Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 71 of 84
Found at i:15306608 original size:145 final size:146
Alignment explanation
Indices: 15306125--15306681 Score: 447
Period size: 145 Copynumber: 3.8 Consensus size: 146
15306115 TCAATTTTGA
* * ** * *
15306125 GATTTTAAA-ACACCAAAAATTATGAAATATTATAGGATTATGATTTGAAAAGTTTCATGAAATT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAATT
* ** *
15306189 CTGATCTCGAAAAGGCTAAATTACAAAAATACCCCTATGATGGTATTTTGGTAATTTCACCCTTT
66 CTGAGCTCGAAAAGGCTAAATTACAAAAATACCCCTACAATGGTATTTTGGTAATTTCACAC--T
15306254 TTTTGGGGTATT-GTTAT
129 TTTTGGGGTATTCGTTAT
* * * * * * * * *
15306271 -AATTCAAATGCAACAAAAATCATGAAATATTGTAAAACTAATATTTGGAAAGTTTTATGAAATT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAATT
* * *
15306335 -TCAAGCTCGAAAAGGCTAAATTACAAAAATACCCCT-CAAATAGTATTTTGGTAATTTCACAAT
66 CT-GAGCTCGAAAAGGCTAAATTACAAAAATACCCCTAC-AATGGTATTTTGGTAATTTCACACT
* * *
15306398 TTCTAGGATATTAC--TAT
129 TTTTGGGGTATT-CGTTAT
* * * * * * *
15306415 GATTTCGAACT-CACCAAAAATCATGAGATGTTACAAAAGTGAGATCTGAAAAGTTTCATGAAAT
1 GATTT-TAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAAT
* * * * * * *
15306479 TCTGAGCT-TATGAAGGCCAAATTATAAAAATACCCATACAAGGGTATTTTAGTAATTTCACACT
65 TCTGAGCTCGA-AAAGGCTAAATTACAAAAATACCCCTACAATGGTATTTTGGTAATTTCACACT
*
15306543 TTTTGGGGT-TTCGTTGT
129 TTTTGGGGTATTCGTTAT
* ** * * * ** *
15306560 GATTTTAAATGCATCAAAAATCATGAAATATTATAGGATTAAGGTCTGAAAGGTTTTACAAAAAT
1 GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAATT
* * * * *
15306625 CTGAACTCGAAAAGG-TCAAATTTAAAAAAAT-CACTTATAA-GGTTATTTTGGTAATTT
66 CTGAGCTCGAAAAGGCT-AAA-TTACAAAAATACCCCTACAATGG-TATTTTGGTAATTT
15306682 GGCCTTTCCC
Statistics
Matches: 318, Mismatches: 76, Indels: 35
0.74 0.18 0.08
Matches are distributed among these distances:
143 1 0.00
144 21 0.07
145 185 0.58
146 111 0.35
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (146 bp):
GATTTTAAATGCACCAAAAATCATGAAATATTATAAAATTAAGATCTGAAAAGTTTCATGAAATT
CTGAGCTCGAAAAGGCTAAATTACAAAAATACCCCTACAATGGTATTTTGGTAATTTCACACTTT
TTGGGGTATTCGTTAT
Found at i:15313272 original size:16 final size:16
Alignment explanation
Indices: 15313251--15313281 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15313241 CAATTAGGAT
*
15313251 TTTTTTTCTTTTTTAA
1 TTTTTTTCTCTTTTAA
15313267 TTTTTTTCTCTTTTA
1 TTTTTTTCTCTTTTA
15313282 CTAATGCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTCTCTTTTAA
Found at i:15313704 original size:21 final size:21
Alignment explanation
Indices: 15313680--15313719 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15313670 GTGAAGGGGG
15313680 TTGGTATTGTAAAGGTGGTAC
1 TTGGTATTGTAAAGGTGGTAC
*
15313701 TTGGTATTGTAAGGGTGGT
1 TTGGTATTGTAAAGGTGGT
15313720 GGTTGAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.38, T:0.40
Consensus pattern (21 bp):
TTGGTATTGTAAAGGTGGTAC
Found at i:15314632 original size:22 final size:21
Alignment explanation
Indices: 15314600--15314642 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
15314590 ATCTTTTCTG
*
15314600 TTTTTTCTT-AAAGCAAAACA
1 TTTTTTCTTAAAAACAAAACA
15314620 TTTTTTCTTTTAAAAACAAAACA
1 TTTTTTC--TTAAAAACAAAACA
15314643 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTTTCTTAAAAACAAAACA
Found at i:15315206 original size:19 final size:19
Alignment explanation
Indices: 15315184--15315251 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
15315174 GTTTCATGGA
15315184 TGGTTTAAGGTTTGGAAGG
1 TGGTTTAAGGTTTGGAAGG
* *
15315203 TGGTTTAAGGTTT-CAA-A
1 TGGTTTAAGGTTTGGAAGG
* *
15315220 TGGTTTAGGGTTTGGAGGG
1 TGGTTTAAGGTTTGGAAGG
*
15315239 TGGTTTAGGGTTT
1 TGGTTTAAGGTTT
15315252 CATGGTGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 12 0.29
18 3 0.07
19 26 0.63
ACGTcount: A:0.18, C:0.01, G:0.40, T:0.41
Consensus pattern (19 bp):
TGGTTTAAGGTTTGGAAGG
Found at i:15315232 original size:36 final size:36
Alignment explanation
Indices: 15315183--15315253 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
15315173 GGTTTCATGG
15315183 ATGGTTTAAGGTTTGGAAGGTGGTTTAAGGTTTCAA
1 ATGGTTTAAGGTTTGGAAGGTGGTTTAAGGTTTCAA
* * *
15315219 ATGGTTTAGGGTTTGGAGGGTGGTTTAGGGTTTCA
1 ATGGTTTAAGGTTTGGAAGGTGGTTTAAGGTTTCA
15315254 TGGTGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.20, C:0.03, G:0.38, T:0.39
Consensus pattern (36 bp):
ATGGTTTAAGGTTTGGAAGGTGGTTTAAGGTTTCAA
Found at i:15315279 original size:19 final size:19
Alignment explanation
Indices: 15315223--15315282 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
15315213 TTTCAAATGG
* * *
15315223 TTTAGGGTTTGGAGGGTGG
1 TTTAGGGTTTGAACGGTGA
* *
15315242 TTTAGGGTTT-CATGGTGA
1 TTTAGGGTTTGAACGGTGA
15315260 TTTAGGGTTTGAACGGTGA
1 TTTAGGGTTTGAACGGTGA
15315279 TTTA
1 TTTA
15315283 AAAATTTGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.43
19 20 0.57
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (19 bp):
TTTAGGGTTTGAACGGTGA
Found at i:15315564 original size:12 final size:12
Alignment explanation
Indices: 15315547--15315577 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15315537 ATCAAACACT
15315547 AGAATTTTAAAA
1 AGAATTTTAAAA
15315559 AGAATTTTAAAA
1 AGAATTTTAAAA
15315571 AGAATTT
1 AGAATTT
15315578 CAATACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (12 bp):
AGAATTTTAAAA
Found at i:15318059 original size:43 final size:44
Alignment explanation
Indices: 15317991--15318094 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 44
15317981 GAGTCGATTG
* * *
15317991 TCACTATCAAGATTT-AAAATTTTAGATTTTGAACACTCAAATA
1 TCACTATCAAGATTTGAAAATCTTAGACTTTGAAAACTCAAATA
**
15318034 TCACTATCAAGATTTGAAAA-CTTAGACTTTGAAAACTCGGATA
1 TCACTATCAAGATTTGAAAATCTTAGACTTTGAAAACTCAAATA
* *
15318077 TCACCAACAAGATTTGAA
1 TCACTATCAAGATTTGAA
15318095 TGAAATCTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 49 0.92
44 4 0.08
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (44 bp):
TCACTATCAAGATTTGAAAATCTTAGACTTTGAAAACTCAAATA
Found at i:15319311 original size:14 final size:14
Alignment explanation
Indices: 15319292--15319324 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15319282 TTTCAATTCA
15319292 AACATACAACATGC
1 AACATACAACATGC
*
15319306 AACATACAACTTGC
1 AACATACAACATGC
15319320 AACAT
1 AACAT
15319325 GCATTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (14 bp):
AACATACAACATGC
Found at i:15322082 original size:24 final size:26
Alignment explanation
Indices: 15322027--15322092 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 26
15322017 TCATTCATTT
* *
15322027 TTTTCTTTTTCTTCTAT-TTCTTCCCCTC
1 TTTTC-TTTTCTT-T-TGTTCTTCCCATA
15322055 TTTT-TTTT-TTTTGTTCTTCCCATA
1 TTTTCTTTTCTTTTGTTCTTCCCATA
15322079 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
15322093 TCCTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
23 1 0.03
24 14 0.42
25 6 0.18
26 8 0.24
28 4 0.12
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTCTTTTCTTTTGTTCTTCCCATA
Found at i:15322145 original size:24 final size:24
Alignment explanation
Indices: 15322079--15322146 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 24
15322069 TCTTCCCATA
* *
15322079 TTTTCTTTTCTTT-TTCCTTCATTT
1 TTTTCCTTTCTTTCTT-TTTCATTT
*
15322103 TTTTCTCTTTTCTTACTTTTTCATTT
1 TTTTC-C-TTTCTTTCTTTTTCATTT
15322129 TTTTCCTTTCTTTCTTTT
1 TTTTCCTTTCTTTCTTTT
15322147 ATTTTAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 16 0.43
25 1 0.03
26 18 0.49
27 2 0.05
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTCCTTTCTTTCTTTTTCATTT
Found at i:15322999 original size:22 final size:22
Alignment explanation
Indices: 15322971--15323013 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15322961 AAATGACACG
15322971 AAAAAAAT-TATTTATGTGTTTT
1 AAAAAAATAT-TTTATGTGTTTT
*
15322993 AAAAAAATATTTTTTGTGTTT
1 AAAAAAATATTTTATGTGTTT
15323014 ATTCGTGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
AAAAAAATATTTTATGTGTTTT
Found at i:15323707 original size:10 final size:9
Alignment explanation
Indices: 15323680--15323761 Score: 56
Period size: 10 Copynumber: 8.6 Consensus size: 9
15323670 TTTTTGTATA
15323680 TATTCATGT
1 TATTCATGT
*
15323689 TAGTCATGT
1 TATTCATGT
15323698 CTATTCATGT
1 -TATTCATGT
**
15323708 ATATTTTTGT
1 -TATTCATGT
* *
15323718 TAGTCATGCA
1 TATTCATG-T
15323728 TATTCATGT
1 TATTCATGT
*
15323737 ATATCCATGT
1 -TATTCATGT
*
15323747 TATTTATGTT
1 TATTCATG-T
15323757 TATTC
1 TATTC
15323762 TTATCATGTT
Statistics
Matches: 54, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
9 19 0.35
10 35 0.65
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.52
Consensus pattern (9 bp):
TATTCATGT
Found at i:15323747 original size:29 final size:29
Alignment explanation
Indices: 15323678--15323748 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
15323668 TGTTTTTGTA
15323678 TATATTCATGTTAGTCATGTCTATTCATG
1 TATATTCATGTTAGTCATGTCTATTCATG
**
15323707 TATATTTTTGTTAGTCATG-CATATTCATG
1 TATATTCATGTTAGTCATGTC-TATTCATG
*
15323736 TATATCCATGTTA
1 TATATTCATGTTA
15323749 TTTATGTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (29 bp):
TATATTCATGTTAGTCATGTCTATTCATG
Found at i:15325946 original size:25 final size:25
Alignment explanation
Indices: 15325912--15325962 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
15325902 GGATGACATG
*
15325912 AGTTCAAGTGCGAAATTTTTATTGT
1 AGTTCAAGTGCGAAATTCTTATTGT
15325937 AGTTCAAGTGCGAAATTCTTATTGT
1 AGTTCAAGTGCGAAATTCTTATTGT
15325962 A
1 A
15325963 TAAAGCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (25 bp):
AGTTCAAGTGCGAAATTCTTATTGT
Found at i:15326962 original size:37 final size:37
Alignment explanation
Indices: 15326908--15327040 Score: 167
Period size: 37 Copynumber: 3.6 Consensus size: 37
15326898 AAAATATGCA
*
15326908 ATGAAATGGAGTGCATGTATTATCTATTAAGATGTGC
1 ATGAAATGGAATGCATGTATTATCTATTAAGATGTGC
* * *
15326945 ATGAAATGGAATACATGTACTATCTATTAGGATGTGC
1 ATGAAATGGAATGCATGTATTATCTATTAAGATGTGC
** * *
15326982 ATGAAATGGAATGTTTTTATTATCTATTAATATGTGC
1 ATGAAATGGAATGCATGTATTATCTATTAAGATGTGC
* * *
15327019 ATGAGATGAAATGTATGTATTA
1 ATGAAATGGAATGCATGTATTA
15327041 AGATATGTGT
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.38
Consensus pattern (37 bp):
ATGAAATGGAATGCATGTATTATCTATTAAGATGTGC
Found at i:15327085 original size:28 final size:28
Alignment explanation
Indices: 15327006--15327095 Score: 117
Period size: 28 Copynumber: 3.1 Consensus size: 28
15326996 TTTTATTATC
*
15327006 TATTAATATGTGCATGAGATGAAATGTATG
1 TATTAATATGTG--TGAGATGAAATGCATG
* *
15327036 TATTAAGATATGTGTGAAATGAAATACATG
1 TATT-A-ATATGTGTGAGATGAAATGCATG
15327066 TATTAATATGTGTGAGATGAAATGCATG
1 TATTAATATGTGTGAGATGAAATGCATG
15327094 TA
1 TA
15327096 CTATCTATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 23 0.43
29 1 0.02
30 21 0.40
31 1 0.02
32 7 0.13
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (28 bp):
TATTAATATGTGTGAGATGAAATGCATG
Found at i:15328309 original size:19 final size:18
Alignment explanation
Indices: 15328269--15328309 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
15328259 ACATTTTTTA
* *
15328269 TTTTTTTCAATTTTTCAT
1 TTTTTTTCAATTTTCCAC
15328287 TTTTCTTTCAATTTTCCAC
1 TTTT-TTTCAATTTTCCAC
15328306 TTTT
1 TTTT
15328310 AAAGAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTTCAATTTTCCAC
Found at i:15329240 original size:22 final size:22
Alignment explanation
Indices: 15329212--15329259 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
15329202 AATTTTACTT
15329212 ATAAATAATATTATATTAATAA
1 ATAAATAATATTATATTAATAA
*
15329234 ATAAATACTATTATATTAATAA
1 ATAAATAATATTATATTAATAA
15329256 ATAA
1 ATAA
15329260 TATTTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATAATATTATATTAATAA
Found at i:15329255 original size:36 final size:36
Alignment explanation
Indices: 15329215--15329298 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
15329205 TTTACTTATA
* *
15329215 AATAATATTATATTAATAAATAA-A-TACTATTATATT
1 AATAA-ATAATATTAATAAATAATATTA-TAATATATT
*
15329251 AATAAATAATATTTATAAATAATATTATAATATATT
1 AATAAATAATATTAATAAATAATATTATAATATATT
15329287 AATAAATAATAT
1 AATAAATAATAT
15329299 AAAGAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 15 0.35
36 26 0.60
37 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (36 bp):
AATAAATAATATTAATAAATAATATTATAATATATT
Found at i:15329291 original size:23 final size:21
Alignment explanation
Indices: 15329256--15329298 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
15329246 ATATTAATAA
15329256 ATAATATTTATAAATAATATT
1 ATAATATTTATAAATAATATT
15329277 ATAATATATTAATAAATAATAT
1 ATAATAT-TT-ATAAATAATAT
15329299 AAAGAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 2 0.10
23 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAATATTTATAAATAATATT
Found at i:15329309 original size:23 final size:23
Alignment explanation
Indices: 15329252--15329309 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
15329242 TATTATATTA
*
15329252 ATAAATAA-TATTTATAAATAAT
1 ATAAATAATTATTAATAAATAAT
*
15329274 AT-TATAATATATTAATAAATAAT
1 ATAAATAAT-TATTAATAAATAAT
*
15329297 ATAAAGAATTATT
1 ATAAATAATTATT
15329310 TTTTAAGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 4 0.14
22 2 0.07
23 19 0.66
24 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
ATAAATAATTATTAATAAATAAT
Found at i:15329389 original size:17 final size:17
Alignment explanation
Indices: 15329312--15329395 Score: 60
Period size: 19 Copynumber: 4.6 Consensus size: 17
15329302 GAATTATTTT
* *
15329312 TTAAGTATTTTTTTATA
1 TTAATTATTTTTTAATA
* *
15329329 TTAACATAATATTTTAATA
1 TT-A-ATTATTTTTTAATA
* *
15329348 TTAAATATTATTATTAAAA
1 TTAATTATT-TT-TTAATA
15329367 TATAATTATTTTTTAATA
1 T-TAATTATTTTTTAATA
*
15329385 TTAATAATTTT
1 TTAATTATTTT
15329396 AATAATAAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
17 14 0.27
18 10 0.20
19 20 0.39
20 7 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TTAATTATTTTTTAATA
Found at i:15329397 original size:15 final size:15
Alignment explanation
Indices: 15329377--15329417 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
15329367 TATAATTATT
*
15329377 TTTTAATATTAATAA
1 TTTTAATATAAATAA
15329392 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
15329408 TTTCAATATA
1 TTTTAATATA
15329418 CTTTAACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:15330077 original size:19 final size:19
Alignment explanation
Indices: 15330032--15330133 Score: 62
Period size: 19 Copynumber: 5.4 Consensus size: 19
15330022 GGGTTTTATC
*
15330032 GGTGATTTAGGGTTTAGAG
1 GGTGGTTTAGGGTTTAGAG
*
15330051 GGTGGTTTAGGGTTTGGAG
1 GGTGGTTTAGGGTTTAGAG
* * ** *
15330070 GTTTGTTTAGAATTTGGAG
1 GGTGGTTTAGGGTTTAGAG
* ** * *
15330089 TGCAGTTTAGGATTTGGCA-
1 GGTGGTTTAGGGTTTAG-AG
* *
15330108 GGTGATTTAGGGTTTTGAG
1 GGTGGTTTAGGGTTTAGAG
15330127 GGTGGTT
1 GGTGGTT
15330134 CAAGGTTTAA
Statistics
Matches: 63, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
18 1 0.02
19 61 0.97
20 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.40
Consensus pattern (19 bp):
GGTGGTTTAGGGTTTAGAG
Found at i:15330079 original size:38 final size:38
Alignment explanation
Indices: 15330032--15330133 Score: 100
Period size: 38 Copynumber: 2.7 Consensus size: 38
15330022 GGGTTTTATC
*
15330032 GGTGATTTAGGGTTTAGAGGGTGGTTTAGGGTTTGG-A
1 GGTGATTTAGGGTTTAGAGGGTGGTTTAGGATTTGGCA
** * * **
15330069 GGTTTG-TTTAGAATTTGGAGTGCAGTTTAGGATTTGGCA
1 GG--TGATTTAGGGTTTAGAGGGTGGTTTAGGATTTGGCA
*
15330108 GGTGATTTAGGGTTTTGAGGGTGGTT
1 GGTGATTTAGGGTTTAGAGGGTGGTT
15330134 CAAGGTTTAA
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
37 4 0.08
38 39 0.81
39 5 0.10
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.40
Consensus pattern (38 bp):
GGTGATTTAGGGTTTAGAGGGTGGTTTAGGATTTGGCA
Found at i:15335686 original size:143 final size:145
Alignment explanation
Indices: 15335426--15335701 Score: 326
Period size: 143 Copynumber: 1.9 Consensus size: 145
15335416 TCAACCTCAA
* * * ** *
15335426 AAAGGTTAAATTATAAAAATACCCCCTAAAAAATATTTCAATGATTTCACACCTTCTGAGGTACG
1 AAAGGTTAAATTACAAAAATACCCCCTAAAAAATATTTCAATAATTTCACACCTCCCAAGGAACG
**
15335491 ATCAAGATTTTCAATATTCTAAAAATCATCAAATAATATTAAATCATAATCT-AAAGCTTTTCAT
66 ATCAAGATTTTCAATACACTAAAAATCATCAAATAATATTAAATCATAATCTAAAAG-TTTTCAT
15335555 AAAATTTTGACTTAGG
130 AAAATTTTGACTTAGG
* * * *
15335571 AAAGGTTAATTTACAAAAATA-CCCCT-AAGAATATTTTAATAATTTCACACCTCCCAAGGAATG
1 AAAGGTTAAATTACAAAAATACCCCCTAAAAAATATTTCAATAATTTCACACCTCCCAAGGAACG
* * * * * ** *
15335634 ATTAAGATTTTTAATGCACTAAAAATCATTAAA-AATTATTTAATTGTGATCTAAAAGTTTTCAT
66 ATCAAGATTTTCAATACACTAAAAATCATCAAATAA-TATTAAATCATAATCTAAAAGTTTTCAT
15335698 AAAA
130 AAAA
15335702 ATCTAATTTC
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
142 2 0.02
143 79 0.72
144 9 0.08
145 19 0.17
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.34
Consensus pattern (145 bp):
AAAGGTTAAATTACAAAAATACCCCCTAAAAAATATTTCAATAATTTCACACCTCCCAAGGAACG
ATCAAGATTTTCAATACACTAAAAATCATCAAATAATATTAAATCATAATCTAAAAGTTTTCATA
AAATTTTGACTTAGG
Found at i:15335719 original size:143 final size:145
Alignment explanation
Indices: 15335210--15335726 Score: 340
Period size: 145 Copynumber: 3.6 Consensus size: 145
15335200 ATTTTCATGA
* * * * * * *
15335210 TTTCAA-ACTACTAAAAATCATGAAATAATATGAAATTAAGAATC-AAAAATTTTTATAAAAATA
1 TTTCAATAC-ACTAAAAATCATCAAATAATATTAAATCATG-ATCTAAAAGTTTTCATAAAAATC
* * * * * * * * ** * *
15335273 TGACCTCGAGAATGTCAAATTACAAAATTA-TCCTTAAAGGATATTTTAATAATTTCACAGCTCC
64 TAACTTCAAGAAGGTTAAATTACAAAAATACCCCCTAAAAAATATTTCAATAATTTCACACCTCC
* ** * *
15335337 TAAGGTGCTACCACAG-T
129 CAAGGAACGATCA-AGAT
* * * * *
15335354 TTTTAATGCA-TCAAAAATCATCAAATAGT-TTAAAAACATGATCTAAAA-TGTTTCACGAAAAA
1 TTTCAATACACT-AAAAATCATCAAATAATATT-AAATCATGATCTAAAAGT-TTTCA-TAAAAA
* * * *
15335416 TC-AACCTCAAAAAGGTTAAATTATAAAAATACCCCCTAAAAAATATTTCAATGATTTCACACCT
62 TCTAACTTCAAGAAGGTTAAATTACAAAAATACCCCCTAAAAAATATTTCAATAATTTCACACCT
* ** *
15335480 TCTGAGGTACGATCAAGAT
127 CCCAAGGAACGATCAAGAT
** * * *
15335499 TTTCAATATTCTAAAAATCATCAAATAATATTAAATCATAATCT-AAAGCTTTTCATAAAATTTT
1 TTTCAATACACTAAAAATCATCAAATAATATTAAATCATGATCTAAAAG-TTTTCATAAAAATCT
* * * * *
15335563 GACTT-AGGAAAGGTTAATTTACAAAAATA-CCCCT-AAGAATATTTTAATAATTTCACACCTCC
65 AACTTCAAG-AAGGTTAAATTACAAAAATACCCCCTAAAAAATATTTCAATAATTTCACACCTCC
* *
15335625 CAAGGAATGATTAAGAT
129 CAAGGAACGATCAAGAT
* * * * **
15335642 TTTTAATGCACTAAAAATCATTAAA-AATTATTTAATTGTGATCTAAAAGTTTTCATAAAAATCT
1 TTTCAATACACTAAAAATCATCAAATAA-TATTAAATCATGATCTAAAAGTTTTCATAAAAATCT
* *
15335706 AATTTCAAGAAGGTCAAATTA
65 AACTTCAAGAAGGTTAAATTA
15335727 TGAAATACCT
Statistics
Matches: 285, Mismatches: 71, Indels: 35
0.73 0.18 0.09
Matches are distributed among these distances:
142 2 0.01
143 100 0.35
144 78 0.27
145 101 0.35
146 4 0.01
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (145 bp):
TTTCAATACACTAAAAATCATCAAATAATATTAAATCATGATCTAAAAGTTTTCATAAAAATCTA
ACTTCAAGAAGGTTAAATTACAAAAATACCCCCTAAAAAATATTTCAATAATTTCACACCTCCCA
AGGAACGATCAAGAT
Found at i:15336966 original size:19 final size:20
Alignment explanation
Indices: 15336934--15336971 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
15336924 AAAAAAAACC
15336934 AAAATAAAAAAAC-TAAATT
1 AAAATAAAAAAACTTAAATT
* *
15336953 AAAATTAAATAACTTAAAT
1 AAAATAAAAAAACTTAAAT
15336972 CTAATGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATAAAAAAACTTAAATT
Found at i:15340420 original size:22 final size:22
Alignment explanation
Indices: 15340371--15340420 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
15340361 ATAATTTAAA
* *
15340371 ATTTTAATAAAAATTTTATATG
1 ATTTTGATAAAAATTATATATG
*
15340393 AATTTGATAAAAATTAATATAT-
1 ATTTTGATAAAAATT-ATATATG
15340415 ATTTTG
1 ATTTTG
15340421 CATTTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTTTGATAAAAATTATATATG
Found at i:15343558 original size:27 final size:28
Alignment explanation
Indices: 15343515--15343572 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
15343505 ATAAAATAAA
*
15343515 ATAATATTATTTAATCTAATCTTAT-TT
1 ATAATATTATTTAATCTAATCATATCTT
*
15343542 ATAATATTATCTT-ATCTTATCATATCTT
1 ATAATATTAT-TTAATCTAATCATATCTT
15343570 ATA
1 ATA
15343573 TATCACACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.53
Consensus pattern (28 bp):
ATAATATTATTTAATCTAATCATATCTT
Found at i:15343566 original size:18 final size:17
Alignment explanation
Indices: 15343533--15343566 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15343523 ATTTAATCTA
15343533 ATCTTATTTATAATATT
1 ATCTTATTTATAATATT
*
15343550 ATCTTATCTTATCATAT
1 ATCTTAT-TTATAATAT
15343567 CTTATATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
ATCTTATTTATAATATT
Found at i:15345476 original size:35 final size:35
Alignment explanation
Indices: 15345430--15345501 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
15345420 GAATCTTGAG
15345430 TTTCTTTCCTGCTGTCTCCGATCTTTTTCTTTATT
1 TTTCTTTCCTGCTGTCTCCGATCTTTTTCTTTATT
15345465 TTTCTTTCCTGCTGTCTCCGATCTTTTTCTTTATT
1 TTTCTTTCCTGCTGTCTCCGATCTTTTTCTTTATT
15345500 TT
1 TT
15345502 GATGTGCAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.06, C:0.25, G:0.08, T:0.61
Consensus pattern (35 bp):
TTTCTTTCCTGCTGTCTCCGATCTTTTTCTTTATT
Found at i:15346450 original size:3 final size:3
Alignment explanation
Indices: 15346442--15346471 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15346432 GTAAAGCCAA
15346442 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15346472 CACCAATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15348656 original size:2 final size:2
Alignment explanation
Indices: 15348649--15348687 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
15348639 GACAATTGAC
* *
15348649 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15348688 CACACACAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15348725 original size:20 final size:20
Alignment explanation
Indices: 15348696--15348733 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15348686 TACACACACA
15348696 AGAAAAAACCTACTTATACG
1 AGAAAAAACCTACTTATACG
*
15348716 AGAAAGAACCTACTTATA
1 AGAAAAAACCTACTTATA
15348734 TTTTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (20 bp):
AGAAAAAACCTACTTATACG
Found at i:15348969 original size:16 final size:16
Alignment explanation
Indices: 15348950--15348996 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15348940 AAAGAAATAA
15348950 GAATCTAAAACAATTT
1 GAATCTAAAACAATTT
*
15348966 GAATCTAAAATAATTT
1 GAATCTAAAACAATTT
*
15348982 AAAT-TAAAAACAATT
1 GAATCT-AAAACAATT
15348997 AAATTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 1 0.04
16 26 0.96
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (16 bp):
GAATCTAAAACAATTT
Found at i:15349565 original size:20 final size:19
Alignment explanation
Indices: 15349517--15349566 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
15349507 AAATTCATTC
15349517 TTTTTC-AAAAATAAATAA
1 TTTTTCTAAAAATAAATAA
*
15349535 TTGATTT-TAAAAATAAATTGA
1 TT--TTTCTAAAAATAAA-TAA
15349556 TTTTTCTAAAA
1 TTTTTCTAAAA
15349567 TATACTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 17 0.65
21 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (19 bp):
TTTTTCTAAAAATAAATAA
Found at i:15351051 original size:30 final size:30
Alignment explanation
Indices: 15351015--15351089 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
15351005 TTTTAATTTT
** *
15351015 TAATTATTTTATTTTAATT-AAAGAATAAAA
1 TAATTATTTTATAAT-ATTAAAAAAATAAAA
15351045 TAATTATTTTATAATATTAAAAAAATAAAA
1 TAATTATTTTATAATATTAAAAAAATAAAA
15351075 TAATTATTTTATAAT
1 TAATTATTTTATAAT
15351090 GCTGGACAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 3 0.07
30 38 0.93
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
TAATTATTTTATAATATTAAAAAAATAAAA
Found at i:15353238 original size:23 final size:23
Alignment explanation
Indices: 15353212--15353260 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
15353202 AGATAACTTT
15353212 TATATATTGTTATTGATATTAAA
1 TATATATTGTTATTGATATTAAA
*
15353235 TATATATTGTTATTTATATTAAA
1 TATATATTGTTATTGATATTAAA
15353258 TAT
1 TAT
15353261 GTAATTAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TATATATTGTTATTGATATTAAA
Found at i:15354209 original size:2 final size:2
Alignment explanation
Indices: 15354202--15354231 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15354192 AACTTTTGAG
15354202 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15354232 AATGAATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15355081 original size:6 final size:6
Alignment explanation
Indices: 15355070--15355136 Score: 57
Period size: 6 Copynumber: 10.7 Consensus size: 6
15355060 CCACCTATCA
*
15355070 TCTTTT TCTTTT TCTTTT TC-TTT TCTTTT TCCTTTCT TCATTTT T-TCCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T-CTTT-T TC-TTTT TCT-TTT
*
15355120 TCTTTC TCTTTT ATCTT
1 TCTTTT TCTTTT -TCTT
15355137 CTTTATCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
5 6 0.12
6 27 0.54
7 12 0.24
8 5 0.10
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (6 bp):
TCTTTT
Found at i:15355093 original size:11 final size:11
Alignment explanation
Indices: 15355070--15355107 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
15355060 CCACCTATCA
15355070 TCTTTTTCTTTT
1 TCTTTTTC-TTT
15355082 TCTTTTTCTTT
1 TCTTTTTCTTT
*
15355093 TCTTTTTCCTT
1 TCTTTTTCTTT
15355104 TCTT
1 TCTT
15355108 CATTTTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:15355105 original size:16 final size:16
Alignment explanation
Indices: 15355073--15355131 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
15355063 CCTATCATCT
*
15355073 TTTTCTTTTTCTTTTTC
1 TTTTCTTTTTC-CTTTC
15355090 TTTTCTTTTTCCTTTC
1 TTTTCTTTTTCCTTTC
*
15355106 TTCAT-TTTTTCCTTTC
1 TT-TTCTTTTTCCTTTC
15355122 TTTCTCTTTT
1 TTT-TCTTTT
15355132 ATCTTCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCTTTTTCCTTTC
Found at i:15355366 original size:16 final size:17
Alignment explanation
Indices: 15355340--15355375 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
15355330 TTGGCTTATT
15355340 TTTAGGTTTTTTTTAGC
1 TTTAGGTTTTTTTTAGC
*
15355357 TTTA-GTTTTTTTTTGC
1 TTTAGGTTTTTTTTAGC
15355373 TTT
1 TTT
15355376 TTTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.08, C:0.06, G:0.14, T:0.72
Consensus pattern (17 bp):
TTTAGGTTTTTTTTAGC
Found at i:15355366 original size:17 final size:16
Alignment explanation
Indices: 15355340--15355375 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
15355330 TTGGCTTATT
15355340 TTTAGGTTTTTTTTAGC
1 TTTAGGTTTTTTTT-GC
*
15355357 TTTAGTTTTTTTTTGC
1 TTTAGGTTTTTTTTGC
15355373 TTT
1 TTT
15355376 TTTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.08, C:0.06, G:0.14, T:0.72
Consensus pattern (16 bp):
TTTAGGTTTTTTTTGC
Found at i:15359282 original size:2 final size:2
Alignment explanation
Indices: 15359275--15359299 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15359265 ACATACATAC
15359275 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15359300 GACTTACAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15361241 original size:17 final size:17
Alignment explanation
Indices: 15361219--15361252 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15361209 AAAAGAAAAG
15361219 AAAATTTCAGTTTCTTC
1 AAAATTTCAGTTTCTTC
15361236 AAAATTTCAGTTTCTTC
1 AAAATTTCAGTTTCTTC
15361253 CTTTCTTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
AAAATTTCAGTTTCTTC
Found at i:15365305 original size:24 final size:25
Alignment explanation
Indices: 15365278--15365335 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
15365268 AATTTTTTAA
15365278 TAAATTTATATAT-TTTCAAATTTT
1 TAAATTTATATATCTTTCAAATTTT
* *
15365302 TAAATTT-TATCTCTTTCATATTTT
1 TAAATTTATATATCTTTCAAATTTT
15365326 TATAATTTAT
1 TA-AATTTAT
15365336 TTTTATTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.14
24 19 0.66
25 5 0.17
26 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (25 bp):
TAAATTTATATATCTTTCAAATTTT
Found at i:15365874 original size:22 final size:23
Alignment explanation
Indices: 15365832--15365881 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
15365822 TATCAGATAT
*
15365832 TATTTT-TAAATTTAATAAAAAA
1 TATTTTATAAATTAAATAAAAAA
*
15365854 TATTTTATAAA-TAAATTAAAAA
1 TATTTTATAAATTAAATAAAAAA
15365876 T-TTTTA
1 TATTTTA
15365882 ATCAAACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 16 0.64
23 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTTATAAATTAAATAAAAAA
Found at i:15366829 original size:26 final size:25
Alignment explanation
Indices: 15366791--15366848 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
15366781 AAACAATTTT
* *
15366791 AAAGATTATTTATTTGAGTTTAAATA
1 AAAGTTTAATTATTT-AGTTTAAATA
* *
15366817 AAAGTTTAATTATTTATTTTAAATT
1 AAAGTTTAATTATTTAGTTTAAATA
15366842 AAA-TTTA
1 AAAGTTTA
15366849 TTTTTCTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 4 0.14
25 11 0.39
26 13 0.46
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (25 bp):
AAAGTTTAATTATTTAGTTTAAATA
Found at i:15368517 original size:25 final size:26
Alignment explanation
Indices: 15368489--15368537 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
15368479 AATAATCAAG
15368489 AGGG-ATTAATGAAAATCAAAAAGTT
1 AGGGAATTAATGAAAATCAAAAAGTT
*
15368514 AGGGAATTGATGAAAATCAAAAAG
1 AGGGAATTAATGAAAATCAAAAAG
15368538 ATTGAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.53, C:0.04, G:0.22, T:0.20
Consensus pattern (26 bp):
AGGGAATTAATGAAAATCAAAAAGTT
Found at i:15369350 original size:99 final size:99
Alignment explanation
Indices: 15369177--15369356 Score: 244
Period size: 99 Copynumber: 1.8 Consensus size: 99
15369167 AAAGGTAAAG
*
15369177 AAAATGGATTTTAAAGAGAAAAAGGGAAATCGGTAAATGAAATGAATAGCAGATTTTTGAAGTTT
1 AAAATGGATTTT-AAGAGAAAAAGGGAAATCGGTAAATGAAATGAATAGCAGATTTTTCAAGTTT
*
15369242 TATATTGTACCTAAAATAACATCATTTTGGTTGAA
65 TATAGTGTACCTAAAATAACATCATTTTGGTTGAA
*
15369277 AAAATGGATTTT-AG-GATAAAAGGGATAATGGGTAAATGAAATG-ATAAGCTA-A-TTTTCAAG
1 AAAATGGATTTTAAGAGA-AAAAGGGA-AATCGGTAAATGAAATGAAT-AGC-AGATTTTTCAA-
15369337 GTTTTATAGTGTACCTAAAA
61 GTTTTATAGTGTACCTAAAA
15369357 CGACATTGTT
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
97 2 0.03
98 18 0.25
99 39 0.54
100 13 0.18
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.32
Consensus pattern (99 bp):
AAAATGGATTTTAAGAGAAAAAGGGAAATCGGTAAATGAAATGAATAGCAGATTTTTCAAGTTTT
ATAGTGTACCTAAAATAACATCATTTTGGTTGAA
Found at i:15370998 original size:14 final size:14
Alignment explanation
Indices: 15370979--15371043 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
15370969 ATAATATAAC
*
15370979 CATTTATGTTTAAA
1 CATTTATGTTCAAA
**
15370993 CATTTATAATCAAA
1 CATTTATGTTCAAA
** *
15371007 TGTTTATGTTAAAA
1 CATTTATGTTCAAA
**
15371021 CATTTATAATCAAA
1 CATTTATGTTCAAA
15371035 CATTTATGT
1 CATTTATGT
15371044 CTAAACATAA
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (14 bp):
CATTTATGTTCAAA
Found at i:15371021 original size:28 final size:28
Alignment explanation
Indices: 15370979--15371048 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
15370969 ATAATATAAC
*
15370979 CATTTATGTTTAAACATTTATAATCAAA
1 CATTTATGTTAAAACATTTATAATCAAA
**
15371007 TGTTTATGTTAAAACATTTATAATCAAA
1 CATTTATGTTAAAACATTTATAATCAAA
15371035 CATTTATGTCTAAA
1 CATTTATGT-TAAA
15371049 CATAATAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 32 0.89
29 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (28 bp):
CATTTATGTTAAAACATTTATAATCAAA
Found at i:15371049 original size:14 final size:14
Alignment explanation
Indices: 15370979--15371051 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
15370969 ATAATATAAC
*
15370979 CATTTATGTTTAAA
1 CATTTATGTCTAAA
*
15370993 CATTTATAATC-AAA
1 CATTTAT-GTCTAAA
**
15371007 TGTTTATGT-TAAAA
1 CATTTATGTCT-AAA
*
15371021 CATTTATAATC-AAA
1 CATTTAT-GTCTAAA
15371035 CATTTATGTCTAAA
1 CATTTATGTCTAAA
15371049 CAT
1 CAT
15371052 AATAGTTATA
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
13 3 0.07
14 39 0.89
15 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.42
Consensus pattern (14 bp):
CATTTATGTCTAAA
Found at i:15375517 original size:218 final size:218
Alignment explanation
Indices: 15375068--15375517 Score: 561
Period size: 218 Copynumber: 2.1 Consensus size: 218
15375058 TTAGTTTTTA
* *
15375068 ACTTTTGATTTTTTTATATTTATTTTATTTAAAGCCATTATTTGTTAAAATTTATTAATCAAACC
1 ACTTTTGATTTTTTTATATTTATTTTATTTAAAACCATTATCTGTTAAAATTTATTAATCAAACC
* * *
15375133 TTTGATTTTGTAACATTTATATTTTTAACTTTTGATTTTCTTGTGATTTATGGTTTCTATCTCTT
66 TTTGATTTTGTAACATTTATATTTTTAACTTTTGATTTTCTTGTAACTTATGATTTCTATCTCTT
** * * * * *
15375198 TTAAGGGTGAGAGTTATATGAGTTTCTTTCATGTCTCTTTTATACTTTTTTCTCCTAATGCTTAT
131 TTAAGAATAAGAGTTATATGAATGTCTTTCATCTCTCTGTTATACTTTTTTCTCCTAATGCTTAT
* *
15375263 TTATCATATTTCTTGGATTATAG
196 TTATCATATTACTTGAATTATAG
* * *
15375286 ACTTTTGATTTTTTTATATTTATTTTTTTTAAAACCATTATCTGTTAAAATTTATTGATCAAATC
1 ACTTTTGATTTTTTTATATTTATTTTATTTAAAACCATTATCTGTTAAAATTTATTAATCAAACC
* * * *
15375351 TTTGGTTTTGTAACATTTATATTTTTTACTTTTGATTTTTTTCGTAACTTATAGATTTCTATTTC
66 TTTGATTTTGTAACATTTATATTTTTAACTTTTGATTTTCTT-GTAACTTAT-GATTTCTATCTC
* * * *
15375416 TTTTAAGAATAAGAGTTTATGTGAATGTCTTTTATACT-TCTGTTATACTTTCTTT-TCTTAATT
129 TTTTAAGAATAAGAG-TTATATGAATGTCTTTCAT-CTCTCTGTTATACTTT-TTTCTCCTAATG
* *
15375479 CTTGTTTGTCATATTAC-T-AATTATGAG
191 CTTATTTATCATATTACTTGAATTAT-AG
15375506 A-TTTT-ATTTTTT
1 ACTTTTGATTTTTT
15375518 ATTGTCTTTT
Statistics
Matches: 199, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
218 106 0.53
219 16 0.08
220 26 0.13
221 47 0.24
222 4 0.02
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (218 bp):
ACTTTTGATTTTTTTATATTTATTTTATTTAAAACCATTATCTGTTAAAATTTATTAATCAAACC
TTTGATTTTGTAACATTTATATTTTTAACTTTTGATTTTCTTGTAACTTATGATTTCTATCTCTT
TTAAGAATAAGAGTTATATGAATGTCTTTCATCTCTCTGTTATACTTTTTTCTCCTAATGCTTAT
TTATCATATTACTTGAATTATAG
Found at i:15375875 original size:196 final size:195
Alignment explanation
Indices: 15375491--15375881 Score: 436
Period size: 195 Copynumber: 2.0 Consensus size: 195
15375481 TGTTTGTCAT
* * * **
15375491 ATTACTAATTATGAGATTTTATTTTTTATTGTCTTTTTGTTTTGATAATTTTATAAATTTTTAAT
1 ATTACTAATCATGAGATTTTATTTATTATTATCTTTTCATTTTGATAATTTTATAAATTTTTAAT
* * *
15375556 CATGATCTATAATTTTTTGTTTACATTTTAGGTTTGTTTATTAGTCAATTGACATTTTTTAGTGT
66 CATGATCTATAATTTTTTGTTTACATATTAAGTTTGTTTATTAATCAATTGACATTTTTTAGTGT
* * * *
15375621 TTTTTTCTTATAATTTTTTACTTTTTTATCATGATTATTTTTTTGGTTTAAGCTTGGCTATTAAC
131 TTTTTTCTTATAATTTTTTACTATGTTATCAT-ATTATTTTTTTAGTTTAAACTTGGCTATTAAC
15375686 C
195 C
* * * * *
15375687 ATTACTAATCATGAGA-TTTGTTTATTATTATGTTTTCATTTTTATAATTTTTTAATTTTTTAAT
1 ATTACTAATCATGAGATTTTATTTATTATTATCTTTTCATTTTGATAATTTTATAAATTTTTAAT
* * * **
15375751 CATGATTTATGATTTTTT-TTTACATATTAAGTTTGTTTCTTAATCAATTGGTGTATTTTTTTTA
66 CATGATCTATAATTTTTTGTTTACATATTAAGTTTGTTTATTAATCAA-T--TG-ACATTTTTTA
* *
15375815 TTGTTTGTATTT-TTATAATTTTTTA-TCATGTT-TC-T-TTTTTCTTTTTAGTTTAAACTTGGC
127 GTGTTT-T-TTTCTTATAATTTTTTACT-ATGTTATCATATTATT-TTTTTAGTTTAAACTTGGC
15375875 TATTAAC
188 TATTAAC
15375882 AAATTTTGAT
Statistics
Matches: 163, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
194 25 0.15
195 60 0.37
196 39 0.24
197 3 0.02
198 16 0.10
199 17 0.10
200 3 0.02
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (195 bp):
ATTACTAATCATGAGATTTTATTTATTATTATCTTTTCATTTTGATAATTTTATAAATTTTTAAT
CATGATCTATAATTTTTTGTTTACATATTAAGTTTGTTTATTAATCAATTGACATTTTTTAGTGT
TTTTTTCTTATAATTTTTTACTATGTTATCATATTATTTTTTTAGTTTAAACTTGGCTATTAACC
Found at i:15376860 original size:16 final size:16
Alignment explanation
Indices: 15376841--15376872 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15376831 TAAGTTTTAA
15376841 AAAATAAATACATTTT
1 AAAATAAATACATTTT
*
15376857 AAAATGAATACATTTT
1 AAAATAAATACATTTT
15376873 CTTTAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAATAAATACATTTT
Found at i:15379075 original size:14 final size:14
Alignment explanation
Indices: 15379058--15379088 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15379048 ATTTTTTCTT
15379058 TTTTATAAAACATA
1 TTTTATAAAACATA
*
15379072 TTTTATAAAATATA
1 TTTTATAAAACATA
15379086 TTT
1 TTT
15379089 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTATAAAACATA
Found at i:15405054 original size:16 final size:18
Alignment explanation
Indices: 15405033--15405071 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 18
15405023 AGGGAAAGGA
15405033 TTCCCTCTTTCC-TTCC-
1 TTCCCTCTTTCCATTCCT
15405049 TT-CC-CTTTCCATTCCT
1 TTCCCTCTTTCCATTCCT
15405065 TTCCCTC
1 TTCCCTC
15405072 CCTTCAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.32
15 6 0.32
16 4 0.21
17 2 0.11
18 1 0.05
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCCCTCTTTCCATTCCT
Found at i:15408850 original size:22 final size:22
Alignment explanation
Indices: 15408825--15408866 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15408815 TTGTCTATCC
* *
15408825 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
15408847 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
15408867 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:15412785 original size:22 final size:22
Alignment explanation
Indices: 15412760--15412801 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15412750 TTGTCTATCC
* *
15412760 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
15412782 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
15412802 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:15415738 original size:30 final size:30
Alignment explanation
Indices: 15415702--15415758 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
15415692 ATTTTTTGTC
* * *
15415702 CTTAATTCTGGGGATACAGATTACAACATA
1 CTTAATTCTAGGGAAACAAATTACAACATA
15415732 CTTAATTCTAGGGAAACAAATTACAAC
1 CTTAATTCTAGGGAAACAAATTACAAC
15415759 CAGTTGTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (30 bp):
CTTAATTCTAGGGAAACAAATTACAACATA
Found at i:15420583 original size:30 final size:30
Alignment explanation
Indices: 15420547--15420603 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
15420537 GTTTTTTGTC
15420547 CTTAATTCTAGGGATACAGATTACAACATA
1 CTTAATTCTAGGGATACAGATTACAACATA
*
15420577 CTTAATTCTAGGGATACATATTACAAC
1 CTTAATTCTAGGGATACAGATTACAAC
15420604 TAGTTGTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (30 bp):
CTTAATTCTAGGGATACAGATTACAACATA
Found at i:15420691 original size:15 final size:15
Alignment explanation
Indices: 15420671--15420700 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15420661 GGGATTTAAG
15420671 GATTACTAGGAACTA
1 GATTACTAGGAACTA
15420686 GATTACTAGGAACTA
1 GATTACTAGGAACTA
15420701 TTTGATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
GATTACTAGGAACTA
Found at i:15424710 original size:20 final size:21
Alignment explanation
Indices: 15424685--15424727 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
15424675 TATAATTAAA
15424685 TATATATTT-AAACAA-AAATT
1 TATATATTTCAAA-AACAAATT
15424705 TATATATTTCAAAAACAAATT
1 TATATATTTCAAAAACAAATT
15424726 TA
1 TA
15424728 CGAGAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
TATATATTTCAAAAACAAATT
Found at i:15428446 original size:7 final size:7
Alignment explanation
Indices: 15428436--15428460 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15428426 CCCCCCCCCC
15428436 CCCCTTT
1 CCCCTTT
15428443 CCCCTTT
1 CCCCTTT
15428450 CCCCTTT
1 CCCCTTT
15428457 CCCC
1 CCCC
15428461 AACCCTTGGT
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:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (7 bp):
CCCCTTT
Found at i:15431401 original size:22 final size:23
Alignment explanation
Indices: 15431376--15431422 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
15431366 TTTTTATATA
15431376 TTATTAATTT-TCATATTT-AATT
1 TTATTAATTTATCA-ATTTAAATT
15431398 TTATTAATTTATCAATTTAAATT
1 TTATTAATTTATCAATTTAAATT
15431421 TT
1 TT
15431423 TTATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTAATTTATCAATTTAAATT
Found at i:15431476 original size:23 final size:24
Alignment explanation
Indices: 15431450--15431495 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
15431440 AAATCATTTA
15431450 AAAAAAATTTACA-AATTTTATCT
1 AAAAAAATTTACATAATTTTATCT
* *
15431473 AAAAAATTTTATATAATTTTATC
1 AAAAAAATTTACATAATTTTATC
15431496 CTTCTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAAAATTTACATAATTTTATCT
Found at i:15432322 original size:30 final size:29
Alignment explanation
Indices: 15432259--15432322 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
15432249 TAATAATTAT
*
15432259 TTAAATTTTTATTATTTTATTACATTTAA
1 TTAAATTTTTATTATTTTATTACATTCAA
15432288 TTAAATTTTTAATT-TTTTATT-CTGATTCAA
1 TTAAATTTTT-ATTATTTTATTAC--ATTCAA
15432318 TTAAA
1 TTAAA
15432323 CCTTTAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 1 0.03
29 17 0.55
30 13 0.42
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (29 bp):
TTAAATTTTTATTATTTTATTACATTCAA
Found at i:15438964 original size:13 final size:13
Alignment explanation
Indices: 15438946--15438973 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15438936 AAAAAATACT
15438946 TACTGAAATATCA
1 TACTGAAATATCA
15438959 TACTGAAATATCA
1 TACTGAAATATCA
15438972 TA
1 TA
15438974 TGATAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (13 bp):
TACTGAAATATCA
Found at i:15442495 original size:53 final size:52
Alignment explanation
Indices: 15442385--15442495 Score: 118
Period size: 53 Copynumber: 2.1 Consensus size: 52
15442375 ATAAAATCAT
** * * *
15442385 ATATCAATGAAACCATGCATACCAAAAAAAATCCAACCAATAGAACCATGCAT
1 ATATCAACAAAACCATACATACCAAAAAAAATCCAACCAATAGAACCA-GAAA
*
15442438 ATATCAACAAAACCATACATACC-ATAAAAATCCAACCAATTAGCAAACCA-AAA
1 ATATCAACAAAACCATACATACCAAAAAAAATCCAACCAA-TAG--AACCAGAAA
15442491 ATATC
1 ATATC
15442496 CAACCATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
52 15 0.31
53 29 0.59
55 5 0.10
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (52 bp):
ATATCAACAAAACCATACATACCAAAAAAAATCCAACCAATAGAACCAGAAA
Found at i:15447029 original size:144 final size:144
Alignment explanation
Indices: 15446781--15447112 Score: 386
Period size: 144 Copynumber: 2.3 Consensus size: 144
15446771 CGGGAAGGGT
* * *
15446781 AAATTATGAACAA-ATCCTTATAGGGGTATTTTAATAATTTAACACTTTCACAGTTACCATTATG
1 AAATTATGAA-AATATCCTTATAGGGGTATTTTAATAATTTTACACTTTCACAGGTACCACTATG
* * * * *
15446845 ATTTCAAATGCATCAAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTTATAAAAATT
65 ATTTCAAAT-CATCAAAAATCATAAAATATTATAAAATTAAGATATAAAAAGTTTCATAAAAATC
15446910 TGAGCTCG-AAAAGATC
129 TGAGCTCGAAAAAG-TC
* * * * ** *
15446926 AAAATT-TGAAAATATCCTTATAGCGATATTTTAATAATTTTACACTTT-TCGGGTATGACTGTG
1 -AAATTATGAAAATATCCTTATAGGGGTATTTTAATAATTTTACACTTTCACAGGTACCACTATG
* *
15446989 ATTTCAAAT-ATACAAAAAATCATGAAATATTATAAAATTAAGATATAAAAAGTTTCATGAAAAT
65 ATTTCAAATCAT-C-AAAAATCATAAAATATTATAAAATTAAGATATAAAAAGTTTCATAAAAAT
*
15447053 CTGAGCTTGAAAAAGTC
128 CTGAGCTCGAAAAAGTC
*
15447070 AAATTATGAAAATATCCTTTATAAGGGGTATTTTGATAATTTT
1 AAATTATGAAAATATCC-TTAT-AGGGGTATTTTAATAATTTT
15447113 GTACTTACTT
Statistics
Matches: 158, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
142 2 0.01
143 6 0.04
144 83 0.53
145 45 0.28
146 22 0.14
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (144 bp):
AAATTATGAAAATATCCTTATAGGGGTATTTTAATAATTTTACACTTTCACAGGTACCACTATGA
TTTCAAATCATCAAAAATCATAAAATATTATAAAATTAAGATATAAAAAGTTTCATAAAAATCTG
AGCTCGAAAAAGTC
Found at i:15462769 original size:18 final size:18
Alignment explanation
Indices: 15462727--15462769 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15462717 GGTCTAGGGT
15462727 TTAGTTTAATGTTTGGGG
1 TTAGTTTAATGTTTGGGG
* *
15462745 TTGGTTTAA-GTTTTGGTG
1 TTAGTTTAATG-TTTGGGG
15462763 TTAGTTT
1 TTAGTTT
15462770 CGGGCTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.56
Consensus pattern (18 bp):
TTAGTTTAATGTTTGGGG
Found at i:15463012 original size:32 final size:31
Alignment explanation
Indices: 15462976--15463090 Score: 90
Period size: 32 Copynumber: 3.6 Consensus size: 31
15462966 GTTGTTTTGG
15462976 GGTTTGGTGTTTAAGTTATGGTTTATGGGTTT
1 GGTTTGGTGTTTAAGTT-TGGTTTATGGGTTT
* * ** ** *
15463008 GGTTTGGGGTTTAAGGGTTGG-GGATTTGTTGG
1 GGTTTGGTGTTTAA-GTTTGGTTTATGGGTT-T
*
15463040 GGTTT-ATGGTTTAAGTTTAGGATTTATGGGTTT
1 GGTTTGGT-GTTTAAGTTT-GG-TTTATGGGTTT
15463073 GGTTTGGTGTTTAAGTTT
1 GGTTTGGTGTTTAAGTTT
15463091 AAGGTTTGAC
Statistics
Matches: 60, Mismatches: 16, Indels: 13
0.67 0.18 0.15
Matches are distributed among these distances:
31 8 0.13
32 29 0.48
33 17 0.28
34 6 0.10
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (31 bp):
GGTTTGGTGTTTAAGTTTGGTTTATGGGTTT
Found at i:15463018 original size:20 final size:20
Alignment explanation
Indices: 15462995--15463085 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 20
15462985 TTTAAGTTAT
15462995 GGTTTATGGGTTTGGTTTGG
1 GGTTTATGGGTTTGGTTTGG
* *
15463015 GGTTTAAGGGTTGGGGATTTGTTGG
1 GGTTTATGGGTT-TGG---T-TTGG
* *
15463040 GGTTTAT-GGTTTAAGTTTAG
1 GGTTTATGGGTTT-GGTTTGG
*
15463060 GATTTATGGGTTTGGTTTGG
1 GGTTTATGGGTTTGGTTTGG
*
15463080 TGTTTA
1 GGTTTA
15463086 AGTTTAAGGT
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
20 29 0.55
21 8 0.15
24 6 0.11
25 10 0.19
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.48
Consensus pattern (20 bp):
GGTTTATGGGTTTGGTTTGG
Found at i:15464674 original size:144 final size:144
Alignment explanation
Indices: 15464448--15464775 Score: 378
Period size: 144 Copynumber: 2.3 Consensus size: 144
15464438 ATTTATGTGA
* * ** * * *
15464448 TTTTAATGCAC-AAAAATCATAAAATAATATTTAACCATAATCTAGAGCTTTTTATGAAAAATTG
1 TTTTAATGCACTAAAATTCATGAAATAATATCAAAACATGATCTAGAGCTTTTTATGAAAAAATG
** *
15464512 ACCTTAAAAAAATCAAATTATGAAAATACCCCTAAAGGCCATTTT-AGTAATTTTAATCCTT-TT
66 ACCTTAAAAAAATCAAATTACAAAAATACCCCTAAAGGCCATTTTGA-TAATTTTAACCCTTCTT
* *
15464575 GGGGTATAATTAGGGC
130 -AGGTATAATTAAGGC
* *
15464591 TTTTAATGCACTAAAATTCATGAAATAATATCAAAATATGATCTAGAGCTTTTTGTGAAAAAATG
1 TTTTAATGCACTAAAATTCATGAAATAATATCAAAACATGATCTAGAGCTTTTTATGAAAAAATG
** * **
15464656 A-CTT-TGAAAATGCTAAATTACAAAAATATCCCTAAAGGGTATTTTGATAATTTTAACCCTTCT
66 ACCTTAAAAAAAT-C-AAATTACAAAAATACCCCTAAAGGCCATTTTGATAATTTTAACCCTTCT
* * *
15464719 TAGGTGTGATTAAGGT
129 TAGGTATAATTAAGGC
*
15464735 TTTTAATACACTAAAATTCATGAAATAATATCAAAACATGA
1 TTTTAATGCACTAAAATTCATGAAATAATATCAAAACATGA
15464776 CATGAAGTTT
Statistics
Matches: 156, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
142 5 0.03
143 15 0.10
144 133 0.85
145 3 0.02
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (144 bp):
TTTTAATGCACTAAAATTCATGAAATAATATCAAAACATGATCTAGAGCTTTTTATGAAAAAATG
ACCTTAAAAAAATCAAATTACAAAAATACCCCTAAAGGCCATTTTGATAATTTTAACCCTTCTTA
GGTATAATTAAGGC
Found at i:15466977 original size:18 final size:18
Alignment explanation
Indices: 15466949--15466998 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
15466939 GCCAGCTAAT
*
15466949 AAAAAACAAAAAAG-GAA
1 AAAAAAGAAAAAAGAGAA
*
15466966 GGAAAAAGAAAAAAGAGAA
1 -AAAAAAGAAAAAAGAGAA
15466985 AAAAAAGAGAAAAA
1 AAAAAAGA-AAAAA
15466999 TACCAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAAGAGAA
Found at i:15466988 original size:11 final size:11
Alignment explanation
Indices: 15466974--15466998 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15466964 AAGGAAAAAG
15466974 AAAAAAGAGAA
1 AAAAAAGAGAA
15466985 AAAAAAGAGAA
1 AAAAAAGAGAA
15466996 AAA
1 AAA
15466999 TACCAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAA
Found at i:15468330 original size:21 final size:21
Alignment explanation
Indices: 15468297--15468336 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15468287 TATGCAAGTT
*
15468297 GATTGATCATTTGTTTCAAGA
1 GATTGATCATTTGCTTCAAGA
15468318 GATTGAT-ATTTTGCTTCAA
1 GATTGATCA-TTTGCTTCAA
15468337 ATTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (21 bp):
GATTGATCATTTGCTTCAAGA
Found at i:15468689 original size:29 final size:30
Alignment explanation
Indices: 15468599--15468691 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
15468589 AAATAAGTCA
* * * * *
15468599 TTAACCTTCAATTTATACCTAAATAGGCTC
1 TTAACATTTAATTTGTACCTAAATAGTCTT
15468629 TTAACATTTAATTTGTATCC-AAATCAGT-TT
1 TTAACATTTAATTTGTA-CCTAAAT-AGTCTT
*
15468659 TTAACATTTAA-TTGTACCTAAATAATCTT
1 TTAACATTTAATTTGTACCTAAATAGTCTT
15468688 TTAA
1 TTAA
15468692 TATAAATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
28 4 0.08
29 15 0.28
30 30 0.57
31 4 0.08
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.43
Consensus pattern (30 bp):
TTAACATTTAATTTGTACCTAAATAGTCTT
Found at i:15471048 original size:18 final size:18
Alignment explanation
Indices: 15471027--15471068 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15471017 TTTTTTTTTG
15471027 CTTTTTCATCTTT-TTTAA
1 CTTTTT-ATCTTTCTTTAA
*
15471045 CTTTTTTTCTTTCTTTAA
1 CTTTTTATCTTTCTTTAA
15471063 -TTTTTA
1 CTTTTTA
15471069 GTTAGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (18 bp):
CTTTTTATCTTTCTTTAA
Found at i:15472480 original size:29 final size:24
Alignment explanation
Indices: 15472436--15472492 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 24
15472426 TTAATGAGTA
15472436 AATT-TTTTAAAATTATAATTTTATAT
1 AATTATTTTAAAATTAT-A-TTTAT-T
15472462 AATTATTTTAAAAATTTATATTTATT
1 AATTATTTT-AAAA-TTATATTTATT
15472488 AATTA
1 AATTA
15472493 ATAATTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 10 0.36
27 9 0.32
28 5 0.18
29 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AATTATTTTAAAATTATATTTATT
Found at i:15486976 original size:14 final size:14
Alignment explanation
Indices: 15486957--15486990 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15486947 AGTAATAAAT
15486957 ATAATAACACAAAA
1 ATAATAACACAAAA
*
15486971 ATAATAATACAAAA
1 ATAATAACACAAAA
*
15486985 GTAATA
1 ATAATA
15486991 TATTGTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.68, C:0.09, G:0.03, T:0.21
Consensus pattern (14 bp):
ATAATAACACAAAA
Found at i:15492691 original size:6 final size:6
Alignment explanation
Indices: 15492680--15492704 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15492670 TTGTGAGTCA
15492680 AGCTCG AGCTCG AGCTCG AGCTCG A
1 AGCTCG AGCTCG AGCTCG AGCTCG A
15492705 ATTTCTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (6 bp):
AGCTCG
Found at i:15494600 original size:32 final size:32
Alignment explanation
Indices: 15494541--15494612 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
15494531 AAGTGGAGGC
* *
15494541 ATTCCCAACTTCACAATACTCTTCAAACAAAA
1 ATTCCCAACTTCACAATACCCTCCAAACAAAA
* * * *
15494573 ATTCTCAATTTCACAATCCCCTCCAAACAAAG
1 ATTCCCAACTTCACAATACCCTCCAAACAAAA
*
15494605 ATTTCCAA
1 ATTCCCAA
15494613 AACCAATACC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.32, G:0.01, T:0.26
Consensus pattern (32 bp):
ATTCCCAACTTCACAATACCCTCCAAACAAAA
Found at i:15497342 original size:30 final size:30
Alignment explanation
Indices: 15497291--15497349 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15497281 AAATATTAAG
* * *
15497291 TTTTATATTATTTTATATTTAAGTTAAATT
1 TTTTATATTAATTAATATTTAAATTAAATT
15497321 TTTTATTATTAATTAAT-TTTAAATTAAAT
1 TTTTA-TATTAATTAATATTTAAATTAAAT
15497350 ACTTAATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTATATTAATTAATATTTAAATTAAATT
Found at i:15497403 original size:13 final size:13
Alignment explanation
Indices: 15497385--15497409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15497375 TTACATTATT
15497385 TTATTTTTATCTG
1 TTATTTTTATCTG
15497398 TTATTTTTATCT
1 TTATTTTTATCT
15497410 ATTACCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTTTATCTG
Found at i:15499474 original size:29 final size:30
Alignment explanation
Indices: 15499417--15499476 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
15499407 ACCTAATAAG
*
15499417 AATTCAATTGATGAAAATAAATATTTAAAA
1 AATTCAATTGATGAAAATAAATATATAAAA
15499447 AATT-AATTGAT-AATAATAAA-ATAATAAAA
1 AATTCAATTGATGAA-AATAAATAT-ATAAAA
15499476 A
1 A
15499477 TTTTGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.15
29 19 0.70
30 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (30 bp):
AATTCAATTGATGAAAATAAATATATAAAA
Found at i:15500908 original size:32 final size:31
Alignment explanation
Indices: 15500864--15500970 Score: 119
Period size: 32 Copynumber: 3.4 Consensus size: 31
15500854 TTATGTGAAC
*
15500864 ATTTTTACTTAATATTTTAAAATGATAT-GAA
1 ATTTTTATTTAAT-TTTTAAAATGATATAGAA
* *
15500895 GGTTTTTATTTAATTTTATAAATTGATATAGAA
1 -ATTTTTATTTAATTTT-TAAAATGATATAGAA
*
15500928 ATTTTTATTTAATTTTTTAAAATGATATTGAA
1 ATTTTTATTTAA-TTTTTAAAATGATATAGAA
*
15500960 CTTTTT-TTTAA
1 ATTTTTATTTAA
15500971 AAAGGATTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
31 8 0.12
32 50 0.77
33 7 0.11
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.54
Consensus pattern (31 bp):
ATTTTTATTTAATTTTTAAAATGATATAGAA
Found at i:15501173 original size:14 final size:14
Alignment explanation
Indices: 15501156--15501185 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15501146 TTTCTTCTTT
*
15501156 TTTTGTAAAATATA
1 TTTTATAAAATATA
15501170 TTTTATAAAATATA
1 TTTTATAAAATATA
15501184 TT
1 TT
15501186 AGAAAAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTTTATAAAATATA
Found at i:15501239 original size:19 final size:18
Alignment explanation
Indices: 15501215--15501257 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
15501205 GATAATTAAT
15501215 ATTTTTAATAGAAAATAAA
1 ATTTTTAATA-AAAATAAA
* *
15501234 ATTTTTTGATAAAAATAAT
1 A-TTTTTAATAAAAATAAA
15501253 ATTTT
1 ATTTT
15501258 ATATTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
ATTTTTAATAAAAATAAA
Found at i:15503000 original size:26 final size:24
Alignment explanation
Indices: 15502964--15503022 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 24
15502954 TTAATATAAC
15502964 TATTAAAATATAAAAATTATTTAT
1 TATTAAAATATAAAAATTATTTAT
**
15502988 TATTAAAGTATATTGAAATTATTTAT
1 TATTAAA--ATATAAAAATTATTTAT
15503014 TATTAAAAT
1 TATTAAAAT
15503023 TATTAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 9 0.29
26 22 0.71
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
TATTAAAATATAAAAATTATTTAT
Found at i:15503162 original size:44 final size:43
Alignment explanation
Indices: 15503090--15503212 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 43
15503080 ATTAATATAA
* * * *
15503090 AAATACTTAAAATAAACTACTTATTATTCTTTATATTAATATTTTA-
1 AAATA-TTAAAAT-AA-TAATTACTATTC-TTAAAATAATATTTTAT
* *
15503136 AAATATTTAAAATAGTAATTACTATTCTTAAAATATTATTTTAT
1 AAATA-TTAAAATAATAATTACTATTCTTAAAATAATATTTTAT
* *
15503180 AAATATTAAAATAATAA-TATTATTATTAAAATA
1 AAATATTAAAATAATAATTACTATTCTTAAAATA
15503213 TTTATACTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 14 0.21
43 24 0.36
44 15 0.23
45 1 0.02
46 12 0.18
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.46
Consensus pattern (43 bp):
AAATATTAAAATAATAATTACTATTCTTAAAATAATATTTTAT
Found at i:15503190 original size:43 final size:42
Alignment explanation
Indices: 15503129--15503214 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 42
15503119 TTTATATTAA
* *
15503129 TATTTTAAAATATTTAAAATAGTAATTACTATTCTTAAAATAT
1 TATTTTAAAATATTTAAAATAATAA-TACTATTATTAAAATAT
*
15503172 TATTTTATAAATA-TTAAAATAATAATATTATTATTAAAATAT
1 TATTTTA-AAATATTTAAAATAATAATACTATTATTAAAATAT
15503214 T
1 T
15503215 TATACTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 16 0.41
43 18 0.46
44 5 0.13
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (42 bp):
TATTTTAAAATATTTAAAATAATAATACTATTATTAAAATAT
Found at i:15503212 original size:14 final size:14
Alignment explanation
Indices: 15503158--15503214 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
15503148 TAGTAATTAC
*
15503158 TATTCTTAAAATAT
1 TATTATTAAAATAT
15503172 TATT-TTATAAATAT
1 TATTATTA-AAATAT
* *
15503186 TA-AAATAATAATAT
1 TATTATTAA-AATAT
15503200 TATTATTAAAATAT
1 TATTATTAAAATAT
15503214 T
1 T
15503215 TATACTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 4 0.11
14 27 0.77
15 4 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTATTAAAATAT
Found at i:15503223 original size:17 final size:17
Alignment explanation
Indices: 15503203--15503235 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15503193 ATAATATTAT
15503203 TATTAAAATATTTATAC
1 TATTAAAATATTTATAC
*
15503220 TATTAGAATATTTATA
1 TATTAAAATATTTATA
15503236 TTTTATATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
TATTAAAATATTTATAC
Found at i:15503223 original size:20 final size:20
Alignment explanation
Indices: 15503183--15503224 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15503173 ATTTTATAAA
*
15503183 TATTAAAATAATAATATTAT
1 TATTAAAATAATAATACTAT
* *
15503203 TATTAAAATATTTATACTAT
1 TATTAAAATAATAATACTAT
15503223 TA
1 TA
15503225 GAATATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTAAAATAATAATACTAT
Found at i:15505184 original size:25 final size:25
Alignment explanation
Indices: 15505131--15505198 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
15505121 CATTTGGGAC
*
15505131 AAATTTAAAGAAAATTTCTCATTTAG
1 AAATTTATA-AAAATTTCTCATTTAG
15505157 AAATTTTATAAAAATTTACT-ATTT-G
1 AAA-TTTATAAAAATTT-CTCATTTAG
*
15505182 AAATTTCTAAAAATTTC
1 AAATTTATAAAAATTTC
15505199 ATAATGGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 1 0.03
24 12 0.32
25 4 0.11
26 14 0.37
27 7 0.18
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATTTATAAAAATTTCTCATTTAG
Found at i:15506241 original size:12 final size:13
Alignment explanation
Indices: 15506224--15506256 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
15506214 CTGATAATGT
15506224 ATAAAAACTA-AG
1 ATAAAAACTATAG
15506236 ATAAAAACTATAG
1 ATAAAAACTATAG
15506249 ATTAAAAA
1 A-TAAAAA
15506257 TAATCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 3 0.16
14 6 0.32
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (13 bp):
ATAAAAACTATAG
Found at i:15506692 original size:85 final size:84
Alignment explanation
Indices: 15506570--15506946 Score: 406
Period size: 84 Copynumber: 4.5 Consensus size: 84
15506560 CTCTAAGCAA
* ** * * *
15506570 AGGCTC-ACAACTTTTGGAAAATAAATAAAGCTCTTCTAAGCAGAGGCTTAATAACTTTAGAAAA
1 AGGCTCAACAACTTCTAAAAAATAAATAAGGCT-TTCTAATCAGAGGCTCAATAACTTTAGAAAA
15506634 GTAAAGGCTCCCCTAAATAG
65 GTAAAGGCTCCCCTAAATAG
* ** *
15506654 AAGCTCAATGACTTCTAAAAAATAAATGAGGCTATTCTAATCAGAGGCTCAATAACTTTAGAAAA
1 AGGCTCAACAACTTCTAAAAAATAAATAAGGCT-TTCTAATCAGAGGCTCAATAACTTTAGAAAA
* **
15506719 GTAAAGGCTCCCCTGAGCAG
65 GTAAAGGCTCCCCTAAATAG
* * *
15506739 AGGCTCAACAACTTCTAAAAAATAAATAAGGCTTATCTAATTAGAAGCTCAACAACTTT-GAAAA
1 AGGCTCAACAACTTCTAAAAAATAAATAAGGCTT-TCTAATCAGAGGCTCAATAACTTTAGAAAA
* *
15506803 ATAAAGGCTCCTCTAAATAG
65 GTAAAGGCTCCCCTAAATAG
* * *
15506823 AGGCTCAACAACTTCTAAAAAATAAATAAAG-TTTCTCAAATTAGATGCTCAATAACTTT-GAAA
1 AGGCTCAACAACTTCTAAAAAATAAATAAGGCTTTCT--AATCAGAGGCTCAATAACTTTAGAAA
* * * *
15506886 AATAAAGGCTTCTCT-AATCGG
64 AGTAAAGGCTCCCCTAAAT-AG
*
15506907 AGGCTCAACAACTT-TGAAAAAATAAATAAGACTCTTCTAA
1 AGGCTCAACAACTTCT-AAAAAATAAATAAGGCT-TTCTAA
15506947 ATAAAGGCTC
Statistics
Matches: 252, Mismatches: 33, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
82 3 0.01
83 6 0.02
84 123 0.49
85 116 0.46
86 4 0.02
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (84 bp):
AGGCTCAACAACTTCTAAAAAATAAATAAGGCTTTCTAATCAGAGGCTCAATAACTTTAGAAAAG
TAAAGGCTCCCCTAAATAG
Found at i:15506706 original size:44 final size:43
Alignment explanation
Indices: 15506560--15507075 Score: 237
Period size: 44 Copynumber: 12.1 Consensus size: 43
15506550 ATATGAATTT
* * * ** *
15506560 CTCTAAGCAAAGGCTC-ACAACTTTTGGAAAATAAATAAAGCTC
1 CTCTAATCAGAGGCTCAACAACTTCTAAAAAATAAAT-AGGCTC
* * * * *
15506603 TTCTAAGCAGAGGCTTAATAACTT-TAGAAAAGT-AA-AGGCTC
1 CTCTAATCAGAGGCTCAACAACTTCTA-AAAAATAAATAGGCTC
* * ** *
15506644 CCCTAAAT-AGAAGCTCAATGACTTCTAAAAAATAAATGAGGCTA
1 CTCT-AATCAGAGGCTCAACAACTTCTAAAAAATAAAT-AGGCTC
* * *
15506688 TTCTAATCAGAGGCTCAATAACTT-TAGAAAAGT-AA-AGGCTC
1 CTCTAATCAGAGGCTCAACAACTTCTA-AAAAATAAATAGGCTC
* * * *
15506729 CCCTGAGCAGAGGCTCAACAACTTCTAAAAAATAAATAAGGCTT
1 CTCTAATCAGAGGCTCAACAACTTCTAAAAAATAAAT-AGGCTC
* * * *
15506773 ATCTAATTAGAAGCTCAACAACTT-TGAAAAAT-AA-AGGCTC
1 CTCTAATCAGAGGCTCAACAACTTCTAAAAAATAAATAGGCTC
* * *
15506813 CTCTAAAT-AGAGGCTCAACAACTTCTAAAAAATAAATAAAGTTT
1 CTCT-AATCAGAGGCTCAACAACTTCTAAAAAATAAAT-AGGCTC
* * * * * *
15506857 CTCAAATTAGATGCTCAATAACTT-TGAAAAAT-AA-AGGCTT
1 CTCTAATCAGAGGCTCAACAACTTCTAAAAAATAAATAGGCTC
* *
15506897 CTCTAATCGGAGGCTCAACAACTT-TGAAAAAATAAATAAGACTC
1 CTCTAATCAGAGGCTCAACAACTTCT-AAAAAATAAAT-AGGCTC
* * * * * *
15506941 TTCTAAAT-AAAGGCTCTACAATTTTTGAAAAAAAATAAATAAAGCTC
1 CTCT-AATCAGAGGCTCAACAACTTCT---AAAAAATAAAT-AGGCTC
* * * * * * *
15506988 ATCTAAAT-AGAGGCTCTATAATTTTTGAAAAAATAAATAAAGCTT
1 CTCT-AATCAGAGGCTCAACAACTTCT-AAAAAATAAAT-AGGCTC
* * *
15507033 CTTTAAACAGAGGCTCAATAACTT-TAAAAAATAAA-A-GCTC
1 CTCTAATCAGAGGCTCAACAACTTCTAAAAAATAAATAGGCTC
15507073 CTC
1 CTC
15507076 GACAATCTTG
Statistics
Matches: 368, Mismatches: 77, Indels: 59
0.73 0.15 0.12
Matches are distributed among these distances:
40 52 0.14
41 71 0.19
42 18 0.05
43 50 0.14
44 101 0.27
45 37 0.10
47 39 0.11
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (43 bp):
CTCTAATCAGAGGCTCAACAACTTCTAAAAAATAAATAGGCTC
Found at i:15506740 original size:41 final size:41
Alignment explanation
Indices: 15506605--15506836 Score: 146
Period size: 41 Copynumber: 5.5 Consensus size: 41
15506595 TAAAGCTCTT
*
15506605 CTAAGCAGAGGCTTAATAACTTTAGAAAAGTAAAGGCTCCC
1 CTAAGCAGAGGCTCAATAACTTTAGAAAAGTAAAGGCTCCC
** * * * ***
15506646 CTAAATAGAAGCTCAATGACTTCTA-AAAAATAAATGAGGCTATT
1 CTAAGCAGAGGCTCAATAACTT-TAGAAAAGT-AA--AGGCTCCC
*
15506690 CTAATCAGAGGCTCAATAACTTTAGAAAAGTAAAGGCTCCC
1 CTAAGCAGAGGCTCAATAACTTTAGAAAAGTAAAGGCTCCC
* * * ***
15506731 CTGAGCAGAGGCTCAACAACTTCTA-AAAAATAAATAAGGCTTAT
1 CTAAGCAGAGGCTCAATAACTT-TAGAAAAGT--A-AAGGCTCCC
** * * * *
15506775 CTAATTAGAAGCTCAACAACTTT-GAAAAATAAAGGCTCCT
1 CTAAGCAGAGGCTCAATAACTTTAGAAAAGTAAAGGCTCCC
** *
15506815 CTAAATAGAGGCTCAACAACTT
1 CTAAGCAGAGGCTCAATAACTT
15506837 CTAAAAAATA
Statistics
Matches: 149, Mismatches: 32, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
40 27 0.18
41 52 0.35
42 6 0.04
43 12 0.08
44 52 0.35
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (41 bp):
CTAAGCAGAGGCTCAATAACTTTAGAAAAGTAAAGGCTCCC
Found at i:15506831 original size:84 final size:83
Alignment explanation
Indices: 15506570--15507075 Score: 430
Period size: 85 Copynumber: 5.9 Consensus size: 83
15506560 CTCTAAGCAA
* ** * *
15506570 AGGCTC-ACAACTTTTGGAAAATAAATAAAGCTCTTCTAAGCAGAGGCTTAATAACTTTAGAAAA
1 AGGCTCAACAACTTCTAAAAAATAAATAAAGCT-TTCTAATCAGAGGCTCAATAACTTT-GAAAA
* *
15506634 GTAAAGGCTCCCCTAAATAG
64 ATAAAGGCTCCTCTAAATAG
* ** * *
15506654 AAGCTCAATGACTTCTAAAAAATAAATGAGGCTATTCTAATCAGAGGCTCAATAACTTTAGAAAA
1 AGGCTCAACAACTTCTAAAAAATAAATAAAGCT-TTCTAATCAGAGGCTCAATAACTTT-GAAAA
* * * **
15506719 GTAAAGGCTCCCCTGAGCAG
64 ATAAAGGCTCCTCTAAATAG
* * * *
15506739 AGGCTCAACAACTTCTAAAAAATAAATAAGGCTTATCTAATTAGAAGCTCAACAACTTTGAAAAA
1 AGGCTCAACAACTTCTAAAAAATAAATAAAGCTT-TCTAATCAGAGGCTCAATAACTTTGAAAAA
15506804 TAAAGGCTCCTCTAAATAG
65 TAAAGGCTCCTCTAAATAG
* *
15506823 AGGCTCAACAACTTCTAAAAAATAAATAAAG-TTTCTCAAATTAGATGCTCAATAACTTTGAAAA
1 AGGCTCAACAACTTCTAAAAAATAAATAAAGCTTTCT--AATCAGAGGCTCAATAACTTTGAAAA
* *
15506887 ATAAAGGCTTCTCT-AATCGG
64 ATAAAGGCTCCTCTAAAT-AG
* * * *
15506907 AGGCTCAACAACTT-TGAAAAAATAAAT-AAGACTCTTCTAAAT-AAAGGCTCTACAATTTTTGA
1 AGGCTCAACAACTTCT-AAAAAATAAATAAAG-CT-TTCT-AATCAGAGGCTCAATAA-CTTTG-
* *
15506969 AAAAAAATAAATAAAGCTCATCTAAATAG
60 --AAAAAT--A-AAGGCTCCTCTAAATAG
* * * * * * *
15506998 AGGCTCTATAATTTTTGAAAAAATAAATAAAGCTTCTTTAAACAGAGGCTCAATAACTTTAAAAA
1 AGGCTCAACAACTTCT-AAAAAATAAATAAAGCTT-TCTAATCAGAGGCTCAATAACTTTGAAAA
*
15507063 ATAAAAGCTCCTC
64 ATAAAGGCTCCTC
15507076 GACAATCTTG
Statistics
Matches: 350, Mismatches: 51, Indels: 41
0.79 0.12 0.09
Matches are distributed among these distances:
82 3 0.01
83 9 0.03
84 128 0.37
85 133 0.38
86 5 0.01
88 12 0.03
90 1 0.00
91 26 0.07
92 30 0.09
93 3 0.01
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (83 bp):
AGGCTCAACAACTTCTAAAAAATAAATAAAGCTTTCTAATCAGAGGCTCAATAACTTTGAAAAAT
AAAGGCTCCTCTAAATAG
Found at i:15506980 original size:47 final size:45
Alignment explanation
Indices: 15506919--15507031 Score: 165
Period size: 47 Copynumber: 2.5 Consensus size: 45
15506909 GCTCAACAAC
*
15506919 TTTGAAAAAATAAAT-AAGACTCTTCTAAATAAAGGCTCTACAATT
1 TTTGAAAAAATAAATAAAG-CTCATCTAAATAAAGGCTCTACAATT
* *
15506964 TTTGAAAAAAAATAAATAAAGCTCATCTAAATAGAGGCTCTATAATT
1 TTTG--AAAAAATAAATAAAGCTCATCTAAATAAAGGCTCTACAATT
15507011 TTTGAAAAAATAAATAAAGCT
1 TTTGAAAAAATAAATAAAGCT
15507032 TCTTTAAACA
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
45 21 0.34
47 38 0.61
48 3 0.05
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.30
Consensus pattern (45 bp):
TTTGAAAAAATAAATAAAGCTCATCTAAATAAAGGCTCTACAATT
Found at i:15507045 original size:45 final size:44
Alignment explanation
Indices: 15506919--15507067 Score: 169
Period size: 45 Copynumber: 3.3 Consensus size: 44
15506909 GCTCAACAAC
* *
15506919 TTTGAAAAAATAAAT-AAGACTCTTCTAAATAAAGGCTCTACAATT
1 TTTGAAAAAATAAATAAAG-CTCTT-TAAATAGAGGCTCTATAATT
*
15506964 TTTGAAAAAAAATAAATAAAGCTCATCTAAATAGAGGCTCTATAATT
1 TTTG--AAAAAATAAATAAAGCTC-TTTAAATAGAGGCTCTATAATT
* * *
15507011 TTTGAAAAAATAAATAAAGCTTCTTTAAACAGAGGCTCAATAA-C
1 TTTGAAAAAATAAATAAAGC-TCTTTAAATAGAGGCTCTATAATT
15507055 TTT-AAAAAATAAA
1 TTTGAAAAAATAAA
15507068 AGCTCCTCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
43 10 0.11
44 3 0.03
45 37 0.40
46 2 0.02
47 36 0.39
48 4 0.04
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (44 bp):
TTTGAAAAAATAAATAAAGCTCTTTAAATAGAGGCTCTATAATT
Found at i:15507214 original size:19 final size:19
Alignment explanation
Indices: 15507190--15507226 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15507180 TACACACAAA
*
15507190 TTTTTAGATTCATAAGAAC
1 TTTTTAGATTCACAAGAAC
*
15507209 TTTTTAGCTTCACAAGAA
1 TTTTTAGATTCACAAGAA
15507227 TTCATCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (19 bp):
TTTTTAGATTCACAAGAAC
Found at i:15508858 original size:18 final size:17
Alignment explanation
Indices: 15508837--15508909 Score: 69
Period size: 17 Copynumber: 4.2 Consensus size: 17
15508827 TCATTTTACA
15508837 TTTTTCATCCTTTTATTT
1 TTTTTCAT-CTTTTATTT
*
15508855 TTTTTCATTTTTTATTT
1 TTTTTCATCTTTTATTT
*
15508872 TTTTTCTTCTTTCT-TTT
1 TTTTTCATCTTT-TATTT
*
15508889 TTTCATT-ATTTTTTATTT
1 TTT--TTCATCTTTTATTT
15508907 TTT
1 TTT
15508910 GTTTTTTGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
17 25 0.54
18 19 0.41
19 2 0.04
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCATCTTTTATTT
Found at i:15508889 original size:32 final size:34
Alignment explanation
Indices: 15508853--15508923 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
15508843 ATCCTTTTAT
15508853 TTTTTTTCATT-TTTTATT-TTTTTTCTTCTTT-C
1 TTTTTTTCATTATTTT-TTATTTTTTCTTCTTTGC
* *
15508885 TTTTTTTCATTATTTTTTATTTTTTGTTTTTTGC
1 TTTTTTTCATTATTTTTTATTTTTTCTTCTTTGC
15508919 TTTTT
1 TTTTT
15508924 GTGTTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 13 0.38
33 15 0.44
34 6 0.18
ACGTcount: A:0.07, C:0.08, G:0.03, T:0.82
Consensus pattern (34 bp):
TTTTTTTCATTATTTTTTATTTTTTCTTCTTTGC
Found at i:15509318 original size:25 final size:25
Alignment explanation
Indices: 15509285--15509333 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15509275 TCACATTCAT
*
15509285 TTTTTTTTTCTCGTTCTTTTTTTTA
1 TTTTGTTTTCTCGTTCTTTTTTTTA
* *
15509310 TTTTGTTTTCTCTTTTTTTTTTTT
1 TTTTGTTTTCTCGTTCTTTTTTTT
15509334 TCATTTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.84
Consensus pattern (25 bp):
TTTTGTTTTCTCGTTCTTTTTTTTA
Found at i:15511748 original size:114 final size:114
Alignment explanation
Indices: 15511630--15511848 Score: 323
Period size: 114 Copynumber: 1.9 Consensus size: 114
15511620 TAGGCCATAA
* * * *
15511630 CTTTATTGCTCATTTTTAAG-CTGTTACTTTATTGTTGATACTTGCTATCAAATGAATTTCTTTA
1 CTTTATTGCTCATTTTTAAGCCT-TTACTCTATCGTTGATACTTGCTATCAAATGAATCTCCTTA
** * * *
15511694 GTAGGAAGTTGAGAATTATCTTCAAATTGAAAATTGTTCTTAGGTCTCAG
65 GTACCAAGTTAAGAATTATCTCCAAATTAAAAATTGTTCTTAGGTCTCAG
**
15511744 CTTTATTGCTCATTTTTTGGCCTTTACTCTATCGTTGATACTTGCTATCAAATGAATCTCCTTAG
1 CTTTATTGCTCATTTTTAAGCCTTTACTCTATCGTTGATACTTGCTATCAAATGAATCTCCTTAG
15511809 TACCAAGTTAAGAATTATCTCCAAATTAAAAATTGTTCTT
66 TACCAAGTTAAGAATTATCTCCAAATTAAAAATTGTTCTT
15511849 TGGCCATAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
114 91 0.98
115 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (114 bp):
CTTTATTGCTCATTTTTAAGCCTTTACTCTATCGTTGATACTTGCTATCAAATGAATCTCCTTAG
TACCAAGTTAAGAATTATCTCCAAATTAAAAATTGTTCTTAGGTCTCAG
Found at i:15511877 original size:114 final size:114
Alignment explanation
Indices: 15511652--15511943 Score: 338
Period size: 114 Copynumber: 2.6 Consensus size: 114
15511642 TTTTTAAGCT
* * ** *
15511652 GTTACTTTATTGTTGATACTTGCTATCAAATGAATTTCTTTAGTAGGAAGTTGAGAATTATCTTC
1 GTTACTTTATTGTTGATACTTGCTATCAAATGAATCTCCTTAGTACCAAGTTGAGAATTATCTCC
* * * * *
15511717 AAATTGAAAATTGTTCTTAGGTCTCAGCTTTATTGCTCATTTTTTGGCC
66 AAATTAAAAATTGTTCTTAGGCCTCAGCTATATCGCTCATTCTTTGGCC
* * * *
15511766 TTTACTCTATCGTTGATACTTGCTATCAAATGAATCTCCTTAGTACCAAGTTAAGAATTATCTCC
1 GTTACTTTATTGTTGATACTTGCTATCAAATGAATCTCCTTAGTACCAAGTTGAGAATTATCTCC
* *
15511831 AAATTAAAAATTGTTCTTTGGCCAT-AGCTATATCGCTTATTCTTTGGCC
66 AAATTAAAAATTGTTCTTAGGCC-TCAGCTATATCGCTCATTCTTTGGCC
* * * * * *
15511880 GTAACTTTATTGTTTATACATGCTATCAAGTG-AGCTCCCTT-GATATCAAGTTGAGAATTATCT
1 GTTACTTTATTGTTGATACTTGCTATCAAATGAATCT-CCTTAG-TACCAAGTTGAGAATTATCT
15511943 C
64 C
15511944 TCTTTTATAA
Statistics
Matches: 149, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
113 4 0.03
114 144 0.97
115 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (114 bp):
GTTACTTTATTGTTGATACTTGCTATCAAATGAATCTCCTTAGTACCAAGTTGAGAATTATCTCC
AAATTAAAAATTGTTCTTAGGCCTCAGCTATATCGCTCATTCTTTGGCC
Found at i:15513367 original size:2 final size:2
Alignment explanation
Indices: 15513360--15513387 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15513350 AAGAAATGTT
15513360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15513388 CACACACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15517709 original size:3 final size:3
Alignment explanation
Indices: 15517701--15517736 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15517691 AGATAAAACC
15517701 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15517737 TGAAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15518972 original size:4 final size:4
Alignment explanation
Indices: 15518965--15518995 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
15518955 AAATAAATAT
15518965 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
15518996 TAAAAAAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:15520248 original size:3 final size:3
Alignment explanation
Indices: 15520240--15520281 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
15520230 AACTACAAAT
15520240 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15520282 AAAGAAGGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15525681 original size:7 final size:7
Alignment explanation
Indices: 15525668--15525698 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15525658 TAGAAATGAA
15525668 AAAAAAG
1 AAAAAAG
*
15525675 GAAAAAG
1 AAAAAAG
15525682 AAAAAAG
1 AAAAAAG
15525689 AAAAAAG
1 AAAAAAG
15525696 AAA
1 AAA
15525699 GCCATTAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:15528017 original size:16 final size:17
Alignment explanation
Indices: 15527985--15528019 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15527975 ATGTGTATCC
*
15527985 AAATAGTGAATTGATTT
1 AAATAGTGAATTAATTT
15528002 AAATAGT-AATTAATTT
1 AAATAGTGAATTAATTT
15528018 AA
1 AA
15528020 TAATATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
AAATAGTGAATTAATTT
Done.