Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 98 of 133
Found at i:18993427 original size:14 final size:14
Alignment explanation
Indices: 18993408--18993443 Score: 58
Period size: 12 Copynumber: 2.7 Consensus size: 14
18993398 CAACTAGCCT
18993408 ATTCTTGTTCCATG
1 ATTCTTGTTCCATG
18993422 ATTC-T-TTCCATG
1 ATTCTTGTTCCATG
18993434 ATTCTTGTTC
1 ATTCTTGTTC
18993444 AAACCTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.55
13 2 0.10
14 7 0.35
ACGTcount: A:0.14, C:0.22, G:0.11, T:0.53
Consensus pattern (14 bp):
ATTCTTGTTCCATG
Found at i:18998298 original size:22 final size:21
Alignment explanation
Indices: 18998266--18998323 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 21
18998256 ATTTTCTAGA
18998266 ATTTGAAAAAGAAAAATATGGG
1 ATTTG-AAAAGAAAAATATGGG
18998288 ATTTGAGAAAG--AAATATGGG
1 ATTTGA-AAAGAAAAATATGGG
18998308 ATTTGAAGAAGAAAAA
1 ATTTGAA-AAGAAAAA
18998324 ATGACACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.03
20 18 0.56
21 1 0.03
22 12 0.38
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (21 bp):
ATTTGAAAAGAAAAATATGGG
Found at i:19004256 original size:15 final size:15
Alignment explanation
Indices: 19004233--19004267 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19004223 AATACTAAAT
*
19004233 CATATTATATAAACA
1 CATAATATATAAACA
*
19004248 CATAATATATAAATA
1 CATAATATATAAACA
19004263 CATAA
1 CATAA
19004268 GAACTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (15 bp):
CATAATATATAAACA
Found at i:19004631 original size:30 final size:31
Alignment explanation
Indices: 19004597--19004656 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 31
19004587 TAATGTTAAG
19004597 ATTTTAATTATAATAAAATAAAA-GTTAATA
1 ATTTTAATTATAATAAAATAAAAGGTTAATA
19004627 ATTTTAATTATAATAAAATAAAAGGTTAAT
1 ATTTTAATTATAATAAAATAAAAGGTTAAT
19004657 GTGATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (31 bp):
ATTTTAATTATAATAAAATAAAAGGTTAATA
Found at i:19005223 original size:2 final size:2
Alignment explanation
Indices: 19005216--19005240 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19005206 TTAGATTAGG
19005216 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
19005241 TTTAAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19006861 original size:23 final size:22
Alignment explanation
Indices: 19006835--19006878 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
19006825 ATTAAATAAA
*
19006835 AAATATATTTATGAATTTTTATC
1 AAATATATATAT-AATTTTTATC
* *
19006858 AAATTTATATATACTTTTTAT
1 AAATATATATATAATTTTTAT
19006879 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
AAATATATATATAATTTTTATC
Found at i:19008007 original size:24 final size:24
Alignment explanation
Indices: 19007980--19008061 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
19007970 ATTACCACTC
* *
19007980 CCCTCCAACTTATGGAGGTGCCAG
1 CCCTCCAACATATGGAGGTGGCAG
* * *
19008004 CCCTCCATCATACGGAGGTGGTAG
1 CCCTCCAACATATGGAGGTGGCAG
*
19008028 CCCTCCATCATATGGAGGTGGCAG
1 CCCTCCAACATATGGAGGTGGCAG
19008052 CCCTCCAACA
1 CCCTCCAACA
19008062 CCAGTCACCG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.20
Consensus pattern (24 bp):
CCCTCCAACATATGGAGGTGGCAG
Found at i:19012211 original size:5 final size:6
Alignment explanation
Indices: 19012192--19012221 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
19012182 AGTCCATTTG
19012192 TTTATT TTTATT TTTATTT TTTATT TTTAT
1 TTTATT TTTATT TTTA-TT TTTATT TTTAT
19012222 CTATTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:19012214 original size:13 final size:13
Alignment explanation
Indices: 19012192--19012221 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19012182 AGTCCATTTG
19012192 TTTA-TTTTTATT
1 TTTATTTTTTATT
19012204 TTTATTTTTTATT
1 TTTATTTTTTATT
19012217 TTTAT
1 TTTAT
19012222 CTATTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:19012245 original size:30 final size:29
Alignment explanation
Indices: 19012208--19012306 Score: 89
Period size: 30 Copynumber: 3.5 Consensus size: 29
19012198 TTTATTTTTA
19012208 TTTTTTATTTTTATCTATTTATAAATATG
1 TTTTTTATTTTTATCTATTTATAAATATG
* * * * *
19012237 TATTTTTATTATTATTTATCTATTAATCT-
1 T-TTTTTATTTTTATCTATTTATAAATATG
* *
19012266 TTTTTTA--TTTATCTATTAATATATATG
1 TTTTTTATTTTTATCTATTTATAAATATG
19012293 -TTTTTATTATTTAT
1 TTTTTTATT-TTTAT
19012307 TAATATATAT
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
26 18 0.34
28 6 0.11
29 7 0.13
30 22 0.42
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTTTATTTTTATCTATTTATAAATATG
Found at i:19012298 original size:22 final size:21
Alignment explanation
Indices: 19012273--19012326 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
19012263 TCTTTTTTTA
*
19012273 TTTATCTATTAATATATATGTT
1 TTTAT-TATTAATATATATATT
*
19012295 TTTATTATTTATTAATATATATT
1 TTTATTA-TTAAT-ATATATATT
19012318 TTTATTATT
1 TTTATTATT
19012327 TATCTATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 11 0.39
23 15 0.54
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTATTAATATATATATT
Found at i:19012332 original size:52 final size:54
Alignment explanation
Indices: 19012209--19012343 Score: 152
Period size: 52 Copynumber: 2.5 Consensus size: 54
19012199 TTATTTTTAT
* * * *
19012209 TTTTTATT-TTTATCTATTTATAAATATGTATTTTTATTATTATTTATCTATTAA
1 TTTTTATTATTTATCTATTAATATATATG-ATTTTTATTATTATTAATATATTAA
*
19012263 TCTTTTTTTATTTATCTATTAATATATATG-TTTTTATTATTTATTAATATA-T-A
1 T-TTTTATTATTTATCTATTAATATATATGATTTTTATTA-TTATTAATATATTAA
* *
19012316 TTTTTATTATTTATCTATCAATGTATAT
1 TTTTTATTATTTATCTATTAATATATAT
19012344 TTATATATTA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
52 24 0.34
53 2 0.03
54 11 0.16
55 15 0.21
56 18 0.26
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (54 bp):
TTTTTATTATTTATCTATTAATATATATGATTTTTATTATTATTAATATATTAA
Found at i:19012354 original size:25 final size:24
Alignment explanation
Indices: 19012243--19012354 Score: 95
Period size: 25 Copynumber: 4.5 Consensus size: 24
19012233 TATGTATTTT
*
19012243 TATTATTAT-TTATCTATTAATCT-
1 TATT-TTATATTATCTATTAATATA
*
19012266 TTTTTTAT-TTATCTATTAATATA
1 TATTTTATATTATCTATTAATATA
* *
19012289 TATGTTTTTATTATTTATTAATATA
1 TAT-TTTATATTATCTATTAATATA
* *
19012314 TATTTTTATTATTTATCTATCAATGTA
1 TA-TTTTA-TA-TTATCTATTAATATA
19012341 TATTTATATATTAT
1 TATTT-TATATTAT
19012355 GATTATAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
22 17 0.23
23 5 0.07
24 4 0.05
25 23 0.32
26 8 0.11
27 16 0.22
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTTTATATTATCTATTAATATA
Found at i:19013174 original size:16 final size:16
Alignment explanation
Indices: 19013148--19013253 Score: 64
Period size: 16 Copynumber: 6.8 Consensus size: 16
19013138 AGGTTTTTTT
19013148 TTATATATTTATTATTA
1 TTAT-TATTTATTATTA
19013165 TTATTATTTATTGATTA
1 TTATTATTTATT-ATTA
**
19013182 -TATTA-GAATTATTTA
1 TTATTATTTATTA-TTA
* **
19013197 GTATTCCTTATT-TTA
1 TTATTATTTATTATTA
*
19013212 TT-TTATTTTATTTTTA
1 TTATTA-TTTATTATTA
19013228 TT-TTACTTTATT-TTA
1 TTATTA-TTTATTATTA
19013243 TT-TTATTTATT
1 TTATTATTTATT
19013254 TTAAATGATT
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.12
15 23 0.31
16 31 0.42
17 11 0.15
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTATTTATTATTA
Found at i:19013175 original size:10 final size:10
Alignment explanation
Indices: 19013156--19013253 Score: 50
Period size: 10 Copynumber: 10.2 Consensus size: 10
19013146 TTTTATATAT
19013156 TTATTA-TTA
1 TTATTATTTA
19013165 TTATTATTTA
1 TTATTATTTA
19013175 TTGATTATATTA
1 TT-ATTAT-TTA
**
19013187 GAATTATTTA
1 TTATTATTTA
* **
19013197 GTATTCCTTA
1 TTATTATTTA
19013207 TT-TTATTTTA
1 TTATTA-TTTA
19013217 TT-TTATTT-
1 TTATTATTTA
19013225 TTA-T-TTTA
1 TTATTATTTA
*
19013233 CT-TTATTTTA
1 TTATTA-TTTA
19013243 TT-TTATTTA
1 TTATTATTTA
19013252 TT
1 TT
19013254 TTAAATGATT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
7 3 0.04
8 5 0.07
9 17 0.24
10 32 0.46
11 10 0.14
12 3 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TTATTATTTA
Found at i:19013214 original size:5 final size:5
Alignment explanation
Indices: 19013204--19013256 Score: 81
Period size: 5 Copynumber: 10.6 Consensus size: 5
19013194 TTAGTATTCC
*
19013204 TTATT TTATT TTATT TTATTT TTATT TTACT TTATT TTATT TTA-T TTATT
1 TTATT TTATT TTATT TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT
19013254 TTA
1 TTA
19013257 AATGATTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 4 0.09
5 35 0.80
6 5 0.11
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:19013351 original size:59 final size:59
Alignment explanation
Indices: 19013281--19013499 Score: 302
Period size: 59 Copynumber: 3.7 Consensus size: 59
19013271 AATAAAATTT
* *
19013281 TAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTC
1 TAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTC
* * * *
19013340 TAAAAAAATATTTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTTAAAATAAGTTTTC
1 TAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTC
* *
19013399 -AGAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAGTTTTC
1 TA-AAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTC-TTGAAAATAAGTTTTC
* *
19013458 T-AAAAAATATTTTGGA-AAAAAATTGAAAATATCAATTTTTCT
1 TAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCT
19013500 AGTACAAAAG
Statistics
Matches: 143, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
57 18 0.13
58 24 0.17
59 101 0.71
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (59 bp):
TAAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTC
Found at i:19013412 original size:118 final size:116
Alignment explanation
Indices: 19013283--19013496 Score: 340
Period size: 118 Copynumber: 1.8 Consensus size: 116
19013273 TAAAATTTTA
* *
19013283 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATAAGTTTTCTAAAAAA
1 AAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAGTTTTCT-AAAAA
* * *
19013347 ATATTTTTGAGGAAAAGTTAAAAATATCAATTTTCCTTTAAAATAAGTTTTCAG
64 ATATTTTGGA-AAAAAATTAAAAATATCAATTTTCCTTTAAAATAAGTTTTCAG
19013401 AAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAAAAAAT
1 AAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAAAAAAT
*
19013466 ATTTTGGAAAAAAATTGAAAATATCAATTTT
66 ATTTTGGAAAAAAATTAAAAATATCAATTTT
19013497 TCTAGTACAA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
116 20 0.22
117 14 0.16
118 54 0.61
119 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (116 bp):
AAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAAAAAAT
ATTTTGGAAAAAAATTAAAAATATCAATTTTCCTTTAAAATAAGTTTTCAG
Found at i:19023965 original size:18 final size:20
Alignment explanation
Indices: 19023926--19023979 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
19023916 AAAATGAGAA
19023926 AAAATAAAATG-AAAAATGG
1 AAAATAAAATGAAAAAATGG
19023945 AAAA-AAAATGAAAAAAT-G
1 AAAATAAAATGAAAAAATGG
19023963 AAAATGAAAA-GAAAAAA
1 AAAAT-AAAATGAAAAAA
19023980 AAAGTGAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 11 0.34
19 17 0.53
20 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAATAAAATGAAAAAATGG
Found at i:19023980 original size:31 final size:30
Alignment explanation
Indices: 19023913--19023987 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
19023903 TACTATGCTT
*
19023913 AAAAAAATGAGAAAAAATAAAATGAAAAATGGA
1 AAAAAAAT--GAAAAAATAAAATGAAAAA-GAA
19023946 AAAAAAATGAAAAAATGAAAATG-AAAAGAA
1 AAAAAAATGAAAAAAT-AAAATGAAAAAGAA
19023976 AAAAAAAGTGAA
1 AAAAAAA-TGAA
19023988 TGAAAAATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 9 0.23
31 16 0.41
32 6 0.15
33 8 0.21
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.11
Consensus pattern (30 bp):
AAAAAAATGAAAAAATAAAATGAAAAAGAA
Found at i:19025059 original size:42 final size:41
Alignment explanation
Indices: 19024996--19025319 Score: 142
Period size: 41 Copynumber: 7.8 Consensus size: 41
19024986 GATCGTCAAT
*
19024996 GAGCATTTAC-TTT-CAAAGTTGTGATGTCTCTATTTAGAG
1 GAGCATTTACTTTTCCAAAGTTGTGATGCCTCTATTTAGAG
* * *
19025035 GAGCAATTTACTTTTCCAAAGTTGTGGTGCCTTTGTTTAGAG
1 GAGC-ATTTACTTTTCCAAAGTTGTGATGCCTCTATTTAGAG
* * * *
19025077 GAGCTTTATTTA-TTTTCCAAAGTCGTTGA-GCCTCTGTTTATAA
1 GAGC---ATTTACTTTTCCAAAGTTG-TGATGCCTCTATTTAGAG
* * * *
19025120 GAGCTTTATTTA-TTTTTCAAAGTCGTTGA-GCCTTTGA-TTAGAA
1 GAGC---ATTTACTTTTCCAAAGTTG-TGATGCCTCT-ATTTAGAG
* * *
19025163 GAGCAATTTA-TTTTTCAAAGTCGTTGA-GCCTCTGA-TTAGAA
1 GAGC-ATTTACTTTTCCAAAGTTG-TGATGCCTCT-ATTTAGAG
* *
19025204 GAGCAATTTGCTTTTCAAAAGTCAT-TGA-GCCTCTGA-TTAGAG
1 GAGC-ATTTACTTTTCCAAAGT--TGTGATGCCTCT-ATTTAGAG
* * *
19025246 AAGCCATTTAC-TTTCCAAAGTCGTTGA-GCCTCTGA-TTAGAT
1 GAG-CATTTACTTTTCCAAAGTTG-TGATGCCTCT-ATTTAGAG
* *
19025287 GAGCCATTTA-TTTTTCAAAGTTGTAATGCCTCT
1 GAG-CATTTACTTTTCCAAAGTTGTGATGCCTCT
19025320 GATTAGATGA
Statistics
Matches: 240, Mismatches: 30, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
39 4 0.02
40 8 0.03
41 97 0.40
42 58 0.24
43 66 0.28
44 7 0.03
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (41 bp):
GAGCATTTACTTTTCCAAAGTTGTGATGCCTCTATTTAGAG
Found at i:19025184 original size:41 final size:41
Alignment explanation
Indices: 19025029--19025376 Score: 295
Period size: 41 Copynumber: 8.2 Consensus size: 41
19025019 ATGTCTCTAT
* * * * * * *
19025029 TTAGAGGAGCAATTTACTTTTCCAAAGTTGTGGTGCCTTTGT
1 TTAGAAGAGCAATTTA-TTTTTCAAAGTCGTTGAGCCTCTGA
* * * *
19025071 TTAGAGGAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTCTGT
1 TTAGAAGAGC--AATTTATTTTTCAAAGTCGTTGAGCCTCTGA
* * *
19025114 TTATAAGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTTTGA
1 TTAGAAGAGC--AATTTATTTTTCAAAGTCGTTGAGCCTCTGA
19025157 TTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGA
1 TTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGA
** *
19025198 TTAGAAGAGCAATTTGCTTTTCAAAAGTCATTGAGCCTCTGA
1 TTAGAAGAGCAATTTATTTTTC-AAAGTCGTTGAGCCTCTGA
* * *
19025240 TTAG-AGAAGCCATTTACTTTCCAAAGTCGTTGAGCCTCTGA
1 TTAGAAG-AGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGA
* * * *
19025281 TTAGATGAGCCATTTATTTTTCAAAGTTG-TAATGCCTCTGA
1 TTAGAAGAGCAATTTATTTTTCAAAGTCGTTGA-GCCTCTGA
* ** * * *
19025322 TTAGATGAGCTTTGTTTATGTTTCTCAAAGTCATTGAGCATCTGC
1 TTAGAAGAGC--AATTTAT-TTT-TCAAAGTCGTTGAGCCTCTGA
*
19025367 TTAGAGGAGC
1 TTAGAAGAGC
19025377 TTTGATCAAA
Statistics
Matches: 262, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
40 2 0.01
41 110 0.42
42 45 0.17
43 73 0.28
44 8 0.03
45 22 0.08
46 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (41 bp):
TTAGAAGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGA
Found at i:19025265 original size:83 final size:83
Alignment explanation
Indices: 19025084--19025305 Score: 295
Period size: 83 Copynumber: 2.7 Consensus size: 83
19025074 GAGGAGCTTT
* * * *
19025084 ATTTATTTTCCAAAGTCGTTGAGCCTCTGTTTATAAGAGCTTTATTTATTTTTC-AAAGTCGTTG
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAAGAGC--AATTTATTTTTCAAAAGTCATTG
*
19025148 AGCCTTTGATTAGAAGAGCA
64 AGCCTCTGATTAGAAGAGCA
* **
19025168 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAAGAGCAATTTGCTTTTCAAAAGTCATTGAG
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAAGAGCAATTTATTTTTCAAAAGTCATTGAG
*
19025233 CCTCTGATTAG-AGAAGCC
66 CCTCTGATTAGAAG-AGCA
* * *
19025251 ATTTACTTTCCAAAGTCGTTGAGCCTCTGATTAGATGAGCCATTTATTTTTCAAA
1 ATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAAGAGCAATTTATTTTTCAAA
19025306 GTTGTAATGC
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
82 11 0.09
83 73 0.60
84 37 0.31
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (83 bp):
ATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAAGAGCAATTTATTTTTCAAAAGTCATTGAG
CCTCTGATTAGAAGAGCA
Found at i:19025599 original size:30 final size:30
Alignment explanation
Indices: 19025563--19025664 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 30
19025553 CCCATTTGTT
19025563 TATTTTTATTTTTATCTATTTATAAATATA
1 TATTTTTATTTTTATCTATTTATAAATATA
* * * * *
19025593 TATTTTTATTATTATTTATCTATTAATCT-
1 TATTTTTATTTTTATCTATTTATAAATATA
* *
19025622 T-TTTTTA--TTTATCTATTAATATATATA
1 TATTTTTATTTTTATCTATTTATAAATATA
* *
19025649 TGTTTGTATTATTTAT
1 TATTTTTATT-TTTAT
19025665 TAATATATAT
Statistics
Matches: 54, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
26 12 0.22
27 1 0.02
28 11 0.20
29 1 0.02
30 24 0.44
31 5 0.09
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (30 bp):
TATTTTTATTTTTATCTATTTATAAATATA
Found at i:19025659 original size:56 final size:55
Alignment explanation
Indices: 19025565--19025702 Score: 156
Period size: 56 Copynumber: 2.5 Consensus size: 55
19025555 CATTTGTTTA
* * * * *
19025565 TTTTTATT-TTTATCTATTTATAAATATATATTTTTATTA-TTATTTATCTATTAAT
1 TTTTTATTATTTATCTATTAATATATATATATTTGTATTATTTATTAATATA-T-AT
*
19025620 CTTTTT-TTATTTATCTATTAATATATATATGTTTGTATTATTTATTAATATATAT
1 -TTTTTATTATTTATCTATTAATATATATATATTTGTATTATTTATTAATATATAT
* *
19025675 TTTTTATTACTTATCTATCAATATATAT
1 TTTTTATTATTTATCTATTAATATATAT
19025703 TTATCTATTA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
54 5 0.07
55 24 0.34
56 33 0.46
57 9 0.13
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (55 bp):
TTTTTATTATTTATCTATTAATATATATATATTTGTATTATTTATTAATATATAT
Found at i:19026622 original size:20 final size:20
Alignment explanation
Indices: 19026584--19026621 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
19026574 TTTAGTATTC
19026584 CTTATTTTATTTTTATTTTA
1 CTTATTTTATTTTTATTTTA
19026604 CTTATTTTA-TTTTATTTT
1 CTTATTTTATTTTTATTTT
19026622 TTAAAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTATTTTATTTTTATTTTA
Found at i:19026715 original size:58 final size:58
Alignment explanation
Indices: 19026631--19026869 Score: 254
Period size: 59 Copynumber: 4.1 Consensus size: 58
19026621 TTTAAAAATG
* * * *
19026631 ATTTTCTTT--AAATAAAATTCCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAAATTTTCTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
*
19026687 ATTTTCCTTGAAAATAAATTTTCTAAAAAAATATTTTCGAGGAAAAA-TTGAAAGTATCA
1 ATTTTCTTTGAAAATAAATTTTCT-AAAAAATATTTTCGA-GAAAAAGTTGAAAGTATCA
* * * *
19026746 ATTTTATTTGAAAATAAGTTTTTTAAAAAATATTTTCCAGAAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAAATTTTCTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
* * * * * * * *
19026804 ATTTTTTTTTTTAAATTAAAGTTTC-AAAAAACATTTT-GGGGAAAAGTTAAAAGTATCA
1 A--TTTTCTTTGAAAATAAATTTTCTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
19026862 ATTTTCTT
1 ATTTTCTT
19026870 AGCACAAAAG
Statistics
Matches: 154, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
56 14 0.09
57 6 0.04
58 55 0.36
59 57 0.37
60 22 0.14
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (58 bp):
ATTTTCTTTGAAAATAAATTTTCTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
Found at i:19030968 original size:21 final size:21
Alignment explanation
Indices: 19030930--19030978 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
19030920 TTATTTATAA
*
19030930 TTAATAATATTCATGATGGA-T
1 TTAATAATATTCACGAT-GATT
**
19030951 TTAATAATATTGGCGATGATT
1 TTAATAATATTCACGATGATT
19030972 TTAATAA
1 TTAATAA
19030979 ATTAGAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (21 bp):
TTAATAATATTCACGATGATT
Found at i:19032013 original size:12 final size:11
Alignment explanation
Indices: 19031998--19032036 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
19031988 AAATATTTTT
19031998 TAATATAAATTA
1 TAATATAAA-TA
*
19032010 TAATTTAAATA
1 TAATATAAATA
19032021 T-ATATAAATA
1 TAATATAAATA
19032031 TAATAT
1 TAATAT
19032037 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 9 0.38
11 7 0.29
12 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATATAAATA
Found at i:19032936 original size:17 final size:17
Alignment explanation
Indices: 19032914--19032947 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19032904 ATATATATTC
19032914 AGGATGTGATGGAACAT
1 AGGATGTGATGGAACAT
19032931 AGGATGTGATGGAACAT
1 AGGATGTGATGGAACAT
19032948 TCTAAACCTA
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:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (17 bp):
AGGATGTGATGGAACAT
Found at i:19034072 original size:24 final size:24
Alignment explanation
Indices: 19034038--19034084 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19034028 ATGAAAATAA
* * *
19034038 TAAAAATAAAAATAATAAAGAAAG
1 TAAAAAGAAAAAAAAAAAAGAAAG
19034062 TAAAAAGAAAAAAAAAAAAGAAA
1 TAAAAAGAAAAAAAAAAAAGAAA
19034085 AGATAAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.11
Consensus pattern (24 bp):
TAAAAAGAAAAAAAAAAAAGAAAG
Found at i:19035969 original size:18 final size:18
Alignment explanation
Indices: 19035943--19035978 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19035933 TTGTTGGTTC
19035943 AATAAAAATATTATAAAA
1 AATAAAAATATTATAAAA
* *
19035961 AATATAAATATTTTAAAA
1 AATAAAAATATTATAAAA
19035979 TTTCAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAAAATATTATAAAA
Found at i:19036189 original size:17 final size:16
Alignment explanation
Indices: 19036169--19036203 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
19036159 ATAATAAATA
*
19036169 ATAACTAATAAATTATT
1 ATAAATAAT-AATTATT
19036186 ATAAATAATAATTATT
1 ATAAATAATAATTATT
19036202 AT
1 AT
19036204 TTATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAATAATAATTATT
Found at i:19036193 original size:24 final size:23
Alignment explanation
Indices: 19036151--19036196 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
19036141 TATTTCTTTT
19036151 TAATAAATATAATAAATAATAAC
1 TAATAAATATAATAAATAATAAC
*
19036174 TAATAAATTATTATAAATAATAA
1 TAATAAA-TATAATAAATAATAA
19036197 TTATTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAATAAATATAATAAATAATAAC
Found at i:19036226 original size:30 final size:29
Alignment explanation
Indices: 19036181--19036239 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
19036171 AACTAATAAA
*
19036181 TTATTATAAATAATAATTATTATTTATAT
1 TTATTATAAATAATAATTAATATTTATAT
* *
19036210 TTATTAATATATAATAATTAATCTTTATAT
1 TTATT-ATAAATAATAATTAATATTTATAT
19036240 AATAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTATTATAAATAATAATTAATATTTATAT
Found at i:19036240 original size:18 final size:18
Alignment explanation
Indices: 19036216--19036267 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
19036206 ATATTTATTA
19036216 ATATATAATAATTAATCT
1 ATATATAATAATTAATCT
* **
19036234 TTATATAATAAAAAAATCT
1 ATATATAAT-AATTAATCT
19036253 ATATATAA-AATTAAT
1 ATATATAATAATTAAT
19036268 AAAAATGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.19
18 8 0.30
19 14 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATATAATAATTAATCT
Found at i:19036476 original size:18 final size:17
Alignment explanation
Indices: 19036419--19036483 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 17
19036409 ATAATTAATC
19036419 ATTATTATTAACATTTTAT
1 ATTATTATT-A-ATTTTAT
* *
19036438 -TTTTTATTAATTATAT
1 ATTATTATTAATTTTAT
19036454 A-TATTATTAATTTTAT
1 ATTATTATTAATTTTAT
*
19036470 AATTATTTTTAATT
1 -ATTATTATTAATT
19036484 ATGGTATCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 19 0.50
17 2 0.05
18 17 0.45
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATTATTAATTTTAT
Found at i:19043041 original size:370 final size:369
Alignment explanation
Indices: 19042312--19043263 Score: 1780
Period size: 370 Copynumber: 2.6 Consensus size: 369
19042302 TAGTCACCGG
19042312 GACCCGGGCATTCACCCTTCCGGCATCCCAGATCAGCCTTCCGCCACGGTTCACACCCTTGTGAG
1 GACCCGGGCATTCACCCTTCCGGCATCCCAGATCAGCCTTCCGCCACGGTTCACACCCTTGTGAG
19042377 GTATTGTCCGCTCTGGCCCCCTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGA
66 GTATTGTCCGCTCTGGCCCCCTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGA
19042442 GATGGTGTGAACCCTTTTATACCCCAGGGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTC
131 GATGGTGTGAACCCTTTTATACCCCAGGGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTC
*
19042507 CCCCTTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGGCCA
196 CCCCTTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGACCA
19042572 CCCTGCCTACCTCCCTCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCAC
261 CCCTGCCTACCTCCCTCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCAC
19042637 TTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGA
326 TTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGA
* *
19042681 GACCCGGGCATTCACCCTTCCGGCGTCCCAGATCAGCCTTCTCGCCACAGTTCACACCCTTGTGA
1 GACCCGGGCATTCACCCTTCCGGCATCCCAGATCAGCCTTC-CGCCACGGTTCACACCCTTGTGA
*
19042746 GGTATTGTCCGCTCTGGCCCCCTTGGCCTCACGGTTTTGTCCTATAAAAGGCGCCTCACAAGGCG
65 GGTATTGTCCGCTCTGGCCCCC-TGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCG
19042811 GAGATGGTGTGAACCCTTTTATACCCCAGGGACCTTCCTATTATGTTCGATGTGGGATTCAGGAC
129 GAGATGGTGTGAACCCTTTTATACCCCAGGGACCTTCCTATTATGTTCGATGTGGGATTCAGGAC
* *
19042876 T-CCCCTTAGGTTCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCTGAC
194 TCCCCCTTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGAC
* * *
19042940 CACCCTGCCTGCCTCCCTTGAGGTGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACC
259 CACCCTGCCTACCTCCCTCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACC
*
19043005 ACTTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGG
324 ACTTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGA
19043051 GACCCGGGCATTCACCCTTCCGGCATCCCAGATCAGCCTTCCGCCACGGTTCACACCCTTGTGAG
1 GACCCGGGCATTCACCCTTCCGGCATCCCAGATCAGCCTTCCGCCACGGTTCACACCCTTGTGAG
19043116 GTATTGTCCGCTCTGGCCCCCTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGA
66 GTATTGTCCGCTCTGGCCCCCTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGA
*
19043181 GATGGTGTGAACCCTTTTATACCCCAAGGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTC
131 GATGGTGTGAACCCTTTTATACCCCAGGGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTC
19043246 CCCCTTAGGTCCGTGACA
196 CCCCTTAGGTCCGTGACA
19043264 AGCTAGCTAG
Statistics
Matches: 565, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
368 106 0.19
369 101 0.18
370 251 0.44
371 107 0.19
ACGTcount: A:0.17, C:0.34, G:0.25, T:0.24
Consensus pattern (369 bp):
GACCCGGGCATTCACCCTTCCGGCATCCCAGATCAGCCTTCCGCCACGGTTCACACCCTTGTGAG
GTATTGTCCGCTCTGGCCCCCTGGCCTCACGGTTTTGTCCTACAAAAGGCGCCTCACAAGGCGGA
GATGGTGTGAACCCTTTTATACCCCAGGGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTC
CCCCTTAGGTCCGTGACATTCTCCCGCACCCAACCTCGTGACGCCCTCGTCACGGAGGCCGACCA
CCCTGCCTACCTCCCTCGAGGCGCTCGGCGTGGATCGAACGGTTTAGGGCTGGCTCTGATACCAC
TTGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGA
Found at i:19045033 original size:105 final size:108
Alignment explanation
Indices: 19044844--19045063 Score: 349
Period size: 105 Copynumber: 2.0 Consensus size: 108
19044834 GATGAAGAAG
19044844 TTGCAATTGGAATGCTTTCAATGGCCAGAAGAGAAGAGAAGAGAGGAGAGGAGCTTATCCCCACT
1 TTGCAATTGGAATGCTTTCAATGGCC---A-AGAAGAGAAGAGAGGAGAGGAGCTTATCCCCACT
19044909 TATATGATTGTTGGCTAGGAGTTTCATTTTAGCAAGATCTCTAGCTA
62 TATATGATTGTTGGCTAGGAGTTTCATTTTAGCAAGATCTCTAGCTA
* *
19044956 TTGCAATTGGAATGCTTTTAATGGCC-AGAAGAG-A-AGAGGAGAGGAGCTTATCCCCACTTGTA
1 TTGCAATTGGAATGCTTTCAATGGCCAAGAAGAGAAGAGAGGAGAGGAGCTTATCCCCACTTATA
19045018 TGATTGTT-GCTTAGGAGTTTCATTTTAGCAAGATCTCTAGCTA
66 TGATTGTTGGC-TAGGAGTTTCATTTTAGCAAGATCTCTAGCTA
19045061 TTG
1 TTG
19045064 AATCTACTGT
Statistics
Matches: 105, Mismatches: 2, Indels: 9
0.91 0.02 0.08
Matches are distributed among these distances:
104 2 0.02
105 70 0.67
106 1 0.01
107 7 0.07
112 25 0.24
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (108 bp):
TTGCAATTGGAATGCTTTCAATGGCCAAGAAGAGAAGAGAGGAGAGGAGCTTATCCCCACTTATA
TGATTGTTGGCTAGGAGTTTCATTTTAGCAAGATCTCTAGCTA
Found at i:19051896 original size:12 final size:12
Alignment explanation
Indices: 19051864--19051898 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
19051854 TTCTCTTCAT
*
19051864 TCATCATCATCA
1 TCATCATCGTCA
19051876 TCATCATCGTCA
1 TCATCATCGTCA
*
19051888 TCGTCATCGTC
1 TCATCATCGTC
19051899 CTCGCCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.34, G:0.09, T:0.34
Consensus pattern (12 bp):
TCATCATCGTCA
Found at i:19052425 original size:1 final size:1
Alignment explanation
Indices: 19052419--19052444 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
19052409 GCAATAAAGG
19052419 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
19052445 GTGAAAGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:19056374 original size:17 final size:17
Alignment explanation
Indices: 19056354--19056391 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
19056344 TTTTTTAGGA
19056354 TTTTGGATTTTAAGGGG
1 TTTTGGATTTTAAGGGG
*
19056371 TTTTGGATTTTAGGGGG
1 TTTTGGATTTTAAGGGG
19056388 TTTT
1 TTTT
19056392 AGAAACCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.34, T:0.53
Consensus pattern (17 bp):
TTTTGGATTTTAAGGGG
Found at i:19057702 original size:34 final size:35
Alignment explanation
Indices: 19057659--19057754 Score: 101
Period size: 35 Copynumber: 2.8 Consensus size: 35
19057649 TAAGTGACTA
*
19057659 TAGGGTGGCT-GTAGGTGGGCTGA-A-TAGAGGGCTG
1 TAGGGTGGCTGGTAGG-GGGC-GACAGCAGAGGGCTG
*
19057693 TAGGGTGGCTGGTCGGGGGCGACAGCAGAGGGCTG
1 TAGGGTGGCTGGTAGGGGGCGACAGCAGAGGGCTG
* *
19057728 TAGGGTGGTTGGTTA-GGGGCGGCAGCA
1 TAGGGTGGCTGG-TAGGGGGCGACAGCA
19057755 ACGCCAGCCA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
33 2 0.04
34 15 0.28
35 35 0.66
36 1 0.02
ACGTcount: A:0.16, C:0.12, G:0.52, T:0.20
Consensus pattern (35 bp):
TAGGGTGGCTGGTAGGGGGCGACAGCAGAGGGCTG
Found at i:19057729 original size:35 final size:35
Alignment explanation
Indices: 19057684--19057754 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
19057674 TGGGCTGAAT
*
19057684 AGAGGGCTGTAGGGTGGCTGGTCGGGGGCGACAGC
1 AGAGGGCTGTAGGGTGGCTGGTCAGGGGCGACAGC
* * *
19057719 AGAGGGCTGTAGGGTGGTTGGTTAGGGGCGGCAGC
1 AGAGGGCTGTAGGGTGGCTGGTCAGGGGCGACAGC
19057754 A
1 A
19057755 ACGCCAGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.15, C:0.14, G:0.54, T:0.17
Consensus pattern (35 bp):
AGAGGGCTGTAGGGTGGCTGGTCAGGGGCGACAGC
Found at i:19057791 original size:9 final size:8
Alignment explanation
Indices: 19057775--19057808 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
19057765 CCTTACTTTC
19057775 TATTTTTT
1 TATTTTTT
19057783 TATTTTTT
1 TATTTTTT
*
19057791 TATTTTTC
1 TATTTTTT
19057799 TATTTATTT
1 TATTT-TTT
19057808 T
1 T
19057809 TTCCTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 20 0.87
9 3 0.13
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TATTTTTT
Found at i:19057870 original size:21 final size:21
Alignment explanation
Indices: 19057832--19057890 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
19057822 ATAATTAATA
* *
19057832 ATTATTTATTTTTTAAATTATT
1 ATTA-TTATTATTAAAATTATT
19057854 ATTATTATTATTAAAATTATT
1 ATTATTATTATTAAAATTATT
* *
19057875 AATATTA-TACTAAAAT
1 ATTATTATTATTAAAAT
19057891 GAAAAAAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.24
21 21 0.64
22 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTATTATTAAAATTATT
Found at i:19058416 original size:109 final size:108
Alignment explanation
Indices: 19058115--19058438 Score: 398
Period size: 110 Copynumber: 3.0 Consensus size: 108
19058105 ATACCCAGAG
* *
19058115 ATCTTACAAAATTGACTGGGATAACACCGTAAGTTGAAAAATAAAGAATCGATTGGGATAACACC
1 ATCTTACAGAATTGACTGGGATAACACCGTAAGTT-AAAAATAAAGAATCGATCGGGATAACACC
* * * * *
19058180 ACGTATCGAATTTATACCCAGAGATCTTAGACATCATGCCCGAAA
65 ACGAATCGAATTTATGCCCGGAGGTCTTAGAAATCATG-CCGAAA
** *
19058225 ATCTTACAGAATTGACTGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGGGATAACACC
1 ATCTTACAGAATTGACTGGGATAACACCGTAAGTTAAAA-ATAAAGAATCGATCGGGATAACACC
*
19058290 ACGAATCGAATTTATGCCCGGAGGTCTTAGAAATCATGCCTAAA
65 ACGAATCGAATTTATGCCCGGAGGTCTTAGAAATCATGCCGAAA
* * * * * *
19058334 GGTCTTACAGAATTGA-TCGGCATAATACCGTAAGTTAGAAATAAAGAATCGATCGAGACAACAC
1 -ATCTTACAGAATTGACT-GGGATAACACCGTAAGTTAAAAATAAAGAATCGATCGGGATAACAC
** * * *
19058398 GGCGAATCAAAATGATGCCCGGAGGTCTTAGAAATCATGCC
64 CACGAATCGAATTTATGCCCGGAGGTCTTAGAAATCATGCC
19058439 CAGAGGTTTT
Statistics
Matches: 186, Mismatches: 25, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
109 68 0.37
110 118 0.63
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (108 bp):
ATCTTACAGAATTGACTGGGATAACACCGTAAGTTAAAAATAAAGAATCGATCGGGATAACACCA
CGAATCGAATTTATGCCCGGAGGTCTTAGAAATCATGCCGAAA
Found at i:19058459 original size:23 final size:22
Alignment explanation
Indices: 19058405--19058478 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
19058395 CACGGCGAAT
* *
19058405 CAAAATGATGCCCGGAGGTCTTA
1 CAAAATCATGCCC-GAGGTTTTA
*
19058428 -GAAATCATGCCCAGAGGTTTTA
1 CAAAATCATGCCC-GAGGTTTTA
*
19058450 CAAAATCATGCCCGAAGATTTTA
1 CAAAATCATGCCCG-AGGTTTTA
19058473 CAAAAT
1 CAAAAT
19058479 TGACTGGGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
22 19 0.44
23 24 0.56
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (22 bp):
CAAAATCATGCCCGAGGTTTTA
Found at i:19058708 original size:112 final size:112
Alignment explanation
Indices: 19058538--19058816 Score: 355
Period size: 112 Copynumber: 2.5 Consensus size: 112
19058528 ATCGTGAATC
* * **
19058538 GAAATTATGCTCGGAGGTCTTACAGAATTGACTGGGATAGCACCATAAGTCAAAAAATAAAAAAA
1 GAAATCATGCTCGGAGGTCTTACAGAATCGACTGGGATAGCACCGCAAGTCAAAAAATAAAAAAA
* *
19058603 ATCA-ATTAG-GATAATAACGCGAATCAAAATTATGCCTAGAGGTCTTA
66 AT-AGA-TAGAAATAATAACACGAATCAAAATTATGCCTAGAGGTCTTA
* * * *
19058650 GACATCATGCCCGGAGGTCTTACAAAATCAACTGGGATAGCACCGCAAGTCAAAAAATAAAAAAA
1 GAAATCATGCTCGGAGGTCTTACAGAATCGACTGGGATAGCACCGCAAGTCAAAAAATAAAAAAA
* * * * *
19058715 ATAGATCGAAATAATACCATGAATCGAAATTATGCCTGGAGGTCTTA
66 ATAGATAGAAATAATAACACGAATCAAAATTATGCCTAGAGGTCTTA
* * * *
19058762 GAAATCATGCTGGGAGGTCTTATAGAATCGATTGGGATAACACCGCAAGTCAAAA
1 GAAATCATGCTCGGAGGTCTTACAGAATCGACTGGGATAGCACCGCAAGTCAAAA
19058817 TAAAGAATCG
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
111 3 0.02
112 139 0.98
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (112 bp):
GAAATCATGCTCGGAGGTCTTACAGAATCGACTGGGATAGCACCGCAAGTCAAAAAATAAAAAAA
ATAGATAGAAATAATAACACGAATCAAAATTATGCCTAGAGGTCTTA
Found at i:19059219 original size:41 final size:41
Alignment explanation
Indices: 19059162--19059266 Score: 142
Period size: 41 Copynumber: 2.6 Consensus size: 41
19059152 TTCTGAGGAA
* *
19059162 GGTTCC-CTCTAAACAGAGGCTTTGAAATTTTGATTGA-AATT
1 GGTTCCTCT-TAAACAGAGGCTTTGAAATCTTGATTGAGAA-C
19059203 GGTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAAC
1 GGTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAAC
* *
19059244 GGTTCCTATTAAACAGAGACTTT
1 GGTTCCTCTTAAACAGAGGCTTT
19059267 AAAACTTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 54 0.93
42 4 0.07
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (41 bp):
GGTTCCTCTTAAACAGAGGCTTTGAAATCTTGATTGAGAAC
Found at i:19067524 original size:17 final size:17
Alignment explanation
Indices: 19067504--19067541 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
19067494 TTTTTTAAAA
19067504 TTTTGGATTTTAAGGGG
1 TTTTGGATTTTAAGGGG
*
19067521 TTTTGGATTTTATGGGG
1 TTTTGGATTTTAAGGGG
19067538 TTTT
1 TTTT
19067542 AGAAACCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.55
Consensus pattern (17 bp):
TTTTGGATTTTAAGGGG
Found at i:19069050 original size:23 final size:22
Alignment explanation
Indices: 19068998--19069050 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
19068988 TTGGTTTTTC
*
19068998 TATT-TTATTTATTTATATAAT
1 TATTATTATTTATTTATAAAAT
* *
19069019 TAATAATTATTTATTTTTCAAAAT
1 T-ATTATTATTTATTTAT-AAAAT
19069043 TATTATTA
1 TATTATTA
19069051 AAATTATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 2 0.08
23 17 0.68
24 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTATTTATTTATAAAAT
Found at i:19074711 original size:18 final size:16
Alignment explanation
Indices: 19074687--19074732 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
19074677 TTGAACTTTG
19074687 AAATATTTAACATCCTT
1 AAATATTTAACATCC-T
* *
19074704 AGAATATTTAGCATTCT
1 A-AATATTTAACATCCT
19074721 AAATATTTAACA
1 AAATATTTAACA
19074733 AATAAAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 10 0.40
17 3 0.12
18 12 0.48
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (16 bp):
AAATATTTAACATCCT
Found at i:19076385 original size:31 final size:32
Alignment explanation
Indices: 19076325--19076386 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
19076315 TTCTAGGTTT
* *
19076325 TATGTTATGAACAATATAAACATATATAAATA
1 TATGTTATGAACAATATAAAAATAAATAAATA
19076357 TATGTTAT-AACACA-ATAAAAATAAATAAAT
1 TATGTTATGAACA-ATATAAAAATAAATAAAT
19076387 TAGTTGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.32
Consensus pattern (32 bp):
TATGTTATGAACAATATAAAAATAAATAAATA
Found at i:19079320 original size:24 final size:24
Alignment explanation
Indices: 19079293--19079451 Score: 142
Period size: 24 Copynumber: 6.7 Consensus size: 24
19079283 CAATGTAAGT
19079293 AATTTTTTCATTTATACAAGTCCA
1 AATTTTTTCATTTATACAAGTCCA
* * *
19079317 AATTTTATAATTAATACAAGTCCA
1 AATTTTTTCATTTATACAAGTCCA
* * *
19079341 AATTTTTTC-TTTAAATATGTCCA
1 AATTTTTTCATTTATACAAGTCCA
* * *
19079364 AATTTTGTGATTTATACAAGTCTA
1 AATTTTTTCATTTATACAAGTCCA
** * * *
19079388 AAGCTTCTCATATATACAAGTCTTA
1 AATTTTTTCATTTATACAAGTC-CA
*
19079413 AA-ATTTTCATTTATACAAGTCCA
1 AATTTTTTCATTTATACAAGTCCA
* *
19079436 ACTTTTATCATTTATA
1 AATTTTTTCATTTATA
19079452 TGTGGCTTAT
Statistics
Matches: 105, Mismatches: 27, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
23 19 0.18
24 82 0.78
25 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (24 bp):
AATTTTTTCATTTATACAAGTCCA
Found at i:19082924 original size:14 final size:15
Alignment explanation
Indices: 19082891--19082928 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
19082881 TTTTATTATT
19082891 TTTCTTTTTTCTGTC
1 TTTCTTTTTTCTGTC
19082906 TTTCTTTTTTCCT-TC
1 TTTCTTTTTT-CTGTC
19082921 -TTCTTTTT
1 TTTCTTTTT
19082929 CTTTTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 12 0.55
16 2 0.09
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTCTTTTTTCTGTC
Found at i:19095932 original size:26 final size:27
Alignment explanation
Indices: 19095896--19095946 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
19095886 TATAATAAGG
* *
19095896 ACAAGACTTTTCATTTTCTAATGAAAA
1 ACAAGACTTTTCATATTCAAATGAAAA
*
19095923 ACAAGA-TTTTGATATTCAAATGAA
1 ACAAGACTTTTCATATTCAAATGAA
19095947 GATAATAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (27 bp):
ACAAGACTTTTCATATTCAAATGAAAA
Found at i:19096165 original size:49 final size:49
Alignment explanation
Indices: 19096020--19096303 Score: 304
Period size: 49 Copynumber: 5.8 Consensus size: 49
19096010 TTTTAAGAAC
* * * *
19096020 AGATAAGATTTTTGAAGTTGTTGAGCTTCTACTTA-AAGGAGCTTTTACA
1 AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAA-GAGCTTTTCCA
* * * **
19096069 AGATGATGAATTTTAAAGTTGTTGAGCCTCTGCTTAAAAGAATTTTTCCA
1 AGATGA-GATTTTTAAAGTTGTTGAGCTTCTGCTTAGAAGAGCTTTTCCA
* *
19096119 AGATGAGATTTTTAAAGTTTTTGAGCTTCTGTTTAGAAGAGCTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAAGAGCTTTTCCA
* * * * * *
19096168 AGATGATAATTTTAAAGTTATTGAGCCTCTGTTTAGAAGAGCCTTTT-TA
1 AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAAGAG-CTTTTCCA
* * *
19096217 AGATGAGATTTTTAAAGTTGTAGAGCTTCTGCTTAGAGGAGCCTATTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAAGAG-CTTTTCCA
* *
19096267 AGATGA-AGTTTTTAAAGTTGTTGAGCCTCTACTTAGA
1 AGATGAGA-TTTTTAAAGTTGTTGAGCTTCTGCTTAGA
19096304 GAAACTTTTT
Statistics
Matches: 198, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
49 119 0.60
50 77 0.39
51 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (49 bp):
AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAAGAGCTTTTCCA
Found at i:19096303 original size:99 final size:98
Alignment explanation
Indices: 19096020--19096303 Score: 349
Period size: 99 Copynumber: 2.9 Consensus size: 98
19096010 TTTTAAGAAC
* * * * * *
19096020 AGATAAGATTTTTGAAGTTGTTGAGCTTCTACTTAAAGGAGCTTTTACAAGATGATGAATTTTAA
1 AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCTTTTCCAAGATGAAG-ATTTTAA
19096085 AGTTGTTGAGCCTCTGCTTA-AAAGAATTTTTCCA
65 AGTTGTTGAGCCTCTGCTTAGAAAGAATTTTT-CA
* * *
19096119 AGATGAGATTTTTAAAGTTTTTGAGCTTCTGTTTAGAAGAGCTTTTCCAAGATGATA-ATTTTAA
1 AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCTTTTCCAAGATGA-AGATTTTAA
* * **
19096183 AGTTATTGAGCCTCTGTTTAGAAGAGCCTTTTT-A
65 AGTTGTTGAGCCTCTGCTTAGAA-AGAATTTTTCA
* * *
19096217 AGATGAGATTTTTAAAGTTGTAGAGCTTCTGCTTAGAGGAGCCTATTCCAAGATGAAGTTTTTAA
1 AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAG-CTTTTCCAAGATGAAGATTTTAA
*
19096282 AGTTGTTGAGCCTCTACTTAGA
65 AGTTGTTGAGCCTCTGCTTAGA
19096304 GAAACTTTTT
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
98 64 0.41
99 87 0.55
100 7 0.04
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (98 bp):
AGATGAGATTTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCTTTTCCAAGATGAAGATTTTAAA
GTTGTTGAGCCTCTGCTTAGAAAGAATTTTTCA
Found at i:19096340 original size:44 final size:44
Alignment explanation
Indices: 19096275--19096561 Score: 226
Period size: 44 Copynumber: 6.5 Consensus size: 44
19096265 CAAGATGAAG
* * * *
19096275 TTTTT-AAAGTTGTTGAGCCTCTACTTAGAGAAACTTTTTTAAA
1 TTTTTAAAAGTCGTTGAGCCTCTACTTAGAGAAGCCTCTTTAAA
* * *
19096318 TTTTTAAAAGTCGTTAAACCTCTACTTAGATG-AGTCTCTTTAAA
1 TTTTTAAAAGTCGTTGAGCCTCTACTTAGA-GAAGCCTCTTTAAA
* * *
19096362 TTTTCAAAAGTTGTTGAGCCTTTACTTAGATG-AGCCTCTTTAAA
1 TTTTTAAAAGTCGTTGAGCCTCTACTTAGA-GAAGCCTCTTTAAA
* * ** * *
19096406 TTTTTAAAAATCATTGAGCCTCTGTTTAGAGGAGCCTTTTTAAA
1 TTTTTAAAAGTCGTTGAGCCTCTACTTAGAGAAGCCTCTTTAAA
* * * * * * *
19096450 TTTTCAAAAGTCGTTAAGTCTCTGCTTAAAGGAGCATCTTTAAA
1 TTTTTAAAAGTCGTTGAGCCTCTACTTAGAGAAGCCTCTTTAAA
* * * *
19096494 TTTTTAAAAGTTGTAGAGCCTCT-GTTCAGAG-AG-CTTTTTAAA
1 TTTTTAAAAGTCGTTGAGCCTCTACTT-AGAGAAGCCTCTTTAAA
*
19096536 TTTTTTAAAAATGTCGTTGAACCTCT
1 -TTTTT-AAAA-GTCGTTGAGCCTCT
19096562 GTTTAGTGGA
Statistics
Matches: 195, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
42 7 0.04
43 15 0.08
44 161 0.83
45 12 0.06
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (44 bp):
TTTTTAAAAGTCGTTGAGCCTCTACTTAGAGAAGCCTCTTTAAA
Found at i:19096446 original size:132 final size:131
Alignment explanation
Indices: 19096287--19096577 Score: 329
Period size: 132 Copynumber: 2.2 Consensus size: 131
19096277 TTTAAAGTTG
** * * * * *
19096287 TTGAGCCTCTACTTAGAGAAACTTTTTTAAATTTTTAAAAGTCGTTAAACCTCTACTTAGATGAG
1 TTGAGCCTCTGTTTAGAG-GACCTTTTTAAATTTTCAAAAGTCGTTAAACCTCTACTTAAAGGAG
* *
19096352 TC-TCTTTAAATTTTCAAAAGTTGTTGAGCCTTTACTT-AGATGAGCCTCTTTAAA-TTTTTAAA
65 -CATCTTTAAATTTTCAAAAGTTGTAGAGCCTCT-CTTCAGA-GAG-CTCTTTAAATTTTTTAAA
19096414 AA-TCA
126 AAGTCA
** *
19096419 TTGAGCCTCTGTTTAGAGGAGCCTTTTTAAATTTTCAAAAGTCGTTAAGTCTCTGCTTAAAGGAG
1 TTGAGCCTCTGTTTAGAGGA-CCTTTTTAAATTTTCAAAAGTCGTTAAACCTCTACTTAAAGGAG
* * *
19096484 CATCTTTAAATTTTTAAAAGTTGTAGAGCCTCTGTTCAGAGAGCTTTTTAAATTTTTTAAAAATG
65 CATCTTTAAATTTTCAAAAGTTGTAGAGCCTCTCTTCAGAGAGCTCTTTAAATTTTTTAAAAA-G
*
19096549 TCG
129 TCA
* *
19096552 TTGAACCTCTGTTTAGTGGACCTTTT
1 TTGAGCCTCTGTTTAGAGGACCTTTT
19096578 AAAAAAAAGG
Statistics
Matches: 135, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
130 8 0.06
131 17 0.13
132 90 0.67
133 20 0.15
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (131 bp):
TTGAGCCTCTGTTTAGAGGACCTTTTTAAATTTTCAAAAGTCGTTAAACCTCTACTTAAAGGAGC
ATCTTTAAATTTTCAAAAGTTGTAGAGCCTCTCTTCAGAGAGCTCTTTAAATTTTTTAAAAAGTC
A
Found at i:19096513 original size:88 final size:86
Alignment explanation
Indices: 19096280--19096539 Score: 252
Period size: 88 Copynumber: 3.0 Consensus size: 86
19096270 TGAAGTTTTT
* * * * * * * * **
19096280 AAAGTTGTTGAGCCTCTACTTAGAGAAACTTTTTTAAATTTTTAAAAGTCGTTA-AACCTCTACT
1 AAAGTCGTTAAGCCTCTACTTAAAGGAGCATCTTTAAATTTTTAAAAGTCG-TAGAGCCTCTGTT
*
19096344 TAGATGAGTCTCTTTAAATTTTCA
65 TAGA-GAG-CTTTTTAAATTTTCA
* * * * * * * * *
19096368 AAAGTTGTTGAGCCTTTACTTAGATGAGCCTCTTTAAATTTTTAAAAATCATTGAGCCTCTGTTT
1 AAAGTCGTTAAGCCTCTACTTAAAGGAGCATCTTTAAATTTTTAAAAGTCGTAGAGCCTCTGTTT
19096433 AGAGGAGCCTTTTTAAATTTTCA
66 AGA-GAG-CTTTTTAAATTTTCA
* * * *
19096456 AAAGTCGTTAAGTCTCTGCTTAAAGGAGCATCTTTAAATTTTTAAAAGTTGTAGAGCCTCTGTTC
1 AAAGTCGTTAAGCCTCTACTTAAAGGAGCATCTTTAAATTTTTAAAAGTCGTAGAGCCTCTGTTT
19096521 AGAGAGCTTTTTAAATTTT
66 AGAGAGCTTTTTAAATTTT
19096540 TTAAAAATGT
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
86 13 0.09
87 4 0.03
88 126 0.88
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (86 bp):
AAAGTCGTTAAGCCTCTACTTAAAGGAGCATCTTTAAATTTTTAAAAGTCGTAGAGCCTCTGTTT
AGAGAGCTTTTTAAATTTTCA
Found at i:19097475 original size:26 final size:25
Alignment explanation
Indices: 19097440--19097488 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
19097430 ATAGAAGACC
19097440 TAACTTCAAAACGACGCCGTTTTAA
1 TAACTTCAAAACGACGCCGTTTTAA
* *
19097465 TAACTATCAAAACGATGTCGTTTT
1 TAACT-TCAAAACGACGCCGTTTT
19097489 GAACTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (25 bp):
TAACTTCAAAACGACGCCGTTTTAA
Found at i:19099102 original size:90 final size:91
Alignment explanation
Indices: 19098940--19099176 Score: 298
Period size: 90 Copynumber: 2.6 Consensus size: 91
19098930 ACACATTTAA
* * * *
19098940 AAAGCAAAAAACATGATCTTTGAATGATTATCAACCACATTTTTTTATGTTAGAAAGTGGTCTTT
1 AAAGAAAAAAACATGATCTTTGAATGATTATCCACCACA-TTTTGTATGTTAGAAAGTGATCTTT
* *
19099005 GTAATGTG-TTCAAAGATTGCATTTTG
65 GTAATGTGTTTCAAAAATTACATTTTG
* * * *
19099031 AAAG-AAAAAGCATGGTCTTTGAATGATTATCCACCACGTTTTGTATGTTATAAATGTGATCTTT
1 AAAGAAAAAAACATGATCTTTGAATGATTATCCACCACATTTTGTATGTTAGAAA-GTGATCTTT
* **
19099095 GTTATGTGTTTCAAAAATTATGTTTTG
65 GTAATGTGTTTCAAAAATTACATTTTG
* * *
19099122 AAAGAAAAAAACGTGATTTTTGAATGATTATCCACCACATTTTGTATGTCAGAAA
1 AAAGAAAAAAACATGATCTTTGAATGATTATCCACCACATTTTGTATGTTAGAAA
19099177 CATGGTCTTT
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
89 14 0.11
90 45 0.36
91 22 0.18
92 43 0.35
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (91 bp):
AAAGAAAAAAACATGATCTTTGAATGATTATCCACCACATTTTGTATGTTAGAAAGTGATCTTTG
TAATGTGTTTCAAAAATTACATTTTG
Found at i:19099186 original size:92 final size:89
Alignment explanation
Indices: 19098940--19099191 Score: 299
Period size: 92 Copynumber: 2.8 Consensus size: 89
19098930 ACACATTTAA
* *
19098940 AAAGCAAAAAACATGATCTTTGAATGATTATCAACCACATTTTTTTATGTTAGAAAGTGGTCTTT
1 AAAG-AAAAAACATGATCTTTGAATGATTATCCACCACA-TTTTGTATGTTAGAAAGTGGTCTTT
* *
19099005 GTAATGTGTTCAAAGATTGCATTTTG
64 GTAATGTGTTCAAAAATTACATTTTG
* * * * *
19099031 AAAGAAAAAGCATGGTCTTTGAATGATTATCCACCACGTTTTGTATGTTATAAATGTGATCTTTG
1 AAAGAAAAAACATGATCTTTGAATGATTATCCACCACATTTTGTATGTTAGAAA-GTGGTCTTTG
* **
19099096 TTATGTGTTTCAAAAATTATGTTTTG
65 TAATGTG-TTCAAAAATTACATTTTG
* * * *
19099122 AAAGAAAAAAACGTGATTTTTGAATGATTATCCACCACATTTTGTATGTCAGAAACATGGTCTTT
1 AAAG-AAAAAACATGATCTTTGAATGATTATCCACCACATTTTGTATGTTAGAAA-GTGGTCTTT
19099187 G-AATG
64 GTAATG
19099192 ATTATCCACC
Statistics
Matches: 135, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
89 14 0.10
90 45 0.33
91 25 0.19
92 51 0.38
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (89 bp):
AAAGAAAAAACATGATCTTTGAATGATTATCCACCACATTTTGTATGTTAGAAAGTGGTCTTTGT
AATGTGTTCAAAAATTACATTTTG
Found at i:19099188 original size:44 final size:44
Alignment explanation
Indices: 19099140--19099224 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
19099130 AAACGTGATT
*
19099140 TTTGAATGATTATCCACCACATTTTGTATGTCAGAAACATGGTC
1 TTTGAATGATTATCCACCACATTTTGTATGTAAGAAACATGGTC
** *
19099184 TTTGAATGATTATCCACCATGTTTTGTATGTAAGAAGCATG
1 TTTGAATGATTATCCACCACATTTTGTATGTAAGAAACATG
19099225 ATATATGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (44 bp):
TTTGAATGATTATCCACCACATTTTGTATGTAAGAAACATGGTC
Found at i:19100837 original size:2 final size:2
Alignment explanation
Indices: 19100830--19100861 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
19100820 CTTGTAATTG
19100830 AT 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 AT A
19100862 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19101645 original size:1 final size:1
Alignment explanation
Indices: 19101641--19101665 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
19101631 CTTAACTCAT
19101641 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
19101666 GACGATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19102046 original size:2 final size:2
Alignment explanation
Indices: 19102039--19102067 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19102029 GATAATTATC
19102039 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19102068 AGCGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19103007 original size:86 final size:86
Alignment explanation
Indices: 19102862--19103033 Score: 231
Period size: 86 Copynumber: 2.0 Consensus size: 86
19102852 TAATGTCATT
* * *
19102862 CATTTTACGACGATATTAGTCAACTTAATTAATTTTAAAGCTTAAGAAATGATCTCATATCAATA
1 CATTTGACGACGATATTAGTCAAATTAATTAATTTTAAAGCTTAAGAAATGATCCCATATCAATA
19102927 A-GAAAAATTTTAGCATCTTTC
66 ATGAAAAATTTTAGCA-CTTTC
* * * *
19102948 CATTTGACTACGATATTATTCAAATTAATTAA-TTTAAAGTTTTAAGAAATGATCCCATATCGAT
1 CATTTGACGACGATATTAGTCAAATTAATTAATTTTAAAG-CTTAAGAAATGATCCCATATCAAT
**
19103012 AATGAAATTTTTTAGCACTTTC
65 AATGAAAAATTTTAGCACTTTC
19103034 ATGGCTTATT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 7 0.09
86 56 0.75
87 12 0.16
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (86 bp):
CATTTGACGACGATATTAGTCAAATTAATTAATTTTAAAGCTTAAGAAATGATCCCATATCAATA
ATGAAAAATTTTAGCACTTTC
Found at i:19106648 original size:14 final size:14
Alignment explanation
Indices: 19106617--19106663 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
19106607 TGGAGCGCAT
* **
19106617 ATTATAATTATTGT
1 ATTATAATTAATAA
19106631 ATTATAATTAATAA
1 ATTATAATTAATAA
*
19106645 ATTATAATTTA-AA
1 ATTATAATTAATAA
19106658 ATTATA
1 ATTATA
19106664 TAAATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTATAATTAATAA
Found at i:19107535 original size:24 final size:24
Alignment explanation
Indices: 19107503--19107548 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
19107493 CAACATGATA
*
19107503 ATAAAACATGAATATGATACAATT
1 ATAAAACATAAATATGATACAATT
*
19107527 ATAAGACATAAATATGATACAA
1 ATAAAACATAAATATGATACAA
19107549 CTTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.26
Consensus pattern (24 bp):
ATAAAACATAAATATGATACAATT
Found at i:19107858 original size:14 final size:14
Alignment explanation
Indices: 19107839--19107868 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19107829 TCAAAATGGT
19107839 ATTTAATAAAAGTG
1 ATTTAATAAAAGTG
*
19107853 ATTTAATAGAAGTG
1 ATTTAATAAAAGTG
19107867 AT
1 AT
19107869 AGAGGTCAAA
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:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (14 bp):
ATTTAATAAAAGTG
Found at i:19109596 original size:13 final size:13
Alignment explanation
Indices: 19109578--19109606 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19109568 TATTTTCAAG
19109578 AAAATAAAAATAA
1 AAAATAAAAATAA
19109591 AAAATAAAAATAA
1 AAAATAAAAATAA
19109604 AAA
1 AAA
19109607 CCATTTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:19122194 original size:25 final size:25
Alignment explanation
Indices: 19122121--19122194 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 25
19122111 TCCAAAATTA
*
19122121 ATAAAATATTATTTTTAA-A-ATAT
1 ATAAAATATTATTTTTAATATAAAT
19122144 A-AAAATATTATTTTT--T-TAAAT
1 ATAAAATATTATTTTTAATATAAAT
*
19122165 ATAAAATATGATTTTTAATATAAAT
1 ATAAAATATTATTTTTAATATAAAT
19122190 ATAAA
1 ATAAA
19122195 TTTAAATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
21 4 0.09
22 27 0.63
23 1 0.02
24 1 0.02
25 10 0.23
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (25 bp):
ATAAAATATTATTTTTAATATAAAT
Found at i:19122197 original size:19 final size:20
Alignment explanation
Indices: 19122118--19122210 Score: 58
Period size: 19 Copynumber: 4.8 Consensus size: 20
19122108 CGATCCAAAA
19122118 TTAATA-AAATAT-T-ATTT
1 TTAATATAAATATATAATTT
* *
19122135 TTAAAATATAAAAATATTATTTTT
1 TT--AATATAAATATA-TA-ATTT
*
19122159 TTAAATATAAA-ATATGATTT
1 TT-AATATAAATATATAATTT
19122179 TTAATATAAATATA-AA--T
1 TTAATATAAATATATAATTT
19122196 TTAA-ATAAATATATA
1 TTAATATAAATATATA
19122211 TATAAAGTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
16 9 0.15
17 8 0.13
19 13 0.21
20 13 0.21
21 1 0.02
22 4 0.06
23 9 0.15
24 5 0.08
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
TTAATATAAATATATAATTT
Found at i:19122202 original size:18 final size:19
Alignment explanation
Indices: 19122158--19122202 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
19122148 ATATTATTTT
* *
19122158 TTTAAATATAAAATATGAT
1 TTTAAATATAAAATATAAA
*
19122177 TTTTAATAT-AAATATAAA
1 TTTAAATATAAAATATAAA
19122195 TTTAAATA
1 TTTAAATA
19122203 AATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTAAATATAAAATATAAA
Found at i:19122213 original size:22 final size:22
Alignment explanation
Indices: 19122181--19122228 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
19122171 TATGATTTTT
*
19122181 AATATAAATATAAATTTAAATA
1 AATATAAATATAAAGTTAAATA
*
19122203 AATATATATATAAAGTTAAATA
1 AATATAAATATAAAGTTAAATA
19122225 AATA
1 AATA
19122229 ATTAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATAAATATAAAGTTAAATA
Found at i:19136243 original size:21 final size:22
Alignment explanation
Indices: 19136218--19136267 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
19136208 AAAGTGGAAT
* *
19136218 TGAGATTAG-TTATTTTAGTAG
1 TGAGATTAGATTATTATAATAG
19136239 TGAGATT-GATTATTATAATAG
1 TGAGATTAGATTATTATAATAG
*
19136260 TGAAATTA
1 TGAGATTA
19136268 AAATCAGTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (22 bp):
TGAGATTAGATTATTATAATAG
Found at i:19136893 original size:31 final size:31
Alignment explanation
Indices: 19136841--19136899 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
19136831 ATATGCATTC
* *
19136841 AACCAAAAATTTATTATATATGTGTGAAAAA
1 AACCAAAAATTTATGATATATGTATGAAAAA
*
19136872 AACCAAATATTTACTGA-ATATGTATGAA
1 AACCAAAAATTTA-TGATATATGTATGAA
19136900 CTTTGAGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (31 bp):
AACCAAAAATTTATGATATATGTATGAAAAA
Found at i:19137999 original size:466 final size:467
Alignment explanation
Indices: 19137128--19138058 Score: 1612
Period size: 466 Copynumber: 2.0 Consensus size: 467
19137118 TGATGCCGGG
*
19137128 AATTGATGTTTGAGATGTAGAGATTAACTGCAAACAGAAAAACTCACAAAGAAGACAACTCATAA
1 AATTGATGTTTGAGATGTAGAGAATAACTGCAAACAGAAAAACTCACAAAGAAGACAACTCATAA
19137193 GAATTTGAATAATGGTAGAATATGATTATTGGATTAAAAAGGATAAAAGTTAACCACCAAGACTA
66 GAATTTGAATAATGGTAGAATATGATTATTGGATTAAAAAGGATAAAAGTTAACCACCAAGACTA
* * *
19137258 GAAACTAAGGGATACAGAAACACCACCCTAAGAATTCTAATCAAGGATACAAAGCAATATAAGTT
131 GAAACTAAAGGATACAGAAACACCACCCTAAGAATTCTAACCAAGGATACAAAGCAATAGAAGTT
* *
19137323 CACCACTCTAGGAAATCCACCTAAGAGATACAGAACTTGAAGAACAATCTAAAAGATTGCTTAAT
196 CACCACTCTAGGAAATCCACCTAAAAGATACAAAACTTGAAGAACAATCTAAAAGATTGCTTAAT
*
19137388 GATAAAGAAAACTCTATTTTCCCCTCTACCAAAGAATAATAGAAAATATATAGGCTAGGAACATC
261 GATAAAGAAAACTCTATTCTCCCCTCTACCAAAGAATAATAGAAAATATATAGGCTAGGAACATC
* * ***
19137453 CCTCCAAGCATTTTAACTTTCAAATTGCATTACTAGAATCATGCCTAAAATCATGAGATTTGTAT
326 CCTCAAAACATGGAAACTTTCAAATTGCATTACTAGAATCATGCCTAAAATCATGAGATTTGTAT
* *
19137518 GTGAATATAATCTACCCATTTACTCTTGCAGATCACATGATAAT-AATCTAACCACAATCCCATC
391 GCGAATATAATCTACCCATTTACTCTTACAGATCACATGATAATCAATCTAACCACAATCCCATC
19137582 CATATTCATGAT
456 CATATTCATGAT
*
19137594 AATTGATGTTTGAGATGTGGAGAATAACTGCAAACAGAAAAACTCACAAAGAAGACAACTCATAA
1 AATTGATGTTTGAGATGTAGAGAATAACTGCAAACAGAAAAACTCACAAAGAAGACAACTCATAA
*
19137659 GAATTTGAATAATGGTAGAATATGATTATTGGATTAAAAAGGATAAAAGTTCACCACCAAGACTA
66 GAATTTGAATAATGGTAGAATATGATTATTGGATTAAAAAGGATAAAAGTTAACCACCAAGACTA
*
19137724 GAAACTAAAGGATACAGAAACACCATCCTAAGAATTCTAACCAAGGATACAAAGCAATAGAAGTT
131 GAAACTAAAGGATACAGAAACACCACCCTAAGAATTCTAACCAAGGATACAAAGCAATAGAAGTT
* * *
19137789 CACCATTCTAGGATATCCACCTAAAAGATACAAAACTTGAAGAACAATCTAAAATATTGCTTAAT
196 CACCACTCTAGGAAATCCACCTAAAAGATACAAAACTTGAAGAACAATCTAAAAGATTGCTTAAT
19137854 GATAAAGAAAACTCTATTCTCCCCTCTACCAAAGAATAATAGAAAATATATAGGCTAGGAACATC
261 GATAAAGAAAACTCTATTCTCCCCTCTACCAAAGAATAATAGAAAATATATAGGCTAGGAACATC
* * *
19137919 CCTCAAAACATGGAAACTTTCAGATTGCATTACTAGAATCATGCCTCAAATCATGAGATTTTTAT
326 CCTCAAAACATGGAAACTTTCAAATTGCATTACTAGAATCATGCCTAAAATCATGAGATTTGTAT
** * *
19137984 GCGAATATAATCTACCCATTTACTCTTACATCTCACATGATAATCAATCTGACCACAATCCTATC
391 GCGAATATAATCTACCCATTTACTCTTACAGATCACATGATAATCAATCTAACCACAATCCCATC
19138049 CATATTCATG
456 CATATTCATG
19138059 CTTTTCTTTT
Statistics
Matches: 437, Mismatches: 27, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
466 409 0.94
467 28 0.06
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (467 bp):
AATTGATGTTTGAGATGTAGAGAATAACTGCAAACAGAAAAACTCACAAAGAAGACAACTCATAA
GAATTTGAATAATGGTAGAATATGATTATTGGATTAAAAAGGATAAAAGTTAACCACCAAGACTA
GAAACTAAAGGATACAGAAACACCACCCTAAGAATTCTAACCAAGGATACAAAGCAATAGAAGTT
CACCACTCTAGGAAATCCACCTAAAAGATACAAAACTTGAAGAACAATCTAAAAGATTGCTTAAT
GATAAAGAAAACTCTATTCTCCCCTCTACCAAAGAATAATAGAAAATATATAGGCTAGGAACATC
CCTCAAAACATGGAAACTTTCAAATTGCATTACTAGAATCATGCCTAAAATCATGAGATTTGTAT
GCGAATATAATCTACCCATTTACTCTTACAGATCACATGATAATCAATCTAACCACAATCCCATC
CATATTCATGAT
Found at i:19140771 original size:31 final size:32
Alignment explanation
Indices: 19140711--19140772 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
19140701 TTCTAGGTTT
* *
19140711 TATGTTATGAACAATATAAACATATATAAATA
1 TATGTTATGAACAATATAAAAATAAATAAATA
19140743 TATGTTAT-AACACA-ATAAAAATAAATAAAT
1 TATGTTATGAACA-ATATAAAAATAAATAAAT
19140773 TAGTTGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.32
Consensus pattern (32 bp):
TATGTTATGAACAATATAAAAATAAATAAATA
Found at i:19143739 original size:24 final size:24
Alignment explanation
Indices: 19143712--19143870 Score: 142
Period size: 24 Copynumber: 6.7 Consensus size: 24
19143702 CAATGTAAGT
19143712 AATTTTTTCATTTATACAAGTCCA
1 AATTTTTTCATTTATACAAGTCCA
* * *
19143736 AATTTTATAATTAATACAAGTCCA
1 AATTTTTTCATTTATACAAGTCCA
* * *
19143760 AATTTTTTC-TTTAAATATGTCCA
1 AATTTTTTCATTTATACAAGTCCA
* * *
19143783 AATTTTGTGATTTATACAAGTCTA
1 AATTTTTTCATTTATACAAGTCCA
** * * *
19143807 AAGCTTCTCATATATACAAGTCTTA
1 AATTTTTTCATTTATACAAGTC-CA
*
19143832 AA-ATTTTCATTTATACAAGTCCA
1 AATTTTTTCATTTATACAAGTCCA
* *
19143855 ACTTTTATCATTTATA
1 AATTTTTTCATTTATA
19143871 TGTGGCTTAT
Statistics
Matches: 105, Mismatches: 27, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
23 19 0.18
24 82 0.78
25 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (24 bp):
AATTTTTTCATTTATACAAGTCCA
Found at i:19147346 original size:13 final size:15
Alignment explanation
Indices: 19147314--19147351 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
19147304 TTTATTATTT
*
19147314 TTTCTTTTTTCTGTC
1 TTTCTTTTTCCTGTC
19147329 TTTCTTTTTCCT-TC
1 TTTCTTTTTCCTGTC
19147343 -TTCTTTTTC
1 TTTCTTTTTC
19147352 TTTTCTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTCTTTTTCCTGTC
Found at i:19161385 original size:17 final size:16
Alignment explanation
Indices: 19161355--19161389 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
19161345 TCCCTATCTC
19161355 TTTATTTTGATTATAG
1 TTTATTTTGATTATAG
*
19161371 TTTATATTTGCTTATAG
1 TTTAT-TTTGATTATAG
19161388 TT
1 TT
19161390 CATCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTATTTTGATTATAG
Found at i:19165103 original size:22 final size:21
Alignment explanation
Indices: 19165074--19165136 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 21
19165064 TCCAAAATTA
19165074 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
*
19165095 ATAAAAATATTATTTTTTTTAAAT
1 AT-AAAATATTA--TTTTTAAAAT
*
19165119 ATAAAATATGATTTTTAA
1 ATAAAATATTATTTTTAA
19165137 TATAAATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 8 0.22
22 9 0.25
23 8 0.22
24 11 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:19165114 original size:25 final size:25
Alignment explanation
Indices: 19165080--19165148 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
19165070 ATTAATAAAA
*
19165080 TATTATTTTTAAAATATAAAAATAT
1 TATTTTTTTTAAAATATAAAAATAT
19165105 TATTTTTTTT-AAATAT-AAAATAT
1 TATTTTTTTTAAAATATAAAAATAT
* **
19165128 GATTTTTAATATAAATATAAA
1 TATTTTTTTTA-AAATATAAA
19165149 TTTAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 14 0.38
24 6 0.16
25 15 0.41
26 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
TATTTTTTTTAAAATATAAAAATAT
Found at i:19165118 original size:24 final size:24
Alignment explanation
Indices: 19165076--19165148 Score: 80
Period size: 23 Copynumber: 3.1 Consensus size: 24
19165066 CAAAATTAAT
*
19165076 AAAATATTA--TTTTTAAAATATA
1 AAAATATTATTTTTTTTAAATATA
19165098 AAAATATTATTTTTTTTAAATAT-
1 AAAATATTATTTTTTTTAAATATA
* *
19165121 AAAATATGATTTTTAATATAAATATA
1 AAAATATTATTTTT--TTTAAATATA
19165147 AA
1 AA
19165149 TTTAAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
22 9 0.21
23 13 0.30
24 11 0.26
25 8 0.19
26 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
AAAATATTATTTTTTTTAAATATA
Found at i:19165149 original size:24 final size:24
Alignment explanation
Indices: 19165073--19165149 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 24
19165063 ATCCAAAATT
19165073 AATA-AAATATTATTTTTAA-A-A
1 AATATAAATATTATTTTTAATATA
* * *
19165094 TATAAAAATATTATTTTT--TTTA
1 AATATAAATATTATTTTTAATATA
*
19165116 AATATAAAATATGATTTTTAATATA
1 AATAT-AAATATTATTTTTAATATA
19165141 AATATAAAT
1 AATATAAAT
19165150 TTAAATAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 3 0.07
22 17 0.39
23 12 0.27
24 4 0.09
25 8 0.18
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (24 bp):
AATATAAATATTATTTTTAATATA
Found at i:19165151 original size:19 final size:20
Alignment explanation
Indices: 19165110--19165164 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 20
19165100 AATATTATTT
*
19165110 TTTTTAAATATAAA-ATATGA
1 TTTTT-AATATAAATATATAA
19165130 TTTTTAATATAAATATA-AA
1 TTTTTAATATAAATATATAA
19165149 --TTTAA-ATAAATATATA
1 TTTTTAATATAAATATATA
19165165 TAAAGTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.28
17 6 0.19
19 9 0.28
20 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTTTAATATAAATATATAA
Found at i:19165167 original size:20 final size:20
Alignment explanation
Indices: 19165142--19165180 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19165132 TTTAATATAA
*
19165142 ATATAAATTTAAATAAATAT
1 ATATAAAGTTAAATAAATAT
19165162 ATATAAAGTTAAATAAATA
1 ATATAAAGTTAAATAAATA
19165181 ATTAAAAATA
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:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
ATATAAAGTTAAATAAATAT
Found at i:19189415 original size:2 final size:2
Alignment explanation
Indices: 19189408--19189433 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19189398 TTGCCAAATC
19189408 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
19189434 TACAAAATAC
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:19196380 original size:54 final size:57
Alignment explanation
Indices: 19196297--19196412 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 57
19196287 AGTGAATTGC
*
19196297 CTTCTCCCTTCGCTTTTATATACAATGAAATTG-A-T-CATGGAATTGTGGCGCTTA
1 CTTCTCCCTTCGCTTTTATAAACAATGAAATTGCACTACATGGAATTGTGGCGCTTA
*
19196351 CTTCTCCC-TCAGCTTTTATAAACAGTGAAATTGCTCACTACATGGAATTGTGGCGCTTA
1 CTTCTCCCTTC-GCTTTTATAAACAATGAAATTG--CACTACATGGAATTGTGGCGCTTA
19196410 CTT
1 CTT
19196413 TTTAGTTGGA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
53 2 0.04
54 28 0.52
57 1 0.02
58 1 0.02
59 22 0.41
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (57 bp):
CTTCTCCCTTCGCTTTTATAAACAATGAAATTGCACTACATGGAATTGTGGCGCTTA
Found at i:19196735 original size:18 final size:20
Alignment explanation
Indices: 19196714--19196751 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19196704 CATTTTAGAT
19196714 AAAAAA-TTAATATGATATA
1 AAAAAATTTAATATGATATA
19196733 AAAAAATTTAATATGATAT
1 AAAAAATTTAATATGATAT
19196752 CCCTCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAATTTAATATGATATA
Found at i:19198075 original size:28 final size:28
Alignment explanation
Indices: 19198038--19198092 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
19198028 TATGTTTTAT
*
19198038 CTGACTTAAAAGATCTTTCCTTGTTTCA
1 CTGACCTAAAAGATCTTTCCTTGTTTCA
* *
19198066 CTGACCTAAAAGTTCTTTCCTTTTTTC
1 CTGACCTAAAAGATCTTTCCTTGTTTC
19198093 CCATCTGTTC
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:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (28 bp):
CTGACCTAAAAGATCTTTCCTTGTTTCA
Found at i:19212063 original size:54 final size:57
Alignment explanation
Indices: 19211980--19212095 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 57
19211970 AGTGAATTGC
*
19211980 CTTCTCCCTTCGCTTTTATATACAATGAAATTG-A-T-CATGGAATTGTGGCGCTTA
1 CTTCTCCCTTCGCTTTTATAAACAATGAAATTGCACTACATGGAATTGTGGCGCTTA
*
19212034 CTTCTCCC-TCAGCTTTTATAAACAGTGAAATTGCTCACTACATGGAATTGTGGCGCTTA
1 CTTCTCCCTTC-GCTTTTATAAACAATGAAATTG--CACTACATGGAATTGTGGCGCTTA
19212093 CTT
1 CTT
19212096 TTTAGTTGGA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
53 2 0.04
54 28 0.52
57 1 0.02
58 1 0.02
59 22 0.41
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (57 bp):
CTTCTCCCTTCGCTTTTATAAACAATGAAATTGCACTACATGGAATTGTGGCGCTTA
Found at i:19212418 original size:18 final size:20
Alignment explanation
Indices: 19212397--19212434 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19212387 CATTTTAGAT
19212397 AAAAAA-TTAATATGATATA
1 AAAAAATTTAATATGATATA
19212416 AAAAAATTTAATATGATAT
1 AAAAAATTTAATATGATAT
19212435 CCCTCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAATTTAATATGATATA
Found at i:19213778 original size:29 final size:28
Alignment explanation
Indices: 19213740--19213794 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
19213730 TATGTTTTAT
*
19213740 CTGACTTAAAAGTTCTTTCCTTGTTTCAA
1 CTGACCTAAAAGTTCTTTCCTT-TTTCAA
19213769 CTGACCTAAAAGTTCTTTCCTTTTTC
1 CTGACCTAAAAGTTCTTTCCTTTTTC
19213795 CATCTGTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (28 bp):
CTGACCTAAAAGTTCTTTCCTTTTTCAA
Found at i:19220857 original size:6 final size:6
Alignment explanation
Indices: 19220842--19220886 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
19220832 CATCGTTACA
* * *
19220842 TCCTCG TCCTCT TCCTCT TTCTCT TCCTCT TTCTCT TCCTCT TCC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCC
19220887 CCCTATCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.02, T:0.51
Consensus pattern (6 bp):
TCCTCT
Found at i:19220865 original size:12 final size:12
Alignment explanation
Indices: 19220850--19220884 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
19220840 CATCCTCGTC
19220850 CTCTTCCTCTTT
1 CTCTTCCTCTTT
19220862 CTCTTCCTCTTT
1 CTCTTCCTCTTT
19220874 CTCTTCCTCTT
1 CTCTTCCTCTT
19220885 CCCCCTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (12 bp):
CTCTTCCTCTTT
Found at i:19224097 original size:17 final size:18
Alignment explanation
Indices: 19224077--19224112 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19224067 TACATAGATA
19224077 AATATAATA-ATAAAAAT
1 AATATAATATATAAAAAT
*
19224094 AATATAATATATTAAAAT
1 AATATAATATATAAAAAT
19224112 A
1 A
19224113 TATTGAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATATAATATATAAAAAT
Found at i:19224223 original size:17 final size:17
Alignment explanation
Indices: 19224201--19224240 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
19224191 AAAAAGGTTG
19224201 GCCCACAATAAATCTTA
1 GCCCACAATAAATCTTA
19224218 GCCCACAATAAATCTTA
1 GCCCACAATAAATCTTA
19224235 GCCCAC
1 GCCCAC
19224241 TTAAGAGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.35, G:0.07, T:0.20
Consensus pattern (17 bp):
GCCCACAATAAATCTTA
Found at i:19224961 original size:35 final size:35
Alignment explanation
Indices: 19224853--19224971 Score: 122
Period size: 34 Copynumber: 3.5 Consensus size: 35
19224843 TTTGTAACAG
* *
19224853 AGAAACC-AAAAATATATTGCAGTAGAAGCAGGAC
1 AGAAACCAAAAAATATACTGCAGTAGAAGCAGAAC
* * * *
19224887 ATAAACTAAAAAA-ATATTGCAGTA-AA-CAGAAT
1 AGAAACCAAAAAATATACTGCAGTAGAAGCAGAAC
* *
19224919 A-AAACCAAAAAATATACCGCAGCAGAAGCAGAAC
1 AGAAACCAAAAAATATACTGCAGTAGAAGCAGAAC
*
19224953 AGAAACCAAAAAAAATACT
1 AGAAACCAAAAAATATACT
19224972 ATGACCAGGG
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
31 10 0.14
32 13 0.19
33 4 0.06
34 22 0.32
35 20 0.29
ACGTcount: A:0.57, C:0.16, G:0.13, T:0.13
Consensus pattern (35 bp):
AGAAACCAAAAAATATACTGCAGTAGAAGCAGAAC
Found at i:19225544 original size:18 final size:18
Alignment explanation
Indices: 19225518--19225624 Score: 105
Period size: 18 Copynumber: 5.9 Consensus size: 18
19225508 CTTTGTTCTT
19225518 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
19225536 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
*
19225551 GATACATTTGTGGTGGA-
1 GATACATTTGAGGTGGAG
19225568 GAGTACATTTGAGGTGGAG
1 GA-TACATTTGAGGTGGAG
*
19225587 GATATATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAG
*
19225608 GATACATTTGAAGTGGA
1 GATACATTTGAGGTGGA
19225625 TAATAACCAT
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
15 12 0.16
17 2 0.03
18 40 0.55
19 2 0.03
21 17 0.23
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:19225559 original size:33 final size:33
Alignment explanation
Indices: 19225517--19225581 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
19225507 CCTTTGTTCT
*
19225517 TGATACATTTGAGGTGGAG-GATATATTTGAGGA
1 TGATACATTTGAGGTGGAGAG-TACATTTGAGGA
*
19225550 TGATACATTTGTGGTGGAGAGTACATTTGAGG
1 TGATACATTTGAGGTGGAGAGTACATTTGAGG
19225582 TGGAGGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.34, T:0.34
Consensus pattern (33 bp):
TGATACATTTGAGGTGGAGAGTACATTTGAGGA
Found at i:19225602 original size:21 final size:21
Alignment explanation
Indices: 19225578--19225618 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19225568 GAGTACATTT
*
19225578 GAGGTGGAGGATATATTTGAG
1 GAGGTGGAGGATACATTTGAG
19225599 GAGGTGGAGGATACATTTGA
1 GAGGTGGAGGATACATTTGA
19225619 AGTGGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.41, T:0.27
Consensus pattern (21 bp):
GAGGTGGAGGATACATTTGAG
Found at i:19229456 original size:26 final size:26
Alignment explanation
Indices: 19229407--19229455 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
19229397 TTTCAAAAAT
*
19229407 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
19229433 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
19229456 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:19229704 original size:19 final size:20
Alignment explanation
Indices: 19229682--19229719 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19229672 ACAACAAAAA
*
19229682 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
19229701 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
19229720 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:19232115 original size:19 final size:19
Alignment explanation
Indices: 19232087--19232133 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
19232077 TAAACTGTAC
* * *
19232087 AACCCAAAACCCAAGGTGA
1 AACCCTAAACCCAAGATAA
*
19232106 AACCCTAAACCCGAGATAA
1 AACCCTAAACCCAAGATAA
19232125 AACCCTAAA
1 AACCCTAAA
19232134 AGAGAAACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.32, G:0.11, T:0.09
Consensus pattern (19 bp):
AACCCTAAACCCAAGATAA
Found at i:19234400 original size:2 final size:2
Alignment explanation
Indices: 19234391--19234419 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19234381 TATAAGACAA
19234391 AT AT -T 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 AT AT
19234420 CCAATCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:19236306 original size:2 final size:2
Alignment explanation
Indices: 19236299--19236325 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19236289 AAGGCACAAC
19236299 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19236326 AATAGTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19238698 original size:33 final size:34
Alignment explanation
Indices: 19238639--19238708 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
19238629 TCTATATTGA
19238639 TATTTTTCATAATGGAACAAAGTCCATTTTACTT
1 TATTTTTCATAATGGAACAAAGTCCATTTTACTT
*
19238673 TATTTTT-ATAAT-GAGAC-AAGATCCATTTTGCTT
1 TATTTTTCATAATGGA-ACAAAG-TCCATTTTACTT
19238706 TAT
1 TAT
19238709 AGTTTATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 5 0.15
33 21 0.64
34 7 0.21
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (34 bp):
TATTTTTCATAATGGAACAAAGTCCATTTTACTT
Found at i:19239587 original size:11 final size:11
Alignment explanation
Indices: 19239573--19239598 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19239563 CATTTGTTGG
19239573 TAATTTATATT
1 TAATTTATATT
19239584 TAATTTATATT
1 TAATTTATATT
19239595 TAAT
1 TAAT
19239599 ATACTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATTTATATT
Found at i:19243565 original size:22 final size:21
Alignment explanation
Indices: 19243539--19243581 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
19243529 CCTTGCTTTT
19243539 TTGTT-TTTTTTCGTTTGTGTTG
1 TTGTTCTTTTTT--TTTGTGTTG
19243561 TTGTTGCTTTTTTTTTGTGTT
1 TTGTT-CTTTTTTTTTGTGTT
19243582 TTTATGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.68
24 6 0.32
ACGTcount: A:0.00, C:0.05, G:0.21, T:0.74
Consensus pattern (21 bp):
TTGTTCTTTTTTTTTGTGTTG
Found at i:19243941 original size:70 final size:70
Alignment explanation
Indices: 19243786--19244561 Score: 418
Period size: 70 Copynumber: 11.1 Consensus size: 70
19243776 AGAAACGAAA
* * * * * *
19243786 ATGACCAGGATTGAACCACAAGTCAAAAAATAAAGATGGCTT-GGTC-GAGCCACAAATCAAAAA
1 ATGACCAAGATTGAACCATAAGTCAAAAAATAAAGAT-GATTGGGACTGAGCCACAAGTCAAAAG
*
19243849 AT-GAAA
65 ATAG-AG
** * * *
19243855 ATGATTGAA-ATTGAACCATAAGTCAAAAAACAAAGATGATTGGGACTGAGTCACAAGTTAAAAG
1 ATGA-CCAAGATTGAACCATAAGTCAAAAAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAG
19243919 ATAGAG
65 ATAGAG
* * ** ** *
19243925 ATGACCAAGATTGAACCACAAGTCAAATAATAACA-ACAATTGGGA-TCGAGCCGTAAATCAAAA
1 ATGACCAAGATTGAACCATAAGTCAAAAAATAA-AGATGATTGGGACT-GAGCCACAAGTCAAAA
19243988 GATAGAG
64 GATAGAG
* * * * * * ** * *
19243995 ATAACCAGGATTGAATCATAAGTCAAAGAAATGAATATGATCGGGACTGAATCGCAAGTCAAAAA
1 ATGACCAAGATTGAACCATAAGTCAAA-AAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAG
* *
19244060 ATAAAA
65 ATAGAG
* * * ** * * *
19244066 ATGATCGAGATTGAACCATGAGTCAAGTTAATAAATATGATTGGGACTAAGCCACAAGTTAAAAG
1 ATGACCAAGATTGAACCATAAGTCAA-AAAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAG
19244131 ATAGAG
65 ATAGAG
* *** * * * * * *
19244137 ATAATTGAGATTGAACCATAAGTTAAAGAATAACGATGACTGGGACTGAGCTACATGTCAAAAGA
1 ATGACCAAGATTGAACCATAAGTCAAAAAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAGA
19244202 TAGAG
66 TAGAG
* * * * * * **
19244207 ATGACCAAGATTGAA-CTTCAAGTCAAAGAAATAAATATTATCGGGACTAAACTGCAAGTCAAAA
1 ATGACCAAGATTGAACCAT-AAGTCAAA-AAATAAAGATGATTGGGACTGAGCCACAAGTCAAAA
* * *
19244271 AATAAAA
64 GATAGAG
*** * * * * * *** * * * *
19244278 ATGACTGGGATTGAATCACAAGTTAAGAAATAAATATGACAAGGACTAAGCCATAAGTTAGAAGA
1 ATGACCAAGATTGAACCATAAGTCAAAAAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAGA
19244343 TAGAG
66 TAGAG
* * * * * * * * *
19244348 ATGACCAAGATTGAA-TAGTAAGTCGAAGAATAATGATGACTAGGA-TGAGCTACATGTCAAATG
1 ATGACCAAGATTGAACCA-TAAGTCAAAAAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAG
*
19244411 ATAGGG
65 ATAGAG
* * * * ** * * * *
19244417 ATGACCAAGATTGAATCGTAAGTCAAAGGAATAAATATGATCAGGACTTAACCGCAAGTCAAAAA
1 ATGACCAAGATTGAACCATAAGTCAAA-AAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAG
* *
19244482 ATAAAA
65 ATAGAG
* * * * * * * * * * *
19244488 ATGATCGAGATTGAATCGTGAGTCGAGAAATAAATATGATTAGGATTGAGCCATAAGTCAAAAGA
1 ATGACCAAGATTGAACCATAAGTCAAAAAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAGA
19244553 TAGAG
66 TAGAG
19244558 ATGA
1 ATGA
19244562 TTGAGATTAC
Statistics
Matches: 527, Mismatches: 162, Indels: 35
0.73 0.22 0.05
Matches are distributed among these distances:
68 3 0.01
69 78 0.15
70 257 0.49
71 187 0.35
72 2 0.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (70 bp):
ATGACCAAGATTGAACCATAAGTCAAAAAATAAAGATGATTGGGACTGAGCCACAAGTCAAAAGA
TAGAG
Found at i:19244046 original size:36 final size:36
Alignment explanation
Indices: 19244006--19244113 Score: 103
Period size: 36 Copynumber: 3.0 Consensus size: 36
19243996 TAACCAGGAT
*
19244006 TGAATCATAAGTCAAAGAAATGAATATGATCGGGAC
1 TGAATCATAAGTCAAAGAAATAAATATGATCGGGAC
** * * *
19244042 TGAATCGCAAGTCAAA-AAATAAAAATGATCGAGAT
1 TGAATCATAAGTCAAAGAAATAAATATGATCGGGAC
* * * *
19244077 TGAACCATGAGTC-AAGTTAATAAATATGATTGGGAC
1 TGAATCATAAGTCAAAG-AAATAAATATGATCGGGAC
19244113 T
1 T
19244114 AAGCCACAAG
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
34 2 0.04
35 24 0.44
36 29 0.53
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (36 bp):
TGAATCATAAGTCAAAGAAATAAATATGATCGGGAC
Found at i:19244265 original size:141 final size:141
Alignment explanation
Indices: 19244095--19244362 Score: 304
Period size: 141 Copynumber: 1.9 Consensus size: 141
19244085 GAGTCAAGTT
* * * * * * * *
19244095 AATAAATATGATTGGGACTAAGCCACAAGTTAAAAGATAGAGATAATTGAGATTGAACCATAAGT
1 AATAAATATGATCGGGACTAAACCACAAGTCAAAAAATAAAAATAACTGAGATTGAACCACAAGT
* ** * * *
19244160 TAA-AGAATAACGATGACTGGGACTGAGCTACATGTCAAAAGATAGAGATGACCAAGATTGAACT
66 TAAGA-AATAAAGATGACAAGGACTAAGCCACAAGTCAAAAGATAGAGATGACCAAGATTGAACT
19244224 TCAAGTCAAAGA
130 TCAAGTCAAAGA
* ** * * *
19244236 AATAAATATTATCGGGACTAAACTGCAAGTCAAAAAATAAAAATGACTGGGATTGAATCACAAGT
1 AATAAATATGATCGGGACTAAACCACAAGTCAAAAAATAAAAATAACTGAGATTGAACCACAAGT
* * * *
19244301 TAAGAAATAAATATGACAAGGACTAAGCCATAAGTTAGAAGATAGAGATGACCAAGATTGAA
66 TAAGAAATAAAGATGACAAGGACTAAGCCACAAGTCAAAAGATAGAGATGACCAAGATTGAA
19244363 TAGTAAGTCG
Statistics
Matches: 102, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
141 101 0.99
142 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.22
Consensus pattern (141 bp):
AATAAATATGATCGGGACTAAACCACAAGTCAAAAAATAAAAATAACTGAGATTGAACCACAAGT
TAAGAAATAAAGATGACAAGGACTAAGCCACAAGTCAAAAGATAGAGATGACCAAGATTGAACTT
CAAGTCAAAGA
Found at i:19244300 original size:35 final size:35
Alignment explanation
Indices: 19243793--19244317 Score: 182
Period size: 35 Copynumber: 14.9 Consensus size: 35
19243783 AAAATGACCA
* *
19243793 GGATTGAACCACAAGTCAAAAAATAAAGATGGCTT
1 GGATTGAACCACAAGTCAAAAAATAAAGATGACTG
* * * *
19243828 GG-TCGAGCCACAAATCAAAAAATGAAA-ATGATTG
1 GGATTGAACCACAAGTCAAAAAAT-AAAGATGACTG
** * * *
19243862 AAATTGAACCATAAGTCAAAAAACAAAGATGATTG
1 GGATTGAACCACAAGTCAAAAAATAAAGATGACTG
* ** * * * **
19243897 GGACTGAGTCACAAGTTAAAAGATAGAGATGACCA
1 GGATTGAACCACAAGTCAAAAAATAAAGATGACTG
* * ** *
19243932 AGATTGAACCACAAGTCAAATAATAACA-ACAATTG
1 GGATTGAACCACAAGTCAAAAAATAA-AGATGACTG
* * ** * * * * **
19243967 GGATCGAGCCGTAAATCAAAAGATAGAGATAACCA
1 GGATTGAACCACAAGTCAAAAAATAAAGATGACTG
* * * *
19244002 GGATTGAATCATAAGTCAAAGAAATGAATATGA-TCG
1 GGATTGAACCACAAGTCAAA-AAATAAAGATGACT-G
* * * *
19244038 GGACTGAATCGCAAGTCAAAAAATAAAAATGA-TCG
1 GGATTGAACCACAAGTCAAAAAATAAAGATGACT-G
* ** ** * *
19244073 AGATTGAACCATGAGTCAAGTTAATAAATATGATTG
1 GGATTGAACCACAAGTCAA-AAAATAAAGATGACTG
* * * * * *
19244109 GGACT-AAGCCACAAGTTAAAAGATAGAGATAATTG
1 GGATTGAA-CCACAAGTCAAAAAATAAAGATGACTG
* * * * *
19244144 AGATTGAACCATAAGTTAAAGAATAACGATGACTG
1 GGATTGAACCACAAGTCAAAAAATAAAGATGACTG
* * * * * * **
19244179 GGACTGAGCTACATGTCAAAAGATAGAGATGACCA
1 GGATTGAACCACAAGTCAAAAAATAAAGATGACTG
* ** * *
19244214 AGATTGAACTTCAAGTCAAAGAAATAAATATTA-TCG
1 GGATTGAACCACAAGTCAAA-AAATAAAGATGACT-G
* * ** *
19244250 GGACTAAACTGCAAGTCAAAAAATAAAAATGACTG
1 GGATTGAACCACAAGTCAAAAAATAAAGATGACTG
* * * *
19244285 GGATTGAATCACAAGTTAAGAAATAAATATGAC
1 GGATTGAACCACAAGTCAAAAAATAAAGATGAC
19244318 AAGGACTAAG
Statistics
Matches: 340, Mismatches: 136, Indels: 28
0.67 0.27 0.06
Matches are distributed among these distances:
34 26 0.08
35 239 0.70
36 74 0.22
37 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.21
Consensus pattern (35 bp):
GGATTGAACCACAAGTCAAAAAATAAAGATGACTG
Found at i:19244476 original size:210 final size:211
Alignment explanation
Indices: 19243842--19244561 Score: 797
Period size: 212 Copynumber: 3.4 Consensus size: 211
19243832 GAGCCACAAA
* * * * * * * * * * *
19243842 TCAAAAAATGAAAATGATTGAAATTGAACCATAAGTCAAAAAACAAAGATGATTGGGACTGAGTC
1 TCAAAAAATAAAAATGATCGAGATTGAATCATGAGTCAAGAAATAAATATGATTAGGACTAAGCC
* * * * ** * *
19243907 ACAAGTTAAAAGATAGAGATGACCAAGATTGAACCACAAGTCAAATAATAACAACAATTGGGA-T
66 ATAAGTTAAAAGATAGAGATGACCAAGATTGAACCATAAGTCAAAGAATAACGATGACTAGGACT
* * * *
19243971 CGAGCCGTA-A-ATCAAAAGATAGAGATAACCAGGATTGAATCATAAGTCAAAGAAATGAATATG
131 -GAG-C-TACATGTCAAAAGATAGAGATGACCAAGATTGAATCATAAGTCAAAGAAATAAATATG
* *
19244034 ATCGGGACTGAATCGCAAG
193 ATCGGGACTAAACCGCAAG
* * *
19244053 TCAAAAAATAAAAATGATCGAGATTGAACCATGAGTCAAGTTAATAAATATGATTGGGACTAAGC
1 TCAAAAAATAAAAATGATCGAGATTGAATCATGAGTCAAG-AAATAAATATGATTAGGACTAAGC
* * *** * *
19244118 CACAAGTTAAAAGATAGAGATAATTGAGATTGAACCATAAGTTAAAGAATAACGATGACTGGGAC
65 CATAAGTTAAAAGATAGAGATGACCAAGATTGAACCATAAGTCAAAGAATAACGATGACTAGGAC
* *
19244183 TGAGCTACATGTCAAAAGATAGAGATGACCAAGATTGAA-CTTCAAGTCAAAGAAATAAATATTA
130 TGAGCTACATGTCAAAAGATAGAGATGACCAAGATTGAATCAT-AAGTCAAAGAAATAAATATGA
*
19244247 TCGGGACTAAACTGCAAG
194 TCGGGACTAAACCGCAAG
* ** * **
19244265 TCAAAAAATAAAAATGA-CTGGGATTGAATCACAAGTTAAGAAATAAATATGACAAGGACTAAGC
1 TCAAAAAATAAAAATGATC-GAGATTGAATCATGAGTCAAGAAATAAATATGATTAGGACTAAGC
* * * *
19244329 CATAAGTTAGAAGATAGAGATGACCAAGATTGAA-TAGTAAGTCGAAGAATAATGATGACTAGGA
65 CATAAGTTAAAAGATAGAGATGACCAAGATTGAACCA-TAAGTCAAAGAATAACGATGACTAGGA
* * * *
19244393 -TGAGCTACATGTCAAATGATAGGGATGACCAAGATTGAATCGTAAGTCAAAGGAATAAATATGA
129 CTGAGCTACATGTCAAAAGATAGAGATGACCAAGATTGAATCATAAGTCAAAGAAATAAATATGA
* *
19244457 TCAGGACTTAACCGCAAG
194 TCGGGACTAAACCGCAAG
* * * *
19244475 TCAAAAAATAAAAATGATCGAGATTGAATCGTGAGTCGAGAAATAAATATGATTAGGATTGAGCC
1 TCAAAAAATAAAAATGATCGAGATTGAATCATGAGTCAAGAAATAAATATGATTAGGACTAAGCC
*
19244540 ATAAGTCAAAAGATAGAGATGA
66 ATAAGTTAAAAGATAGAGATGA
19244562 TTGAGATTAC
Statistics
Matches: 430, Mismatches: 70, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
210 147 0.34
211 114 0.27
212 168 0.39
213 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (211 bp):
TCAAAAAATAAAAATGATCGAGATTGAATCATGAGTCAAGAAATAAATATGATTAGGACTAAGCC
ATAAGTTAAAAGATAGAGATGACCAAGATTGAACCATAAGTCAAAGAATAACGATGACTAGGACT
GAGCTACATGTCAAAAGATAGAGATGACCAAGATTGAATCATAAGTCAAAGAAATAAATATGATC
GGGACTAAACCGCAAG
Found at i:19244535 original size:35 final size:35
Alignment explanation
Indices: 19244425--19244536 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 35
19244415 GGATGACCAA
* *
19244425 GATTGAATCGTAAGTCAAAGGAATAAATATGATCAG
1 GATTGAATCGTAAGTC-AAGAAATAAATATGATTAG
* * * * *
19244461 GACTT-AACCGCAAGTCAAAAAATAAAAATGA-TCG
1 GA-TTGAATCGTAAGTCAAGAAATAAATATGATTAG
* *
19244495 AGATTGAATCGTGAGTCGAGAAATAAATATGATTAG
1 -GATTGAATCGTAAGTCAAGAAATAAATATGATTAG
19244531 GATTGA
1 GATTGA
19244537 GCCATAAGTC
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
34 3 0.05
35 40 0.69
36 13 0.22
37 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (35 bp):
GATTGAATCGTAAGTCAAGAAATAAATATGATTAG
Done.