779--12949932 Score: 200
Period size: 77 Copynumber: 2.0 Consensus size: 77
12949769 TGTTGTCATT
* * * * ** * *
12949779 TTGTTAAATAGCAAATTTACTCTTCTGATGTTATCATTTTGTTGAATAGCTATTGATGTTCTCAT
1 TTGTTAAATAACAAACTTACTCCTCTAATGTTATCATTTCATTAAATAGCTATTGATGTTATCAT
12949844 TTTATTAAATAG
66 TTTATTAAATAG
* * *
12949856 TTGTTAAATAACAAACTTACTCCTCTAATGTTATCATTTCATTAAATAGTTGTTGATGTTATTAT
1 TTGTTAAATAACAAACTTACTCCTCTAATGTTATCATTTCATTAAATAGCTATTGATGTTATCAT
*
12949921 TTTGTTAAATAG
66 TTTATTAAATAG
12949933 CTATTGATGT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
77 65 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (77 bp):
TTGTTAAATAACAAACTTACTCCTCTAATGTTATCATTTCATTAAATAGCTATTGATGTTATCAT
TTTATTAAATAG
Found at i:12949951 original size:28 final size:28
Alignment explanation
Indices: 12949883--12949956 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
12949873 TACTCCTCTA
* * * *
12949883 ATGTTATCATTTCATTAAATAGTTGTTG
1 ATGTTATTATTTTATTAAATAGCTATTG
*
12949911 ATGTTATTATTTTGTTAAATAGCTATTG
1 ATGTTATTATTTTATTAAATAGCTATTG
*
12949939 ATGTT-CTATTTTTATTAA
1 ATGTTATTA-TTTTATTAA
12949957 CAAAAACTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.54
Consensus pattern (28 bp):
ATGTTATTATTTTATTAAATAGCTATTG
Found at i:12951084 original size:17 final size:17
Alignment explanation
Indices: 12951064--12951097 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12951054 TTTTATTCAC
12951064 CTTTTATATTTAATTTA
1 CTTTTATATTTAATTTA
*
12951081 CTTTTATATTTCATTTA
1 CTTTTATATTTAATTTA
12951098 GGGTTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
CTTTTATATTTAATTTA
Found at i:12956536 original size:22 final size:22
Alignment explanation
Indices: 12956508--12956551 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12956498 CTAAATCTTC
*
12956508 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12956530 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12956552 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12964076 original size:21 final size:22
Alignment explanation
Indices: 12964040--12964081 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
12964030 TGTGATTTTC
12964040 TTTTAATTTCATCATTGAAAAG
1 TTTTAATTTCATCATTGAAAAG
* *
12964062 TTTTTATTT-ATCATTTAAAA
1 TTTTAATTTCATCATTGAAAA
12964082 TATTACATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTAATTTCATCATTGAAAAG
Found at i:12964440 original size:25 final size:24
Alignment explanation
Indices: 12964399--12964453 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
12964389 TTGAATAATC
12964399 AAAATAAACTAAAAAATGTA-AAAT
1 AAAATAAACTAAAAAAT-TATAAAT
12964423 AAAATTAAA-TAAATAAATTATAAAT
1 AAAA-TAAACTAAA-AAATTATAAAT
*
12964448 ATAATA
1 AAAATA
12964454 CCCATAGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAATAAACTAAAAAATTATAAAT
Found at i:12974395 original size:21 final size:22
Alignment explanation
Indices: 12974354--12974396 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
12974344 ATAAAGATTT
12974354 AAATTCAAACTTTTGGAAAAAC
1 AAATTCAAACTTTTGGAAAAAC
*
12974376 AAATTCAAACTTTTGAAAAAA
1 AAATTCAAACTTTTGGAAAAA
12974397 ATATCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (22 bp):
AAATTCAAACTTTTGGAAAAAC
Found at i:12975389 original size:19 final size:20
Alignment explanation
Indices: 12975351--12975396 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
12975341 TTAAAAAAAA
* *
12975351 ATTTCAAAAATATTTATATT
1 ATTTGAAAAAAATTTATATT
*
12975371 TTTTGAAAAAAATTT-TATT
1 ATTTGAAAAAAATTTATATT
12975390 ATTTGAA
1 ATTTGAA
12975397 TGAGTTAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (20 bp):
ATTTGAAAAAAATTTATATT
Found at i:12975518 original size:25 final size:26
Alignment explanation
Indices: 12975480--12975536 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
12975470 AACTATAAAA
12975480 ATATTAAAATTATTTATTATTAAAGT
1 ATATTAAAATTATTTATTATTAAAGT
* *
12975506 ATATTGAAA-TATTTATTATTAAAAT
1 ATATTAAAATTATTTATTATTAAAGT
12975531 -TATTAA
1 ATATTAA
12975537 TATTCAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.18
25 15 0.54
26 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
ATATTAAAATTATTTATTATTAAAGT
Found at i:12975553 original size:20 final size:19
Alignment explanation
Indices: 12975519--12975595 Score: 74
Period size: 19 Copynumber: 4.2 Consensus size: 19
12975509 TTGAAATATT
*
12975519 TATTATTAA-AATTATTAA
1 TATTAATAATAATTATTAA
12975537 TATTCAATAATAATTA-TAA
1 TATT-AATAATAATTATTAA
12975556 T-TTAATAATAA-TATTTAA
1 TATTAATAATAATTA-TTAA
*
12975574 TATTAA-AATATTATATTAA
1 TATTAATAATAAT-TATTAA
12975593 TAT
1 TAT
12975596 AAACTACTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
16 2 0.04
17 8 0.16
18 14 0.28
19 19 0.38
20 7 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTAATAATAATTATTAA
Found at i:12975562 original size:17 final size:18
Alignment explanation
Indices: 12975519--12975588 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
12975509 TTGAAATATT
*
12975519 TATTATTAA-AATTATTAA
1 TATTAATAATAATTA-TAA
12975537 TATTCAATAATAATTATAA
1 TATT-AATAATAATTATAA
*
12975556 T-TTAATAATAATATTTAA
1 TATTAATAATAAT-TATAA
12975574 TATTAA-AAT-ATTATA
1 TATTAATAATAATTATA
12975589 TTAATATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 3 0.07
17 11 0.24
18 14 0.31
19 12 0.27
20 5 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAATAATAATTATAA
Found at i:12975900 original size:17 final size:17
Alignment explanation
Indices: 12975862--12975901 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
12975852 AATCTAAAAA
12975862 ATTATTAAAAAATAATC
1 ATTATTAAAAAATAATC
12975879 A-TATTAAGAAAATAAT-
1 ATTATTAA-AAAATAATC
12975895 ATTATTA
1 ATTATTA
12975902 TATTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTATTAAAAAATAATC
Found at i:12976912 original size:22 final size:21
Alignment explanation
Indices: 12976879--12976926 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
12976869 TAACATTCGT
*
12976879 TAAATAACATTAAAATATTCA
1 TAAATAAAATTAAAATATTCA
*
12976900 TAAATTAAAATTAAATTATT-A
1 TAAA-TAAAATTAAAATATTCA
12976921 -AAATAA
1 TAAATAA
12976927 TAAGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
21 5 0.21
22 13 0.54
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATAAAATTAAAATATTCA
Found at i:12976960 original size:19 final size:18
Alignment explanation
Indices: 12976941--12977003 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
12976931 TAATATTTTA
12976941 ATATTATTAAAATATATT
1 ATATTATTAAAATATATT
* *
12976959 AAATATTACTAAATTAATATT
1 --ATATTATTAAAAT-ATATT
*
12976980 -TATTATAAAAATATTATT
1 ATATTATTAAAATA-TATT
12976998 ATATTA
1 ATATTA
12977004 ATATTTAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.37
19 5 0.14
20 11 0.31
21 5 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATTATTAAAATATATT
Found at i:12976974 original size:28 final size:27
Alignment explanation
Indices: 12976911--12976974 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
12976901 AAATTAAAAT
*
12976911 TAAATTATTAAAATAATAAGTAATATTT
1 TAAATTATTAAAATAATAAG-AATATTC
*
12976939 TAATATTATTAAAATATATTA-AATATTAC
1 TAA-ATTATTAAAATA-ATAAGAATATT-C
12976968 TAAATTA
1 TAAATTA
12976975 ATATTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 13 0.42
29 15 0.48
30 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAAATTATTAAAATAATAAGAATATTC
Found at i:12976993 original size:29 final size:29
Alignment explanation
Indices: 12976959--12977047 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
12976949 AAAATATATT
*
12976959 AAATATTACTAAATTAATATTTA-TTATAA
1 AAATATTATTAAATTAATATTTAGTT-TAA
* *
12976988 AAATATTATTATATTAATATTTAGTTTTA
1 AAATATTATTAAATTAATATTTAGTTTAA
* *
12977017 AAATATTATTTAAA-TAATATTAAATTTAA
1 AAATATTA-TTAAATTAATATTTAGTTTAA
12977046 AA
1 AA
12977048 TAAAAATAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
29 45 0.88
30 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
AAATATTATTAAATTAATATTTAGTTTAA
Found at i:12977136 original size:21 final size:20
Alignment explanation
Indices: 12977098--12977139 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
12977088 TAAAATATTA
*
12977098 TAAAATTTATTAAATAATAT
1 TAAAATTCATTAAATAATAT
*
12977118 TAAAATATCATTAATTAATAT
1 TAAAAT-TCATTAAATAATAT
12977139 T
1 T
12977140 TAATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAATTCATTAAATAATAT
Found at i:12977146 original size:50 final size:54
Alignment explanation
Indices: 12977090--12977200 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 54
12977080 CATAATACTA
*
12977090 AAATATTATAAAATT-T-ATT-AAATAATATTAAAATATCATT-AATTAATA-TTT
1 AAATATTAT-AAATTATGATTAAAACAATATT-AAATATCATTAAATTAATATTTT
* *
12977141 -AATATT-TTAATTATGATTAAAACAATATTAAATATCATTAAATTTATATTTT
1 AAATATTATAAATTATGATTAAAACAATATTAAATATCATTAAATTAATATTTT
12977193 AAATATTA
1 AAATATTA
12977201 CTATTTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
48 4 0.08
49 2 0.04
50 19 0.38
51 16 0.32
52 3 0.06
53 6 0.12
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (54 bp):
AAATATTATAAATTATGATTAAAACAATATTAAATATCATTAAATTAATATTTT
Found at i:12977284 original size:21 final size:21
Alignment explanation
Indices: 12977260--12977497 Score: 105
Period size: 21 Copynumber: 11.2 Consensus size: 21
12977250 ATTTCTTATA
12977260 TAATATTTTTAAATTAATATT
1 TAATATTTTTAAATTAATATT
* * *
12977281 TAAT-TTATAATGTTACTAAATTATT
1 TAATATT-T--T-TAAATTAA-TATT
* *
12977306 TAATATTATTT-AATTATTATC
1 TAATATT-TTTAAATTAATATT
* *
12977327 TAATATTATTAAATTGAACATT
1 TAATATTTTTAAATT-AATATT
12977349 TAATATTATTT-AATTAATATT
1 TAATATT-TTTAAATTAATATT
* * * *
12977370 GAATATTGTTCAA-CAATATT
1 TAATATTTTTAAATTAATATT
** *
12977390 TAATATAGTTAAA-TAATAGGT
1 TAATATTTTTAAATTAATA-TT
* * *
12977411 AAATATTATTAAATTAATATA
1 TAATATTTTTAAATTAATATT
* * *
12977432 AAATATTATT-AATTAATGTT
1 TAATATTTTTAAATTAATATT
* **
12977452 TCATATGGTTAAATTAAT-TT
1 TAATATTTTTAAATTAATATT
*
12977472 TCAGT-TTTATTAAATTAATATT
1 T-AATATTT-TTAAATTAATATT
12977494 TAAT
1 TAAT
12977498 TTTATGAATT
Statistics
Matches: 164, Mismatches: 37, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
20 44 0.27
21 73 0.45
22 25 0.15
23 4 0.02
24 6 0.04
25 8 0.05
26 4 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATATTTTTAAATTAATATT
Found at i:12977315 original size:10 final size:10
Alignment explanation
Indices: 12977300--12977395 Score: 66
Period size: 10 Copynumber: 9.2 Consensus size: 10
12977290 ATGTTACTAA
12977300 ATTATTTAAT
1 ATTATTTAAT
12977310 ATTATTTAATT
1 ATTATTTAA-T
*
12977321 ATTATCTAAT
1 ATTATTTAAT
*
12977331 ATTATTAAATT
1 ATTATTTAA-T
**
12977342 GAACATTTAAT
1 -ATTATTTAAT
12977353 ATTATTTAATT
1 ATTATTTAA-T
* *
12977364 AATATTGAAT
1 ATTATTTAAT
* * *
12977374 ATTGTTCAAC
1 ATTATTTAAT
*
12977384 AATATTTAAT
1 ATTATTTAAT
12977394 AT
1 AT
12977396 AGTTAAATAA
Statistics
Matches: 63, Mismatches: 19, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
10 38 0.60
11 19 0.30
12 6 0.10
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (10 bp):
ATTATTTAAT
Found at i:12977407 original size:20 final size:20
Alignment explanation
Indices: 12977346--12977407 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
12977336 TAAATTGAAC
* *
12977346 ATTTAATATTATTTAATTAAT
1 ATTTAATA-TAGTTAAATAAT
* * * *
12977367 ATTGAATATTGTTCAACAAT
1 ATTTAATATAGTTAAATAAT
12977387 ATTTAATATAGTTAAATAAT
1 ATTTAATATAGTTAAATAAT
12977407 A
1 A
12977408 GGTAAATATT
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
20 24 0.77
21 7 0.23
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
ATTTAATATAGTTAAATAAT
Found at i:12977500 original size:21 final size:21
Alignment explanation
Indices: 12977302--12977502 Score: 151
Period size: 21 Copynumber: 9.6 Consensus size: 21
12977292 GTTACTAAAT
* *
12977302 TATTTAATATTATTTAATTAT
1 TATTTAATATTATTAAATTAA
*
12977323 TATCTAATATTATTAAATTGAA
1 TATTTAATATTATTAAATT-AA
* *
12977345 CATTTAATATTATTTAATTAA
1 TATTTAATATTATTAAATTAA
* * * *
12977366 TATTGAATATTGTTCAA-CAA
1 TATTTAATATTATTAAATTAA
12977386 TATTTAATA-TAGTTAAA-TAA
1 TATTTAATATTA-TTAAATTAA
* *
12977406 TAGGTAAATATTATTAAATTAA
1 TA-TTTAATATTATTAAATTAA
**
12977428 TATAAAATATTATT-AATTAA
1 TATTTAATATTATTAAATTAA
* * **
12977448 TGTTTCATATGGTTAAATTAA
1 TATTTAATATTATTAAATTAA
* *
12977469 T-TTTCAGTTTTATTAAATTAA
1 TATTT-AATATTATTAAATTAA
*
12977490 TATTTAATTTTAT
1 TATTTAATATTAT
12977503 GAATTTCTTA
Statistics
Matches: 141, Mismatches: 31, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.01
20 35 0.25
21 78 0.55
22 27 0.19
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
TATTTAATATTATTAAATTAA
Found at i:12979271 original size:3 final size:3
Alignment explanation
Indices: 12979263--12979294 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12979253 ATAATATTTG
12979263 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12979295 AATGTCTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12980237 original size:30 final size:29
Alignment explanation
Indices: 12980194--12980273 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
12980184 AGAATTAAAA
* *
12980194 AATTATTTAAATTTTTAATATTTT-ATTATT
1 AATTAATTGAATTTTTAAT-TTTTAATT-TT
12980224 AATTAATTGAATTTTTAATTTTTAATTTT
1 AATTAATTGAATTTTTAATTTTTAATTTT
* * *
12980253 GATTAAATTGAACTATTAATT
1 AATT-AATTGAATTTTTAATT
12980274 CTATAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 9 0.21
30 34 0.79
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (29 bp):
AATTAATTGAATTTTTAATTTTTAATTTT
Found at i:12980370 original size:12 final size:12
Alignment explanation
Indices: 12980353--12980394 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
12980343 AATATCTTAG
12980353 AGAAATAAGAAA
1 AGAAATAAGAAA
12980365 AGAAATAA-AAA
1 AGAAATAAGAAA
*
12980376 AGAAAAAAAAGAAA
1 AG--AAATAAGAAA
12980390 AGAAA
1 AGAAA
12980395 ATTTTATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.19
12 11 0.42
13 5 0.19
14 5 0.19
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (12 bp):
AGAAATAAGAAA
Found at i:12999847 original size:23 final size:25
Alignment explanation
Indices: 12999821--12999877 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
12999811 ATTCGAACTC
12999821 GCTCGATTAATATA-T-AAAAAAAA
1 GCTCGATTAATATACTCAAAAAAAA
**
12999844 GCTCGATTTTTATACTCGAAAAAAAA
1 GCTCGATTAATATACTC-AAAAAAAA
12999870 -CTCGATTA
1 GCTCGATTA
12999878 TTCGAGCTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 12 0.43
24 1 0.04
25 7 0.25
26 8 0.29
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (25 bp):
GCTCGATTAATATACTCAAAAAAAA
Found at i:12999887 original size:26 final size:26
Alignment explanation
Indices: 12999836--12999888 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
12999826 ATTAATATAT
* *
12999836 AAAAAAAAGCTCGATTTTTATACTCG
1 AAAAAAAAGCTCGATTATTAGACTCG
*
12999862 AAAAAAAA-CTCGATTATTCGAGCTCG
1 AAAAAAAAGCTCGATTATTAGA-CTCG
12999888 A
1 A
12999889 GCTCGAGATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (26 bp):
AAAAAAAAGCTCGATTATTAGACTCG
Found at i:12999966 original size:15 final size:15
Alignment explanation
Indices: 12999946--12999979 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
12999936 TATTTTCAAG
12999946 ATAACAACAACAACA
1 ATAACAACAACAACA
12999961 ATAACAACAACAACA
1 ATAACAACAACAACA
12999976 ATAA
1 ATAA
12999980 TAATAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.09
Consensus pattern (15 bp):
ATAACAACAACAACA
Found at i:13003662 original size:25 final size:25
Alignment explanation
Indices: 13003624--13003677 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
13003614 TCCCCACAAT
*
13003624 ATTCATAAGAGTATTTAATTTAGGC
1 ATTCATAAGAGTATTTAATTAAGGC
*
13003649 ATTCATAAGGGTATTTAATTAAGGC
1 ATTCATAAGAGTATTTAATTAAGGC
13003674 ATTC
1 ATTC
13003678 TTATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (25 bp):
ATTCATAAGAGTATTTAATTAAGGC
Found at i:13003959 original size:16 final size:17
Alignment explanation
Indices: 13003933--13003966 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
13003923 TGTGTTGAGG
13003933 GATCGGGTTCTGTTCAA
1 GATCGGGTTCTGTTCAA
13003950 GATC-GGTTCTGTTCAA
1 GATCGGGTTCTGTTCAA
13003966 G
1 G
13003967 CTACTGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (17 bp):
GATCGGGTTCTGTTCAA
Found at i:13004045 original size:17 final size:17
Alignment explanation
Indices: 13004013--13004047 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13004003 TTCGTTGAGG
* *
13004013 GATCGGGTTTTGTTCAA
1 GATCGGGTTCTATTCAA
13004030 GATCGGGTTCTATTCAA
1 GATCGGGTTCTATTCAA
13004047 G
1 G
13004048 CTATTGCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (17 bp):
GATCGGGTTCTATTCAA
Found at i:13004083 original size:81 final size:81
Alignment explanation
Indices: 13003782--13004112 Score: 416
Period size: 80 Copynumber: 4.0 Consensus size: 81
13003772 TACGTTGAGG
**** * **
13003782 GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCTTACCTTTTAGAGAGA
1 GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGC--AGGGCTTCG-TTGA
** * * *
13003847 GGAGAAAGGGCTAC-GTTGAGG
63 GG-GATCGGG-TTCTGTTCA-A
*
13003868 GATTCGGGTTCTGTTCAAGCTACTGCAAACGTTGAATGGGTGGAACGAGCAGGGCTGT-GTTGAG
1 GA-TCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCT-TCGTTGAG
13003932 GGATCGGGTTCTGTTCAA
64 GGATCGGGTTCTGTTCAA
13003950 GATC-GGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGG
1 GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGG
*
13004014 ATCGGGTTTTGTTCAA
66 ATCGGGTTCTGTTCAA
* * *
13004030 GATCGGGTTCTATTCAAGCTATTGCAAATGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGG
1 GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGG
13004095 ATCGGGTTCTGTTCAA
66 ATCGGGTTCTGTTCAA
13004111 GA
1 GA
13004113 CTGCAAACGT
Statistics
Matches: 222, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
79 1 0.00
80 76 0.34
81 76 0.34
82 4 0.02
83 9 0.04
84 4 0.02
85 3 0.01
86 3 0.01
87 46 0.21
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (81 bp):
GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGG
ATCGGGTTCTGTTCAA
Found at i:13004142 original size:23 final size:23
Alignment explanation
Indices: 13004112--13004178 Score: 134
Period size: 23 Copynumber: 2.9 Consensus size: 23
13004102 TCTGTTCAAG
13004112 ACTGCAAACGTCGAATGGGTGCT
1 ACTGCAAACGTCGAATGGGTGCT
13004135 ACTGCAAACGTCGAATGGGTGCT
1 ACTGCAAACGTCGAATGGGTGCT
13004158 ACTGCAAACGTCGAATGGGTG
1 ACTGCAAACGTCGAATGGGTG
13004179 GAACGAGCAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (23 bp):
ACTGCAAACGTCGAATGGGTGCT
Found at i:13004294 original size:81 final size:81
Alignment explanation
Indices: 13004159--13004381 Score: 376
Period size: 81 Copynumber: 2.8 Consensus size: 81
13004149 ATGGGTGCTA
*
13004159 CTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCG
1 CTGCAAACGTCGAATGGGTGAAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCG
*
13004224 GGTTCTGTTGAAGCTG
66 AGTTCTGTTGAAGCTG
13004240 CTGCAAACGTCGAATGGGTGAAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCG
1 CTGCAAACGTCGAATGGGTGAAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCG
13004305 AGTTCTGTTGAAGCTG
66 AGTTCTGTTGAAGCTG
* * * *
13004321 CTGTAAACGTCAAATGGGT-AGAACGAGCAGGGCTACGTTGAGGGATTGGGTTCTGTTCAAG
1 CTGCAAACGTCGAATGGGTGA-AACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
13004382 CTTTTTAGAG
Statistics
Matches: 135, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
80 1 0.01
81 134 0.99
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (81 bp):
CTGCAAACGTCGAATGGGTGAAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCG
AGTTCTGTTGAAGCTG
Found at i:13004366 original size:270 final size:269
Alignment explanation
Indices: 13003886--13004381 Score: 823
Period size: 270 Copynumber: 1.8 Consensus size: 269
13003876 TTCTGTTCAA
*
13003886 GCTACTGCAAACGTTGAATGGGTGGAACGAGCAGGGCTGTGTTGAGGGATCGGGTTCTGTTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTGTGTTGAGGGATCGGGTTCTGTTCAAG
*
13003951 ATCGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGAT
66 ATCGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGAAACGAGCAGGGCTTCGTTGAGGGAT
* * * * * *
13004016 CGGGTTTTGTTCAAGATCGGGTTCTATTCAAGCTATTGCAAATGTCGAATGGGTGGAACGAGCAG
131 CGGGTTCTGTTCAAGATCGAGTTCTATTCAAGCTACTGCAAACGTCAAATGGGTAGAACGAGCAG
*
13004081 GGCTTCGTTGAGGGATCGGGTTCTGTTCAAGACTGCAAACGTCGAATGGGTGCTACTGCAAACGT
196 GGCTACGTTGAGGGATCGGGTTCTGTTCAAGACTGCAAACGTCGAATGGGTGCTACTGCAAACGT
13004146 CGAATGGGT
261 CGAATGGGT
13004155 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCT-TCGTTGAGGGATCGGGTTCTGTTCAA
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTGT-GTTGAGGGATCGGGTTCTGTTCAA
* *
13004219 GATCGGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGTGAAACGAGCAGGGCTTCGTTGAGGG
65 GATC-GGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGAAACGAGCAGGGCTTCGTTGAGGG
* * * *
13004284 ATCGGGTTCTGTTCAAGATCGAGTTCTGTTGAAGCTGCTGTAAACGTCAAATGGGTAGAACGAGC
129 ATCGGGTTCTGTTCAAGATCGAGTTCTATTCAAGCTACTGCAAACGTCAAATGGGTAGAACGAGC
*
13004349 AGGGCTACGTTGAGGGATTGGGTTCTGTTCAAG
194 AGGGCTACGTTGAGGGATCGGGTTCTGTTCAAG
13004382 CTTTTTAGAG
Statistics
Matches: 209, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
268 1 0.00
269 65 0.31
270 143 0.68
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.26
Consensus pattern (269 bp):
GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTGTGTTGAGGGATCGGGTTCTGTTCAAG
ATCGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGAAACGAGCAGGGCTTCGTTGAGGGAT
CGGGTTCTGTTCAAGATCGAGTTCTATTCAAGCTACTGCAAACGTCAAATGGGTAGAACGAGCAG
GGCTACGTTGAGGGATCGGGTTCTGTTCAAGACTGCAAACGTCGAATGGGTGCTACTGCAAACGT
CGAATGGGT
Found at i:13004969 original size:18 final size:18
Alignment explanation
Indices: 13004928--13004971 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
13004918 TAAAATTTTT
13004928 AATTATTTATTAATAAAA
1 AATTATTTATTAATAAAA
*
13004946 ATATTATTTGA-TATTAAAA
1 A-ATTATTT-ATTAATAAAA
13004965 AATTATT
1 AATTATT
13004972 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 15 0.65
20 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTATTTATTAATAAAA
Found at i:13013446 original size:24 final size:25
Alignment explanation
Indices: 13013416--13013467 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
13013406 TTGTTTATGA
13013416 TTTTTATTTCTTTAATTTAATG-TG
1 TTTTTATTTCTTTAATTTAATGATG
*
13013440 TTTTTATTTCTTTAATTTGATGATG
1 TTTTTATTTCTTTAATTTAATGATG
13013465 TTT
1 TTT
13013468 GTTGTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.19, C:0.04, G:0.10, T:0.67
Consensus pattern (25 bp):
TTTTTATTTCTTTAATTTAATGATG
Found at i:13022453 original size:2 final size:2
Alignment explanation
Indices: 13022446--13022483 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
13022436 TCAACATTCT
* *
13022446 TC TC TC TC TC TC TT TC TC TC TG TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13022484 ACACACACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.53
Consensus pattern (2 bp):
TC
Found at i:13026772 original size:22 final size:22
Alignment explanation
Indices: 13026744--13026787 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13026734 TATATATTTA
13026744 TATTTGTAT-CTCTAGAATTAAG
1 TATTTGTATCCT-TAGAATTAAG
13026766 TATTTGTATCCTTAGAATTAAG
1 TATTTGTATCCTTAGAATTAAG
13026788 AAAGATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCTTAGAATTAAG
Found at i:13027332 original size:23 final size:25
Alignment explanation
Indices: 13027300--13027374 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 25
13027290 AGAAGCAAAA
13027300 TTTTTA-GCCTTCATTG-CTG-A-CT
1 TTTTTAGGCCTTCATTGTC-GAATCT
13027322 TTTTTAGGCCTTCATTGTCGAATCT
1 TTTTTAGGCCTTCATTGTCGAATCT
*
13027347 TGTTTAGGCCTTCATTGTCGAACTCT
1 TTTTTAGGCCTTCATTGTCGAA-TCT
13027373 TT
1 TT
13027375 CAAAGAAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.13
23 11 0.24
24 2 0.04
25 23 0.50
26 4 0.09
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.48
Consensus pattern (25 bp):
TTTTTAGGCCTTCATTGTCGAATCT
Found at i:13031022 original size:22 final size:22
Alignment explanation
Indices: 13030996--13031039 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13030986 TGTATATTTA
*
13030996 TATTTGTATCTTTAGAATTAAG
1 TATTTGTATCCTTAGAATTAAG
13031018 TATTTGTATCCTTAGAATTAAG
1 TATTTGTATCCTTAGAATTAAG
13031040 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.48
Consensus pattern (22 bp):
TATTTGTATCCTTAGAATTAAG
Found at i:13038089 original size:2 final size:2
Alignment explanation
Indices: 13038082--13038106 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13038072 TAATGATTCT
13038082 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13038107 CTTACTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13043952 original size:565 final size:564
Alignment explanation
Indices: 13043077--13044151 Score: 1606
Period size: 565 Copynumber: 1.9 Consensus size: 564
13043067 TAAATTATAG
* *
13043077 ATGTCAATTTATAAGAAACCTTTCCAAAAAGGAAAAGATTTTACAAGAAAAATTTAAAAAAAAAA
1 ATGTCAATTTATAAGAAACCTTTCCAAAAAAGAAAAGATTTTACAAGAAAAATTAAAAAAAAAAA
* **
13043142 AATACTCTTTTTATTTGGACTACTGAAGATTCAAAAATTATCAAACAGATAAAATCAGATCTTAT
66 AATACTCCTTTTATTCAGACTACTGAAGATTCAAAAATTATCAAACAGATAAAATCAGATCTTAT
* *
13043207 ATTTATTCCAAAAGAATATATTCCTAAAATAGGAGAATTATTAATTTTAGAAACCAATGCCTCAG
131 ATTTATTCCAAAAGAATATATTCCTAAAACAGGAGAATTATTAATTTTAGAAACCAATGCCTCAA
* **
13043272 ATGAACAACTGGGGTTGTATTTTTAAAGCTAAGGTAAAAAATCAAGAATTAATTTGTGGTTATAA
196 ATGAACAACTGGGGTTGTATTCTTAAAGCTAACATAAAAAATCAAGAATTAATTTGTGGTTATAA
* *
13043337 TTCAAGAAAATTTAAACCAAATGAAATCAAATATATTATTTTTGAAAAAGAGTTT-CTTGTAATA
261 TTCAAGAAAATTTAAACCAAATGAAATCAAATATATTATTTTTAAAAAAGA-TTTACTTGCAAT-
*** *
13043401 GAAAAAATATGGCAACAAGATTTCATATTTAACTAGCAC-CTAAAACATTTATTATTAGAATTGA
324 -AAAAAATACAACAACAAGATTTCATATTTAACTAGC-CTCTAAAACATTTATTATTAGAACTGA
* * * * ** *
13043465 TAATCAAGTTGTTAAAGATTTTTTAAACAATAAGAAATTAGATAATAATCCTAAGTGAATTATAT
387 TAATCAAGCTGTAAAAGATTTCTTAAAAAATAAGAAATTAGATAATAATCCTAAGCAAATTAGAT
* * *
13043530 GGTATAATTTTTTATGCCAATA-AATTTCACTATTGAATATATTAAAGGAACTAACAATGTTCTA
452 GGTATAATTATTTACGCCAATATAATTTCACTATTGAATATATTAAAGAAACTAACAATGTTCTA
13043594 ACTGATTTCTTAAGTAGGCTAGATAGATCAAGGCAAGAAACCTCCTGA
517 ACTGATTTCTTAAGTAGGCTAGATAGATCAAGGCAAGAAACCTCCTGA
*
13043642 ATGTCAATTTATAATAAACCTTTCCAAAAAAGAAAAGATTTTACAAGAAAAATTAAAAAAAAAAA
1 ATGTCAATTTATAAGAAACCTTTCCAAAAAAGAAAAGATTTTACAAGAAAAATTAAAAAAAAAAA
***
13043707 AGATACTCCTTTTATTCAGACTACTGAAGATTTTGAAATTATCAAACAGATAAAATCAGATCTTA
66 A-ATACTCCTTTTATTCAGACTACTGAAGATTCAAAAATTATCAAACAGATAAAATCAGATCTTA
* * * **
13043772 TATTTATTTCAAAAGTATA-ACTTCCTAAAACATGAGAATTATTAATTTTAGAAACTGATGCCTC
130 TATTTATTCCAAAAGAATATA-TTCCTAAAACAGGAGAATTATTAATTTTAGAAACCAATGCCTC
*
13043836 AAATGAAC-ACTGGGGTTGTATTCTTAAAGCTAACATAAAAAATCAAGAATTAATTAT-TGGTTC
194 AAATGAACAACTGGGGTTGTATTCTTAAAGCTAACATAAAAAATCAAGAATTAATT-TGTGGTTA
* *
13043899 TAATTTAGGAAAATTTAAACCAAATGAAA-CGAAATATATTATTTTTAAAAAAGATTTACTTGCA
258 TAATTCAAGAAAATTTAAACCAAATGAAATC-AAATATATTATTTTTAAAAAAGATTTACTTGCA
* * ** *
13043963 ATAAAAAATGCAATAACAAGATTTCATATTTATTTAGCCTCTAAAATATTTATTATTAGAACTGA
322 ATAAAAAATACAACAACAAGATTTCATATTTAACTAGCCTCTAAAACATTTATTATTAGAACTGA
* * *
13044028 TAATCATGCTGTAAAAGATTTCTTAAAAAATAAGAAATTAGATAATAATCTTAGGCAAATTAGAT
387 TAATCAAGCTGTAAAAGATTTCTTAAAAAATAAGAAATTAGATAATAATCCTAAGCAAATTAGAT
*
13044093 GGTATAATTATTTACGTCAATATAATTTCACTATTGAATATATTAAAGAAACTAACAAT
452 GGTATAATTATTTACGCCAATATAATTTCACTATTGAATATATTAAAGAAACTAACAAT
13044152 TTGCTGATTT
Statistics
Matches: 456, Mismatches: 47, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
562 1 0.00
563 126 0.28
564 39 0.09
565 169 0.37
566 121 0.27
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (564 bp):
ATGTCAATTTATAAGAAACCTTTCCAAAAAAGAAAAGATTTTACAAGAAAAATTAAAAAAAAAAA
AATACTCCTTTTATTCAGACTACTGAAGATTCAAAAATTATCAAACAGATAAAATCAGATCTTAT
ATTTATTCCAAAAGAATATATTCCTAAAACAGGAGAATTATTAATTTTAGAAACCAATGCCTCAA
ATGAACAACTGGGGTTGTATTCTTAAAGCTAACATAAAAAATCAAGAATTAATTTGTGGTTATAA
TTCAAGAAAATTTAAACCAAATGAAATCAAATATATTATTTTTAAAAAAGATTTACTTGCAATAA
AAAATACAACAACAAGATTTCATATTTAACTAGCCTCTAAAACATTTATTATTAGAACTGATAAT
CAAGCTGTAAAAGATTTCTTAAAAAATAAGAAATTAGATAATAATCCTAAGCAAATTAGATGGTA
TAATTATTTACGCCAATATAATTTCACTATTGAATATATTAAAGAAACTAACAATGTTCTAACTG
ATTTCTTAAGTAGGCTAGATAGATCAAGGCAAGAAACCTCCTGA
Found at i:13050942 original size:27 final size:27
Alignment explanation
Indices: 13050912--13050975 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
13050902 AATCACTTGT
*
13050912 AATTCTATATCATATGCAATTTATTAA
1 AATTCTATATCACATGCAATTTATTAA
*
13050939 AATTC-ATAATCACATGTAATTTATTAA
1 AATTCTAT-ATCACATGCAATTTATTAA
*
13050966 AATTTTATAT
1 AATTCTATAT
13050976 GAAACTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.06
27 28 0.88
28 2 0.06
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (27 bp):
AATTCTATATCACATGCAATTTATTAA
Found at i:13051452 original size:2 final size:2
Alignment explanation
Indices: 13051445--13051479 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13051435 GTAAACTGAC
13051445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13051480 ATTTGATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13053409 original size:33 final size:32
Alignment explanation
Indices: 13053372--13053458 Score: 79
Period size: 33 Copynumber: 2.7 Consensus size: 32
13053362 CTTCTGATTT
13053372 GAGTTATTTCGGGTTCGATCTGTT-TTCAGGTTC
1 GAGTTATTTCGGGTTCGATCTGTTGTT-A-GTTC
* * *
13053405 GAGTTACTTCAGGTTC-AGGCTGTTGTTAGTTC
1 GAGTTATTTCGGGTTCGA-TCTGTTGTTAGTTC
**
13053437 GAGCCATTTCGGGTTCAGATCT
1 GAGTTATTTCGGGTTC-GATCT
13053459 TTTCATATTC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
32 17 0.40
33 22 0.52
34 3 0.07
ACGTcount: A:0.15, C:0.17, G:0.28, T:0.40
Consensus pattern (32 bp):
GAGTTATTTCGGGTTCGATCTGTTGTTAGTTC
Found at i:13057124 original size:15 final size:15
Alignment explanation
Indices: 13057096--13057134 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
13057086 TAAAAATCAA
*
13057096 TATTTTTT-ATTTTT
1 TATTTTTTAAATTTT
13057110 TATTTTTTAAATTTT
1 TATTTTTTAAATTTT
*
13057125 AATTTTTTAA
1 TATTTTTTAA
13057135 TCATTAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTTTAAATTTT
Found at i:13060032 original size:23 final size:25
Alignment explanation
Indices: 13060006--13060057 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
13059996 TAAAAATATG
13060006 ATTTGAAAATAATTA-A-TTTTAA-A
1 ATTTGAAAAT-ATTATATTTTTAACA
*
13060029 ATTTTAAAATATTATATTTTTAACA
1 ATTTGAAAATATTATATTTTTAACA
13060054 ATTT
1 ATTT
13060058 TACTTCCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 4 0.16
23 10 0.40
24 6 0.24
25 5 0.20
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTTGAAAATATTATATTTTTAACA
Found at i:13064908 original size:17 final size:18
Alignment explanation
Indices: 13064888--13064926 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13064878 AATCATTTTT
13064888 ATTTTT-TATAATAGAAA
1 ATTTTTATATAATAGAAA
*
13064905 ATTTTTAATATAATATAAA
1 ATTTTT-ATATAATAGAAA
13064924 ATT
1 ATT
13064927 CCTTCCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTTTTATATAATAGAAA
Found at i:13066255 original size:20 final size:20
Alignment explanation
Indices: 13066230--13066279 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
13066220 TAAATTTAGA
13066230 ATTTATATAAAATACTTAAC
1 ATTTATATAAAATACTTAAC
* *
13066250 ATTTATTATAAAATATTTGAC
1 ATTTA-TATAAAATACTTAAC
*
13066271 TTTTATATA
1 ATTTATATA
13066280 TTTATATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTATATAAAATACTTAAC
Found at i:13074435 original size:27 final size:25
Alignment explanation
Indices: 13074405--13074461 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
13074395 CAAATTAAAA
13074405 AAAAAATCTAT-CATTTAGAAATTTCTT
1 AAAAAAT-TATCCATTT-GAAATTT-TT
*
13074432 AAAAAATTATCCATTTGTAATTTTT
1 AAAAAATTATCCATTTGAAATTTTT
13074457 AAAAA
1 AAAAA
13074462 TTTCATCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 7 0.25
26 9 0.32
27 12 0.43
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (25 bp):
AAAAAATTATCCATTTGAAATTTTT
Found at i:13074442 original size:26 final size:24
Alignment explanation
Indices: 13074405--13074471 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 24
13074395 CAAATTAAAA
13074405 AAAAAATCTATCATTTAGAAATTTCTT
1 AAAAAAT-TATCATTT-GAAATTT-TT
*
13074432 AAAAAATTATCCATTTGTAATTTTT
1 AAAAAATTAT-CATTTGAAATTTTT
*
13074457 AAAAATTTCATCATT
1 AAAAAATT-ATCATT
13074472 GGATAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 13 0.36
26 11 0.31
27 12 0.33
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (24 bp):
AAAAAATTATCATTTGAAATTTTT
Found at i:13074478 original size:26 final size:26
Alignment explanation
Indices: 13074424--13074479 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
13074414 ATCATTTAGA
*
13074424 AATTTCTTAAAAAATTATCCATTTGT
1 AATTTCTTAAAAAATTATCCATTGGT
*
13074450 AATTT-TTAAAAATTTCAT-CATTGGAT
1 AATTTCTTAAAAAATT-ATCCATTGG-T
13074476 AATT
1 AATT
13074480 ATCATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (26 bp):
AATTTCTTAAAAAATTATCCATTGGT
Found at i:13075196 original size:12 final size:11
Alignment explanation
Indices: 13075178--13075278 Score: 59
Period size: 11 Copynumber: 9.0 Consensus size: 11
13075168 ATAAACAAAT
13075178 AAAGATAAAAA
1 AAAGATAAAAA
13075189 AGAAGATAAATAA
1 A-AAGATAAA-AA
13075202 TAAAGATAAATAA
1 -AAAGATAAA-AA
* *
13075215 CAAGA-AAAGA
1 AAAGATAAAAA
13075225 AAAGATAAATACA
1 AAAGATAAA-A-A
*
13075238 AAAGAT--ATA
1 AAAGATAAAAA
*
13075247 ATAGA-AAAATA
1 AAAGATAAAA-A
*
13075258 AAA-ATAATAA
1 AAAGATAAAAA
13075268 AAAGATAAAAA
1 AAAGATAAAAA
13075279 TAAAAAAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
9 5 0.07
10 11 0.16
11 20 0.29
12 12 0.17
13 20 0.29
14 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (11 bp):
AAAGATAAAAA
Found at i:13075255 original size:15 final size:13
Alignment explanation
Indices: 13075168--13075298 Score: 74
Period size: 13 Copynumber: 9.8 Consensus size: 13
13075158 AAAGAAACAA
*
13075168 ATAAACAAATAAAG
1 ATAAATAAA-AAAG
*
13075182 ATAAA-AAAGAAG
1 ATAAATAAAAAAG
*
13075194 ATAAATAATAAAG
1 ATAAATAAAAAAG
*
13075207 ATAAAT-AACAAG
1 ATAAATAAAAAAG
*
13075219 --AAA-AGAAAAG
1 ATAAATAAAAAAG
*
13075229 ATAAATACAAAAG
1 ATAAATAAAAAAG
*
13075242 ATATAATAGAAAAAT
1 ATA-AATA-AAAAAG
*
13075257 AAAAATAATAAAAAG
1 ATAAAT-A-AAAAAG
*
13075272 ATAAAAATAAAAAAAT
1 AT--AAAT-AAAAAAG
13075288 ATAAATAAAAA
1 ATAAATAAAAA
13075299 TCTTAAATTT
Statistics
Matches: 92, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
10 7 0.08
12 15 0.16
13 28 0.30
14 16 0.17
15 13 0.14
16 7 0.08
17 6 0.07
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (13 bp):
ATAAATAAAAAAG
Found at i:13075263 original size:14 final size:14
Alignment explanation
Indices: 13075246--13075298 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
13075236 CAAAAGATAT
*
13075246 AATAGAAAAATAAA
1 AATAAAAAAATAAA
13075260 AATAATAAAAAGATAAA
1 AAT-A-AAAAA-ATAAA
*
13075277 AATAAAAAAATATA
1 AATAAAAAAATAAA
13075291 AATAAAAA
1 AATAAAAA
13075299 TCTTAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 15 0.44
15 6 0.18
16 5 0.15
17 8 0.24
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (14 bp):
AATAAAAAAATAAA
Found at i:13075266 original size:17 final size:17
Alignment explanation
Indices: 13075244--13075292 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
13075234 TACAAAAGAT
13075244 ATAATAGAAAA-ATAAAA
1 ATAATA-AAAAGATAAAA
13075261 ATAATAAAAAGATAAAA
1 ATAATAAAAAGATAAAA
*
13075278 ATAA-AAAAATATAAA
1 ATAATAAAAAGATAAA
13075293 TAAAAATCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
ATAATAAAAAGATAAAA
Found at i:13075277 original size:22 final size:22
Alignment explanation
Indices: 13075203--13075288 Score: 65
Period size: 22 Copynumber: 3.9 Consensus size: 22
13075193 GATAAATAAT
13075203 AAAGAT-AAATAACAAGAAA-AGA
1 AAAGATAAAATAA-AA-AAATAGA
* *
13075225 AAAGAT-AAATACAAAAGATATA
1 AAAGATAAAATA-AAAAAATAGA
*
13075247 ATAGA-AAAATAAAAATAATA-A
1 AAAGATAAAATAAAAA-AATAGA
13075268 AAAGATAAAAATAAAAAAATA
1 AAAGAT-AAAATAAAAAAATA
13075289 TAAATAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
21 11 0.21
22 31 0.58
23 11 0.21
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAGATAAAATAAAAAAATAGA
Found at i:13081075 original size:22 final size:22
Alignment explanation
Indices: 13081047--13081090 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13081037 CTAAATCTTC
*
13081047 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
13081069 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
13081091 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:13084788 original size:23 final size:23
Alignment explanation
Indices: 13084737--13084840 Score: 127
Period size: 23 Copynumber: 4.4 Consensus size: 23
13084727 AAGGGTTCGG
* *
13084737 CAATGAAGGCCTAAACAGGATTCGA
1 CAATGAAGGCCTAAA-A-AAGTCGA
13084762 CAATGAAGGCCTAAAAAAGTCGA
1 CAATGAAGGCCTAAAAAAGTCGA
* *
13084785 CAATGAAGGCCTGAAAAAGTCGG
1 CAATGAAGGCCTAAAAAAGTCGA
* * *
13084808 CAATGAAGGCTTAAAAATGTCGG
1 CAATGAAGGCCTAAAAAAGTCGA
13084831 CAATGAAGGC
1 CAATGAAGGC
13084841 TGAAAATTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
23 56 0.78
24 1 0.01
25 15 0.21
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (23 bp):
CAATGAAGGCCTAAAAAAGTCGA
Found at i:13085016 original size:22 final size:22
Alignment explanation
Indices: 13084988--13085031 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13084978 CTAAATCTTC
*
13084988 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
13085010 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
13085032 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:13089324 original size:25 final size:24
Alignment explanation
Indices: 13089270--13089317 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
13089260 ATATAATATT
*
13089270 AAATTTAAATTTGAATTTGATTCG
1 AAATTTAAATTTGAATTTAATTCG
13089294 AAATTTAAAATTTGAATTTTAATT
1 AAATTT-AAATTTGAA-TTTAATT
13089318 TGAATTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 9 0.43
26 6 0.29
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (24 bp):
AAATTTAAATTTGAATTTAATTCG
Found at i:13089325 original size:6 final size:6
Alignment explanation
Indices: 13089271--13089326 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
13089261 TATAATATTA
* * * *
13089271 AATTTA AATTTG AATTTG -ATTCG AAATTTAA AATTTG AATTTT AATTTG
1 AATTTG AATTTG AATTTG AATTTG -AATTT-G AATTTG AATTTG AATTTG
13089320 AATTTG A
1 AATTTG A
13089327 TCGAGTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
5 4 0.10
6 28 0.70
7 8 0.20
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (6 bp):
AATTTG
Found at i:13089505 original size:9 final size:9
Alignment explanation
Indices: 13089491--13089520 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
13089481 AATAGTTTAT
13089491 TAATTAAAA
1 TAATTAAAA
13089500 TAATTAAAA
1 TAATTAAAA
13089509 TATATTAAAA
1 TA-ATTAAAA
13089519 TA
1 TA
13089521 TAAAAGCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:13089517 original size:10 final size:10
Alignment explanation
Indices: 13089493--13089522 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13089483 TAGTTTATTA
13089493 ATTAAAATA-
1 ATTAAAATAT
13089502 ATTAAAATAT
1 ATTAAAATAT
13089512 ATTAAAATAT
1 ATTAAAATAT
13089522 A
1 A
13089523 AAAGCTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:13090638 original size:27 final size:27
Alignment explanation
Indices: 13090600--13090653 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13090590 TTCATATTCT
13090600 TTCTCTCATAAAATGGAAAATTAAACA
1 TTCTCTCATAAAATGGAAAATTAAACA
13090627 TTCTCTCATAAAATGGAAAATTAAACA
1 TTCTCTCATAAAATGGAAAATTAAACA
13090654 AACTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (27 bp):
TTCTCTCATAAAATGGAAAATTAAACA
Found at i:13095747 original size:17 final size:17
Alignment explanation
Indices: 13095716--13095757 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
13095706 TAAAATTTTT
*
13095716 TTTAAAAATATTAAATA
1 TTTAAAAATATTAAAAA
13095733 TTTAAAAA-ATCTAAAAA
1 TTTAAAAATAT-TAAAAA
13095750 TATTAAAA
1 T-TTAAAA
13095758 GATAAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 14 0.64
18 6 0.27
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTAAAAATATTAAAAA
Found at i:13095756 original size:9 final size:9
Alignment explanation
Indices: 13095717--13095757 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
13095707 AAAATTTTTT
13095717 TTAAAAATA
1 TTAAAAATA
*
13095726 TTAAATAT-
1 TTAAAAATA
13095734 TTAAAAA-A
1 TTAAAAATA
13095742 TCTAAAAATA
1 T-TAAAAATA
13095752 TTAAAA
1 TTAAAA
13095758 GATAAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 7 0.26
9 18 0.67
10 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
TTAAAAATA
Found at i:13095773 original size:26 final size:26
Alignment explanation
Indices: 13095718--13095775 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
13095708 AAATTTTTTT
** **
13095718 TAAAAATATTAAATATTTAAAAAATC
1 TAAAAATATTAAATAGATAAAAAAAA
13095744 TAAAAATATTAAA-AGATAAAGAAAAA
1 TAAAAATATTAAATAGATAAA-AAAAA
13095770 TAAAAA
1 TAAAAA
13095776 CACAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (26 bp):
TAAAAATATTAAATAGATAAAAAAAA
Found at i:13096044 original size:24 final size:24
Alignment explanation
Indices: 13096014--13096062 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
13096004 CATCCATTTC
**
13096014 TCTCATTTTCTTACAAAATTTATT
1 TCTCATTTTCCCACAAAATTTATT
13096038 TCTCATTTTCCCACAAAATTTATT
1 TCTCATTTTCCCACAAAATTTATT
13096062 T
1 T
13096063 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (24 bp):
TCTCATTTTCCCACAAAATTTATT
Found at i:13096646 original size:22 final size:23
Alignment explanation
Indices: 13096602--13096669 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
13096592 TTTGTCAAAT
13096602 ATAA-AAAATAAAAGAAAAGTGA
1 ATAAGAAAATAAAAGAAAAGTGA
* *
13096624 ATAAGAAATTAAAAGAATA-TGA
1 ATAAGAAAATAAAAGAAAAGTGA
* *
13096646 A-AAGAAAAAAAAAGGAAAAATGA
1 ATAAGAAAATAAAA-GAAAAGTGA
13096669 A
1 A
13096670 GGAGCTGATG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.26
22 12 0.32
23 16 0.42
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (23 bp):
ATAAGAAAATAAAAGAAAAGTGA
Found at i:13096910 original size:25 final size:25
Alignment explanation
Indices: 13096878--13096928 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
13096868 CATGACATTA
* *
13096878 AATAATTAATGAAATCGAATTTTTT
1 AATAATTAATGAAATAGAATTATTT
*
13096903 AATAATTAGTGAAATAGAATTATTT
1 AATAATTAATGAAATAGAATTATTT
13096928 A
1 A
13096929 TATGAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (25 bp):
AATAATTAATGAAATAGAATTATTT
Found at i:13097052 original size:25 final size:23
Alignment explanation
Indices: 13097012--13097067 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
13097002 CAAATTATTT
* *
13097012 AAAAAATTTATTACTATTTACTA
1 AAAAAATTTATTACTAATTACAA
13097035 AAAAAATTTATTTGACTAATTACAA
1 AAAAAATTTA-TT-ACTAATTACAA
13097060 AAGAAAAT
1 AA-AAAAT
13097068 AAATTTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 10 0.36
24 2 0.07
25 11 0.39
26 5 0.18
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAAAATTTATTACTAATTACAA
Done.