Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 84 of 127
Found at i:16100660 original size:51 final size:51
Alignment explanation
Indices: 16100578--16100677 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
16100568 TCAAAGCCTC
* *
16100578 AATTGTAGAGGAGCATTTTATTTTTCAAAAGTTTTAAAGCTTCAGTTGTTT
1 AATTGTAGAGGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTTT
* *
16100629 AATTGTGGGGGAGCATTTTAATTTTTC-AAAGTTTCAAAGCCTCAGTTGT
1 AATTGTAGAGGAGCATTTT-ATTTTTCAAAAGTTTCAAAGCCTCAGTTGT
16100678 GGGGGAGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 37 0.84
52 7 0.16
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (51 bp):
AATTGTAGAGGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTTT
Found at i:16100990 original size:170 final size:171
Alignment explanation
Indices: 16100640--16101103 Score: 609
Period size: 170 Copynumber: 2.7 Consensus size: 171
16100630 ATTGTGGGGG
* *
16100640 AGCATTTTAATTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGGAGA-ATTTTACTTTTCCAAAGT
1 AGCATTTT-ATTTTTCAAAGTTTCAAAGCCTCAATTGTGGGGGA-ACATTTTA-TTTTCAAAAGT
* * * * **
16100704 TCCAAAGCCTCAGTTGTGGAAGAGCATGTTATTTTTCAAAAGTTCCAAAGCCTCAATTGTGGGGA
63 TCCAAAGCCTCAGTTGTGGGAGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGAAA
* * * * **
16100769 AGCATTTTTTTTTTCAAAATTTCTAAAGCCTCAGTTGTGAGGGA
128 AGCATTTTCTTTTCCAAAATTTCTAAAGCCCCAGTTATGAGAAA
*
16100813 A-CATTTTATTTTTCAAAGTTTCAAAGCCTCAATTGTGGGGGAACATTTTATTTTCAAAAGTTCT
1 AGCATTTTATTTTTCAAAGTTTCAAAGCCTCAATTGTGGGGGAACATTTTATTTTCAAAAGTTCC
* *
16100877 AAAGCCTCAGTTGTGGGAGAGCATTTTATATTTCAAAAGTTTCAAAGCCTCAGTTGTGGAAAAGT
66 AAAGCCTCAGTTGTGGGAGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGAAAAGC
*
16100942 ATTTTCTTTTCCAAAAGTTTC-AATGCCCCAGTTATG-GAAA
131 ATTTTCTTTTCCAAAA-TTTCTAAAGCCCCAGTTATGAGAAA
* * * *
16100982 AGCATTTTATTGTTCAAAGTTTAAAAGCCTCGATTGTGTGGG-ACTATTTTATTTTCAAAAGTTC
1 AGCATTTTATTTTTCAAAGTTTCAAAGCCTCAATTGTGGGGGAAC-ATTTTATTTTCAAAAGTTC
* * *
16101046 CAAA--CTCAATTGTGGGGGATCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGG
65 CAAAGCCTCAGTTGTGGGAGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGG
16101104 GGGAGTATTT
Statistics
Matches: 260, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
168 50 0.19
169 5 0.02
170 154 0.59
171 44 0.17
172 6 0.02
173 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (171 bp):
AGCATTTTATTTTTCAAAGTTTCAAAGCCTCAATTGTGGGGGAACATTTTATTTTCAAAAGTTCC
AAAGCCTCAGTTGTGGGAGAGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGAAAAGC
ATTTTCTTTTCCAAAATTTCTAAAGCCCCAGTTATGAGAAA
Found at i:16102144 original size:24 final size:24
Alignment explanation
Indices: 16102116--16102181 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
16102106 TATTTGTGTG
16102116 ATTTATTTGCATGATTATTAATAT
1 ATTTATTTGCATGATTATTAATAT
* *
16102140 ATTTAATTGCTTGATTATTAATAT
1 ATTTATTTGCATGATTATTAATAT
*
16102164 ATTTATTTACATGATTAT
1 ATTTATTTGCATGATTAT
16102182 ATATTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.55
Consensus pattern (24 bp):
ATTTATTTGCATGATTATTAATAT
Found at i:16102333 original size:23 final size:22
Alignment explanation
Indices: 16102305--16102391 Score: 81
Period size: 22 Copynumber: 4.0 Consensus size: 22
16102295 TAATTAAATA
*
16102305 TTTATTTGCATGGTGTATATATT
1 TTTATTTGCATGAT-TATATATT
*
16102328 TTTATTTGTATGATTATATA--
1 TTTATTTGCATGATTATATATT
* * *
16102348 TTTAATTGCAT-ATTTTACATT
1 TTTATTTGCATGATTATATATT
* *
16102369 GTTAATTGCATGATTATATATT
1 TTTATTTGCATGATTATATATT
16102391 T
1 T
16102392 AATTACATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
19 6 0.12
20 9 0.18
21 10 0.20
22 14 0.27
23 12 0.24
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.56
Consensus pattern (22 bp):
TTTATTTGCATGATTATATATT
Found at i:16102361 original size:55 final size:55
Alignment explanation
Indices: 16102166--16102362 Score: 238
Period size: 55 Copynumber: 3.6 Consensus size: 55
16102156 ATTAATATAT
* *
16102166 TTATTTACATGATTATATATTTAATTGCAT-TTT-TTTGTATGATTTATATATTA
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTA
* * * *
16102219 TTATTTGCATGACTATATATTTGATTGCATGTTTATTTGCATGATTTATGTATTA
1 TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTA
* * ** * * *
16102274 TTAGTTT-CTTGATTATACATTTAATTAAATATTTATTTGCATGGTGTATATATTT
1 TTA-TTTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTA
*
16102329 TTATTTGTATGATTATATATTTAATTGCATATTT
1 TTATTTGCATGATTATATATTTAATTGCATATTT
16102363 TACATTGTTA
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 27 0.23
54 6 0.05
55 83 0.70
56 3 0.03
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.56
Consensus pattern (55 bp):
TTATTTGCATGATTATATATTTAATTGCATATTTATTTGCATGATTTATATATTA
Found at i:16102395 original size:20 final size:20
Alignment explanation
Indices: 16102297--16102414 Score: 87
Period size: 20 Copynumber: 5.8 Consensus size: 20
16102287 TATACATTTA
* *
16102297 ATTAAATATTTATTTGCATG
1 ATTATATATTTAATTGCATG
* * *
16102317 GTGTATATATTTTTATTTGTATG
1 AT-TATATA--TTTAATTGCATG
16102340 ATTATATATTTAATTGCAT-
1 ATTATATATTTAATTGCATG
* *
16102359 ATTTTACATTGTTAATTGCATG
1 ATTATATA-T-TTAATTGCATG
* *
16102381 ATTATATATTTAATTACATA
1 ATTATATATTTAATTGCATG
*
16102401 ATTAT-TAATTAATT
1 ATTATATATTTAATT
16102415 TATTTGTGTG
Statistics
Matches: 79, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
19 14 0.18
20 25 0.32
21 16 0.20
22 12 0.15
23 12 0.15
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.53
Consensus pattern (20 bp):
ATTATATATTTAATTGCATG
Found at i:16102508 original size:19 final size:19
Alignment explanation
Indices: 16102471--16102509 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16102461 TTTATTATTA
* * *
16102471 TTATTGTATGATGTTATAT
1 TTATTGCATGATATGATAT
16102490 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
16102509 T
1 T
16102510 GTATGTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:16102518 original size:25 final size:24
Alignment explanation
Indices: 16102477--16102539 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
16102467 ATTATTATTG
*
16102477 TATGATGTTATATTTATTGCATGA
1 TATGATATTATATTTATTGCATGA
*
16102501 TATGATATTGTATGTTATTGCATGA
1 TATGATATTATAT-TTATTGCATGA
*
16102526 T-TAATATTATATTT
1 TATGATATTATATTT
16102540 GAATGATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.06
24 20 0.59
25 12 0.35
ACGTcount: A:0.30, C:0.03, G:0.14, T:0.52
Consensus pattern (24 bp):
TATGATATTATATTTATTGCATGA
Found at i:16102733 original size:19 final size:18
Alignment explanation
Indices: 16102661--16102716 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
16102651 CATGAATAGT
* *
16102661 TATTAATATATTTGCATGA
1 TATT-ATATACTTACATGA
*
16102680 TATTATATACTTATATGA
1 TATTATATACTTACATGA
16102698 TTATTAT-TA-TTACATGA
1 -TATTATATACTTACATGA
16102715 TA
1 TA
16102717 ATTAATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 2 0.06
17 7 0.22
18 13 0.41
19 10 0.31
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (18 bp):
TATTATATACTTACATGA
Found at i:16102827 original size:14 final size:16
Alignment explanation
Indices: 16102810--16102841 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16102800 TATTATTATA
16102810 TTTGCAT-G-ATAATT
1 TTTGCATGGTATAATT
16102824 TTTGCATGGTATAATT
1 TTTGCATGGTATAATT
16102840 TT
1 TT
16102842 ATATTTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 1 0.06
16 8 0.50
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTGCATGGTATAATT
Found at i:16109608 original size:13 final size:15
Alignment explanation
Indices: 16109584--16109615 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16109574 GATCAAAAAA
16109584 ATTTGTGATGTTTT-
1 ATTTGTGATGTTTTG
16109598 ATTTG-GATGTTTTG
1 ATTTGTGATGTTTTG
16109612 ATTT
1 ATTT
16109616 TGGTAAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (15 bp):
ATTTGTGATGTTTTG
Found at i:16110113 original size:3 final size:3
Alignment explanation
Indices: 16110105--16110130 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16110095 CGAATTACAA
16110105 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
16110131 AACATAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16114261 original size:14 final size:15
Alignment explanation
Indices: 16114242--16114281 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
16114232 TTTGTCCAAG
16114242 ATTTATTTATTTA-A
1 ATTTATTTATTTATA
*
16114256 ATTTATTTAATTATA
1 ATTTATTTATTTATA
16114271 ATTTATTTATT
1 ATTTATTTATT
16114282 ATTTATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTATTTATTTATA
Found at i:16114287 original size:18 final size:18
Alignment explanation
Indices: 16114242--16114289 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 18
16114232 TTTGTCCAAG
16114242 ATTTATTTATTTA-AATTT
1 ATTTA-TTATTTATAATTT
16114260 ATTTA--A-TTATAATTT
1 ATTTATTATTTATAATTT
16114275 ATTTATTATTTATAA
1 ATTTATTATTTATAA
16114290 ATATATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 3 0.12
15 11 0.42
17 1 0.04
18 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATTATTTATAATTT
Found at i:16114298 original size:22 final size:22
Alignment explanation
Indices: 16114273--16114345 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 22
16114263 TAATTATAAT
16114273 TTATTTATTATTTATAAATATA
1 TTATTTATTATTTATAAATATA
*
16114295 TTATTTTATATATATTCATAAATATTT
1 TTA-TTTAT-TAT-TT-ATAAATA-TA
* * *
16114322 TTATTTAATATTTACAAAAATA
1 TTATTTATTATTTATAAATATA
16114344 TT
1 TT
16114346 TTACCATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
22 6 0.15
23 10 0.24
24 5 0.12
25 5 0.12
26 11 0.27
27 4 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTTATTATTTATAAATATA
Found at i:16114304 original size:16 final size:15
Alignment explanation
Indices: 16114278--16114310 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16114268 ATAATTTATT
16114278 TATTATTTATAAATA
1 TATTATTTATAAATA
*
16114293 TATTATTT-TATATA
1 TATTATTTATAAATA
16114307 TATT
1 TATT
16114311 CATAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTTATAAATA
Found at i:16116638 original size:34 final size:34
Alignment explanation
Indices: 16116595--16116659 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
16116585 ATCAACCATT
* *
16116595 TTTGTTTCTTGAATCAATAGTTTATCAATTCATA
1 TTTGCTTCTTGAATCAATAGCTTATCAATTCATA
16116629 TTTGCTTCTTGAATCAATAGCTTATCAATTC
1 TTTGCTTCTTGAATCAATAGCTTATCAATTC
16116660 TGAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (34 bp):
TTTGCTTCTTGAATCAATAGCTTATCAATTCATA
Found at i:16126410 original size:143 final size:142
Alignment explanation
Indices: 16126068--16126423 Score: 353
Period size: 143 Copynumber: 2.5 Consensus size: 142
16126058 TCACATTAAA
* * * * * * * * *
16126068 ATATTATTTCATAATTTTTGGTGCATCAAAAACTCTAATTGCACCTTGGGAGGTATGAAATTACA
1 ATATTATTTCATGATTTTTGGTGCATTAAAAACTTTGATTACACCTTAGAAGGTGTGAAATTACT
*** ****
16126133 AAAATACCCTTAGGTTACTTTTGTAAATTGACCTTCCTAAGGTCTTTTTTTTTTTTGAAACACTC
66 AAAATACCCTTAGGTTACTTTTGTAAATTGACCTTCCTAAGGTC-TAAATTTTCGCAAAACACTC
* *
16126198 TAGATCATGGTTT
130 CAAATCATGGTTT
* * * *** *
16126211 ATATTATTTCATGGTTTTTGGTCCATTAAAAACCTTG-GGCCAACC-TAGGAATGTGTGAAATTA
1 ATATTATTTCATGATTTTTGGTGCATTAAAAACTTTGATTAC-ACCTTA-GAAGGTGTGAAATTA
* *
16126274 CTAAAATACCCTTACGAG-TATTTTTGTAATTTGACCTTTCC-AAGGTC-AAATTTTCGCAAAAC
64 CTAAAATACCCTTA-G-GTTACTTTTGTAAATTGACC-TTCCTAAGGTCTAAATTTTCGCAAAAC
*
16126336 ACTCCAAATCATGTTTT
126 ACTCCAAATCATGGTTT
*
16126353 CATATTATTTGATGATTTTTGGTGCATTAAAAACTTTGATTACACCTTAGAAGGTGTGAAATTAC
1 -ATATTATTTCATGATTTTTGGTGCATTAAAAACTTTGATTACACCTTAGAAGGTGTGAAATTAC
16126418 TAAAAT
65 TAAAAT
16126424 GCCATTAAAA
Statistics
Matches: 170, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
142 24 0.14
143 115 0.68
144 26 0.15
145 5 0.03
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (142 bp):
ATATTATTTCATGATTTTTGGTGCATTAAAAACTTTGATTACACCTTAGAAGGTGTGAAATTACT
AAAATACCCTTAGGTTACTTTTGTAAATTGACCTTCCTAAGGTCTAAATTTTCGCAAAACACTCC
AAATCATGGTTT
Found at i:16127748 original size:18 final size:17
Alignment explanation
Indices: 16127713--16127850 Score: 104
Period size: 18 Copynumber: 7.8 Consensus size: 17
16127703 TGCATTTTCA
16127713 ATGAAACCTAAACCACC
1 ATGAAACCTAAACCACC
*
16127730 ATGAAACCTTAAACTACC
1 ATGAAACC-TAAACCACC
16127748 ATGAAACCCTAAACCACC
1 ATGAAA-CCTAAACCACC
*
16127766 ATGAAACCGCAAACCACC
1 ATGAAACC-TAAACCACC
*
16127784 CT--AACCTTAAACCACC
1 ATGAAACC-TAAACCACC
* * *
16127800 ATTAAAACCCCAAATCACC
1 A-TGAAA-CCTAAACCACC
16127819 -T-AAACCCTAAACCACC
1 ATGAAA-CCTAAACCACC
*
16127835 ATCCAAACGCTAAACC
1 AT-GAAAC-CTAAACC
16127851 TTAAACCCCA
Statistics
Matches: 99, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
16 25 0.25
17 13 0.13
18 38 0.38
19 21 0.21
20 2 0.02
ACGTcount: A:0.44, C:0.38, G:0.04, T:0.14
Consensus pattern (17 bp):
ATGAAACCTAAACCACC
Found at i:16127762 original size:36 final size:35
Alignment explanation
Indices: 16127719--16127836 Score: 125
Period size: 35 Copynumber: 3.4 Consensus size: 35
16127709 TTCAATGAAA
**
16127719 CCTAAACCACCATGAAACCTTAAACTACCATGAAAC
1 CCTAAACCACCATGAAACCCCAAACTACCAT-AAAC
* * *
16127755 CCTAAACCACCATGAAACCGCAAACCACCCT-AAC
1 CCTAAACCACCATGAAACCCCAAACTACCATAAAC
* *
16127789 CTTAAACCACCATTAAAACCCCAAA-TCACC-TAAAC
1 CCTAAACCACCA-TGAAACCCCAAACT-ACCATAAAC
16127824 CCTAAACCACCAT
1 CCTAAACCACCAT
16127837 CCAAACGCTA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
34 16 0.23
35 27 0.39
36 27 0.39
ACGTcount: A:0.43, C:0.39, G:0.03, T:0.14
Consensus pattern (35 bp):
CCTAAACCACCATGAAACCCCAAACTACCATAAAC
Found at i:16127793 original size:52 final size:51
Alignment explanation
Indices: 16127719--16127834 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 51
16127709 TTCAATGAAA
* * * *
16127719 CCTAAACCACCATGAAACCTTAAACTACCA-TGAAACCCTAAACCACCATGAAAC
1 CCTAAACCACCCT--AACCTTAAACCACCATTAAAACCCCAAACCACC-T-AAAC
*
16127773 CGC-AAACCACCCTAACCTTAAACCACCATTAAAACCCCAAATCACCTAAAC
1 C-CTAAACCACCCTAACCTTAAACCACCATTAAAACCCCAAACCACCTAAAC
16127824 CCTAAACCACC
1 CCTAAACCACC
16127835 ATCCAAACGC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
50 1 0.02
51 13 0.24
52 15 0.28
53 14 0.26
54 10 0.19
55 1 0.02
ACGTcount: A:0.43, C:0.40, G:0.03, T:0.14
Consensus pattern (51 bp):
CCTAAACCACCCTAACCTTAAACCACCATTAAAACCCCAAACCACCTAAAC
Found at i:16127867 original size:25 final size:26
Alignment explanation
Indices: 16127818--16127904 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 26
16127808 CCCAAATCAC
16127818 CTAAACCCTAAACCACCATCCAAACG
1 CTAAACCCTAAACCACCATCCAAACG
* *
16127844 CTAAACCTTAAACC-CCATCTAAAC-
1 CTAAACCCTAAACCACCATCCAAACG
* * *
16127868 CCAAAACGTAAAACCACCATCCAAAC-
1 CTAAACCCT-AAACCACCATCCAAACG
16127894 CTTAAACCCTA
1 C-TAAACCCTA
16127905 CACTTAAACC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.12
25 14 0.29
26 24 0.49
27 5 0.10
ACGTcount: A:0.44, C:0.39, G:0.02, T:0.15
Consensus pattern (26 bp):
CTAAACCCTAAACCACCATCCAAACG
Found at i:16127946 original size:7 final size:7
Alignment explanation
Indices: 16127934--16128034 Score: 86
Period size: 7 Copynumber: 15.0 Consensus size: 7
16127924 ACCCAAATCT
16127934 TAAACCC
1 TAAACCC
16127941 TAAACCC
1 TAAACCC
*
16127948 TAAAGCC
1 TAAACCC
**
16127955 -AATTCC
1 TAAACCC
*
16127961 TAAA-TC
1 TAAACCC
*
16127967 TCAAACCT
1 T-AAACCC
16127975 TAAACCC
1 TAAACCC
16127982 TAAACCC
1 TAAACCC
*
16127989 TAAACCT
1 TAAACCC
16127996 TAAA-CC
1 TAAACCC
*
16128002 -AAACTC
1 TAAACCC
16128008 TAAACCC
1 TAAACCC
16128015 TAAA-CC
1 TAAACCC
*
16128021 TAAACTC
1 TAAACCC
16128028 TAAACCC
1 TAAACCC
16128035 AAAAATCAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
5 3 0.04
6 14 0.19
7 56 0.76
8 1 0.01
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:16127973 original size:34 final size:35
Alignment explanation
Indices: 16127928--16128025 Score: 107
Period size: 34 Copynumber: 2.9 Consensus size: 35
16127918 ACCACCACCC
* * *
16127928 AAATCTTAAACCCTAAACCCTAAAGCC-AATTCC-T
1 AAATCTCAAACCCTAAACCCTAAACCCTAA-ACCTT
*
16127962 AAATCTCAAACCTTAAACCCTAAACCCTAAACCTT
1 AAATCTCAAACCCTAAACCCTAAACCCTAAACCTT
*
16127997 AAA-C-CAAACTCTAAACCCTAAA-CCTAAAC
1 AAATCTCAAACCCTAAACCCTAAACCCTAAAC
16128026 TCTAAACCCA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
32 7 0.12
33 16 0.29
34 27 0.48
35 6 0.11
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (35 bp):
AAATCTCAAACCCTAAACCCTAAACCCTAAACCTT
Found at i:16128012 original size:26 final size:25
Alignment explanation
Indices: 16127976--16128034 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 25
16127966 CTCAAACCTT
16127976 AAACCCTAAACCCTAAACCTTAAACC
1 AAACCCTAAACCCTAAACC-TAAACC
*
16128002 AAACTCTAAACCCTAAACCTAAACTC
1 AAACCCTAAACCCTAAACCTAAAC-C
16128028 TAAACCC
1 -AAACCC
16128035 AAAAATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 19 0.66
27 5 0.17
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (25 bp):
AAACCCTAAACCCTAAACCTAAACC
Found at i:16128045 original size:20 final size:19
Alignment explanation
Indices: 16127983--16128038 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
16127973 CTTAAACCCT
* **
16127983 AAACCCTAAACCTTAAACC
1 AAACTCTAAACCCAAAACC
*
16128002 AAACTCTAAACCCTAAACC
1 AAACTCTAAACCCAAAACC
16128021 TAAACTCTAAACCCAAAA
1 -AAACTCTAAACCCAAAA
16128039 ATCAAACCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (19 bp):
AAACTCTAAACCCAAAACC
Found at i:16128053 original size:7 final size:7
Alignment explanation
Indices: 16127969--16128065 Score: 53
Period size: 7 Copynumber: 14.4 Consensus size: 7
16127959 CCTAAATCTC
16127969 AAACCTT
1 AAACCTT
*
16127976 AAACCCT
1 AAACCTT
*
16127983 AAACCCT
1 AAACCTT
16127990 AAACCTT
1 AAACCTT
16127997 AAACC--
1 AAACCTT
16128002 AAA-CTCT
1 AAACCT-T
*
16128009 AAACCCT
1 AAACCTT
16128016 AAACC-T
1 AAACCTT
16128022 AAA-CTCT
1 AAACCT-T
*
16128029 AAACC-C
1 AAACCTT
** *
16128035 AAAAATC
1 AAACCTT
16128042 AAACCTT
1 AAACCTT
*
16128049 TAACCTT
1 AAACCTT
*
16128056 AAACCAT
1 AAACCTT
16128063 AAA
1 AAA
16128066 TCAAATCCTA
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
4 1 0.01
5 4 0.06
6 7 0.10
7 56 0.80
8 2 0.03
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCTT
Found at i:16128080 original size:27 final size:27
Alignment explanation
Indices: 16128016--16128081 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
16128006 TCTAAACCCT
16128016 AAACCT-AAA-CTCTAAACCCAAAAATC
1 AAACCTAAAACCT-TAAACCCAAAAATC
** *
16128042 AAACCTTTAACCTTAAA-CCATAAATC
1 AAACCTAAAACCTTAAACCCAAAAATC
16128068 AAATCCTAAAACCT
1 AAA-CCTAAAACCT
16128082 AACCTAGATC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 17 0.52
27 14 0.42
28 2 0.06
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (27 bp):
AAACCTAAAACCTTAAACCCAAAAATC
Found at i:16129096 original size:14 final size:14
Alignment explanation
Indices: 16129077--16129103 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16129067 TAATTAATGT
16129077 TTAATTTTAATTTC
1 TTAATTTTAATTTC
16129091 TTAATTTTAATTT
1 TTAATTTTAATTT
16129104 TCTTGTTTCC
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:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTTAATTTC
Found at i:16130315 original size:37 final size:38
Alignment explanation
Indices: 16130181--16130338 Score: 146
Period size: 37 Copynumber: 4.2 Consensus size: 38
16130171 TAGAAATAAA
* *
16130181 AAGATAGTACATGCACTT-TATCTCATCCACATTTTAAT
1 AAGATAGTACATACA-TTCTATCTCATGCACATTTTAAT
* * *
16130219 AAGATAGTTCA-ACATTCCATCTCACGCACATTTTAAT
1 AAGATAGTACATACATTCTATCTCATGCACATTTTAAT
* * * **
16130256 AAAATAATACATGC-TCTCTATCTCATGCATGTTTTAAT
1 AAGATAGTACATACAT-TCTATCTCATGCACATTTTAAT
* * *
16130294 -AGATAGTACATACATTTTATCTCATACACATCTTAAT
1 AAGATAGTACATACATTCTATCTCATGCACATTTTAAT
16130331 -AGATAGTA
1 AAGATAGTA
16130339 TACGCATTCC
Statistics
Matches: 95, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
36 2 0.02
37 63 0.66
38 30 0.32
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (38 bp):
AAGATAGTACATACATTCTATCTCATGCACATTTTAAT
Found at i:16130316 original size:75 final size:75
Alignment explanation
Indices: 16130188--16130331 Score: 173
Period size: 75 Copynumber: 1.9 Consensus size: 75
16130178 AAAAAGATAG
* * * *
16130188 TACATGCACTTTATCTCATCCACATTTTAATAAGATAGTTCAACATTCCATCTCACGCACATTTT
1 TACATGCACTCTATCTCATCCACATTTTAATAAGATAGTACAACATTCCATCTCACACACATCTT
16130253 AATAAAATAA
66 AATAAAATAA
* * ** ** *
16130263 TACATGCTCTCTATCTCATGCATGTTTTAAT-AGATAGTACATACATTTTATCTCATACACATCT
1 TACATGCACTCTATCTCATCCACATTTTAATAAGATAGTACA-ACATTCCATCTCACACACATCT
16130327 TAATA
65 TAATA
16130332 GATAGTATAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 9 0.16
75 48 0.84
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.38
Consensus pattern (75 bp):
TACATGCACTCTATCTCATCCACATTTTAATAAGATAGTACAACATTCCATCTCACACACATCTT
AATAAAATAA
Found at i:16133284 original size:11 final size:11
Alignment explanation
Indices: 16133268--16133302 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
16133258 AGGGGTATAT
16133268 AAAGAAAAAAA
1 AAAGAAAAAAA
16133279 AAAGAAAAAAA
1 AAAGAAAAAAA
16133290 AAAGGAAAAAAA
1 AAA-GAAAAAAA
16133302 A
1 A
16133303 GAACAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:16133289 original size:12 final size:12
Alignment explanation
Indices: 16133268--16133302 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
16133258 AGGGGTATAT
16133268 AAAG-AAAAAAA
1 AAAGAAAAAAAA
16133279 AAAGAAAAAAAA
1 AAAGAAAAAAAA
*
16133291 AAGGAAAAAAAA
1 AAAGAAAAAAAA
16133303 GAACAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:16137058 original size:27 final size:27
Alignment explanation
Indices: 16137026--16137088 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
16137016 AAAAATCCCT
* *
16137026 AAGAAAAAGAT-TCGCAAGAATAAGAAG
1 AAGAAAAAAATCT-GCAAAAATAAGAAG
*
16137053 AAGAAAAAAATCTGTAAAAATAAGAAG
1 AAGAAAAAAATCTGCAAAAATAAGAAG
16137080 AA-AAAAAAA
1 AAGAAAAAAA
16137089 GAAAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.22
27 24 0.75
28 1 0.03
ACGTcount: A:0.68, C:0.05, G:0.16, T:0.11
Consensus pattern (27 bp):
AAGAAAAAAATCTGCAAAAATAAGAAG
Found at i:16139442 original size:15 final size:14
Alignment explanation
Indices: 16139402--16139508 Score: 56
Period size: 14 Copynumber: 7.2 Consensus size: 14
16139392 TCCATTCAAA
*
16139402 AAAGAAAAAATGAG
1 AAAGAAAAAAAGAG
* *
16139416 AAAGTAAGAAAAGTG
1 AAAG-AAAAAAAGAG
*
16139431 AAAGAAATAAAAGAAAAAA
1 AAAGAAA-AAAAG----AG
* *
16139450 AAACAAAAAAAAAG
1 AAAGAAAAAAAGAG
* *
16139464 AAAGAACAAAAGGAA
1 AAAGAA-AAAAAGAG
16139479 AAAGAAAAAAAG-G
1 AAAGAAAAAAAGAG
16139492 AAAGGAAAAAAA-AG
1 AAA-GAAAAAAAGAG
16139506 AAA
1 AAA
16139509 AAAGAAGAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
13 3 0.04
14 29 0.42
15 27 0.39
18 4 0.06
19 6 0.09
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAAAAGAG
Found at i:16139443 original size:9 final size:8
Alignment explanation
Indices: 16139431--16139511 Score: 62
Period size: 8 Copynumber: 10.2 Consensus size: 8
16139421 AAGAAAAGTG
16139431 AAAGAAATA
1 AAAGAAA-A
16139440 AAAGAAAA
1 AAAGAAAA
16139448 AAA-AACAA
1 AAAGAA-AA
16139456 AAA-AAAA
1 AAAGAAAA
*
16139463 GAAAGAACA
1 -AAAGAAAA
*
16139472 AAAG-GAA
1 AAAGAAAA
16139479 AAAGAAAA
1 AAAGAAAA
*
16139487 AAAGGAAA
1 AAAGAAAA
**
16139495 GGA-AAAA
1 AAAGAAAA
16139502 AAAGAAAA
1 AAAGAAAA
16139510 AA
1 AA
16139512 GAAGAAATGA
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
7 13 0.23
8 34 0.60
9 10 0.18
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.01
Consensus pattern (8 bp):
AAAGAAAA
Found at i:16139462 original size:20 final size:19
Alignment explanation
Indices: 16139439--16139511 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
16139429 TGAAAGAAAT
16139439 AAAAGAAAAAAAAACAAAAA
1 AAAAGAAAAAAAAA-AAAAA
* * **
16139459 AAAAGAAAGAACAAAAGGA
1 AAAAGAAAAAAAAAAAAAA
16139478 AAAAGAAAAAAAGGAAAGGAAAA
1 AAAAGAAAAAAA--AAA--AAAA
16139501 AAAAGAAAAAA
1 AAAAGAAAAAA
16139512 GAAGAAATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 13 0.32
20 12 0.29
21 3 0.07
23 13 0.32
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAAAAA
Found at i:16139466 original size:48 final size:47
Alignment explanation
Indices: 16139399--16139514 Score: 112
Period size: 48 Copynumber: 2.4 Consensus size: 47
16139389 AAATCCATTC
** *
16139399 AAAAAAGAAAAAATGAGAAAGTAAGAAAAGTG-AAAGAAATAAAA-GAAA-
1 AAAAAA-AAAAAAAAAGAAAG-AACAAAAG-GAAAAGAAA-AAAAGGAAAG
16139447 AAAAAACAAAAAAAAAGAAAGAACAAAAGGAAAAAGAAAAAAAGGAAAGG
1 AAAAAA-AAAAAAAAAGAAAGAACAAAAGG-AAAAGAAAAAAAGGAAA-G
*
16139497 AAAAAAAAGAAAAAAGAA
1 AAAAAAAAAAAAAAAGAA
16139515 GAAATGAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
46 1 0.02
47 11 0.19
48 29 0.50
49 11 0.19
50 6 0.10
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (47 bp):
AAAAAAAAAAAAAAAGAAAGAACAAAAGGAAAAGAAAAAAAGGAAAG
Found at i:16141251 original size:17 final size:18
Alignment explanation
Indices: 16141231--16141273 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16141221 TATTTGAAAG
*
16141231 TTATGAGTATTT-AACTC
1 TTATGAATATTTGAACTC
*
16141248 TTATGAATCTTTGAACTC
1 TTATGAATATTTGAACTC
16141266 TTATGAAT
1 TTATGAAT
16141274 CCTAAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (18 bp):
TTATGAATATTTGAACTC
Found at i:16141459 original size:41 final size:41
Alignment explanation
Indices: 16141402--16141799 Score: 257
Period size: 41 Copynumber: 9.7 Consensus size: 41
16141392 AGCCTTTAAT
*
16141402 CTCTGTTGTGAATCCAAAGTCTTCCAACTATGAATCATTTA
1 CTCTATTGTGAATCCAAAGTCTTCCAACTATGAATCATTTA
* * * *
16141443 CTCTGTTGTAAATCCAAAGTCTTCTAACTATAAATCATTTA
1 CTCTATTGTGAATCCAAAGTCTTCCAACTATGAATCATTTA
* * * * * *
16141484 CTCTATTGTGAA-CCTAGAGCCTTTCAACCATAAATCGTTTA
1 CTCTATTGTGAATCC-AAAGTCTTCCAACTATGAATCATTTA
* * * * *
16141525 CTCTATTATGAATCCAAAGTCTGCTAATTGTGAATCATTTA
1 CTCTATTGTGAATCCAAAGTCTTCCAACTATGAATCATTTA
* * * * * * *
16141566 TTCTGTTGTGAA-CCTAGAGTCATCTAAACTGTGAATTATTTA
1 CTCTATTGTGAATCC-AAAGTCTTC-CAACTATGAATCATTTA
* * * * *
16141608 CTTTACTGTAAATCCATAA-TCCTTCAAACTATGAATCGTTTA
1 CTCTATTGTGAATCCA-AAGT-CTTCCAACTATGAATCATTTA
* * * * * ** *
16141650 CTTTATTGTAAATTCAAAGTCTTCCAATTGTGAATTGTTCA
1 CTCTATTGTGAATCCAAAGTCTTCCAACTATGAATCATTTA
* * * * *
16141691 CTTTCTTATGAATCCAAAGTCCTCTAACTATGAATCATTTA
1 CTCTATTGTGAATCCAAAGTCTTCCAACTATGAATCATTTA
* * * * * * *
16141732 TTCTGTTGTGAAT-TAAGAGTATTTCAACTGTGAATCAATTA
1 CTCTATTGTGAATCCAA-AGTCTTCCAACTATGAATCATTTA
*
16141773 CTCTATTGTGAATCAAAAG-CATTCCAA
1 CTCTATTGTGAATCCAAAGTC-TTCCAA
16141800 ATTGTGAATC
Statistics
Matches: 271, Mismatches: 75, Indels: 22
0.74 0.20 0.06
Matches are distributed among these distances:
40 6 0.02
41 203 0.75
42 56 0.21
43 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (41 bp):
CTCTATTGTGAATCCAAAGTCTTCCAACTATGAATCATTTA
Found at i:16141785 original size:82 final size:82
Alignment explanation
Indices: 16141403--16141791 Score: 288
Period size: 82 Copynumber: 4.7 Consensus size: 82
16141393 GCCTTTAATC
* * * * * *
16141403 TCTGTTGTGAATCCAA-AGTCTTCCAACTATGAATCATTTACTCTGTTGTAAATCCAAAGTCTTC
1 TCTGTTGTGAAT-TAAGAGTCTTTCAACTGTGAATCATTTACTCTATTGTGAATCCAAAGTCCTC
* *
16141467 TAACTATAAATCATTTAC
65 TAACTATGAATCATTTAT
* * * ** * * *
16141485 TCTATTGTGAACCT-AGAGCCTTTCAACCATAAATCGTTTACTCTATTATGAATCCAAAGT-CTG
1 TCTGTTGTGAA-TTAAGAGTCTTTCAACTGTGAATCATTTACTCTATTGTGAATCCAAAGTCCT-
* *
16141548 CTAATTGTGAATCATTTAT
64 CTAACTATGAATCATTTAT
* * * * * * *
16141567 TCTGTTGTGAACCT-AGAGTCATCTAAACTGTGAATTATTTACTTTACTGTAAATCCATAA-TCC
1 TCTGTTGTGAA-TTAAGAGTC-TTTCAACTGTGAATCATTTACTCTATTGTGAATCCA-AAGTCC
* *
16141630 TTCAAACTATGAATCGTTTACT
63 -TCTAACTATGAATCATTTA-T
* * * * ** * * * *
16141652 T-TATTGTAAATTCAA-AGTCTTCCAATTGTGAATTGTTCACTTTCTTATGAATCCAAAGTCCTC
1 TCTGTTGTGAATT-AAGAGTCTTTCAACTGTGAATCATTTACTCTATTGTGAATCCAAAGTCCTC
16141715 TAACTATGAATCATTTAT
65 TAACTATGAATCATTTAT
* * *
16141733 TCTGTTGTGAATTAAGAGTATTTCAACTGTGAATCAATTACTCTATTGTGAATCAAAAG
1 TCTGTTGTGAATTAAGAGTCTTTCAACTGTGAATCATTTACTCTATTGTGAATCCAAAG
16141792 CATTCCAAAT
Statistics
Matches: 233, Mismatches: 61, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
81 6 0.03
82 139 0.60
83 56 0.24
84 28 0.12
85 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (82 bp):
TCTGTTGTGAATTAAGAGTCTTTCAACTGTGAATCATTTACTCTATTGTGAATCCAAAGTCCTCT
AACTATGAATCATTTAT
Found at i:16141824 original size:19 final size:19
Alignment explanation
Indices: 16141800--16141847 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
16141790 AGCATTCCAA
16141800 ATTGTGAATCG-TTGTCTAT
1 ATTGTGAATCGTTTG-CTAT
*
16141819 ATTGTGAATCGTTTGCTCT
1 ATTGTGAATCGTTTGCTAT
16141838 ATTGTGAATC
1 ATTGTGAATC
16141848 CAAAGTCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (19 bp):
ATTGTGAATCGTTTGCTAT
Found at i:16141976 original size:41 final size:41
Alignment explanation
Indices: 16141864--16142034 Score: 144
Period size: 41 Copynumber: 4.1 Consensus size: 41
16141854 CCTCTACTTG
* * ** * * *
16141864 TGAATTGTTTACTTTGTTATGAACCTAAAGTCCTCAAACCA
1 TGAATTGTTTACTTTGTTGTAAATTTAGAGTCTTCAAACTA
* * * * *
16141905 TGAATTCTTTACTTTCTTGTTAATTCAGAGTCTTCAAACTG
1 TGAATTGTTTACTTTGTTGTAAATTTAGAGTCTTCAAACTA
16141946 TGAATTGTTTACTTTGTTGTAAATTTAGAGTCCTTCAAACTA
1 TGAATTGTTTACTTTGTTGTAAATTTAGAGT-CTTCAAACTA
** * ** * * *
16141988 TGAATCATTTACTCTACTATGAATCTAGAGTCTTCCAAACTA
1 TGAATTGTTTACTTTGTTGTAAATTTAGAGTCTT-CAAACTA
16142030 TGAAT
1 TGAAT
16142035 CATTTACTCT
Statistics
Matches: 104, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
41 60 0.58
42 44 0.42
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (41 bp):
TGAATTGTTTACTTTGTTGTAAATTTAGAGTCTTCAAACTA
Found at i:16141992 original size:42 final size:42
Alignment explanation
Indices: 16141864--16141992 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 42
16141854 CCTCTACTTG
* * ** * *
16141864 TGAATTGTTTACTTTGTTATGAACCTAAAGTCC-TCAAACCA
1 TGAATTGTTTACTTTGTTGTAAATTTAGAGTCCTTCAAACTA
* * * * *
16141905 TGAATTCTTTACTTTCTTGTTAATTCAGAGT-CTTCAAACTG
1 TGAATTGTTTACTTTGTTGTAAATTTAGAGTCCTTCAAACTA
16141946 TGAATTGTTTACTTTGTTGTAAATTTAGAGTCCTTCAAACTA
1 TGAATTGTTTACTTTGTTGTAAATTTAGAGTCCTTCAAACTA
16141988 TGAAT
1 TGAAT
16141993 CATTTACTCT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
40 1 0.01
41 56 0.79
42 14 0.20
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (42 bp):
TGAATTGTTTACTTTGTTGTAAATTTAGAGTCCTTCAAACTA
Found at i:16141999 original size:42 final size:41
Alignment explanation
Indices: 16141892--16142086 Score: 149
Period size: 42 Copynumber: 4.7 Consensus size: 41
16141882 ATGAACCTAA
* * * * * *
16141892 AGTCCTCAAACCATGAATTC-TTTACTTTCTTGTTAATTCAG
1 AGTCTTCAAACTATGAA-TCATTTACTCTGTTGTAAATTTAG
* ** *
16141933 AGTCTTCAAACTGTGAATTGTTTACTTTGTTGTAAATTTAG
1 AGTCTTCAAACTATGAATCATTTACTCTGTTGTAAATTTAG
** * * *
16141974 AGTCCTTCAAACTATGAATCATTTACTCTACTATGAATCTAG
1 AGT-CTTCAAACTATGAATCATTTACTCTGTTGTAAATTTAG
* * *
16142016 AGTCTTCCAAACTATGAATCATTTACTCTGTTATTAATCTAG
1 AGTCTT-CAAACTATGAATCATTTACTCTGTTGTAAATTTAG
* * * * *
16142058 AGACTTCCAATTATAAATCATTTTCTCTG
1 AGTCTTCAAACTATGAATCATTTACTCTG
16142087 ATGTGAAGCT
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.01
41 57 0.45
42 69 0.54
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (41 bp):
AGTCTTCAAACTATGAATCATTTACTCTGTTGTAAATTTAG
Found at i:16142079 original size:83 final size:83
Alignment explanation
Indices: 16141931--16142085 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 83
16141921 TTGTTAATTC
* ** * * * * *
16141931 AGAGTCTTCAAACTGTGAATTGTTTACTTTGTTGTAAATTTAGAGTCCTTCAAACTATGAATCAT
1 AGAGTCTTCAAACTATGAATCATTTACTCTGTTATAAATCTAGAGTACTTCAAACTATAAATCAT
16141996 TTACTCTACTATGAATCT
66 TTACTCTACTATGAATCT
* * *
16142014 AGAGTCTTCCAAACTATGAATCATTTACTCTGTTATTAATCTAGAG-ACTTCCAATTATAAATCA
1 AGAGTCTT-CAAACTATGAATCATTTACTCTGTTATAAATCTAGAGTACTTCAAACTATAAATCA
*
16142078 TTTTCTCT
65 TTTACTCT
16142086 GATGTGAAGC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
83 29 0.49
84 30 0.51
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (83 bp):
AGAGTCTTCAAACTATGAATCATTTACTCTGTTATAAATCTAGAGTACTTCAAACTATAAATCAT
TTACTCTACTATGAATCT
Found at i:16142099 original size:41 final size:42
Alignment explanation
Indices: 16141981--16142099 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 42
16141971 TAGAGTCCTT
* *
16141981 CAAACTATGAATCATTTACTCT-ACTATGAATCTAGAGTCTTC
1 CAAACTATAAATCATTTACTCTGA-TATGAATCTAGAGACTTC
* * *
16142023 CAAACTATGAATCATTTACTCTGTTATTAATCTAGAGACTTC
1 CAAACTATAAATCATTTACTCTGATATGAATCTAGAGACTTC
* * * *
16142065 C-AATTATAAATCATTTTCTCTGATGTGAAGCTAGA
1 CAAACTATAAATCATTTACTCTGATATGAATCTAGA
16142100 TAGCTTTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
41 27 0.41
42 39 0.59
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (42 bp):
CAAACTATAAATCATTTACTCTGATATGAATCTAGAGACTTC
Found at i:16142099 original size:83 final size:83
Alignment explanation
Indices: 16141931--16142099 Score: 180
Period size: 83 Copynumber: 2.0 Consensus size: 83
16141921 TTGTTAATTC
* ** * * * * *
16141931 AGAGTCTTCAAACTGTGAATTGTTTACTTTGTTGTAAATTTAGAGTCCTTCAAACTATGAATCAT
1 AGAGTCTTCAAACTATGAATCATTTACTCTGTTATAAATCTAGAGTACTTCAAACTATAAATCAT
*
16141996 TTACTCTACTATGAATCT
66 TTACTCTACTATGAAGCT
* * *
16142014 AGAGTCTTCCAAACTATGAATCATTTACTCTGTTATTAATCTAGAG-ACTTCCAATTATAAATCA
1 AGAGTCTT-CAAACTATGAATCATTTACTCTGTTATAAATCTAGAGTACTTCAAACTATAAATCA
* *
16142078 TTTTCTCTGA-TGTGAAGCT
65 TTTACTCT-ACTATGAAGCT
16142097 AGA
1 AGA
16142100 TAGCTTTAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
83 39 0.56
84 31 0.44
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (83 bp):
AGAGTCTTCAAACTATGAATCATTTACTCTGTTATAAATCTAGAGTACTTCAAACTATAAATCAT
TTACTCTACTATGAAGCT
Found at i:16142194 original size:25 final size:24
Alignment explanation
Indices: 16142166--16142212 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
16142156 TAAATTCTTT
16142166 AAAAGAAAAAACAAAAAAAAATAAC
1 AAAAGAAAAAA-AAAAAAAAATAAC
* *
16142191 AAAAGAGAAAAAAATAAAAATA
1 AAAAGAAAAAAAAAAAAAAATA
16142213 TAAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.06
Consensus pattern (24 bp):
AAAAGAAAAAAAAAAAAAAATAAC
Found at i:16143273 original size:25 final size:25
Alignment explanation
Indices: 16143245--16143304 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 25
16143235 TTATTTATAT
*
16143245 ATAATTTTTTATTTATATTTAAAAA
1 ATAATATTTTATTTATATTTAAAAA
16143270 ATAATATTTTA--TAT-TTTAAAAA
1 ATAATATTTTATTTATATTTAAAAA
*
16143292 ATGATATTTTATT
1 ATAATATTTTATT
16143305 AATTTCGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 18 0.58
23 3 0.10
25 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
ATAATATTTTATTTATATTTAAAAA
Found at i:16144009 original size:19 final size:19
Alignment explanation
Indices: 16143985--16144022 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16143975 CTTTATGAAT
16143985 TAATGATAAATATGAAATA
1 TAATGATAAATATGAAATA
*
16144004 TAATGATAAATATGTAATA
1 TAATGATAAATATGAAATA
16144023 GCAGGACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (19 bp):
TAATGATAAATATGAAATA
Found at i:16145046 original size:19 final size:19
Alignment explanation
Indices: 16145022--16145059 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16145012 GAAACCATTA
*
16145022 TAATAATTTAGTAGTAAAT
1 TAATAATTCAGTAGTAAAT
*
16145041 TAATAATTCAGTTGTAAAT
1 TAATAATTCAGTAGTAAAT
16145060 CACTAATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (19 bp):
TAATAATTCAGTAGTAAAT
Found at i:16145066 original size:19 final size:19
Alignment explanation
Indices: 16145023--16145066 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16145013 AAACCATTAT
* *
16145023 AATAATTTAGTAGTAAATT
1 AATAATTCAGTAGTAAATC
*
16145042 AATAATTCAGTTGTAAATC
1 AATAATTCAGTAGTAAATC
*
16145061 ACTAAT
1 AATAAT
16145067 ATCATAATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (19 bp):
AATAATTCAGTAGTAAATC
Found at i:16145198 original size:22 final size:22
Alignment explanation
Indices: 16145126--16145323 Score: 132
Period size: 22 Copynumber: 9.0 Consensus size: 22
16145116 GATAAATTTT
* * *
16145126 TAGTAAATCATTAGTAAATTAA
1 TAGTAAATTATTAATAACTTAA
* *
16145148 TAGTAAATCAATT-ATAACTTTA
1 TAGTAAAT-TATTAATAACTTAA
* *
16145170 TAATAAATTATCAATAACTTAA
1 TAGTAAATTATTAATAACTTAA
* * ** * *
16145192 TGGTAAATCACCAACAATTTAA
1 TAGTAAATTATTAATAACTTAA
* *
16145214 TAG-AAATCATTGATAACTTAA
1 TAGTAAATTATTAATAACTTAA
* *
16145235 AAGTAAATTATTTATAACTTAA
1 TAGTAAATTATTAATAACTTAA
* *
16145257 T-GATAAATTATTAATAATTTAG
1 TAG-TAAATTATTAATAACTTAA
* * *
16145279 TAGTAAATTATTCATAACATAG
1 TAGTAAATTATTAATAACTTAA
* * *
16145301 TAGTAAATAACTAGTAACTTAA
1 TAGTAAATTATTAATAACTTAA
16145323 T
1 T
16145324 TATCAATCAT
Statistics
Matches: 135, Mismatches: 36, Indels: 10
0.75 0.20 0.06
Matches are distributed among these distances:
21 18 0.13
22 113 0.84
23 4 0.03
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (22 bp):
TAGTAAATTATTAATAACTTAA
Found at i:16145659 original size:22 final size:21
Alignment explanation
Indices: 16145603--16145698 Score: 84
Period size: 22 Copynumber: 4.4 Consensus size: 21
16145593 AGTTAATAAA
*
16145603 AAAAAGAAATGATAACTTAAT
1 AAAAATAAATGATAACTTAAT
* * *
16145624 AATTAATCATTGATAACTTAAT
1 AA-AAATAAATGATAACTTAAT
16145646 ACAAAATAAATGATAACTTAAT
1 A-AAAATAAATGATAACTTAAT
** * *
16145668 GGTAAATTAATGATAATTTAAT
1 -AAAAATAAATGATAACTTAAT
16145690 AATAAATAA
1 AA-AAATAA
16145699 GTTTTAGTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
21 2 0.04
22 54 0.95
23 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATGATAACTTAAT
Found at i:16145677 original size:11 final size:11
Alignment explanation
Indices: 16145649--16145696 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
16145639 ACTTAATACA
*
16145649 AAATAAATGAT
1 AAATTAATGAT
* *
16145660 AACTTAATGGT
1 AAATTAATGAT
16145671 AAATTAATGAT
1 AAATTAATGAT
* *
16145682 AATTTAATAAT
1 AAATTAATGAT
16145693 AAAT
1 AAAT
16145697 AAGTTTTAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (11 bp):
AAATTAATGAT
Found at i:16145682 original size:44 final size:43
Alignment explanation
Indices: 16145577--16145698 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 43
16145567 AACAACATAT
* *
16145577 TAGTAAATCAATGATAAGTTAATAAAAAAAAGAAATGATAACTTAA
1 TAGTAAATCAATGATAACTTAAT---AAAAATAAATGATAACTTAA
* * *
16145623 TAATTAATCATTGATAACTTAATACAAAATAAATGATAACTTAA
1 TAGTAAATCAATGATAACTTAATA-AAAATAAATGATAACTTAA
* * *
16145667 TGGTAAATTAATGATAATTTAATAATAAATAA
1 TAGTAAATCAATGATAACTTAATAA-AAATAA
16145699 GTTTTAGTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
43 2 0.03
44 42 0.67
46 19 0.30
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (43 bp):
TAGTAAATCAATGATAACTTAATAAAAATAAATGATAACTTAA
Found at i:16146142 original size:21 final size:21
Alignment explanation
Indices: 16146082--16146233 Score: 100
Period size: 21 Copynumber: 7.2 Consensus size: 21
16146072 AAAAGTTACT
*
16146082 AAAATTACAT-AAAGAAGTTATC
1 AAAATTATATCAAAG-A-TTATC
*
16146104 AAAATT-TAATTAAAGATTATC
1 AAAATTAT-ATCAAAGATTATC
*
16146125 AAAATTATATCAATGATTA-C
1 AAAATTATATCAAAGATTATC
*
16146145 TAAAATTATATCATAAG--TAAC
1 -AAAATTATATCA-AAGATTATC
* ** *
16146166 CAAATTAATATTGAAGGTTATC
1 AAAATT-ATATCAAAGATTATC
* *
16146188 AAAATTGTATCAAAGATTATT
1 AAAATTATATCAAAGATTATC
*
16146209 AAAATTTTATCAAA-AGTTATC
1 AAAATTATATCAAAGA-TTATC
16146230 AAAA
1 AAAA
16146234 ATTAAAAGTA
Statistics
Matches: 104, Mismatches: 16, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
20 12 0.12
21 68 0.65
22 20 0.19
23 4 0.04
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAATTATATCAAAGATTATC
Found at i:16146200 original size:11 final size:10
Alignment explanation
Indices: 16146183--16146233 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
16146173 ATATTGAAGG
16146183 TTATCAAAAT
1 TTATCAAAAT
16146193 TGTATCAAAGA-
1 T-TATCAAA-AT
*
16146204 TTATTAAAATT
1 TTATCAAAA-T
*
16146215 TTATCAAAAG
1 TTATCAAAAT
16146225 TTATCAAAA
1 TTATCAAAA
16146234 ATTAAAAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
9 1 0.03
10 16 0.47
11 16 0.47
12 1 0.03
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:16153085 original size:20 final size:20
Alignment explanation
Indices: 16153057--16153095 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16153047 TGGCATGACC
*
16153057 TTAATTTTGTTGATGTGATG
1 TTAACTTTGTTGATGTGATG
16153077 TTAACTTTGTTGATGTGAT
1 TTAACTTTGTTGATGTGAT
16153096 AATATAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.23, T:0.54
Consensus pattern (20 bp):
TTAACTTTGTTGATGTGATG
Found at i:16153368 original size:22 final size:21
Alignment explanation
Indices: 16153302--16153370 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
16153292 AAAACCATCT
*
16153302 AAAAATTT--AAAAAGTATTA
1 AAAAATTTAAAAAAAATATTA
* *
16153321 AAAAATTCAAAAGAAAATATGCA
1 AAAAATTTAAAA-AAAATAT-TA
16153344 AAAAATTTAAAAAAAATGATTA
1 AAAAATTTAAAAAAAAT-ATTA
16153366 AAAAA
1 AAAAA
16153371 AGGAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.17
21 2 0.05
22 17 0.43
23 14 0.35
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (21 bp):
AAAAATTTAAAAAAAATATTA
Found at i:16153371 original size:23 final size:23
Alignment explanation
Indices: 16153320--16153386 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
16153310 AAAAAGTATT
**
16153320 AAAAAATTCAAAAGAAAAT-ATGC
1 AAAAAATTCAAAA-AAAATGATTA
*
16153343 AAAAAATTTAAAAAAAATGATTA
1 AAAAAATTCAAAAAAAATGATTA
**
16153366 AAAAAA-GGAAAAAAAATGATT
1 AAAAAATTCAAAAAAAATGATT
16153387 TTTTAATCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
23 20 0.53
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (23 bp):
AAAAAATTCAAAAAAAATGATTA
Found at i:16156705 original size:14 final size:13
Alignment explanation
Indices: 16156686--16156724 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
16156676 TTATTGTAAC
16156686 AAAATCAAATCACA
1 AAAATCAAATCA-A
*
16156700 AAAATCAAATTAA
1 AAAATCAAATCAA
16156713 AAAAT-AAATCAA
1 AAAATCAAATCAA
16156725 TTCACAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 6 0.26
13 6 0.26
14 11 0.48
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATCAAATCAA
Found at i:16158292 original size:25 final size:26
Alignment explanation
Indices: 16158247--16158303 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
16158237 AAATATAAAA
16158247 ATACATAGCAAATACACAAATGAAAT
1 ATACATAGCAAATACACAAATGAAAT
* *
16158273 ATACATAGC-AATACATAAATGAAGT
1 ATACATAGCAAATACACAAATGAAAT
16158298 ATACAT
1 ATACAT
16158304 GATTAACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.54, C:0.14, G:0.09, T:0.23
Consensus pattern (26 bp):
ATACATAGCAAATACACAAATGAAAT
Found at i:16158904 original size:9 final size:9
Alignment explanation
Indices: 16158890--16158916 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16158880 AGTTAGGCTC
16158890 GGTGATGGT
1 GGTGATGGT
16158899 GGTGATGGT
1 GGTGATGGT
16158908 GGTGATGGT
1 GGTGATGGT
16158917 TTAGGCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.56, T:0.33
Consensus pattern (9 bp):
GGTGATGGT
Found at i:16159123 original size:62 final size:61
Alignment explanation
Indices: 16159053--16159219 Score: 198
Period size: 62 Copynumber: 2.8 Consensus size: 61
16159043 TCAAATAAGG
*
16159053 TTTAAAAAATATCAATTACTACATTTCTTTTAAATAAACA-AACTAACTGAGTTAAGAAATTT
1 TTTAAAAAATATCAATTACTACATTTCTTTTAAATAAACACAA-TAACTGAGTCAAGAAA-TT
*** * *
16159115 TTTAAAAAATATCAATTACTGTGTTTCTTTTAAATAAACACAATAATTGAGTCAAGTAATT
1 TTTAAAAAATATCAATTACTACATTTCTTTTAAATAAACACAATAACTGAGTCAAGAAATT
* * *
16159176 TTT-AAAAAGATCAATTACT--ATGTATTTTAAAATAAACACAATAA
1 TTTAAAAAATATCAATTACTACATTTCTTTT-AAATAAACACAATAA
16159220 TAGTTCTCGT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
58 6 0.06
59 15 0.16
60 15 0.16
61 5 0.05
62 50 0.54
63 2 0.02
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (61 bp):
TTTAAAAAATATCAATTACTACATTTCTTTTAAATAAACACAATAACTGAGTCAAGAAATT
Found at i:16165576 original size:16 final size:16
Alignment explanation
Indices: 16165557--16165590 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16165547 TTGAAACAAT
16165557 ATTAAAATGAAATGAC
1 ATTAAAATGAAATGAC
*
16165573 ATTAAAATGAAATTAC
1 ATTAAAATGAAATGAC
16165589 AT
1 AT
16165591 ATTTTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (16 bp):
ATTAAAATGAAATGAC
Found at i:16171570 original size:135 final size:135
Alignment explanation
Indices: 16171324--16171597 Score: 433
Period size: 135 Copynumber: 2.0 Consensus size: 135
16171314 TGATCAGTTT
* *
16171324 CATCAAAGGAATTTAAAGGGAAAAGCTGCAAAGTCTCAATAACCCTTTCAAGCTGATATTCTTTA
1 CATCAAAGGAATTTAAAGGGAAAAGCTGCAAAGTCTCAATAACCCTTTCAAGCTAATATTCCTTA
* *
16171389 ACCTCAAAATACTCTGAAAAAAAAATAATCTTCATCAAAACTAAAAAAAATCAGGAACCAAAATG
66 ACCTCAAAAAACTCTAAAAAAAAAATAATCTTCATCAAAACTAAAAAAAATCAGGAACCAAAATG
16171454 TTAAA
131 TTAAA
* * * *
16171459 CATCAAAGGAATTTAAAGGGAAAAGCTGCAAAGTCTCAATAACTCTTTCACGCTAATTTTCCTTG
1 CATCAAAGGAATTTAAAGGGAAAAGCTGCAAAGTCTCAATAACCCTTTCAAGCTAATATTCCTTA
* *
16171524 ACCTCAAAAAAC-CTAAAAAAAAAATAATTTTCATCAAAACTAAAAAAAAATCAGGAATCAAAAT
66 ACCTCAAAAAACTCTAAAAAAAAAATAATCTTCATCAAAACT-AAAAAAAATCAGGAACCAAAAT
*
16171588 GTTAAG
130 GTTAAA
16171594 CATC
1 CATC
16171598 CAACTTAAAA
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
134 27 0.21
135 100 0.79
ACGTcount: A:0.48, C:0.18, G:0.10, T:0.24
Consensus pattern (135 bp):
CATCAAAGGAATTTAAAGGGAAAAGCTGCAAAGTCTCAATAACCCTTTCAAGCTAATATTCCTTA
ACCTCAAAAAACTCTAAAAAAAAAATAATCTTCATCAAAACTAAAAAAAATCAGGAACCAAAATG
TTAAA
Found at i:16173955 original size:17 final size:15
Alignment explanation
Indices: 16173926--16173979 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
16173916 AAGTGGTTGG
16173926 GTATCTGATAATTTAT
1 GTAT-TGATAATTTAT
*
16173942 GTATTCGTATAATTTAAA
1 GTATT-G-ATAATTT-AT
*
16173960 ATATTGATAATTTAT
1 GTATTGATAATTTAT
16173975 GTATT
1 GTATT
16173980 TATATAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 6 0.19
16 12 0.39
17 8 0.26
18 5 0.16
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.50
Consensus pattern (15 bp):
GTATTGATAATTTAT
Found at i:16179044 original size:235 final size:232
Alignment explanation
Indices: 16178206--16179147 Score: 779
Period size: 234 Copynumber: 4.0 Consensus size: 232
16178196 GCTAAGAAGA
* * * * *
16178206 AATTATTTTTTTGTAAATGTATAAGAAAAACAGCTAAAAATTAAAAAAAA-TGGTAATGTAAACA
1 AATTATTGTTTTGTAAATATACAAGAAAAATAGCTAAAAATTAAAAAAAATTGATAATGTAAACA
* * * * * *
16178270 AATGAGAA-AAATGTAAAATTAATATCATTTAGCATAAAATGGGTATA-AATTGTCATAA-A-AT
66 AGTGAGAAGAAACGTAAAATTAATACCATTTAACATAAAATGGGTA-AGAAGTATCATAATACAT
* * *
16178331 GCTAA-AAAAAGTTATAGCAATTCTAAACATAATGAAAATTAAGAACAATCATAATAA-TATATT
130 --TAAGAAAAAGTTATAACAATTCTAAACATAATGAAAAGTAAAAACAA-CATAA-AAGTATATT
* * *
16178394 ATTGTAATTTAAATAATTAT-ATTGATAACGTAAAATTATAATT
191 ATTGTAA-ATAAATAATTATGA-TGATAATGTAAAATTTTAATT
* * *
16178437 AATTATTGTTTTATAAATAT-CTAAGAAAAATAGTTAAAAATTGACAAATAAATTGATAATGTAA
1 AATTATTGTTTTGTAAATATAC-AAGAAAAATAGCTAAAAATT-A-AAAAAAATTGATAATGTAA
* * * * * *** * * ** * *
16178501 ACAAGTGAGAACAAGCATAAATTTAGTACCATTTAGTGTAAACTGGGTAAAAAGTATTGTAACAT
63 ACAAGTGAGAAGAAACGTAAAATTAATACCATTTAACATAAAATGGGTAAGAAGTATCATAATAC
* * * * * ***
16178566 GTTAAGAAAGAGTTATGACAATTGTAAATATAATGAAAAGTAAAAA-ATTGTAAAAAG-ATATTA
128 ATTAAGAAAAAGTTATAACAATTCTAAACATAATGAAAAGTAAAAACAACAT-AAAAGTATATTA
*
16178629 TTGTAAAGGT-AATAATTATGTTGATAATGTAAAATTTTAATT
192 TTGTAAA--TAAATAATTATGATGATAATGTAAAATTTTAATT
* * * * *
16178671 ATTTATTATTCTTGTAAATATATAATAAAAATAGCT-AAAATTAAAAACTAAATTGATAATGCAA
1 AATTATTGTT-TTGTAAATATACAAGAAAAATAGCTAAAAATTAAAAA--AAATTGATAATGTAA
* *** * *
16178735 ACAAGTGAGAAGAAATGTAAAATTAATACCATTTAGA-ATAAAATAAATTAGAAGCATCATAATA
63 ACAAGTGAGAAGAAACGTAAAATTAATACCATTTA-ACATAAAATGGGTAAGAAGTATCATAATA
** * * *
16178799 CACCAAGAAAAAGTTACAACAATTCTAAACCTAATGAAAAGTAAAAACAACAATAAAAGTTTATT
127 CATTAAGAAAAAGTTATAACAATTCTAAACATAATGAAAAGTAAAAACAAC-ATAAAAGTATATT
* *
16178864 ATTGTAACATAAATAATTATGATAATAATGTAAAATTTTAAAT
191 ATTGTAA-ATAAATAATTATGATGATAATGTAAAATTTTAATT
* * * *
16178907 AATTGTTGTTATTGTATATATACAAGGAAAATAGCTAGAAATTAAAAAAAATT-AGTAATGTAAA
1 AATTATTGTT-TTGTAAATATACAAGAAAAATAGCTAAAAATTAAAAAAAATTGA-TAATGTAAA
* * *
16178971 CAAGTGAGAAGAAACGTAAAATTAGTATCATTTAACATAAAATGGGTAAGAAGTGTCATAATACA
64 CAAGTGAGAAGAAACGTAAAATTAATACCATTTAACATAAAATGGGTAAGAAGTATCATAATACA
** * * * * * * **
16179036 TTAAGAAAAAACTATGATAGTTATAAACGTAA-CAAAA-TATAAGAACAATTGTAAAAG-ATATT
129 TTAAGAAAAAGTTATAACAATTCTAAACATAATGAAAAGTA-AA-AACAA-CATAAAAGTATATT
* * *
16179098 ATTGTAACATAAATATTTA-AATAGACAATGTAAAATTTTAATT
191 ATTGTAA-ATAAATAATTATGAT-GATAATGTAAAATTTTAATT
*
16179141 AACTATT
1 AATTATT
16179148 ATTTATATAT
Statistics
Matches: 560, Mismatches: 120, Indels: 59
0.76 0.16 0.08
Matches are distributed among these distances:
231 35 0.06
232 4 0.01
233 11 0.02
234 226 0.40
235 169 0.30
236 103 0.18
237 12 0.02
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (232 bp):
AATTATTGTTTTGTAAATATACAAGAAAAATAGCTAAAAATTAAAAAAAATTGATAATGTAAACA
AGTGAGAAGAAACGTAAAATTAATACCATTTAACATAAAATGGGTAAGAAGTATCATAATACATT
AAGAAAAAGTTATAACAATTCTAAACATAATGAAAAGTAAAAACAACATAAAAGTATATTATTGT
AAATAAATAATTATGATGATAATGTAAAATTTTAATT
Found at i:16179164 original size:470 final size:465
Alignment explanation
Indices: 16178219--16179164 Score: 982
Period size: 470 Copynumber: 2.0 Consensus size: 465
16178209 TATTTTTTTG
* * *
16178219 TAAATGTATAAGAAAAACAGCTAAAAATTAAAAAAAATGGTAATGTAAACAAATGAGAAAAATGT
1 TAAATATATAAGAAAAACAGCTAAAAATTAAAAAAAATGATAATGCAAACAAATGAGAAAAATGT
* * *** *** ** * * *
16178284 AAAATTAATATCATTTAGCATAAAATGGGTATAAATTGTCATAAAATGCTAAAAAAAGTTATAGC
66 AAAATTAATACCATTTAGAATAAAATAAATATAAAGCATCATAAAACACCAAAAAAAGTTACAAC
* * **
16178349 AATTCTAAACATAATGAAAATTAAGAACAATCATAATAATATATTATTGTAATTTAAATAATTAT
131 AATTCTAAACATAATGAAAAGTAAAAACAATCATAATAATATATTATTGTAACATAAATAATTAT
* * *
16178414 ATTGATAACGTAAAATTATAATTAATTATTGTTTTATAAATATCTAAGAAAAATAGTTAAAAATT
196 ATTAATAACGTAAAATTATAAATAATTATTGTTTTATAAATATCTAAGAAAAATAGCTAAAAATT
* * * *** *
16178479 GACAAATAAATTGATAATGTAAACAAGTGAGAACAAGCATAAATTTAGTACCATTTAGTGTAAAC
261 GACAAAAAAATTGATAATGTAAACAAGTGAGAACAAACATAAAATTAGTACCATTTAACATAAAA
** ** * ** * * * *
16178544 TGGGTAAAAAGTATTGTAACATGTTAAGAAAGAGTTATGACAATTGTAAATATAATGAAAAGTAA
326 TGGGTAAAAAGTATCATAACACATTAAGAAAAAACTATGACAATTATAAACATAATCAAAAATAA
** * * **
16178609 AAAATTGTAAAAAGATATTATTGTAAAGGTAATAATTATGTTGATAATGTAAAATTTTAATTATT
391 AAAATTGTAAAAAGATATTATTGTAAA-GTAATAATTAAATAGACAATGTAAAATTTTAATTAAC
*
16178674 TATTATTCTTG
455 TATTATTCTTA
* * *
16178685 TAAATATATAATAAAAATAGCT-AAAATTAAAAACTAAATTGATAATGCAAACAAGTGAGAAGAA
1 TAAATATATAAGAAAAACAGCTAAAAATTAAAAA--AAA-TGATAATGCAAACAAATGAGAA-AA
*
16178749 ATGTAAAATTAATACCATTTAGAATAAAATAAAT-TAGAAGCATCATAATACACCAAGAAAAAGT
62 ATGTAAAATTAATACCATTTAGAATAAAATAAATATA-AAGCATCATAAAACACCAA-AAAAAGT
* *
16178813 TACAACAATTCTAAACCTAATGAAAAGTAAAAACAA-CAATAA-AAGTTTATTATTGTAACATAA
125 TACAACAATTCTAAACATAATGAAAAGTAAAAACAATC-ATAATAA-TATATTATTGTAACATAA
* * * * * *
16178876 ATAATTATGA-TAATAATGTAAAATTTTAAATAATTGTTGTTATTGTATATATAC-AAGGAAAAT
188 ATAATTAT-ATTAATAACGTAAAATTATAAATAATTATTGTT-TTATAAATAT-CTAAGAAAAAT
* * * *
16178939 AGCTAGAAATT-A-AAAAAAATT-AGTAATGTAAACAAGTGAGAAGAAACGTAAAATTAGTATCA
250 AGCTAAAAATTGACAAAAAAATTGA-TAATGTAAACAAGTGAGAACAAACATAAAATTAGTACCA
* * * * * *
16179001 TTTAACATAAAATGGGTAAGAAGTGTCATAATACATTAAGAAAAAACTATGATAGTTATAAACGT
314 TTTAACATAAAATGGGTAAAAAGTATCATAACACATTAAGAAAAAACTATGACAATTATAAACAT
*
16179066 AA-CAAAATATAAGAACAATTGT-AAAAGATATTATTGTAACA-TAAATATTTAAATAGACAATG
379 AATCAAAA-ATAA-AA-AATTGTAAAAAGATATTATTGTAA-AGT-AATAATTAAATAGACAATG
16179128 TAAAATTTTAATTAACTATTATT-TATA
439 TAAAATTTTAATTAACTATTATTCT-TA
*
16179155 TATATATATA
1 TAAATATATA
16179165 TATATGTGTG
Statistics
Matches: 390, Mismatches: 72, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
465 11 0.03
466 19 0.05
467 3 0.01
468 26 0.07
469 141 0.36
470 156 0.40
471 33 0.08
472 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (465 bp):
TAAATATATAAGAAAAACAGCTAAAAATTAAAAAAAATGATAATGCAAACAAATGAGAAAAATGT
AAAATTAATACCATTTAGAATAAAATAAATATAAAGCATCATAAAACACCAAAAAAAGTTACAAC
AATTCTAAACATAATGAAAAGTAAAAACAATCATAATAATATATTATTGTAACATAAATAATTAT
ATTAATAACGTAAAATTATAAATAATTATTGTTTTATAAATATCTAAGAAAAATAGCTAAAAATT
GACAAAAAAATTGATAATGTAAACAAGTGAGAACAAACATAAAATTAGTACCATTTAACATAAAA
TGGGTAAAAAGTATCATAACACATTAAGAAAAAACTATGACAATTATAAACATAATCAAAAATAA
AAAATTGTAAAAAGATATTATTGTAAAGTAATAATTAAATAGACAATGTAAAATTTTAATTAACT
ATTATTCTTA
Found at i:16179703 original size:452 final size:451
Alignment explanation
Indices: 16178860--16179706 Score: 997
Period size: 452 Copynumber: 1.9 Consensus size: 451
16178850 AATAAAAGTT
* * * * * *
16178860 TATTATTGTAACATAAATAATTATGATAATAATGTAAAATTTTAAATAATTGTTGTTATTGTATA
1 TATTATTATAACATAAATAATTAAGATAATAATGTAAAATTTTAAATAATTATTATTATTATAAA
* * * *
16178925 TATACAAGGAAAATAGCTAGAAATTAAAAAAAATTAGTAATGTAAACAAGTGAGAAGAAACGTAA
66 TATACAAGAAAAATAACTAAAAATTAAAAAAAAATAGTAATGTAAACAAGTGAGAAGAAACGTAA
* * * * *
16178990 AATTAGTATCATTTAACATAAAATGGGTAAGAAGTGTCATAATACATTAAGAAAAAACTATGATA
131 AATTAGTATCATTTAACATAAAATGAGTAAGAAGTGTCATAACACACTAAGAAAAAACTATAACA
* * * * *
16179055 GTTATAAACGTAACAAAATATAAGAACAATTGTAAAAGATATTATTGTAACATAAATATTTAAAT
196 ATTATAAACGTAACAAAAAATAAAAACAATTGTAAAAGATATTATTGTAACATAAACAATTAAAT
** * * * ***** *
16179120 AGACAATGTAAAATTTTAATTAACTATTATTTATATATATATATATATATGTGTGGCTAATAATT
261 AGACAACATAAAATTTTAATTAACTATTATTTATATAAATATATAAACATAAAAAGCTAAAAATT
* * * ** * * *
16179185 AAAAAGCAAATCGGTAACTAAACAAATAGGTGAAAAACATAAAATTTGTGTCATTTGGCGTAAAA
326 AAAAAACAAATAGGTAACTAAACAAATA-GAGAAAAACATAAAATTCATATCATTTGACATAAAA
16179250 TGAGTGAGAAAGAGTTACGATAATTCTAAAAGTAATGGAAGGTAAGAATAATTGTAAAACAA
390 TGAGTGAGAAAGAGTTACGATAATTCTAAAAGTAATGGAAGGTAAGAATAATTGTAAAACAA
* * * *
16179312 TATTATTATAACATAAATAATTAAG-TATATAACT-TAAACTTTTAATTGATTATTATTTTTATA
1 TATTATTATAACATAAATAATTAAGATA-ATAA-TGTAAAATTTTAAATAATTATTATTATTATA
* *
16179375 AATATATAAGAAAAATAACTAAAAATTAAAAAACAAATAGGTAATGTAAACAAGTGAGAA-AAAT
64 AATATACAAGAAAAATAACTAAAAATTAAAAAA-AAATA-GTAATGTAAACAAGTGAGAAGAAAC
* * ** * ** *
16179439 GTAAATTTTGTATCATTTGTCGTAAAATGAGTAAGAAGTGTTGTAACACACTATA-AAAAAGCTA
127 GTAAAATTAGTATCATTTAACATAAAATGAGTAAGAAGTGTCATAACACACTA-AGAAAAAACTA
* **
16179503 TAACAATTATAAACGTAATAAAAAATAAAAACAATTGTAAGAAGATATTATTGTAATGTAAACAA
191 TAACAATTATAAACGTAACAAAAAATAAAAACAATTGTAA-AAGATATTATTGTAACATAAACAA
** * *
16179568 TTAAATAGGTAACATAAAATTTTAATTAATTATTATTT-TGTAAATATATAAACA-AAAAAGCTA
255 TTAAATAGACAACATAAAATTTTAATTAACTATTATTTATATAAATATATAAACATAAAAAGCTA
* *
16179631 AAAATTAAAAAATAAATAGGTAACATAAACAAGT-GAGAAAAATCATAAAATTCATATCATTTGA
320 AAAATTAAAAAACAAATAGGTAAC-TAAACAAATAGAGAAAAA-CATAAAATTCATATCATTTGA
*
16179695 TATAAAATGAGT
383 CATAAAATGAGT
16179707 AAAAAGTATC
Statistics
Matches: 324, Mismatches: 63, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
451 9 0.03
452 128 0.40
453 113 0.35
454 74 0.23
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (451 bp):
TATTATTATAACATAAATAATTAAGATAATAATGTAAAATTTTAAATAATTATTATTATTATAAA
TATACAAGAAAAATAACTAAAAATTAAAAAAAAATAGTAATGTAAACAAGTGAGAAGAAACGTAA
AATTAGTATCATTTAACATAAAATGAGTAAGAAGTGTCATAACACACTAAGAAAAAACTATAACA
ATTATAAACGTAACAAAAAATAAAAACAATTGTAAAAGATATTATTGTAACATAAACAATTAAAT
AGACAACATAAAATTTTAATTAACTATTATTTATATAAATATATAAACATAAAAAGCTAAAAATT
AAAAAACAAATAGGTAACTAAACAAATAGAGAAAAACATAAAATTCATATCATTTGACATAAAAT
GAGTGAGAAAGAGTTACGATAATTCTAAAAGTAATGGAAGGTAAGAATAATTGTAAAACAA
Found at i:16179876 original size:235 final size:229
Alignment explanation
Indices: 16179299--16179987 Score: 681
Period size: 235 Copynumber: 2.9 Consensus size: 229
16179289 AGGTAAGAAT
* *
16179299 AATTGTAA-AACAATATTATTATAACATAAATAATTAAGTATATAACTTAAACTTTTAATTGATT
1 AATTGTAAGAA-AATATTATTATAACATAAATAATTATGTA-AT-A-TTAAA-TTTTAATTAATT
* * *
16179363 ATTATTTTTATAAATATATAAGAAAAATAA-CTAAAAATTAAAAAACAAATAGGTAATGTAAACA
61 ATTA-TTTTGTAAATATATAAGAAAAA-AAGATAAAAATTAAAAAA-AAATAGGTAACGTAAACA
* * * * * *
16179427 AGTGAGAAAAATGTAAATTTTGTATCATTTG-TCGTAAAATGAGTAAGAAGTGTTGTAACACACT
123 AGTGAGAAAAATATAAAATTTGTATCATTTGAT-ATAAAATGAGTAAAAAGTGTCGTAACATACT
* *
16179491 ATAAAAAAGCTATAACAATTATAAACGTAATAAAAAATAAAAAC
187 A-AAAAAAGTTATAACAATTCTAAACGTAATAAAAAATAAAAAC
* * ** * * *
16179535 AATTGTAAGAAGATATTATTGTAATGTAAACAATTAAATAGGTAACATAAAATTTTAATTAATTA
1 AATTGTAAGAAAATATTATTATAACATAAATAATT--AT--GTAATATTAAATTTTAATTAATTA
* *
16179600 TTATTTTGTAAATATATAA-ACAAAAAAGCTAAAAATTAAAAAATAAATAGGTAACATAAACAAG
62 TTATTTTGTAAATATATAAGA-AAAAAAGATAAAAATTAAAAAA-AAATAGGTAACGTAAACAAG
** *
16179664 TGAGAAAAATCATAAAATTCATATCATTTGATATAAAATGAGTAAAAAGTATCGTAATACATACT
125 TGAGAAAAAT-ATAAAATTTGTATCATTTGATATAAAATGAGTAAAAAGTGTCGT-A-ACATACT
** **
16179729 AAGAAAAAGTTATAACAATTCTAAACGT-A-AAGTAATGCAAGTAC
187 AA-AAAAAGTTATAACAATTCTAAACGTAATAAAAAAT--AAAAAC
* * * *
16179773 TATTGTAAGAAAATATTATTATAACATAAATAATTATGCAATGTTAAATTTTAATTTATTATTAT
1 AATTGTAAGAAAATATTATTATAACATAAATAATTATGTAATATTAAATTTTAATTAATTATTAT
* * ** * **
16179838 TTTGTAAATATATAAGAAAAACAGATAAAATTTTAAAAACAAAA-AAATAACGTGAACAAGAAAA
66 TTTGTAAATATATAAGAAAAAAAGATAAAA-ATTAAAAA-AAAATAGGTAACGTAAACAAG-TGA
* * * *
16179902 GAAAAAATATAAAATTTGTATCATTTGATACAAAATGAGTAAAAAGTGCCATAACATATTAAAAA
128 G-AAAAATATAAAATTTGTATCATTTGATATAAAATGAGTAAAAAGTGTCGTAACATACTAAAAA
*
16179967 AGAGTTATAATAATTCTAAAC
192 A-AGTTATAACAATTCTAAAC
16179988 TTATTGGAAT
Statistics
Matches: 377, Mismatches: 56, Indels: 43
0.79 0.12 0.09
Matches are distributed among these distances:
232 4 0.01
233 26 0.07
234 65 0.17
235 113 0.30
236 90 0.24
237 10 0.03
238 65 0.17
239 1 0.00
240 3 0.01
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.31
Consensus pattern (229 bp):
AATTGTAAGAAAATATTATTATAACATAAATAATTATGTAATATTAAATTTTAATTAATTATTAT
TTTGTAAATATATAAGAAAAAAAGATAAAAATTAAAAAAAAATAGGTAACGTAAACAAGTGAGAA
AAATATAAAATTTGTATCATTTGATATAAAATGAGTAAAAAGTGTCGTAACATACTAAAAAAAGT
TATAACAATTCTAAACGTAATAAAAAATAAAAAC
Found at i:16183054 original size:30 final size:30
Alignment explanation
Indices: 16182997--16183088 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
16182987 TATACTTTTC
* * *
16182997 TTACACTCAAATAAGCTCTTGACCTTTACT
1 TTACACTCAAATAAGCTCTTAAACTTTAAT
16183027 TTACACTCAAATAAGC-CTTTAAACTTTAAT
1 TTACACTCAAATAAGCTC-TTAAACTTTAAT
* * *
16183057 TTATATTCAAATAAGTTCTT-AACATTTAAT
1 TTACACTCAAATAAGCTCTTAAAC-TTTAAT
16183087 TT
1 TT
16183089 GTACCAAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.08
30 48 0.91
31 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.41
Consensus pattern (30 bp):
TTACACTCAAATAAGCTCTTAAACTTTAAT
Found at i:16185456 original size:24 final size:24
Alignment explanation
Indices: 16185423--16185471 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
16185413 ATCTCAATCC
16185423 AAAAAAC-AAATTTAAAAATAAAA
1 AAAAAACAAAATTTAAAAATAAAA
*
16185446 AAAAAACCAAAATTTGAAAATAAAA
1 AAAAAA-CAAAATTTAAAAATAAAA
16185471 A
1 A
16185472 TTAGGAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.26
24 1 0.04
25 16 0.70
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAAAACAAAATTTAAAAATAAAA
Found at i:16185907 original size:17 final size:17
Alignment explanation
Indices: 16185867--16185907 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16185857 AAGATAGGAT
16185867 AATTTATTTATTAGTTA
1 AATTTATTTATTAGTTA
* **
16185884 AAATTATTTATTTTTTA
1 AATTTATTTATTAGTTA
16185901 AATTTAT
1 AATTTAT
16185908 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
AATTTATTTATTAGTTA
Found at i:16186985 original size:2 final size:2
Alignment explanation
Indices: 16186973--16187004 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
16186963 AAATCTTCTT
16186973 TA TA T- TA TA TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16187005 CCATAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:16186987 original size:9 final size:9
Alignment explanation
Indices: 16186973--16187003 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
16186963 AAATCTTCTT
16186973 TATATTATA
1 TATATTATA
16186982 TATATTATA
1 TATATTATA
16186991 TATA-TATA
1 TATATTATA
16186999 TATAT
1 TATAT
16187004 ACCATAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATATTATA
Found at i:16187477 original size:37 final size:37
Alignment explanation
Indices: 16187427--16187498 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
16187417 ATATATATAT
* *
16187427 CGTGGTTGGTTCAGCTCGATTACTT-AACCATTCATGC
1 CGTGGTTGATTCAGCTCAATT-CTTGAACCATTCATGC
*
16187464 CGTGGTTGATTCAGCTCAATTGTTGAACCATTCAT
1 CGTGGTTGATTCAGCTCAATTCTTGAACCATTCAT
16187499 TACCGTGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 2 0.06
37 29 0.94
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (37 bp):
CGTGGTTGATTCAGCTCAATTCTTGAACCATTCATGC
Found at i:16188264 original size:2 final size:2
Alignment explanation
Indices: 16188257--16188282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16188247 CATTGTTAAA
16188257 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
16188283 TTTGCATTAT
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:16189261 original size:159 final size:159
Alignment explanation
Indices: 16188964--16189327 Score: 360
Period size: 159 Copynumber: 2.3 Consensus size: 159
16188954 AACACCTGTA
* * *
16188964 AGTATATACTTGTATGTTTTAATTTTTCTTGCCTATACTGACAGTTAACGCTTATTAGTATAGAC
1 AGTATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGACAGTTAACGCTTATTAGTATAGAC
* * * * * * * * *
16189029 TTGTAATTTTTTTTACTTATATTGACACTTAAAGCCTGTTAGTGTAAATTTGTATATTTTAATTT
66 TTGTAATTTTTCTTACTTACACTGACACTTAAAGCCTATCAATATAAACTTATATATTTTAATTT
*
16189094 CTTACCTATACCAACGATTA-ACGCCCGTC
131 CTTACCTATACCAACGATTATA-GACCGTC
* * * * * * *
16189123 TGTATAGACTTATATGTTTTAATTTTTTTTACTTATACCGATAGTTAATGTTTATTAGTATAGAC
1 AGTATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGACAGTTAACGCTTATTAGTATAGAC
** *
16189188 TTGTAATTTTTCTTA-TCTACACTGACACTTAACATTC-ATCAATATAGACTTATAT-TTTTAAT
66 TTGTAATTTTTCTTACT-TACACTGACACTTAA-AGCCTATCAATATAAACTTATATATTTTAA-
* * *** * *
16189250 TTTTTTTCCTATATTGACGGTTATAGACTGTC
128 TTTCTTACCTATACCAACGATTATAGACCGTC
* * *
16189282 AGTATAGACTTGTATGTTTTAA-TTTTCTTACATATACTGACGGTTA
1 AGTATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGACAGTTA
16189328 GAGATTGTCA
Statistics
Matches: 164, Mismatches: 37, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
158 26 0.16
159 135 0.82
160 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (159 bp):
AGTATAGACTTGTATGTTTTAATTTTTCTTACCTATACCGACAGTTAACGCTTATTAGTATAGAC
TTGTAATTTTTCTTACTTACACTGACACTTAAAGCCTATCAATATAAACTTATATATTTTAATTT
CTTACCTATACCAACGATTATAGACCGTC
Found at i:16189302 original size:55 final size:55
Alignment explanation
Indices: 16189230--16189366 Score: 204
Period size: 55 Copynumber: 2.5 Consensus size: 55
16189220 CATTCATCAA
* * * *
16189230 TATAGACTTATAT-TTTTAATTTTTTTTCCTATATTGACGGTTATAGACTGTCAG
1 TATAGACTTATATGTTTTAATTTTTTTACATATACTGACGGTTAGAGACTGTCAG
* * *
16189284 TATAGACTTGTATGTTTTAATTTTCTTACATATACTGACGGTTAGAGATTGTCAG
1 TATAGACTTATATGTTTTAATTTTTTTACATATACTGACGGTTAGAGACTGTCAG
16189339 TATAGACTTATATGTTTTAATTTTTTTA
1 TATAGACTTATATGTTTTAATTTTTTTA
16189367 TTATATTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 12 0.16
55 61 0.84
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (55 bp):
TATAGACTTATATGTTTTAATTTTTTTACATATACTGACGGTTAGAGACTGTCAG
Found at i:16189498 original size:24 final size:24
Alignment explanation
Indices: 16189466--16189512 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16189456 TTTTTTTTAA
* *
16189466 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATCA-TAATATT
16189491 AATT-TATTTATAATCATAATAT
1 AATTATATTTATAATCATAATAT
16189513 GATATGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTATATTTATAATCATAATATT
Found at i:16189671 original size:15 final size:15
Alignment explanation
Indices: 16189651--16189680 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16189641 TACCAATTTT
16189651 GATAAAACAAACATC
1 GATAAAACAAACATC
*
16189666 GATAAAATAAACATC
1 GATAAAACAAACATC
16189681 ATTGAATGTC
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:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (15 bp):
GATAAAACAAACATC
Found at i:16203579 original size:12 final size:12
Alignment explanation
Indices: 16203562--16203586 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16203552 TGATAATATT
16203562 ATAAAATATTTA
1 ATAAAATATTTA
16203574 ATAAAATATTTA
1 ATAAAATATTTA
16203586 A
1 A
16203587 ATTTAAAAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAATATTTA
Found at i:16203595 original size:28 final size:29
Alignment explanation
Indices: 16203559--16203627 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
16203549 TAGTGATAAT
16203559 ATTAT-AAAA-TATTTAATAAAATATTTAA
1 ATTATAAAAATTATTTAATAAAATATTT-A
* * *
16203587 ATT-TAAAAATTTTTTAGTATAATATTTA
1 ATTATAAAAATTATTTAATAAAATATTTA
16203615 ATTAT-AAAATTAT
1 ATTATAAAAATTAT
16203628 CAATTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 1 0.03
28 18 0.53
29 15 0.44
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (29 bp):
ATTATAAAAATTATTTAATAAAATATTTA
Found at i:16206193 original size:6 final size:7
Alignment explanation
Indices: 16206176--16206200 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16206166 ACTCATCCTG
16206176 TTTTTTA
1 TTTTTTA
16206183 TTTTTTA
1 TTTTTTA
16206190 TTTTTTA
1 TTTTTTA
16206197 TTTT
1 TTTT
16206201 GTATACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:16208844 original size:62 final size:62
Alignment explanation
Indices: 16208724--16208850 Score: 157
Period size: 62 Copynumber: 2.0 Consensus size: 62
16208714 ATCGTGTTTG
* * * *
16208724 TTTACATCTCTTTGTCCATGTTAATTGGCTTTTGTTATTGGTATTTGTGTTGATTTACTCTT
1 TTTACATCTCTTTGTCCATGTTAAGTGGCTTTTATTAATGGTATTTGTGTTGACTTACTCTT
* * * * *
16208786 TTTACATCTCTTTG-CAGATGTTCAGTGGCTTTTATTAATGGTGTTTGTGTTGGCTTACTTTT
1 TTTACATCTCTTTGTC-CATGTTAAGTGGCTTTTATTAATGGTATTTGTGTTGACTTACTCTT
16208848 TTT
1 TTT
16208851 TAGTCCAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 1 0.02
62 54 0.98
ACGTcount: A:0.14, C:0.13, G:0.18, T:0.55
Consensus pattern (62 bp):
TTTACATCTCTTTGTCCATGTTAAGTGGCTTTTATTAATGGTATTTGTGTTGACTTACTCTT
Found at i:16210077 original size:15 final size:16
Alignment explanation
Indices: 16210059--16210089 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16210049 TTATTTGAAA
16210059 TTAATT-TTTTATAAT
1 TTAATTCTTTTATAAT
16210074 TTAATTCTTTTATAAT
1 TTAATTCTTTTATAAT
16210090 ACTATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTCTTTTATAAT
Found at i:16211313 original size:26 final size:25
Alignment explanation
Indices: 16211275--16211324 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
16211265 TCGTTCGTAA
*
16211275 ATATTAAATGAACATGTTCATGAAC
1 ATATTAAACGAACATGTTCATGAAC
*
16211300 ATATATAAACGAACATGTTTATGAA
1 ATAT-TAAACGAACATGTTCATGAA
16211325 TAATAAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (25 bp):
ATATTAAACGAACATGTTCATGAAC
Found at i:16211817 original size:12 final size:11
Alignment explanation
Indices: 16211799--16211837 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
16211789 TGTTAGTATC
*
16211799 AATATATATAC
1 AATATATATAT
16211810 ATATATATATAT
1 A-ATATATATAT
16211822 AATATA-ATAT
1 AATATATATAT
16211832 AATATA
1 AATATA
16211838 AAAGGTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 10 0.38
11 6 0.23
12 10 0.38
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (11 bp):
AATATATATAT
Found at i:16211819 original size:14 final size:13
Alignment explanation
Indices: 16211800--16211838 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
16211790 GTTAGTATCA
16211800 ATATATATACATAT
1 ATATATATA-ATAT
16211814 ATATATATAATAT
1 ATATATATAATAT
16211827 AATATAATATAA
1 -ATAT-ATATAA
16211839 AAGGTTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 13 0.57
15 6 0.26
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATATATAATAT
Found at i:16213547 original size:18 final size:20
Alignment explanation
Indices: 16213524--16213562 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16213514 GTTAAAAAAT
*
16213524 TATTTAA-A-ATTTTTTTTA
1 TATTTAATATATTATTTTTA
16213542 TATTTAATATATTATTTTTA
1 TATTTAATATATTATTTTTA
16213562 T
1 T
16213563 TAAATTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTTAATATATTATTTTTA
Found at i:16213974 original size:128 final size:129
Alignment explanation
Indices: 16213842--16214176 Score: 365
Period size: 127 Copynumber: 2.6 Consensus size: 129
16213832 TAAAATATTT
* *
16213842 TTATTATTATTTTATAAAAATTTGACATATGACATTTTGTTTGAAAATTACTATAATA-CTCTCA
1 TTATTATTATTTTATAAAAATTTGACATATGACATTTTGTTTCAAAATTACTATAATATCCCT-A
* * * * * *
16213906 TTAGATTATATATTAAATTTTAACATAATATATAA-TAATTACATCTTAAATTATTAAAATACCC
65 TTAAATTACATATTAAAATTTAACATAATATAAAATTAACTACATCTTAAATTATTAAAAGACCC
* * * * ** * *
16213970 TTATTATT-TTTCATAAAAATTTTATATTTGGTATTTTGTTTCAAAATTATTGTAATATCCCTAT
1 TTATTATTATTTTATAAAAATTTGACATATGACATTTTGTTTCAAAATTACTATAATATCCCTAT
* * *
16214034 TAAATTACATATTAAAATTTAATATAATATAAAATTAACTACATGTTAAATTATTAAAAGACCT
66 TAAATTACATATTAAAATTTAACATAATATAAAATTAACTACATCTTAAATTATTAAAAGACCC
* * ** *** * *
16214098 TTATCATTACTTTATAAAAATTTGACACGTG-CATTTTAAGT-AAAATTAATATAATATCCTTAT
1 TTATTATTATTTTATAAAAATTTGACATATGACATTTTGTTTCAAAATTACTATAATATCCCTAT
*
16214161 AAAATTACATATTAAA
66 TAAATTACATATTAAA
16214177 TTAATTACAT
Statistics
Matches: 170, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
127 105 0.62
128 49 0.29
129 16 0.09
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (129 bp):
TTATTATTATTTTATAAAAATTTGACATATGACATTTTGTTTCAAAATTACTATAATATCCCTAT
TAAATTACATATTAAAATTTAACATAATATAAAATTAACTACATCTTAAATTATTAAAAGACCC
Found at i:16215852 original size:26 final size:26
Alignment explanation
Indices: 16215798--16215852 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
16215788 TTTATTTAAA
*
16215798 TAAAATTTTAATATATTTAAAAATAT
1 TAAAATTTTAATAAATTTAAAAATAT
*
16215824 TAAAATTTTAATAAAATTTAATAAT-T
1 TAAAATTTTAAT-AAATTTAAAAATAT
16215850 TAA
1 TAA
16215853 TGTTATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAAATTTTAATAAATTTAAAAATAT
Found at i:16215853 original size:18 final size:18
Alignment explanation
Indices: 16215791--16215853 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
16215781 AATATTTTTT
16215791 ATTTAAATAAAATTTTAATA
1 ATTT-AATAAAA-TTTAATA
16215811 TATTT-A-AAAATATTAA-A
1 -ATTTAATAAAAT-TTAATA
16215828 ATTTTAATAAAATTTAATA
1 A-TTTAATAAAATTTAATA
16215847 ATTTAAT
1 ATTTAAT
16215854 GTTATTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
16 1 0.03
17 5 0.14
18 19 0.51
19 8 0.22
21 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTAATAAAATTTAATA
Found at i:16225383 original size:356 final size:356
Alignment explanation
Indices: 16224720--16225612 Score: 1143
Period size: 356 Copynumber: 2.5 Consensus size: 356
16224710 TTGAACATAT
* * ** ** *
16224720 CGCCACACAAATTCTAACACTGTTATTAAAGGCGTATATCCAAGA-AAGATGCCTTTAATAATTT
1 CGCCACACAAATTGTAACACTGTTATTGAAGGCGTATATTTAAGATAA-ACACCTTTAATAATTC
* * * *
16224784 TTATAATAGTTTGTAGT-TAATTAGTGAAGGCGGTTGCAGAAAACAACGCCTTCAATAATTTTCC
65 CTATCACAGTTTGTA-TATAATTACTGAAGGCGGTTGCAGAAAACAACGCCTTCAATAATTTTCC
* * * * * *
16224848 TAAAAAAATTTTCTTGGATTATTAAA--TGTCTTTTATTATGACACGTCTTCAATATACCATGAT
129 TAAAAAAA-TTTCTTAGATTATTAAAGGTGTCTTTTATTATAAAACGCCTTCAATATACAACGAT
* * * * * *
16224911 GGTAATGGAAGGCATTTATTAGAAAATGCGCTTTCAATATATCTTTAAACTTAGTAATCTATTAC
193 GGCAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTAC
* * *
16224976 TGAAGGCATTTGTTAATAATAGACGCCTTCAAAATTTTTTCACTTAATATTTT-GAGAATTATTA
258 TGAAGGCATTTGTTAATAACAAACGCCTTCAAAATTTTTTCACTCAATATTTTAGA-AATTATTA
*
16225040 AACGCATCTTCTACTATAAAAT-ATCTTCTATATAC
322 AACGCATCTTCTACTATAAAATGCT-TTCTATATAC
* *
16225075 CGCCACACAAATTGTAACACTGTTATTGGAGGCGTATATTTAAGATAAACACCTCTAATAATTCC
1 CGCCACACAAATTGTAACACTGTTATTGAAGGCGTATATTTAAGATAAACACCTTTAATAATTCC
** * * *
16225140 TATCACAGTTTGTATATAATTACTGAAGGTAGTTTCAAAAAACAACGCTTTCAATAATTTTCCTA
66 TATCACAGTTTGTATATAATTACTGAAGGCGGTTGCAGAAAACAACGCCTTCAATAATTTTCCTA
*
16225205 AAAAAATTTCTTAGATTATTAAAGGTGTCTTTTATTATAAAATGCCTTCAATATACAACGATGGC
131 AAAAAATTTCTTAGATTATTAAAGGTGTCTTTTATTATAAAACGCCTTCAATATACAACGATGGC
**
16225270 AATGGAAGTTATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGA
196 AATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGA
* * * * *
16225335 AGGCGTTTGTTAATAACAAATGCCTTTAAAATTTTTTTACTCAATATTTTAGAAATTATTAAAGG
261 AGGCATTTGTTAATAACAAACGCCTTCAAAATTTTTTCACTCAATATTTTAGAAATTATTAAACG
** *
16225400 TGTCTTCTACTGTAAAATGCTTTCTATATAC
326 CATCTTCTACTATAAAATGCTTTCTATATAC
* * * *
16225431 CGCTACACAAATTGTAATACTGTTATTGAAGGCGTATATTTAAGATAGACACCTTTAACAATTCC
1 CGCCACACAAATTGTAACACTGTTATTGAAGGCGTATATTTAAGATAAACACCTTTAATAATTCC
* * * ** *
16225496 TACCACAATTTGTATATAATTACTGAAGGCGGTTGCAGATAACAATACCTTCAATAATTTT-TTA
66 TATCACAGTTTGTATATAATTACTGAAGGCGGTTGCAGAAAACAACGCCTTCAATAATTTTCCTA
* * * * * *
16225560 AAAAATTTTTTTTGATTGTTAAAGGCGTCTTTAATTATAAAACGCCTTCAATA
131 AAAAAATTTCTTAGATTATTAAAGGTGTCTTTTATTATAAAACGCCTTCAATA
16225613 ATTTGTTATA
Statistics
Matches: 463, Mismatches: 69, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
354 17 0.04
355 161 0.35
356 282 0.61
357 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (356 bp):
CGCCACACAAATTGTAACACTGTTATTGAAGGCGTATATTTAAGATAAACACCTTTAATAATTCC
TATCACAGTTTGTATATAATTACTGAAGGCGGTTGCAGAAAACAACGCCTTCAATAATTTTCCTA
AAAAAATTTCTTAGATTATTAAAGGTGTCTTTTATTATAAAACGCCTTCAATATACAACGATGGC
AATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGA
AGGCATTTGTTAATAACAAACGCCTTCAAAATTTTTTCACTCAATATTTTAGAAATTATTAAACG
CATCTTCTACTATAAAATGCTTTCTATATAC
Found at i:16230450 original size:35 final size:36
Alignment explanation
Indices: 16230411--16230479 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
16230401 ATATATAAAC
* * *
16230411 CAAATGTTTTT-TGGGCATAAATATATAACTGACAG
1 CAAATCTTTTTCTAGGCATAAACATATAACTGACAG
*
16230446 CAAATCTTTTTCTAGGCATAAACCTATAACTGAC
1 CAAATCTTTTTCTAGGCATAAACATATAACTGAC
16230480 TTCACATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 10 0.34
36 19 0.66
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (36 bp):
CAAATCTTTTTCTAGGCATAAACATATAACTGACAG
Found at i:16231975 original size:74 final size:75
Alignment explanation
Indices: 16231842--16231985 Score: 184
Period size: 74 Copynumber: 1.9 Consensus size: 75
16231832 ATGTAAAACT
* * * * *
16231842 AAAAAAGTTTTATATATTTTTTTAATTTTTGATTTTAATAATTTCAACGAATGTAAGAGACAAAT
1 AAAAAAGTTTAATATATTTTTTTAACTCTTGATTATAATAATTTCAAAGAATGTAAGAGACAAAT
16231907 AAAAATAGAA
66 AAAAATAGAA
* * * *
16231917 AAAAAAGTTTAATATA-TTTTTTAACTCTTGATTATAATAGATTT-AAAGGATGTGAGAGATAAG
1 AAAAAAGTTTAATATATTTTTTTAACTCTTGATTATAATA-ATTTCAAAGAATGTAAGAGACAAA
16231980 TAAAAA
65 TAAAAA
16231986 CAAAGTTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
74 40 0.68
75 19 0.32
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (75 bp):
AAAAAAGTTTAATATATTTTTTTAACTCTTGATTATAATAATTTCAAAGAATGTAAGAGACAAAT
AAAAATAGAA
Found at i:16232276 original size:21 final size:22
Alignment explanation
Indices: 16232250--16232291 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16232240 AAAATTTATT
*
16232250 TATTCTTTA-TTTTTTATATAG
1 TATTCTTTAGTTTTATATATAG
16232271 TATTCTTTAGTTTTATATATA
1 TATTCTTTAGTTTTATATATA
16232292 TTTGATGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (22 bp):
TATTCTTTAGTTTTATATATAG
Found at i:16232476 original size:31 final size:31
Alignment explanation
Indices: 16232419--16232478 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
16232409 ATACTTAATC
*
16232419 ATTAATGAGATGATATCATCTAATTTACTTT
1 ATTAATGAGATGATATAATCTAATTTACTTT
* * *
16232450 ATTAATGAGGTGATATAATTTGATTTACT
1 ATTAATGAGATGATATAATCTAATTTACT
16232479 AATGTTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (31 bp):
ATTAATGAGATGATATAATCTAATTTACTTT
Found at i:16233953 original size:12 final size:14
Alignment explanation
Indices: 16233936--16233967 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
16233926 AAAAAATAAA
16233936 AATATAAAA-TA-C
1 AATATAAAATTATC
16233948 AATATAAAATTATC
1 AATATAAAATTATC
16233962 AATATA
1 AATATA
16233968 TGGCATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 2 0.11
14 7 0.39
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (14 bp):
AATATAAAATTATC
Found at i:16238267 original size:35 final size:35
Alignment explanation
Indices: 16238228--16238309 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
16238218 AGTATTTATG
* * * *
16238228 GAAAAGACATTTAC-ACTTTATGTGCATCTTTTTAA
1 GAAAAGACATTTACAAC-TCATGAGCATCATTCTAA
* *
16238263 GAAAAGACATTTGCAACTCATGAGCCTCATTCTAA
1 GAAAAGACATTTACAACTCATGAGCATCATTCTAA
16238298 GAAAAGACATTT
1 GAAAAGACATTT
16238310 GCATCATCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 38 0.95
36 2 0.05
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (35 bp):
GAAAAGACATTTACAACTCATGAGCATCATTCTAA
Found at i:16238325 original size:27 final size:28
Alignment explanation
Indices: 16238289--16238344 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
16238279 CTCATGAGCC
16238289 TCATTCTAAG-AAAAGACATTTGCATCA
1 TCATTCTAAGAAAAAGACATTTGCATCA
*
16238316 TCATTTTAAGAAAAAGACATTTGCATCA
1 TCATTCTAAGAAAAAGACATTTGCATCA
16238344 T
1 T
16238345 AATGGTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (28 bp):
TCATTCTAAGAAAAAGACATTTGCATCA
Found at i:16238705 original size:48 final size:48
Alignment explanation
Indices: 16238634--16238734 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
16238624 TATCCGAAGT
*
16238634 CATTTGCATCTTCTCGATGGTGATATCCGAGT-TTAAAGTTTGAATTTG
1 CATTTGCATCTTCTCGATGGTGATATCCGAGTATTAAAGCTTGAA-TTG
**
16238682 CATTTGCATCTTCTC-AGTGGTGATATTTGAGTATTAAAGCTTGAATTG
1 CATTTGCATCTTCTCGA-TGGTGATATCCGAGTATTAAAGCTTGAATTG
16238730 CATTT
1 CATTT
16238735 TCTTGATAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
47 1 0.02
48 36 0.75
49 11 0.23
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (48 bp):
CATTTGCATCTTCTCGATGGTGATATCCGAGTATTAAAGCTTGAATTG
Found at i:16238812 original size:147 final size:146
Alignment explanation
Indices: 16238568--16239113 Score: 648
Period size: 147 Copynumber: 3.7 Consensus size: 146
16238558 TATCCAAAAG
* * * *
16238568 TTAAAG-TTGGAATTACATTTTCTCGGTAGTGATATTTTG-GTTTCCTTCGATGGTGATATCCGA
1 TTAAAGCTT-GAATTGCATTTTCTCGATAGTGATA-TTCGAGTTTCCTTCGATGGTGATATCCAA
* * * * * *
16238631 AGTCATTTGCATCTTCTCGATGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGCATCTTCT
64 AATCATTTGCAT-TTTTTGGTGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGTATTTTCT
*
16238696 CAGTGGTGATATTTGAGTA
128 CAGTGGTGATATCTGAGTA
*
16238715 TTAAAGCTTGAATTGCATTTTCTTGATAGTGATATTCGAGTTTCCTTCGATGGTGATATCCAAAA
1 TTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCGATGGTGATATCCAAAA
*
16238780 TCATTTGCATCTTTTTGGTGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGTATTTTCTCG
66 TCATTTGCAT-TTTTTGGTGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGTATTTTCTCA
16238845 GTGGTGATATCTGAGTA
130 GTGGTGATATCTGAGTA
* * * * * * *
16238862 TTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTCAATTTTCTTTC-AGTGGTGATATGCGAT
1 TTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCGA-TGGTGATATCCAAA
* * * * * * * *
16238926 GTCATTTACATTTATTTGGTGGTGATATCTGAGTTTAAAGTTTAAATTGGCACTTATATTTTTTC
65 ATCATTTGCATTT-TTTGGTGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGTATTTTCTC
* *
16238991 AATGGTGATATCCGAGTA
129 AGTGGTGATATCTGAGTA
* * * * * *
16239009 TTAAAGCTTGAAATGCATTTTTTTGATGGTGATATTCGAGTTTCCTTTGGTGGTGATATCCAAAA
1 TTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCGATGGTGATATCCAAAA
* *
16239074 TCATTTGCATTTTCTTCGGTGCTAATATCCGAGTGTTAAA
66 TCATTTGCATTTT-TT-GGTGGTGATATCCGAGT-TTAAA
16239114 AATCATTTAC
Statistics
Matches: 343, Mismatches: 48, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
146 7 0.02
147 315 0.92
148 16 0.05
149 5 0.01
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (146 bp):
TTAAAGCTTGAATTGCATTTTCTCGATAGTGATATTCGAGTTTCCTTCGATGGTGATATCCAAAA
TCATTTGCATTTTTTGGTGGTGATATCCGAGTTTAAAGTTTGAATTTGCATTTGTATTTTCTCAG
TGGTGATATCTGAGTA
Found at i:16239200 original size:76 final size:76
Alignment explanation
Indices: 16239049--16239203 Score: 195
Period size: 76 Copynumber: 2.0 Consensus size: 76
16239039 GATATTCGAG
* *
16239049 TTTCCTTTGGTGGTGATATCCAAAATCATTTGCATTTTCTTCGGTGCTAATATCCGAGTGTTAAA
1 TTTCCTTTGGTGGTGATATCCAAAATCATTTGCATTTTCTTCGATGCTAATATCCGAGAGTTAAA
* *
16239114 AATCATTTACA
66 AATAAATTACA
* * * * *
16239125 TTTCCTTTGGTGGTGATATCCAAAGTTATTTGCATTTTC-TCGATGGTGATATCTGAGAGTTAAA
1 TTTCCTTTGGTGGTGATATCCAAAATCATTTGCATTTTCTTCGATGCTAATATCCGAGAGTTAAA
**
16239189 GTTGAAATTACA
66 AAT-AAATTACA
16239201 TTT
1 TTT
16239204 TTTCGATGAT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
75 21 0.31
76 46 0.69
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (76 bp):
TTTCCTTTGGTGGTGATATCCAAAATCATTTGCATTTTCTTCGATGCTAATATCCGAGAGTTAAA
AATAAATTACA
Found at i:16239269 original size:66 final size:66
Alignment explanation
Indices: 16239168--16239309 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 66
16239158 ATTTTCTCGA
* * * *
16239168 TGGTGATATCTGAGAGTTAAAGTTGAAATTACATTTTTTCGA-TGATGATATTTAAGTTTTCTTT
1 TGGTGATATCAGAGAGTTAAAGTTGAAATTACATTTTCTCGATTG-TAATATTTAAGTTTCCTTT
16239232 AG
65 AG
* *
16239234 TGGTGATATCAGAGTGTTAAAGCTTG-AATTGCATTTTCTCGATTGTAATATTTAAGTTTCCTTT
1 TGGTGATATCAGAGAGTTAAAG-TTGAAATTACATTTTCTCGATTGTAATATTTAAGTTTCCTTT
*
16239298 GG
65 AG
16239300 TGGTGATATC
1 TGGTGATATC
16239310 CGAAATCATT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
66 62 0.93
67 5 0.07
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.44
Consensus pattern (66 bp):
TGGTGATATCAGAGAGTTAAAGTTGAAATTACATTTTCTCGATTGTAATATTTAAGTTTCCTTTA
G
Found at i:16239405 original size:36 final size:34
Alignment explanation
Indices: 16239367--16239452 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 34
16239357 CATTTACATT
*
16239367 TTCTTCAGTGGTGATATCCGAAGTCATTCATATC
1 TTCTTCAGTGGTGATATCCAAAGTCATTCATATC
*
16239401 TT-TTCGGTGGTGATATCCAAAGTCATTCATATC
1 TTCTTCAGTGGTGATATCCAAAGTCATTCATATC
*
16239434 TTCTTGA-TGGTGATATCCA
1 TTCTTCAGTGGTGATATCCA
16239453 TCCAAGTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
33 43 0.91
34 4 0.09
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (34 bp):
TTCTTCAGTGGTGATATCCAAAGTCATTCATATC
Found at i:16239787 original size:50 final size:49
Alignment explanation
Indices: 16239688--16239948 Score: 271
Period size: 50 Copynumber: 5.3 Consensus size: 49
16239678 GCCTTTAATG
* * * * *
16239688 TTTTAAAATTATTGAGCCTCTACTTAGATGAGC-TTTTC----TAAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAAATGAGAT
* *
16239732 TTTTAAAATTGTTGAGCCTCTACTTAGAGGAGCTTTTTTCAAAATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTTTCAAAATGAGAT
* * * *
16239782 TTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTTCAAGATGAAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAAATGAGAT
* * * *
16239831 TTTTAAAGTTGTTAAACCTCTGCTTAGATGAGCCTTTTCTAAAATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC-AAAATGAG-AT
* * * *
16239882 TTTTAGAGTTGTTGAGCCTCTGCTTAGAGGAGCCATTTTCAAGATGAGAA
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAG-CTTTTTCAAAATGAGAT
*
16239932 TTTTAAAGTTGTCGAGC
1 TTTTAAAGTTGTTGAGC
16239949 TTTGAGTAAA
Statistics
Matches: 183, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
44 31 0.17
46 5 0.03
49 48 0.26
50 57 0.31
51 36 0.20
52 6 0.03
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (49 bp):
TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAAATGAGAT
Found at i:16239902 original size:51 final size:50
Alignment explanation
Indices: 16239730--16239948 Score: 273
Period size: 50 Copynumber: 4.4 Consensus size: 50
16239720 CTTTTCTAAG
* * *
16239730 ATTTTTAAAATTGTTGAGCCTCTACTTAGAGGAGCTTTTTTCAAAATGAG-
1 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-CTTTTCAAAATGAGA
* * *
16239780 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTTCAAGATGA-A
1 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTCAAAATGAGA
* * * *
16239829 AATTTTAAAGTTGTTAAACCTCTGCTTAGATGAGCCTTTTCTAAAATGAGA
1 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTC-AAAATGAGA
* *
16239880 ATTTTTAGAGTTGTTGAGCCTCTGCTTAGAGGAGCCATTTTCAAGATGAGA
1 ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCC-TTTTCAAAATGAGA
*
16239931 A-TTTTAAAGTTGTCGAGC
1 ATTTTTAAAGTTGTTGAGC
16239949 TTTGAGTAAA
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
49 48 0.33
50 53 0.36
51 41 0.28
52 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (50 bp):
ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCCTTTTCAAAATGAGA
Found at i:16240205 original size:28 final size:28
Alignment explanation
Indices: 16240174--16240233 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
16240164 CTGAAGCTCG
**
16240174 ATTTCAATGCAATTGGGCTTCAAGCCCA
1 ATTTCAATGCAACCGGGCTTCAAGCCCA
* * *
16240202 ATTTCAATTCAACCGGGCTTGAGGCCCA
1 ATTTCAATGCAACCGGGCTTCAAGCCCA
16240230 ATTT
1 ATTT
16240234 TATCTTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (28 bp):
ATTTCAATGCAACCGGGCTTCAAGCCCA
Found at i:16240314 original size:13 final size:13
Alignment explanation
Indices: 16240275--16240322 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 13
16240265 TTATTTATTT
16240275 AAAAAATACAAAAA
1 AAAAAATAC-AAAA
16240289 AGGAAAAATACAAAA
1 A--AAAAATACAAAA
16240304 ACAAAAA-ACAAAA
1 A-AAAAATACAAAA
16240317 AAAAAA
1 AAAAAA
16240323 GAATAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 5 0.16
13 7 0.23
14 6 0.19
15 5 0.16
16 8 0.26
ACGTcount: A:0.83, C:0.08, G:0.04, T:0.04
Consensus pattern (13 bp):
AAAAAATACAAAA
Found at i:16259549 original size:186 final size:186
Alignment explanation
Indices: 16258976--16260459 Score: 1436
Period size: 186 Copynumber: 7.9 Consensus size: 186
16258966 AAACTTTTAG
* * * * * *
16258976 GATTATTAAAGGCATTTTCTAGTGCAAAACGCCTTCAATATTCCACTACTCAAATTTTAAGATGA
1 GATTATTAAAGGCATCTTCCAGTGAAAAACACCTTCAATATTACACTACTCAAATTTTAAGATGG
* * * * * * *
16259041 TTGGTGAATGCATTTGTTCTAGAAAAAGGCCTTCACACATAAATTCCTTTTACTTTACATACATA
66 TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTT--CAC-T-AATTCCTTTTAATTTACGTACATA
* *
16259106 GTTATTGAAGGCATTTTTTGAGAACAAACGCCTAT-AATAATTTCCTT-TTGAAAATTTTTGG
127 GTTATTGAAGGCATTTTTTAAGAACAAACGCCT-TCAATAATTT-CTTCTT-AAAATTTTTGA
* * * ** *
16259167 GATTATTAAAGGCGTCTTCTAGTGCAAAATGCCTTCAATATTCCACTACTCAAATTTTAAGATGG
1 GATTATTAAAGGCATCTTCCAGTGAAAAACACCTTCAATATTACACTACTCAAATTTTAAGATGG
* * *
16259232 TTAGTGAAGACTTTTATTCTAG-AAAATGCCTTCACACATAAATTCCTTTTAATTTACGCACATA
66 TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTT--CAC-T-AATTCCTTTTAATTTACGTACATA
*
16259296 GTTATTGAAGG--TGTTTTTATAGAACAAACGCCTTCAATAATTTCCTT-TT-AAATTTTTTA
127 GTTATTGAAGGCAT-TTTTTA-AGAACAAACGCCTTCAATAATTT-CTTCTTAAAATTTTTGA
*** **
16259355 GGATTATTAAAGTTGTCTTCCAGTGAAAAACACCTTCAATATTACTGTACTCAAATTTTAAGATG
1 -GATTATTAAAGGCATCTTCCAGTGAAAAACACCTTCAATATTACACTACTCAAATTTTAAGATG
* * * ** ** *
16259420 GTTAGTGAAGGCATTT-TTCTAAAATAAATGCCATCACTAATTCCTTTTAATTTTTGTATGTAAT
65 GTTAGTGAAGGCGTTTATTCTAGAA-AAATGCCTTCACTAATTCCTTTTAATTTACGTACATAGT
* * *
16259484 TATTGAAGGCATTTTTTAAGAACTAACGCCTTCAATAATTTCTTTTTAAAATTTTTCA
129 TATTGAAGGCATTTTTTAAGAACAAACGCCTTCAATAATTTCTTCTTAAAATTTTTGA
* ** * * * *
16259542 AATTATTAAAGGCATCTTTAAATGAAAAACACCTTCAAAATTTCACTACTCAAATTTTAAGATAG
1 GATTATTAAAGGCATCTTCCAGTGAAAAACACCTTCAATATTACACTACTCAAATTTTAAGATGG
* * * *
16259607 TTAGTGAAGGTGTTTATTCTAGAATAAATGCCTTCACTAATTTCTTTTACTTTACGTACATGGTT
66 TTAGTGAAGGCGTTTATTCTAGAA-AAATGCCTTCACTAATTCCTTTTAATTTACGTACATAGTT
* * ** * * *
16259672 ATTAAAGGCATTTTTTTAGAACAAACATCTTTAATAATTT-TCTCTTAAAATTGTTGG
130 ATTGAAGGCATTTTTTAAGAACAAACGCCTTCAATAATTTCT-TCTTAAAATTTTTGA
* * * *
16259729 GCTTATTAAAGGCATCTTTCAGTGAAAAACACCTTCAATATTCCACTACTCATATTTTAAGATGG
1 GATTATTAAAGGCATCTTCCAGTGAAAAACACCTTCAATATTACACTACTCAAATTTTAAGATGG
* * * * *
16259794 TTAAT-ACAGGCATTTATTATAGAAAAATGCCTTCACACATAAATTCCTTTTAATTTGCATACAT
66 TTAGTGA-AGGCGTTTATTCTAGAAAAATGCCTT--CAC-T-AATTCCTTTTAATTTACGTACAT
* * * * *
16259858 GGTTATTGAAGGTATTTTTTTAATAATAAACACCTTCAATAATTT-TCTCTTAAAATTTTTGA
126 AGTTATTGAAGGCA-TTTTTTAAGAACAAACGCCTTCAATAATTTCT-TCTTAAAATTTTTGA
* * * ** * ***
16259920 GATTATTAAAGGTATTTTTCAGTGAAAAATGCCTTCGATATTATTGTACTCAAATTTTAAGATGG
1 GATTATTAAAGGCATCTTCCAGTGAAAAACACCTTCAATATTACACTACTCAAATTTTAAGATGG
* * ** ** *
16259985 TTAGTGAAGGTGTTT-TTCTAGAATAAATGCCTTCACTAATTTCTTTTAATTTTTGTATGTAATT
66 TTAGTGAAGGCGTTTATTCTAGAA-AAATGCCTTCACTAATTCCTTTTAATTTACGTACATAGTT
* * *
16260049 ATTGAAGGCATTTTTTTAGAACTAACGCCTTCAATAAGTTT-TTCTT-AAATTTTTTA
130 ATTGAAGGCATTTTTTAAGAACAAACGCCTTCAATAA-TTTCTTCTTAAAATTTTTGA
*** *
16260105 GGATTATTAAAGATGTCTTCCAGTGAAAAACACCTTCAATATT-CACTAATCAAATTTTAAGATG
1 -GATTATTAAAGGCATCTTCCAGTGAAAAACACCTTCAATATTACACTACTCAAATTTTAAGATG
* * * *
16260169 ATTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCCTTTTAATTTACATACATGGTT
65 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAGTT
* ** * ** * *
16260234 ATTAAAGGTGTTTTTTTAGAACAAATACCTTCAATAATTTCCTCTTAAAATTTTTGG
130 ATTGAAGGCATTTTTTAAGAACAAACGCCTTCAATAATTTCTTCTTAAAATTTTTGA
* * * * * *
16260291 GATTATTAAAGGCATCTTCCAGTAAAAAATGA-CTTCAATATTTCACCACTTATATTTTAAGATG
1 GATTATTAAAGGCATCTTCCAGTGAAAAA-CACCTTCAATATTACACTACTCAAATTTTAAGATG
* * * * ** ** *
16260355 GTTAGTTAAGGTGTTTATTCTAGAAAAGTGCATTCACTAATTATTTTTAATTTTTGTACATAATT
65 GTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAGTT
* ** *
16260420 ATTGAAGGTGATTTTTTACTAA-AAATGCCTTCAATAATTT
130 ATTGAAGG-CATTTTTTAAGAACAAACGCCTTCAATAATTT
16260460 TTGTTCAAAA
Statistics
Matches: 1079, Mismatches: 186, Indels: 61
0.81 0.14 0.05
Matches are distributed among these distances:
184 3 0.00
185 144 0.13
186 301 0.28
187 215 0.20
188 22 0.02
189 80 0.07
190 122 0.11
191 191 0.18
192 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (186 bp):
GATTATTAAAGGCATCTTCCAGTGAAAAACACCTTCAATATTACACTACTCAAATTTTAAGATGG
TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTAATTTACGTACATAGTTA
TTGAAGGCATTTTTTAAGAACAAACGCCTTCAATAATTTCTTCTTAAAATTTTTGA
Found at i:16260047 original size:564 final size:561
Alignment explanation
Indices: 16258977--16260358 Score: 1837
Period size: 562 Copynumber: 2.5 Consensus size: 561
16258967 AACTTTTAGG
* * * *
16258977 ATTATTAAAGGCAT-TTTCTAGTGCAAAACGCCTTCAATATTCCACTACTCAAATTTTAAGATGA
1 ATTATTAAAGGCATCTTT-AAGTGAAAAACACCTTCAATATTTCACTACTCAAATTTTAAGATGA
* * * * * *
16259041 TTGGTGAATGCATTTGTTCTAGAAAAAGGCCTTCACACATAAATTCCTTTTACTTTACATACATA
65 TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTT--CAC-T-AATTCCTTTTACTTTACATACATG
* * * * *
16259106 GTTATTGAAGGCATTTTTTGAGAACAAACGCCTATAATAATTTCCTTTTGAAAATTTTTGGGATT
126 GTTATTAAAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTCTT-AAAATTTTTGGGATT
* * ** *
16259171 ATTAAAGGCGTC-TTCTAGTGCAAAATGCCTTCAATATTCCACTACTCAAATTTTAAGATGGTTA
190 ATTAAAGGCATCTTTC-AGTGAAAAACACCTTCAATATTCCACTACTCATATTTTAAGATGGTTA
* * * *
16259235 GTGAAGACTTTTATTCTAGAAAATGCCTTCACACATAAATTCCTTTTAATTTACGCACATAGTTA
254 ATGAAGACATTTATTATAGAAAATGCCTTCACACATAAATTCCTTTTAATTTACACACATAGTTA
* * * *
16259300 TTGAAGGTGTTTTTATAGAACAAACGCCTTCAATAATTTCCTTTTAAATTTTTTAGGATTATTAA
319 TTGAAGGTATTTTTATAGAACAAACACCTTCAATAATTTCCTTTAAAATTTTTGAGGATTATTAA
* *
16259365 AGTTGTCTTCCAGTGAAAAACACCTTCAATATTACTGTACTCAAATTTTAAGATGGTTAGTGAAG
384 AGGTATCTTCCAGTGAAAAACACCTTCAATATTACTGTACTCAAATTTTAAGATGGTTAGTGAAG
16259430 GCATTTTTCTAAAATAAATGCCATCACTAATTCCTTTTAATTTTTGTATGTAATTATTGAAGGCA
449 GCATTTTTCTAAAATAAATGCCATCACTAATTCCTTTTAATTTTTGTATGTAATTATTGAAGGCA
*
16259495 TTTTTTAAGAACTAACGCCTTCAATAA-TTTCTTTTTAAAATTTTTCA-A
514 TTTTTTAAGAACTAACGCCTTCAATAAGTTT-TTCTT-AAATTTTTCAGA
* *
16259543 ATTATTAAAGGCATCTTTAAATGAAAAACACCTTCAAAATTTCACTACTCAAATTTTAAGAT-AG
1 ATTATTAAAGGCATCTTTAAGTGAAAAACACCTTCAATATTTCACTACTCAAATTTTAAGATGA-
* * *
16259607 TTAGTGAAGGTGTTTATTCTAGAATAAATGCCTTCACTAATTTCTTTTACTTTACGTACATGGTT
65 TTAGTGAAGGCGTTTATTCTAGAA-AAATGCCTTCACTAATTCCTTTTACTTTACATACATGGTT
* * * *
16259672 ATTAAAGGCATTTTTTTAGAACAAACATCTTTAATAATTTTCTCTTAAAATTGTTGGGCTTATTA
129 ATTAAAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTA
16259737 AAGGCATCTTTCAGTGAAAAACACCTTCAATATTCCACTACTCATATTTTAAGATGGTTAAT-AC
194 AAGGCATCTTTCAGTGAAAAACACCTTCAATATTCCACTACTCATATTTTAAGATGGTTAATGA-
* * * *
16259801 AGGCATTTATTATAGAAAAATGCCTTCACACATAAATTCCTTTTAATTTGCATACATGGTTATTG
258 AGACATTTATTATAG-AAAATGCCTTCACACATAAATTCCTTTTAATTTACACACATAGTTATTG
* * * *
16259866 AAGGTATTTTTTTAATAATAAACACCTTCAATAATTTTCTCTTAAAATTTTTGA-GATTATTAAA
322 AAGGTATTTTTAT-AGAACAAACACCTTCAATAATTTCCT-TTAAAATTTTTGAGGATTATTAAA
* * ** * *
16259930 GGTATTTTTCAGTGAAAAATGCCTTCGATATTATTGTACTCAAATTTTAAGATGGTTAGTGAAGG
385 GGTATCTTCCAGTGAAAAACACCTTCAATATTACTGTACTCAAATTTTAAGATGGTTAGTGAAGG
** * * *
16259995 TGTTTTTCTAGAATAAATGCCTTCACTAATTTCTTTTAATTTTTGTATGTAATTATTGAAGGCAT
450 CATTTTTCTAAAATAAATGCCATCACTAATTCCTTTTAATTTTTGTATGTAATTATTGAAGGCAT
* * *
16260060 TTTTTTAGAACTAACGCCTTCAATAAGTTTTTCTTAAATTTTTTAGG
515 TTTTTAAGAACTAACGCCTTCAATAAGTTTTTCTTAAATTTTTCAGA
*** ** *
16260107 ATTATTAAAGATGTCTTCCAGTGAAAAACACCTTCAATA-TTCACTAATCAAATTTTAAGATGAT
1 ATTATTAAAGGCATCTTTAAGTGAAAAACACCTTCAATATTTCACTACTCAAATTTTAAGATGAT
* *
16260171 TAGTGAAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCCTTTTAATTTACATACATGGTTAT
66 TAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTACTTTACATACATGGTTAT
** * *
16260236 TAAAGGTGTTTTTTTAGAACAAATACCTTCAATAATTTCCTCTTAAAATTTTTGGGATTATTAAA
131 TAAAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTAAA
* * * * * *
16260301 GGCATCTTCCAGTAAAAAATGA-CTTCAATATTTCACCACTTATATTTTAAGATGGTTA
196 GGCATCTTTCAGTGAAAAA-CACCTTCAATATTCCACTACTCATATTTTAAGATGGTTA
16260359 GTTAAGGTGT
Statistics
Matches: 715, Mismatches: 89, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
561 1 0.00
562 226 0.32
563 176 0.25
564 212 0.30
565 18 0.03
566 71 0.10
567 11 0.02
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (561 bp):
ATTATTAAAGGCATCTTTAAGTGAAAAACACCTTCAATATTTCACTACTCAAATTTTAAGATGAT
TAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTTTACTTTACATACATGGTTAT
TAAAGGCATTTTTTTAGAACAAACACCTTTAATAATTTCCTCTTAAAATTTTTGGGATTATTAAA
GGCATCTTTCAGTGAAAAACACCTTCAATATTCCACTACTCATATTTTAAGATGGTTAATGAAGA
CATTTATTATAGAAAATGCCTTCACACATAAATTCCTTTTAATTTACACACATAGTTATTGAAGG
TATTTTTATAGAACAAACACCTTCAATAATTTCCTTTAAAATTTTTGAGGATTATTAAAGGTATC
TTCCAGTGAAAAACACCTTCAATATTACTGTACTCAAATTTTAAGATGGTTAGTGAAGGCATTTT
TCTAAAATAAATGCCATCACTAATTCCTTTTAATTTTTGTATGTAATTATTGAAGGCATTTTTTA
AGAACTAACGCCTTCAATAAGTTTTTCTTAAATTTTTCAGA
Found at i:16261047 original size:28 final size:28
Alignment explanation
Indices: 16261016--16261070 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
16261006 CTGAACCTTG
* * *
16261016 TTGTGTGATATTGTTTTGCTGAATGGTA
1 TTGTATGATATTGGTATGCTGAATGGTA
16261044 TTGTATGATATTGGTATGCTGAATGGT
1 TTGTATGATATTGGTATGCTGAATGGT
16261071 GTTTCTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (28 bp):
TTGTATGATATTGGTATGCTGAATGGTA
Found at i:16264604 original size:63 final size:61
Alignment explanation
Indices: 16264537--16264734 Score: 159
Period size: 63 Copynumber: 3.2 Consensus size: 61
16264527 TGGAATGTTA
*
16264537 AAGGCATTTTAGGCAAAAAAACACCTTCAAGAATCCATTCCAACATTTTTGTATGGATTATTG
1 AAGGCATTTTA-GCAAAAAAACACCTTCAATAATCCATTCCAA-ATTTTTGTATGGATTATTG
* * ** * *
16264600 AAGGCATTTTTA--AAAAAATCACCTTCAATAATACCAAGTAAAAATTAATTGAATGGATTATTG
1 AAGGCA-TTTTAGCAAAAAAACACCTTCAATAAT-CC-ATTCCAAATT-TTTGTATGGATTATTG
* * * ** * * * *
16264663 AAGGTATTTTCG-ACCAAAAATGCCTTCAATAATACGTTCCATATTTTTTGTATGGATTATTA
1 AAGGCATTTTAGCA-AAAAAACACCTTCAATAATCCATTCCA-AATTTTTGTATGGATTATTG
16264725 AAGGCATTTT
1 AAGGCATTTT
16264735 TCTACTAGAA
Statistics
Matches: 105, Mismatches: 23, Indels: 15
0.73 0.16 0.10
Matches are distributed among these distances:
61 18 0.17
62 33 0.31
63 34 0.32
64 20 0.19
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (61 bp):
AAGGCATTTTAGCAAAAAAACACCTTCAATAATCCATTCCAAATTTTTGTATGGATTATTG
Found at i:16264672 original size:126 final size:126
Alignment explanation
Indices: 16264467--16264735 Score: 276
Period size: 125 Copynumber: 2.1 Consensus size: 126
16264457 TAAAAAAATG
* * ** * *
16264467 TTATTGAATGCATTTTTAACCAAAATTGCCTTAAATAATCCCACCTAAAAATATATTAAGTGGAA
1 TTATTGAAGGCATTTTTAACAAAAATCACCTTAAATAATACCAACTAAAAATATATTAAGTGGAA
* * *
16264532 TGTTAAAGGCATTTTAGGCAAAAAAACACCTTCAAGAATCCATTCCA-ACATTTTTGTATGGA
66 TATTAAAGGCATTTTAGAC-AAAAAACACCTTCAAGAATACATTCCATA-ATTTTTGTATGGA
* *
16264594 TTATTGAAGGCATTTTTAA-AAAAATCACCTTCAATAATACCAAGTAAAAAT-TAATTGAA-TGG
1 TTATTGAAGGCATTTTTAACAAAAATCACCTTAAATAATACCAACTAAAAATAT-ATT-AAGTGG
* * * * * ** * * *
16264656 ATTATTGAAGGTATTTTCGACCAAAAATGCCTTCAATAATACGTTCCATATTTTTTGTATGGA
64 AATATTAAAGGCATTTTAGACAAAAAACACCTTCAAGAATACATTCCATAATTTTTGTATGGA
*
16264719 TTATTAAAGGCATTTTT
1 TTATTGAAGGCATTTTT
16264736 CTACTAGAAA
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
125 50 0.43
126 47 0.40
127 20 0.17
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (126 bp):
TTATTGAAGGCATTTTTAACAAAAATCACCTTAAATAATACCAACTAAAAATATATTAAGTGGAA
TATTAAAGGCATTTTAGACAAAAAACACCTTCAAGAATACATTCCATAATTTTTGTATGGA
Found at i:16268769 original size:19 final size:18
Alignment explanation
Indices: 16268745--16268786 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
16268735 CCCTTTTTTC
16268745 ATTTTTCTTT-CTTTAGTTT
1 ATTTTT-TTTACTTTAG-TT
16268764 ATTTTTTTTACTTTAGTT
1 ATTTTTTTTACTTTAGTT
16268782 ATTTT
1 ATTTT
16268787 CTTCCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (18 bp):
ATTTTTTTTACTTTAGTT
Found at i:16271504 original size:10 final size:10
Alignment explanation
Indices: 16271489--16271515 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16271479 AAATTAAAGA
16271489 CAAACAAATG
1 CAAACAAATG
16271499 CAAACAAATG
1 CAAACAAATG
16271509 CAAACAA
1 CAAACAA
16271516 TAACAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.22, G:0.07, T:0.07
Consensus pattern (10 bp):
CAAACAAATG
Done.