Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold216
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: 469096
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 3
Found at i:169338 original size:14 final size:14
Alignment explanation
Indices: 169311--169433 Score: 106
Period size: 14 Copynumber: 8.6 Consensus size: 14
169301 CATAAGTAGT
*
169311 TTTGGCATAAATAC
1 TTTGGCACAAATAC
*
169325 TTTGGCACAGATAC
1 TTTGGCACAAATAC
169339 TTTGGCA-AAAGTAC
1 TTTGGCACAAA-TAC
* * *
169353 TTTGACCCAACTAC
1 TTTGGCACAAATAC
169367 TTGTGGCACAAATAC
1 TT-TGGCACAAATAC
169382 TTTGGCA-AAAGTAC
1 TTTGGCACAAA-TAC
* * *
169396 TTTGACCCAACTAC
1 TTTGGCACAAATAC
* *
169410 TTGTGGCACAGATAT
1 TT-TGGCACAAATAC
169425 TTTGGCACA
1 TTTGGCACA
169434 GGTACTTTTG
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
13 5 0.06
14 57 0.66
15 24 0.28
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (14 bp):
TTTGGCACAAATAC
Found at i:169434 original size:14 final size:15
Alignment explanation
Indices: 169310--169474 Score: 57
Period size: 14 Copynumber: 11.5 Consensus size: 15
169300 GCATAAGTAG
* *
169310 TTTTGGCATAAATAC
1 TTTTGGCACAGATAC
169325 -TTTGGCACAGATAC
1 TTTTGGCACAGATAC
*
169339 -TTTGGCA-AAAGTAC
1 TTTTGGCACAGA-TAC
* *
169353 -TTTGACCCA-ACTAC
1 TTTTGGCACAGA-TAC
* *
169367 TTGTGGCACAAATAC
1 TTTTGGCACAGATAC
*
169382 -TTTGGCA-AAAGTAC
1 TTTTGGCACAGA-TAC
* *
169396 -TTTGACCCA-ACTAC
1 TTTTGGCACAGA-TAC
*
169410 TTGTGGCACAGATA-
1 TTTTGGCACAGATAC
*
169424 TTTTGGCACAGGTAC
1 TTTTGGCACAGATAC
* * *
169439 TTTT-GCAAATATAT
1 TTTTGGCACAGATAC
* *
169453 TTTTGGCATAGATGC
1 TTTTGGCACAGATAC
169468 -TTTGGCA
1 TTTTGGCA
169475 TAACTACTTT
Statistics
Matches: 114, Mismatches: 26, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
13 5 0.04
14 78 0.68
15 29 0.25
16 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (15 bp):
TTTTGGCACAGATAC
Found at i:171464 original size:17 final size:18
Alignment explanation
Indices: 171433--171466 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
171423 TTCATATAAT
*
171433 TATTTTATTACTATAAAA
1 TATTTTATTAATATAAAA
171451 TATTTT-TTAATATAAA
1 TATTTTATTAATATAAA
171467 TTTAGTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTTATTAATATAAAA
Found at i:172404 original size:15 final size:16
Alignment explanation
Indices: 172379--172408 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
172369 ATTCGTATCT
172379 AATTTATTTTTAAAAA
1 AATTTATTTTTAAAAA
172395 AATTTA-TTTTAAAA
1 AATTTATTTTTAAAA
172409 TAATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTATTTTTAAAAA
Found at i:172803 original size:7 final size:7
Alignment explanation
Indices: 172791--172824 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
172781 TATATCAAAT
172791 TAATTTA
1 TAATTTA
172798 TAATTTA
1 TAATTTA
172805 TAATTTA
1 TAATTTA
172812 TAATTTA
1 TAATTTA
172819 TAATTT
1 TAATTT
172825 TAAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TAATTTA
Found at i:172898 original size:35 final size:35
Alignment explanation
Indices: 172859--172929 Score: 85
Period size: 35 Copynumber: 2.0 Consensus size: 35
172849 TTATTTAAAT
172859 TTAAATT-TAATATAATTTGTTAT-TATT-TAAATATA
1 TTAAATTATAA-A-AATTT-TTATATATTATAAATATA
*
172894 TTAAATTATAAAAATTTTTATATATTATTAATATA
1 TTAAATTATAAAAATTTTTATATATTATAAATATA
172929 T
1 T
172930 ATTTTATCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 4 0.12
34 9 0.28
35 16 0.50
36 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (35 bp):
TTAAATTATAAAAATTTTTATATATTATAAATATA
Found at i:173184 original size:9 final size:9
Alignment explanation
Indices: 173170--173202 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
173160 CAAAGATTTA
173170 TTATTTAAT
1 TTATTTAAT
173179 TTATTTAAT
1 TTATTTAAT
*
173188 TT-TTAAAT
1 TTATTTAAT
173196 TTATTTA
1 TTATTTA
173203 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTATTTAAT
Found at i:173198 original size:17 final size:16
Alignment explanation
Indices: 173165--173208 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
173155 TGCAACAAAG
173165 ATTTATTATTT-AATTT
1 ATTTATT-TTTAAATTT
173181 ATTTAATTTTTAAATTT
1 ATTT-ATTTTTAAATTT
173198 ATTTATTTTTA
1 ATTTATTTTTA
173209 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTATTTTTAAATTT
Found at i:173220 original size:38 final size:40
Alignment explanation
Indices: 173176--173253 Score: 99
Period size: 38 Copynumber: 2.0 Consensus size: 40
173166 TTTATTATTT
* *
173176 AATTTATTTAATTTTTAA-ATTTATTTATTTT-T-ATTAAA
1 AATTTATTTAA-TATTAATATTTATATATTTTATAATTAAA
*
173214 AATTTATTTTATATTAATATTTATATATTTTATAATTAAA
1 AATTTATTTAATATTAATATTTATATATTTTATAATTAAA
173254 TTTAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.15
38 22 0.65
39 1 0.03
40 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (40 bp):
AATTTATTTAATATTAATATTTATATATTTTATAATTAAA
Found at i:173235 original size:17 final size:17
Alignment explanation
Indices: 173197--173237 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
173187 TTTTTAAATT
173197 TATTTATTTTTATTAAA
1 TATTTATTTTTATTAAA
*
173214 AATTTATTTTATATT-AA
1 TATTTATTTT-TATTAAA
173231 TATTTAT
1 TATTTAT
173238 ATATTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTATTTTTATTAAA
Found at i:173242 original size:21 final size:21
Alignment explanation
Indices: 173190--173257 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
173180 TATTTAATTT
*
173190 TTAAATTTATTTATTTT-T-A
1 TTAAATTTATATATTTTATAA
* *
173209 TTAAA--AATTTATTTTAT-A
1 TTAAATTTATATATTTTATAA
173227 TTAATATTTATATATTTTATAA
1 TTAA-ATTTATATATTTTATAA
173249 TTAAATTTA
1 TTAAATTTA
173258 AATAAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 9 0.22
18 6 0.15
19 6 0.15
21 15 0.37
22 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTAAATTTATATATTTTATAA
Found at i:173255 original size:38 final size:37
Alignment explanation
Indices: 173166--173257 Score: 89
Period size: 38 Copynumber: 2.4 Consensus size: 37
173156 GCAACAAAGA
* * *
173166 TTTATTATTTAATTTATTTAATTTTTAAATTTATTTAT
1 TTTA-TATTAAATTTATTTAATTATTAAATTTATATAT
*
173204 TTT-TATTAAAAATTTATTTTA-TATTAATATTTATATAT
1 TTTATATT--AAATTTATTTAATTATTAA-ATTTATATAT
173242 TTTATAATTAAATTTA
1 TTTAT-ATTAAATTTA
173258 AATAAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
36 4 0.09
37 5 0.11
38 32 0.71
39 1 0.02
40 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (37 bp):
TTTATATTAAATTTATTTAATTATTAAATTTATATAT
Found at i:173272 original size:21 final size:20
Alignment explanation
Indices: 173248--173291 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
173238 ATATTTTATA
173248 ATTAAATTTAAATAAAAATAT
1 ATTAAATTTAAATAAAAAT-T
* *
173269 ATT-ATTTTAATTAAAAATT
1 ATTAAATTTAAATAAAAATT
173288 ATTA
1 ATTA
173292 TTTTAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAATTTAAATAAAAATT
Found at i:173304 original size:22 final size:20
Alignment explanation
Indices: 173254--173298 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
173244 TATAATTAAA
*
173254 TTTAAATAAAAATATATTAT
1 TTTAATTAAAAATATATTAT
173274 TTTAATTAAAAAT-TATTAT
1 TTTAATTAAAAATATATTAT
173293 TTTAAT
1 TTTAAT
173299 ATTTAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAATTAAAAATATATTAT
Found at i:173601 original size:14 final size:15
Alignment explanation
Indices: 173568--173632 Score: 57
Period size: 14 Copynumber: 4.6 Consensus size: 15
173558 TATTCATATC
* *
173568 ATATTTTTTTTTATT
1 ATATTTTATATTATT
173583 A-ATTTTA-ATTATT
1 ATATTTTATATTATT
*
173596 ATA-TTTATATAATT
1 ATATTTTATATTATT
* *
173610 ATATTTAATACTATT
1 ATATTTTATATTATT
173625 A-ATTTTAT
1 ATATTTTAT
173633 TTAAATAGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
13 10 0.25
14 20 0.50
15 10 0.25
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTTTATATTATT
Found at i:174088 original size:24 final size:23
Alignment explanation
Indices: 174051--174106 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
174041 AAACAAATTT
*
174051 TTAATTATTCATGAATATATTTGA
1 TTAA-TATTCATGAACATATTTGA
* *
174075 TTATATATTTATGAACATATTTGT
1 TTA-ATATTCATGAACATATTTGA
174099 TTAATATT
1 TTAATATT
174107 AAAAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.18
24 22 0.79
25 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (23 bp):
TTAATATTCATGAACATATTTGA
Found at i:174355 original size:11 final size:12
Alignment explanation
Indices: 174311--174356 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
174301 TTATAATTTT
174311 AAATATAATATA
1 AAATATAATATA
* *
174323 ATTATATGATATA
1 A-AATATAATATA
174336 AAA-ATAATA-A
1 AAATATAATATA
174346 AAATATAATAT
1 AAATATAATAT
174357 GATATAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
10 4 0.15
11 11 0.41
12 2 0.07
13 10 0.37
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
AAATATAATATA
Found at i:174356 original size:27 final size:27
Alignment explanation
Indices: 174326--174377 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
174316 TAATATAATT
*
174326 ATATGATATAAAAATAATAAAAATATA
1 ATATGATATAAAAATAACAAAAATATA
*
174353 ATATGATATAAAAGTAACAAAAATA
1 ATATGATATAAAAATAACAAAAATA
174378 CAGCATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (27 bp):
ATATGATATAAAAATAACAAAAATATA
Found at i:175970 original size:17 final size:16
Alignment explanation
Indices: 175909--175970 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 16
175899 AAATATATAA
175909 TTTTT-TTCATTTTTT
1 TTTTTCTTCATTTTTT
* *
175924 TTCTTTCTTCCATCTTGT
1 TT-TTTCTT-CATTTTTT
*
175942 TTTTCCTCTCATTTTTT
1 TTTTTCT-TCATTTTTT
175959 TTTATTCTTCAT
1 TTT-TTCTTCAT
175971 CCAAATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
15 2 0.06
16 3 0.08
17 19 0.53
18 12 0.33
ACGTcount: A:0.08, C:0.19, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTTCTTCATTTTTT
Found at i:176739 original size:35 final size:34
Alignment explanation
Indices: 176675--176740 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
176665 GATATGTTGT
* *
176675 AATTATATATTTTTAAATTTAAAATAAATATATA
1 AATTATATATTTATAAATATAAAATAAATATATA
176709 AATTATTATATTTATATAATATAAAA-AAATAT
1 AATTA-TATATTTATA-AATATAAAATAAATAT
176741 TCTTTTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 5 0.18
35 15 0.54
36 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
AATTATATATTTATAAATATAAAATAAATATATA
Found at i:177031 original size:21 final size:20
Alignment explanation
Indices: 176981--177035 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
176971 GTGATTTAAA
176981 AATTTATTTATTT-AAATTTT
1 AATTTA-TTATTTAAAATTTT
*
177001 -ATTAAAATTAATTTAAAATTTT
1 AATT--TATT-ATTTAAAATTTT
177023 AATTTATTATTTA
1 AATTTATTATTTA
177036 TAATAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
19 3 0.11
20 7 0.25
21 8 0.29
22 7 0.25
23 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTATTATTTAAAATTTT
Found at i:177230 original size:29 final size:28
Alignment explanation
Indices: 177173--177234 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
177163 AATATTTATA
*
177173 TATTTTTATAATTAAATTTAAATAAAAT
1 TATTTTTATAATTAAATATAAATAAAAT
* * *
177201 TATTTTTATTATTAAATAATAATTTAAAT
1 TATTTTTATAATTAAAT-ATAAATAAAAT
177230 TATTT
1 TATTT
177235 AAATTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TATTTTTATAATTAAATATAAATAAAAT
Found at i:177468 original size:2 final size:2
Alignment explanation
Indices: 177461--177489 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
177451 AAGCAAAGGG
177461 TA TA 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 TA TA T
177490 TAGTTAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:180679 original size:31 final size:33
Alignment explanation
Indices: 180630--180755 Score: 132
Period size: 31 Copynumber: 3.7 Consensus size: 33
180620 ATTATAAAAG
180630 TATTTATATTAAATAATAAAATATAAAAAAATTA
1 TATTTATATT-AATAATAAAATATAAAAAAATTA
* *
180664 TATTTATATTAAATAAT-AATTAAAAATTATTAAATTA
1 TATTTATATT-AATAATAAAATATAAA--A--AAATTA
* * *
180701 TATTTATATTAAAAATAAATTAT-TAAAAA-TA
1 TATTTATATTAATAATAAAATATAAAAAAATTA
180732 TATTTATATTAATAATAAAATATA
1 TATTTATATTAATAATAAAATATA
180756 TGTTAAAAAC
Statistics
Matches: 79, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
31 23 0.29
32 3 0.04
33 7 0.09
34 18 0.23
35 1 0.01
36 6 0.08
37 21 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
TATTTATATTAATAATAAAATATAAAAAAATTA
Found at i:180699 original size:37 final size:37
Alignment explanation
Indices: 180613--180792 Score: 153
Period size: 37 Copynumber: 4.9 Consensus size: 37
180603 ATGAGTATAT
180613 ATTAAAAATTATAAA--AGTATTTATATTAAATAATAA
1 ATTAAAAATTATAAATTA-TATTTATATTAAATAATAA
* *
180649 AATATAAA--A-AAATTATATTTATATTAAATAAT-A
1 ATTAAAAATTATAAATTATATTTATATTAAATAATAA
180682 ATTAAAAATTATTAAATTATATTTATATTAAA-AATAA
1 ATTAAAAATTA-TAAATTATATTTATATTAAATAATAA
* * * * *
180719 ATTATTAAAAATAT-ATTTATATTAATAATAAA-ATATAT
1 ATTA--AAAATTATAAATTATATTTATATTAAATA-ATAA
* * *
180757 GTTAAAAACTAAAAAATTATATTTATATTAAATAAT
1 ATTAAAAA-TTATAAATTATATTTATATTAAATAAT
180793 TATTTATATT
Statistics
Matches: 115, Mismatches: 16, Indels: 24
0.74 0.10 0.15
Matches are distributed among these distances:
33 10 0.09
34 18 0.16
35 2 0.02
36 13 0.11
37 41 0.36
38 24 0.21
39 7 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (37 bp):
ATTAAAAATTATAAATTATATTTATATTAAATAATAA
Found at i:180754 original size:22 final size:22
Alignment explanation
Indices: 180726--180792 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
180716 TAAATTATTA
180726 AAAATATATTTATATTAATAAT
1 AAAATATATTTATATTAATAAT
*
180748 AAAATATATGTTA-A-AAACTAA-
1 AAAATATAT-TTATATTAA-TAAT
180769 AAAATTATATTTATATTAAATAAT
1 AAAA-TATATTTATATT-AATAAT
180793 TATTTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
21 9 0.25
22 19 0.53
23 6 0.17
24 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (22 bp):
AAAATATATTTATATTAATAAT
Found at i:180776 original size:75 final size:71
Alignment explanation
Indices: 180630--180792 Score: 197
Period size: 75 Copynumber: 2.2 Consensus size: 71
180620 ATTATAAAAG
* **
180630 TATTTATATTAAATAATAAAATATAAAAAAATTATATTTATATTAAATAATAATTAAAAATTATT
1 TATTTATATTAAATAATAAAATATAAAAAAATTATATTTATATTAAATAATAATTAAAAACTAAA
180695 AAATTA
66 AAATTA
* *
180701 TATTTATATTAAA-AATAAATTAT-TAAAAA-TATATTTATATTAATAATAAAATATATGTTAAA
1 TATTTATATTAAATAATAAAATATAAAAAAATTATATTTATATT-A-AAT--AATA-A--TTAAA
180763 AACTAAAAAATTA
59 AACTAAAAAATTA
180776 TATTTATATTAAATAAT
1 TATTTATATTAAATAAT
180793 TATTTATATT
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
68 12 0.15
69 6 0.08
70 12 0.15
71 13 0.16
72 4 0.05
73 1 0.01
75 28 0.35
76 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (71 bp):
TATTTATATTAAATAATAAAATATAAAAAAATTATATTTATATTAAATAATAATTAAAAACTAAA
AAATTA
Found at i:180798 original size:17 final size:16
Alignment explanation
Indices: 180776--180824 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 16
180766 TAAAAAATTA
180776 TATTTATATTAAATAAT
1 TATTTATATTAAA-AAT
*
180793 TATTTATATTTAAAAT
1 TATTTATATTAAAAAT
*
180809 TATTTA-ATAAAAAAT
1 TATTTATATTAAAAAT
180824 T
1 T
180825 TTAAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 8 0.28
16 9 0.31
17 12 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTATATTAAAAAT
Found at i:180807 original size:37 final size:36
Alignment explanation
Indices: 180630--180811 Score: 110
Period size: 37 Copynumber: 5.0 Consensus size: 36
180620 ATTATAAAAG
** *
180630 TATTTATATTAAATAA-TA-AAATATAAAAAAATTA
1 TATTTATATTAAATAATTATTTATATTAAAAAATTA
* * * **
180664 TATTTATATTAAATAATAATTAAAAATTATTAAATTA
1 TATTTATATTAAATAATTATT-TATATTAAAAAATTA
**
180701 TATTTATATTAAA-AA-TAAAT-TATT-AAAAA-TA
1 TATTTATATTAAATAATTATTTATATTAAAAAATTA
* *
180732 TATTTATATTAATAATAAAATATATGTTAAAAACTAAAAAATTA
1 TATTTATATT-A-AAT--AAT-TAT-TT--ATATTAAAAAATTA
*
180776 TATTTATATTAAATAATTATTTATATT-TAAAATTA
1 TATTTATATTAAATAATTATTTATATTAAAAAATTA
180811 T
1 T
180812 TTAATAAAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
31 12 0.11
32 4 0.04
33 5 0.04
34 16 0.14
35 10 0.09
36 7 0.06
37 24 0.21
38 4 0.04
39 4 0.04
40 3 0.03
42 5 0.04
43 6 0.05
44 12 0.11
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.44
Consensus pattern (36 bp):
TATTTATATTAAATAATTATTTATATTAAAAAATTA
Found at i:182216 original size:32 final size:33
Alignment explanation
Indices: 182131--182216 Score: 83
Period size: 32 Copynumber: 2.7 Consensus size: 33
182121 TATTTAAATT
182131 TAATTATAAAAATATATAAA-T-ATTAATAAAAAA
1 TAATT-TAAAAAT-TATAAATTAATTAATAAAAAA
* *
182164 TAATTTTAAAAATT-T-TATTAATTTATAAAAAA
1 TAA-TTTAAAAATTATAAATTAATTAATAAAAAA
*
182196 TAA-TTCAAAATTATAAATTAA
1 TAATTTAAAAATTATAAATTAA
182217 AATAATTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
30 9 0.20
31 3 0.07
32 20 0.45
33 10 0.23
34 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (33 bp):
TAATTTAAAAATTATAAATTAATTAATAAAAAA
Found at i:182248 original size:24 final size:24
Alignment explanation
Indices: 182192--182242 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
182182 TAATTTATAA
*
182192 AAAATAA-TTCAAAATTATAAATT
1 AAAATAATTTCAAAATTATAAAAT
*
182215 AAAATAATTTCAAACTTATACAAAT
1 AAAATAATTTCAAAATTATA-AAAT
182240 AAA
1 AAA
182243 CTATTTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 11 0.46
25 6 0.25
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATAATTTCAAAATTATAAAAT
Found at i:182639 original size:39 final size:41
Alignment explanation
Indices: 182596--182701 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 41
182586 TTTCATAAAT
*
182596 AAATTTAAAT-TTAAAT-TTATTGATAATGATTTACATTTA
1 AAATTTAAATGTTAAATGTTATTAATAATGATTTACATTTA
* * *
182635 AAATTTTAGATGTT---TGTTGTTAATAATGATTTATATTTA
1 AAA-TTTAAATGTTAAATGTTATTAATAATGATTTACATTTA
182674 AAATTTAAATGTTAAATGTATAATTAAT
1 AAATTTAAATGTTAAATGT-T-ATTAAT
182702 TTTGTTAGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
38 10 0.19
39 26 0.49
40 6 0.11
41 5 0.09
42 1 0.02
43 5 0.09
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (41 bp):
AAATTTAAATGTTAAATGTTATTAATAATGATTTACATTTA
Found at i:183332 original size:32 final size:32
Alignment explanation
Indices: 183276--183360 Score: 86
Period size: 36 Copynumber: 2.5 Consensus size: 32
183266 TTGTTTGATA
183276 ATTATATATTTTGAATTTTAAAAAT-TATTTT-T
1 ATTAT-TATTTT-AATTTTAAAAATATATTTTAT
183308 ATTATTATTTTAATTTTATTAAAATAATATTTTAT
1 ATTATTATTTTAATTTTA--AAAAT-ATATTTTAT
183343 ATTAATT-TATTTAATTTT
1 ATT-ATTAT-TTTAATTTT
183361 TGATAAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
30 7 0.15
31 6 0.13
32 10 0.22
34 6 0.13
35 5 0.11
36 12 0.26
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (32 bp):
ATTATTATTTTAATTTTAAAAATATATTTTAT
Found at i:184298 original size:2 final size:2
Alignment explanation
Indices: 184291--184331 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
184281 TTTTGACATT
184291 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
184332 TAGGCATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:190598 original size:20 final size:20
Alignment explanation
Indices: 190569--190606 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
190559 TTCACTTTTG
190569 CCCTTATTAAGTTTGAATCA
1 CCCTTATTAAGTTTGAATCA
*
190589 CCCTTGTTAAGTTTGAAT
1 CCCTTATTAAGTTTGAAT
190607 TAACCCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (20 bp):
CCCTTATTAAGTTTGAATCA
Found at i:196942 original size:21 final size:21
Alignment explanation
Indices: 196903--196945 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
196893 AAATATATTT
*
196903 TTATTTAAATTTAATTATAAA
1 TTATTTAAATTCAATTATAAA
196924 TTATTTAAATATCAATATATAA
1 TTATTTAAAT-TCAAT-TATAA
196946 GTAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTTAAATTCAATTATAAA
Found at i:198121 original size:40 final size:40
Alignment explanation
Indices: 198043--198120 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
198033 TTGACTTAAT
*
198043 TATTAATAAAAATTTTTATTTAAATTTAATTTTAAAAATA
1 TATTAATAAAAATTTTTATTTAAATATAATTTTAAAAATA
** *
198083 TATTAATATTAATTTTATTTTTAAATAATAA-TTTAAAA
1 TATTAATAAAAATTTT-TATTTAAAT-ATAATTTTAAAA
198121 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 14 0.44
41 15 0.47
42 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
TATTAATAAAAATTTTTATTTAAATATAATTTTAAAAATA
Found at i:198153 original size:16 final size:15
Alignment explanation
Indices: 198118--198169 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
198108 TAATAATTTA
*
198118 AAATTTAAAATTAATTT
1 AAATTT-AAA-TAATAT
198135 AAATTTAAACTAATAT
1 AAATTTAAA-TAATAT
*
198151 AAATCTAAATAATA-
1 AAATTTAAATAATAT
198165 AAATT
1 AAATT
198170 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 4 0.13
15 5 0.16
16 16 0.52
17 6 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTTAAATAATAT
Found at i:198723 original size:8 final size:8
Alignment explanation
Indices: 198710--198795 Score: 54
Period size: 8 Copynumber: 10.6 Consensus size: 8
198700 GCATGAACAC
198710 TATAAATA
1 TATAAATA
198718 TATAAATA
1 TATAAATA
198726 TATCAAAT-
1 TAT-AAATA
*
198734 T-TATATA
1 TATAAATA
*
198741 TCATGAAT-
1 T-ATAAATA
*
198749 TATTAATA
1 TATAAATA
198757 TATTAAAATA
1 TA-T-AAATA
*
198767 TATAAAAA
1 TATAAATA
198775 TATATAATA
1 TATA-AATA
*
198784 TTTAAA-A
1 TATAAATA
198791 TATAA
1 TATAA
198796 TTAAAATACA
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
6 3 0.05
7 12 0.20
8 25 0.41
9 15 0.25
10 6 0.10
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (8 bp):
TATAAATA
Found at i:198768 original size:10 final size:10
Alignment explanation
Indices: 198753--198803 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
198743 ATGAATTATT
198753 AATATATTAA
1 AATATATTAA
198763 AATATA-TAA
1 AATATATTAA
*
198772 AA-ATA-TAT
1 AATATATTAA
198780 AATAT-TTAA
1 AATATATTAA
198789 AATATAATTAA
1 AATAT-ATTAA
198800 AATA
1 AATA
198804 CATAAAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
8 7 0.20
9 14 0.40
10 6 0.17
11 8 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATATATTAA
Found at i:198784 original size:27 final size:27
Alignment explanation
Indices: 198752--198808 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
198742 CATGAATTAT
*
198752 TAATATATTAAAATAT-ATAAAAATATA
1 TAATAT-TTAAAATATAATAAAAATACA
*
198779 TAATATTTAAAATATAATTAAAATACA
1 TAATATTTAAAATATAATAAAAATACA
198806 TAA
1 TAA
198809 AAACTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
TAATATTTAAAATATAATAAAAATACA
Found at i:199392 original size:20 final size:21
Alignment explanation
Indices: 199369--199414 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
199359 ATATAATTTT
*
199369 TATATTAAATAATT-ATTAAA
1 TATATTAAATAATTAATAAAA
* *
199389 TATAGTAAATATTTAATAAAA
1 TATATTAAATAATTAATAAAA
199410 TATAT
1 TATAT
199415 ACTTGATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TATATTAAATAATTAATAAAA
Found at i:199845 original size:21 final size:22
Alignment explanation
Indices: 199814--199863 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
199804 AAAATTTTAA
199814 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
199836 ATAT-ATTTTATAATTAAATTT
1 ATATAATTTTATAATTAAATTT
*
199857 AAATAAT
1 ATATAAT
199864 AAATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:199876 original size:13 final size:12
Alignment explanation
Indices: 199805--199878 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
199795 ATAATTAAAA
199805 AAATTTTA-AAT
1 AAATTTTATAAT
199816 ATAATTTTAT-AT
1 A-AATTTTATAAT
*
199828 TAATATTTAT-AT
1 AAAT-TTTATAAT
199840 --ATTTTATAATT
1 AAATTTTATAA-T
*
199851 AAATTTAAATAAT
1 AAATTT-TATAAT
199864 AAATTTTATTAAT
1 AAATTTTA-TAAT
199877 AA
1 AA
199879 TTAATAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
9 5 0.10
10 3 0.06
11 5 0.10
12 17 0.33
13 17 0.33
14 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
AAATTTTATAAT
Found at i:204056 original size:11 final size:11
Alignment explanation
Indices: 204037--204078 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
204027 AATATTTATG
204037 ATATGTTTAATC
1 ATAT-TTTAATC
204049 ATATTTTAATC
1 ATATTTTAATC
204060 ATA-TTTAGATC
1 ATATTTTA-ATC
204071 ATATTTTA
1 ATATTTTA
204079 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.14
11 16 0.57
12 8 0.29
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (11 bp):
ATATTTTAATC
Found at i:205146 original size:21 final size:23
Alignment explanation
Indices: 205120--205169 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
205110 AAATATATTT
*
205120 TTATTTAAAT-TTAAT-TATAAA
1 TTATTTAAATATCAATATATAAA
205141 TTATTTAAATATCAATATATAAA
1 TTATTTAAATATCAATATATAAA
*
205164 TAATTT
1 TTATTT
205170 TTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATTTAAATATCAATATATAAA
Found at i:206340 original size:40 final size:40
Alignment explanation
Indices: 206262--206339 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
206252 TTGACTTAAT
*
206262 TATTAATAAAAATTTTTATTTAAATTTAATTTTAAAAATA
1 TATTAATAAAAATTTTTATTTAAATATAATTTTAAAAATA
** *
206302 TATTAATATTAATTTTATTTTTAAATAATAA-TTTAAAA
1 TATTAATAAAAATTTT-TATTTAAAT-ATAATTTTAAAA
206340 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 14 0.44
41 15 0.47
42 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
TATTAATAAAAATTTTTATTTAAATATAATTTTAAAAATA
Found at i:206372 original size:16 final size:15
Alignment explanation
Indices: 206337--206388 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
206327 TAATAATTTA
*
206337 AAATTTAAAATTAATTT
1 AAATTT-AAA-TAATAT
206354 AAATTTAAACTAATAT
1 AAATTTAAA-TAATAT
*
206370 AAATCTAAATAATA-
1 AAATTTAAATAATAT
206384 AAATT
1 AAATT
206389 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 4 0.13
15 5 0.16
16 16 0.52
17 6 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTTAAATAATAT
Found at i:206562 original size:19 final size:19
Alignment explanation
Indices: 206538--206578 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
206528 CGTTTAATTA
206538 TTTTTTAAAATTTTTACTT
1 TTTTTTAAAATTTTTACTT
**
206557 TTTTTTTTAATTTTTACTT
1 TTTTTTAAAATTTTTACTT
206576 TTT
1 TTT
206579 AAATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTAAAATTTTTACTT
Found at i:207048 original size:27 final size:28
Alignment explanation
Indices: 206998--207055 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
206988 CATGAATTAT
*
206998 TAATATATTAAAATATATAAAAAATATA
1 TAATATATTAAAATATATAAAAAATACA
*
207026 TAATAT-TTAAAATATA-ATTAAAATACA
1 TAATATATTAAAATATATA-AAAAATACA
207053 TAA
1 TAA
207056 AAACTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 20 0.74
28 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
TAATATATTAAAATATATAAAAAATACA
Found at i:207642 original size:20 final size:20
Alignment explanation
Indices: 207619--207663 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
207609 ATATAATTTT
*
207619 TATATTAAATAATTATTAAA
1 TATATTAAATAATTAATAAA
* *
207639 TATAGTAAATATTTAATAAA
1 TATATTAAATAATTAATAAA
207659 TATAT
1 TATAT
207664 ACTTGATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TATATTAAATAATTAATAAA
Found at i:208094 original size:21 final size:22
Alignment explanation
Indices: 208063--208112 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
208053 AAAATTTTAA
208063 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
208085 ATAT-ATTTTATAATTAAATTT
1 ATATAATTTTATAATTAAATTT
*
208106 AAATAAT
1 ATATAAT
208113 AAATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:208125 original size:13 final size:12
Alignment explanation
Indices: 208054--208127 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
208044 ATAATTAAAA
208054 AAATTTTA-AAT
1 AAATTTTATAAT
208065 ATAATTTTAT-AT
1 A-AATTTTATAAT
*
208077 TAATATTTAT-AT
1 AAAT-TTTATAAT
208089 --ATTTTATAATT
1 AAATTTTATAA-T
*
208100 AAATTTAAATAAT
1 AAATTT-TATAAT
208113 AAATTTTATTAAT
1 AAATTTTA-TAAT
208126 AA
1 AA
208128 TTAATAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
9 5 0.10
10 3 0.06
11 5 0.10
12 17 0.33
13 17 0.33
14 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
AAATTTTATAAT
Found at i:212312 original size:11 final size:11
Alignment explanation
Indices: 212293--212334 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
212283 AATATTTATG
212293 ATATGTTTAATC
1 ATAT-TTTAATC
212305 ATATTTTAATC
1 ATATTTTAATC
212316 ATA-TTTAGATC
1 ATATTTTA-ATC
212327 ATATTTTA
1 ATATTTTA
212335 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.14
11 16 0.57
12 8 0.29
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (11 bp):
ATATTTTAATC
Found at i:213416 original size:21 final size:21
Alignment explanation
Indices: 213377--213419 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
213367 AAATATATTT
*
213377 TTATTTAAATTTAATTATAAA
1 TTATTTAAATTCAATTATAAA
213398 TTATTTAAATATCAATATATAA
1 TTATTTAAAT-TCAAT-TATAA
213420 GTACTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTTAAATTCAATTATAAA
Found at i:214598 original size:40 final size:40
Alignment explanation
Indices: 214520--214597 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
214510 TTGACTTAAT
*
214520 TATTAATAAAAATTTTTATTTAAATTTAATTTTAAAAATA
1 TATTAATAAAAATTTTTATTTAAATATAATTTTAAAAATA
** *
214560 TATTAATATTAATTTTATTTTTAAATAATAA-TTTAAAA
1 TATTAATAAAAATTTT-TATTTAAAT-ATAATTTTAAAA
214598 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 14 0.44
41 15 0.47
42 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
TATTAATAAAAATTTTTATTTAAATATAATTTTAAAAATA
Found at i:214630 original size:16 final size:15
Alignment explanation
Indices: 214595--214646 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
214585 TAATAATTTA
*
214595 AAATTTAAAATTAATTT
1 AAATTT-AAA-TAATAT
214612 AAATTTAAACTAATAT
1 AAATTTAAA-TAATAT
*
214628 AAATCTAAATAATA-
1 AAATTTAAATAATAT
214642 AAATT
1 AAATT
214647 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 4 0.13
15 5 0.16
16 16 0.52
17 6 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTTAAATAATAT
Found at i:214820 original size:19 final size:19
Alignment explanation
Indices: 214796--214835 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
214786 CGTTTAATTA
214796 TTTTTTAAAATTTTTACTT
1 TTTTTTAAAATTTTTACTT
**
214815 TTTTTTTTAATTTTTACTT
1 TTTTTTAAAATTTTTACTT
214834 TT
1 TT
214836 AAATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTAAAATTTTTACTT
Found at i:215305 original size:27 final size:28
Alignment explanation
Indices: 215255--215312 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
215245 CATGAATTAT
*
215255 TAATATATTAAAATATATAAAAAATATA
1 TAATATATTAAAATATATAAAAAATACA
*
215283 TAATAT-TTAAAATATA-ATTAAAATACA
1 TAATATATTAAAATATATA-AAAAATACA
215310 TAA
1 TAA
215313 AAACTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 20 0.74
28 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
TAATATATTAAAATATATAAAAAATACA
Found at i:215896 original size:20 final size:21
Alignment explanation
Indices: 215873--215918 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
215863 ATATAATTTT
*
215873 TATATTAAATAATT-ATTAAA
1 TATATTAAATAATTAATAAAA
* *
215893 TATAGTAAATATTTAATAAAA
1 TATATTAAATAATTAATAAAA
215914 TATAT
1 TATAT
215919 ACTTGATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TATATTAAATAATTAATAAAA
Found at i:216349 original size:21 final size:22
Alignment explanation
Indices: 216318--216367 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
216308 AAAATTTTAA
216318 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
216340 ATAT-ATTTTATAATTAAATTT
1 ATATAATTTTATAATTAAATTT
*
216361 AAATAAT
1 ATATAAT
216368 AAATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:216380 original size:13 final size:12
Alignment explanation
Indices: 216309--216382 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 12
216299 ATAATTAAAA
216309 AAATTTTA-AAT
1 AAATTTTATAAT
216320 ATAATTTTAT-AT
1 A-AATTTTATAAT
*
216332 TAATATTTAT-AT
1 AAAT-TTTATAAT
216344 --ATTTTATAATT
1 AAATTTTATAA-T
*
216355 AAATTTAAATAAT
1 AAATTT-TATAAT
216368 AAATTTTATTAAT
1 AAATTTTA-TAAT
216381 AA
1 AA
216383 TTAATAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
9 5 0.10
10 3 0.06
11 5 0.10
12 17 0.33
13 17 0.33
14 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
AAATTTTATAAT
Found at i:217370 original size:10 final size:10
Alignment explanation
Indices: 217355--217380 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
217345 AGAAGACTCA
217355 AAAAAAAAAC
1 AAAAAAAAAC
217365 AAAAAAAAAC
1 AAAAAAAAAC
217375 AAAAAA
1 AAAAAA
217381 TAATGATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:220565 original size:11 final size:11
Alignment explanation
Indices: 220546--220587 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
220536 AATATTTATG
220546 ATATGTTTAATC
1 ATAT-TTTAATC
220558 ATATTTTAATC
1 ATATTTTAATC
220569 ATA-TTTAGATC
1 ATATTTTA-ATC
220580 ATATTTTA
1 ATATTTTA
220588 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.14
11 16 0.57
12 8 0.29
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (11 bp):
ATATTTTAATC
Found at i:221655 original size:21 final size:23
Alignment explanation
Indices: 221629--221678 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
221619 AAATATATTT
*
221629 TTATTTAAAT-TTAAT-TATAAA
1 TTATTTAAATATCAATATATAAA
221650 TTATTTAAATATCAATATATAAA
1 TTATTTAAATATCAATATATAAA
*
221673 TAATTT
1 TTATTT
221679 TTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 11 0.44
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATTTAAATATCAATATATAAA
Found at i:222850 original size:40 final size:40
Alignment explanation
Indices: 222772--222849 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
222762 TTGACTTAAT
*
222772 TATTAATAAAAATTTTTATTTAAATTTAATTTTAAAAATA
1 TATTAATAAAAATTTTTATTTAAATATAATTTTAAAAATA
** *
222812 TATTAATATTAATTTTATTTTTAAATAATAA-TTTAAAA
1 TATTAATAAAAATTTT-TATTTAAAT-ATAATTTTAAAA
222850 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 14 0.44
41 15 0.47
42 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
TATTAATAAAAATTTTTATTTAAATATAATTTTAAAAATA
Found at i:222882 original size:16 final size:15
Alignment explanation
Indices: 222847--222898 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
222837 TAATAATTTA
*
222847 AAATTTAAAATTAATTT
1 AAATTT-AAA-TAATAT
222864 AAATTTAAACTAATAT
1 AAATTTAAA-TAATAT
*
222880 AAATCTAAATAATA-
1 AAATTTAAATAATAT
222894 AAATT
1 AAATT
222899 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 4 0.13
15 5 0.16
16 16 0.52
17 6 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTTAAATAATAT
Found at i:223071 original size:18 final size:17
Alignment explanation
Indices: 223048--223086 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
223038 CGTTTAATTA
*
223048 TTTTTTAAAATTTTTAC
1 TTTTTTTAAATTTTTAC
*
223065 TTTTTTTTAATTTTTAC
1 TTTTTTTAAATTTTTAC
223082 TTTTT
1 TTTTT
223087 AAATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTAAATTTTTAC
Found at i:223094 original size:17 final size:17
Alignment explanation
Indices: 223049--223094 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
223039 GTTTAATTAT
223049 TTTTTAAA-ATTTTTAC
1 TTTTTAAATATTTTTAC
**
223065 TTTTT-TTTAATTTTTAC
1 TTTTTAAAT-ATTTTTAC
223082 TTTTTAAATATTT
1 TTTTTAAATATTT
223095 ATATTAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
16 5 0.22
17 17 0.74
18 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTAAATATTTTTAC
Found at i:223556 original size:27 final size:28
Alignment explanation
Indices: 223506--223563 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
223496 CATGAATTAT
*
223506 TAATATATTAAAATATATAAAAAATATA
1 TAATATATTAAAATATATAAAAAATACA
*
223534 TAATAT-TTAAAATATA-ATTAAAATACA
1 TAATATATTAAAATATATA-AAAAATACA
223561 TAA
1 TAA
223564 AAACTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 20 0.74
28 6 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
TAATATATTAAAATATATAAAAAATACA
Found at i:224147 original size:20 final size:21
Alignment explanation
Indices: 224124--224169 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
224114 ATATAATTTT
*
224124 TATATTAAATAATT-ATTAAA
1 TATATTAAATAATTAATAAAA
* *
224144 TATAGTAAATATTTAATAAAA
1 TATATTAAATAATTAATAAAA
224165 TATAT
1 TATAT
224170 ACTTGATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TATATTAAATAATTAATAAAA
Found at i:229294 original size:320 final size:316
Alignment explanation
Indices: 228677--229295 Score: 793
Period size: 316 Copynumber: 1.9 Consensus size: 316
228667 AATATAACTA
* * ** * *
228677 GGCATCAAAGGTTTGAAACTCAGTAGAAGTTTTTATCTGATGGATTACAAGGAGAAATTTTTTTT
1 GGCATCAAAGGTTTGAAACACAGTAAAAGCCTTCAGCTGATGGATTACAAGGAGAAATTTTTTTT
* * * *
228742 TTTCCATTAATTGGTTATATTCATCAAACAACTCATTCGATTAACTTAGCAAATTGCATGAAACG
66 TTTCCATTAATTGGTTATATTCATCAAACAACTCATTCCATTAACCTAGCAAATCGCATGAAAAG
** *
228807 AATTTGAACAGAATCTTAAAACTCATTTACTAAAGAAAGCCAAGTTTAAACAGTGAATAAGCTAA
131 AATTCAAACAGAATCTTAAAACTCATTTACAAAAGAAAGCCAAGTTTAAACAGTGAATAAGCTAA
* *
228872 TAAGGGAAGGAAATGGACTGAAACGGACCATCACTACTTTCCCTTCAAAAACCCATTTTTCCACC
196 TAAGGGAAGGAAATGGACTGAAACGGACCATCACTACTTTCCCTGCAAAAACCCACTTTTCCACC
*
228937 CTTCCAAACAAGAGAAAGAAAAATCATTTAATCAATTATGAACAAAGATACAGCTT
261 CTTCCAAACAAGAAAAAGAAAAATCATTTAATCAATTATGAACAAAGATACAGCTT
***
228993 GGCATCAAAGGTTTGCAAA-ACAGTAAAAGCCTTCAGCTGATGGATTACAAGGAGGTTTTTTTTT
1 GGCATCAAAGGTTTG-AAACACAGTAAAAGCCTTCAGCTGATGGATTACAAGGA-G-AAATTTTT
** * * * * *
229057 TTTTTTTTATTGATTGGTTATATTCATCCAAA-AATTTA-TCCATTTACCTAGCAAGTCGCATGA
63 TTTTTTCCATTAATTGGTTATATTCAT-CAAACAACTCATTCCATTAACCTAGCAAATCGCATGA
229120 AAAGAATTCAAACAGAATCTTAAAACTCCA-TTACAAAAG-AAGCCAAGTTTAAACAGTGAATAA
127 AAAGAATTCAAACAGAATCTTAAAACT-CATTTACAAAAGAAAGCCAAGTTTAAACAGTGAATAA
* * * * * *
229183 GCTCATATAGGGGAAGGGATATGGAGTGAAATGGAGCAT-ATCTCCCTTTCCCTGCAAAAACCCA
191 GCT-A-ATAAGGGAA-GGAAATGGACTGAAACGGACCATCA-CT-ACTTTCCCTGCAAAAACCCA
*
229247 CTTTTCCATCCTTCCAAACAAGAAAAAGAAAAATC-TTATAATCAATTAT
251 CTTTTCCACCCTTCCAAACAAGAAAAAGAAAAATCATT-TAATCAATTAT
229296 CATCAAGATT
Statistics
Matches: 259, Mismatches: 33, Indels: 18
0.84 0.11 0.06
Matches are distributed among these distances:
316 70 0.27
317 57 0.22
318 44 0.17
319 27 0.10
320 61 0.24
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (316 bp):
GGCATCAAAGGTTTGAAACACAGTAAAAGCCTTCAGCTGATGGATTACAAGGAGAAATTTTTTTT
TTTCCATTAATTGGTTATATTCATCAAACAACTCATTCCATTAACCTAGCAAATCGCATGAAAAG
AATTCAAACAGAATCTTAAAACTCATTTACAAAAGAAAGCCAAGTTTAAACAGTGAATAAGCTAA
TAAGGGAAGGAAATGGACTGAAACGGACCATCACTACTTTCCCTGCAAAAACCCACTTTTCCACC
CTTCCAAACAAGAAAAAGAAAAATCATTTAATCAATTATGAACAAAGATACAGCTT
Found at i:229960 original size:12 final size:12
Alignment explanation
Indices: 229926--230007 Score: 51
Period size: 12 Copynumber: 6.7 Consensus size: 12
229916 TTAATATATA
*
229926 TTATTATTTAGT
1 TTATTATTTATT
**
229938 TTAAAATTTTATT
1 TTATTA-TTTATT
229951 TTATTATTTATT
1 TTATTATTTATT
* * *
229963 ATATTATTAAAAAT
1 TTATTATT--TATT
229977 TTA-TATTTATAT
1 TTATTATTTAT-T
*
229989 TTA-TATTTTTT
1 TTATTATTTATT
230000 TTATTATT
1 TTATTATT
230008 AAATTTAAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
11 5 0.09
12 31 0.58
13 13 0.25
14 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (12 bp):
TTATTATTTATT
Found at i:231144 original size:6 final size:7
Alignment explanation
Indices: 231124--231151 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
231114 AAAAAATTAC
231124 ATTAAAA
1 ATTAAAA
231131 ATTAAAA
1 ATTAAAA
231138 ATTAAAA
1 ATTAAAA
231145 ATTAAAA
1 ATTAAAA
231152 GTGTTATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATTAAAA
Found at i:231390 original size:2 final size:2
Alignment explanation
Indices: 231383--231436 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
231373 TAATAAAAAT
231383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
231425 TA TA TA TA TA TA
1 TA TA TA TA TA TA
231437 AGGCAATTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:232404 original size:19 final size:20
Alignment explanation
Indices: 232358--232406 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
232348 CATAAATTTT
*
232358 AATTTAATTTATGATAAATA
1 AATTAAATTTATGATAAATA
* *
232378 AATAAAATTTATTATAAA-A
1 AATTAAATTTATGATAAATA
232397 AATTAAATTT
1 AATTAAATTT
232407 TTAACTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
AATTAAATTTATGATAAATA
Found at i:235946 original size:20 final size:19
Alignment explanation
Indices: 235917--235974 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
235907 GGTAAAAAGA
235917 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
*
235936 CATACATGTATCGATATATT
1 CATA-ATGTATCGATACATT
* *
235956 GAAAAATGTATCGATACAT
1 -CATAATGTATCGATACAT
235975 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.12
20 27 0.82
21 2 0.06
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:236428 original size:49 final size:45
Alignment explanation
Indices: 236348--236477 Score: 134
Period size: 49 Copynumber: 2.8 Consensus size: 45
236338 AGATGAGAGG
* * * *
236348 AGTGCCAATGTGCTAATTCATGGTCAACGACATCGGGCTAAGGGAAA
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGGCTAA--GAAA
* * *
236395 AGTGGACCAATGTGCTGACTCAAGGCCAGCGACATTGGGCTTAGAAA
1 AGT-G-CCAATGTGCTGATTCAAGGCCAGCGACATCGGGCTAAGAAA
* * *
236442 TGTGCCAATATGCTGATTCAAGGCCAGCGATATCGG
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGG
236478 ACTTTAAGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
45 28 0.41
46 1 0.01
47 9 0.13
48 1 0.01
49 30 0.43
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (45 bp):
AGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGGCTAAGAAA
Found at i:236603 original size:32 final size:32
Alignment explanation
Indices: 236502--237289 Score: 694
Period size: 32 Copynumber: 26.2 Consensus size: 32
236492 AAAATGGTGA
* * *
236502 TTTGAAACGGGTTGCCACTGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * ** *
236534 TTTTAAAAGGGTTTCCACCGA-AAGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
236565 TTTTGAAA-GAGGTTCCCATCAACTTGTGTGGGC
1 -TTTGAAATG-GGTTGCCACCGACTTGTGTGGGC
236598 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
236630 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
236662 TTTGAAATGGATTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
236694 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
236726 TTTAAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
236758 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
236790 TTTGAAAT-AG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
236820 TTTGAAA-GGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
236848 TTTGAAAT--GATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
236876 TTTG-AA-GGGATGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
236906 TTTGAAAAGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * ** *
236935 TTTGAAAAGAG-TGCCACTAAC-T-TGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
236964 TTT-AAAAGGG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
236992 TTTGAAA-GGG-TGTCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
237020 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
237052 TTTGAAAAGGGTTGCCACCGAC-T-TGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
237082 TTTGAAAAGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
237111 TTTGAAA-GGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGG-GTTGCCACCGACTTGTGTGGGC
*
237140 TTTGAAA-GGG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* ** *
237168 TTTGAAA-AGAATGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
237197 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
237226 TTTGAAA-GGG-TGTCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
237254 TTTGAAATGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
237283 TTTGAAA
1 TTTGAAA
237290 AGAGTGCCAC
Statistics
Matches: 673, Mismatches: 59, Indels: 51
0.86 0.08 0.07
Matches are distributed among these distances:
27 3 0.00
28 149 0.22
29 172 0.26
30 72 0.11
31 20 0.03
32 249 0.37
33 8 0.01
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:236890 original size:86 final size:86
Alignment explanation
Indices: 236591--237309 Score: 811
Period size: 86 Copynumber: 8.1 Consensus size: 86
236581 CATCAACTTG
* *
236591 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAA-GGG-TGCCACCGACTT-TGTGGGCTTTGAAA-GAG-TGCCACTGAC-T-T
* *
236656 GTGGGCTTTGAAATGGATTGCCACCGACTT
59 GTGGGCTTTGAAAT-GAGTGCCACTGAC-T
* * *
236686 GTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTAAAATGGGTTGCCACCGACTTA
1 -TGTGGGCTTTGAAA-GGG-TGCCACCGACTT-TGTGGGCTTTGAAA-GAG-TGCCACTGAC-T-
*
236751 TGTGGGCTTTGAAATGGGTTGCCACTGACTT
58 TGTGGGCTTTGAAATGAG-TGCCACTGAC-T
** *
236782 GTGTGGGCTTTGAAATAGTGCCACCGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGG
1 -TGTGGGCTTTGAAAGGGTGCCACCGACTT-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGG
236847 CTTTGAAATGA-TGCCACTGACT
64 CTTTGAAATGAGTGCCACTGACT
*
236869 TGTGGGCTTTG-AAGGGATGCCACCAACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
1 TGTGGGCTTTGAAAGGG-TGCCACCGACTT-TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGG
* *
236933 GCTTTGAAAAGAGTGCCACTAACT
63 GCTTTGAAATGAGTGCCACTGACT
* * * * *
236957 TGTGGACTTTAAAAGGGTGCCACTGAC-TTGTGGGCTTTGAAAGGGTGTCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACCGACTTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
* * *
237021 TTTAAATGGGTTGCCACCGACTT
66 TTGAAATGAG-TGCCACTGAC-T
*
237044 GTGTGGGCTTTGAAAAGGGTTGCCACCGAC-TTGTAGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 -TGTGGGCTTTG-AAAGGG-TGCCACCGACTTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTG
*
237108 GGCTTTGAAAGGAGTGCCACTGACT
62 GGCTTTGAAATGAGTGCCACTGACT
* * *
237133 TGTGGGCTTTGAAAGGGTGCCACTGA-TTTGTGGGCTTTGAAAAGAATGCCACTGATTTGTGGGC
1 TGTGGGCTTTGAAAGGGTGCCACCGACTTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGC
* *
237197 TTTGAAAAGAGTGCCACTGATT
65 TTTGAAATGAGTGCCACTGACT
* *
237219 TGTGGGCTTTGAAAGGGTGTCACTGAC-TTGTGGGCTTTGAAATGAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGGTGCCACCGACTTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC
* *
237283 TTTGAAAAGAGTGCCACTGATT
65 TTTGAAATGAGTGCCACTGACT
237305 TGTGG
1 TGTGG
237310 ACTTAAAAGA
Statistics
Matches: 563, Mismatches: 46, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
85 36 0.06
86 198 0.35
87 41 0.07
88 57 0.10
89 12 0.02
90 45 0.08
91 31 0.06
92 9 0.02
93 3 0.01
94 26 0.05
95 2 0.00
96 103 0.18
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.30
Consensus pattern (86 bp):
TGTGGGCTTTGAAAGGGTGCCACCGACTTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
TTGAAATGAGTGCCACTGACT
Found at i:236940 original size:29 final size:29
Alignment explanation
Indices: 236591--237327 Score: 722
Period size: 29 Copynumber: 24.8 Consensus size: 29
236581 CATCAACTTG
* * *
236591 TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T
* * *
236622 GTGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T
* * *
236654 GTGTGGGCTTTGAAATGGATTGCCACCGACTT
1 -TGTGGGCTTTGAAA-AGAGTGCCACTGAC-T
* * *
236686 GTGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T
* *
236718 GTGTGGGCTTT-AAAATGGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAAA-GAG-TGCCACTGAC-T
* *
236750 ATGTGGGCTTTGAAATGGGTTGCCACTGACTT
1 -TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T
* *
236782 GTGTGGGCTTTG-AAATAGTGCCACCGACTT
1 -TGTGGGCTTTGAAAAGAGTGCCACTGAC-T
*
236812 GTGTGGGCTTTG-AAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAAGAGTGCCACTGACT
*
236841 TGTGGGCTTTGAAATGA-TGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
** **
236869 TGTGGGCTTTGAAGGGA-TGCCACCAACTT
1 TGTGGGCTTTGAAAAGAGTGCCACTGAC-T
236898 GTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 -TGTGGGCTTTGAAAAGAGTGCCACTGACT
*
236928 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
236957 TGTGGACTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
236985 TGTGGGCTTTG-AAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
* * * *
237013 TGTGGGCTTTTAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGAC-T
* *
237044 GTGTGGGCTTTGAAAAGGGTTGCCACCGACT
1 -TGTGGGCTTTGAAAAGAG-TGCCACTGACT
*
237075 TGTAGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
*
237104 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
237133 TGTGGGCTTTG-AAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
237161 TGTGGGCTTTGAAAAGAATGCCACTGATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
*
237190 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
* *
237219 TGTGGGCTTTG-AAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
*
237247 TGTGGGCTTTGAAATGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
*
237276 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACT
*
237305 TGTGGAC-TT-AAAAGAGATGCCAC
1 TGTGGGCTTTGAAAAGAG-TGCCAC
237328 GGAGTTATGG
Statistics
Matches: 629, Mismatches: 60, Indels: 36
0.87 0.08 0.05
Matches are distributed among these distances:
27 7 0.01
28 154 0.24
29 196 0.31
30 76 0.12
31 17 0.03
32 175 0.28
33 4 0.01
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACT
Found at i:237360 original size:27 final size:27
Alignment explanation
Indices: 236910--238190 Score: 1385
Period size: 27 Copynumber: 46.2 Consensus size: 27
236900 GTGGGCTTTG
* * * *
236910 AAAAGAGTGCCACTGACTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* ** *
236938 GAAAAGAGTGCCACTAACTTGTGGACTTT
1 -AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * *
236967 AAAAGGGTGCCACTGACTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * * * *
236995 GAAAGGGTGTCACTGACTTGTGGGCTTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC--TT
* * * *
237024 AAATGGGTTGCCACCGACTTGTGTGGGCTTT
1 AAAAGGG-TGCCACGGA-GT-TGTGGAC-TT
* *
237055 GAAAAGGGTTGCCACCGACTTGTAGG-CTTT
1 -AAAAGGG-TGCCACGGAGTTGT-GGAC-TT
* * * *
237085 GAAAAGAGTGCCACTGACTTGTGGGCTTT
1 -AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * * *
237114 GAAAGGAGTGCCACTGACTTGTGGGCTTT
1 AAAAGG-GTGCCACGGAGTTGTGGAC-TT
* * * *
237143 GAAAGGGTGCCACTGATTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
** * * *
237171 GAAAAGAATGCCACTGATTTGTGGGCTTT
1 -AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * * *
237200 GAAAAGAGTGCCACTGATTTGTGGGCTTT
1 -AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * * * *
237229 GAAAGGGTGTCACTGACTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * * * *
237257 GAAATGAGTGCCACTGACTTGTGGGCTTT
1 -AAAAGGGTGCCACGGAGTTGTGGAC-TT
* * *
237286 GAAAAGAGTGCCACTGATTTGTGGACTT
1 -AAAAGGGTGCCACGGAGTTGTGGACTT
* *
237314 AAAAGAGATGCCACGGAGTTATGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGACTT
*
237342 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
**
237369 AAAAGGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
237396 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
237423 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
237450 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
** *
237477 AAAAGAATACCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* **
237505 AAAAGGATGCCACAAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
237532 AAAAGGGATGCCATGGAGTTATGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
*
237560 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
237587 AAAAGGGTGCCATGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
237614 AAAAGGGTGCCACGGAGTTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
237641 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
237669 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
237696 AAAAGAGATGCCATGGAGTTATGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGACTT
237724 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
237751 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
237778 AAAAGGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
237805 AAAAGGGTGCCACGGAGTTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
237832 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
237860 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
237887 AAAAGAGATGCCATGGAGTTATGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGACTT
237915 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
237942 AAAAGGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
237969 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
237996 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
238023 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
** * *
238050 AAAAGAATGCCATGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
238077 AAAAGGGATGCCACGGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
238105 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
238132 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
238159 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
238186 TAAAG
1 AAAAG
238191 AGGTCACAGT
Statistics
Matches: 1129, Mismatches: 105, Indels: 38
0.89 0.08 0.03
Matches are distributed among these distances:
27 609 0.54
28 290 0.26
29 179 0.16
30 21 0.02
31 7 0.01
32 23 0.02
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:237627 original size:191 final size:191
Alignment explanation
Indices: 237264--238190 Score: 1439
Period size: 191 Copynumber: 4.9 Consensus size: 191
237254 TTTGAAATGA
* * * * * *
237264 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGACTTAAAAGAGATGCCACG
1 GTGCCACGGAGTTGTGGACTTT-AAAAGAATGCCACAGAGTTGTGGACTTAAAAGAGATGCCACG
* **
237329 GAGTTATGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGAC
65 GAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
* *
237394 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
130 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGG
* * * *
237456 GTGCCACAGAGTTGTGGAC-TTAAAAGAATACCACGGAGTTGTGGACTTTAAAAG-GATGCCACA
1 GTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACAGAGTTGTGGAC-TTAAAAGAGATGCCACG
* * * * *
237519 AAGTTGTGGACTTAAAAGGGATGCCATGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGA
65 GAGTTATGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* *
237584 CTTAAAAGGGTGCCATGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGG
129 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGG
** *
237647 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCATGG
1 GTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGG
237712 AGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
66 AGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
*
237777 TAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGG
131 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGG
** *
237838 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCATGG
1 GTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGG
*
237903 AGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCT
66 AGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
* *
237968 TAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
131 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGG
* * *
238029 GTGCCACGGAGTTATGGAC-TTAAAAGAATGCCA-TGAAGTTGTGGACTTAAAAGGGATGCCACG
1 GTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACAG-AGTTGTGGACTTAAAAGAGATGCCACG
* *
238092 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC
65 GAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
* *
238157 TTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAG
130 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
238191 AGGTCACAGT
Statistics
Matches: 681, Mismatches: 49, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
189 1 0.00
190 177 0.26
191 439 0.64
192 64 0.09
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.24
Consensus pattern (191 bp):
GTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGG
AGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGG
Found at i:246650 original size:20 final size:19
Alignment explanation
Indices: 246621--246678 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
246611 GGTAAAAAGA
246621 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
*
246640 CATACATGTATCGATATATT
1 CATA-ATGTATCGATACATT
* *
246660 GAAAAATGTATCGATACAT
1 -CATAATGTATCGATACAT
246679 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.12
20 27 0.82
21 2 0.06
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:248702 original size:2 final size:2
Alignment explanation
Indices: 248689--248720 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
248679 ACACTGGCTC
248689 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
248721 TTAGGTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:249826 original size:19 final size:20
Alignment explanation
Indices: 249802--249842 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
249792 ACTCAATTTG
249802 AAATAATAT-TTTTTAATTA
1 AAATAATATATTTTTAATTA
*
249821 AAATAATATATTTTTATTTA
1 AAATAATATATTTTTAATTA
249841 AA
1 AA
249843 TTTAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATAATATATTTTTAATTA
Found at i:249843 original size:19 final size:19
Alignment explanation
Indices: 249796--249843 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
249786 AAATTGACTC
249796 AATTTGAAATAATATTTTTT
1 AATTT-AAATAATATTTTTT
*
249816 AATTAAAATAATATATTTTT
1 AATTTAAATAATAT-TTTTT
249836 -ATTTAAAT
1 AATTTAAAT
249844 TTAATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AATTTAAATAATATTTTTT
Found at i:249907 original size:20 final size:19
Alignment explanation
Indices: 249841--249908 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
249831 TTTTTATTTA
* *
249841 AATTTAATTATAAAATATAT
1 AATTTAATAAAAAAATA-AT
*
249861 AAATATTAATATAAAAATAAT
1 -AAT-TTAATAAAAAAATAAT
**
249882 TTTTTAATAAAATAAATAAT
1 AATTTAATAAAA-AAATAAT
249902 AATTTAA
1 AATTTAA
249909 ACCTAAATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
19 8 0.22
20 13 0.35
21 5 0.14
22 11 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTTAATAAAAAAATAAT
Found at i:251397 original size:35 final size:33
Alignment explanation
Indices: 251352--251419 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
251342 ATTATAAATA
*
251352 TTAAAAATTATGTCATTAAATTTAAATATATATTT
1 TTAAAAATTAT-TAATTAAATTT-AATATATATTT
* * *
251387 TTAATAATTATTAATTATATTTAATATTTATTT
1 TTAAAAATTATTAATTAAATTTAATATATATTT
251420 AATATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 10 0.34
34 9 0.31
35 10 0.34
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (33 bp):
TTAAAAATTATTAATTAAATTTAATATATATTT
Found at i:252605 original size:17 final size:17
Alignment explanation
Indices: 252583--252615 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
252573 CTATAATTTT
252583 AAACATGTAAAATAATG
1 AAACATGTAAAATAATG
*
252600 AAACATGTAACATAAT
1 AAACATGTAAAATAAT
252616 TTTATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (17 bp):
AAACATGTAAAATAATG
Found at i:254845 original size:18 final size:18
Alignment explanation
Indices: 254824--254859 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
254814 TGAATTATAT
254824 AAATA-TTATTAATGATAA
1 AAATATTTA-TAATGATAA
254842 AAATATTTATAATGATAA
1 AAATATTTATAATGATAA
254860 TTTAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
AAATATTTATAATGATAA
Found at i:256986 original size:18 final size:17
Alignment explanation
Indices: 256955--256994 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
256945 TCCTGAAAAT
256955 TAAAA-ATCAAAAACCC
1 TAAAACATCAAAAACCC
256971 TAAAACATCTAAAAACCC
1 TAAAACATC-AAAAACCC
*
256989 CAAAAC
1 TAAAAC
256995 TGATTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 3 0.14
18 13 0.62
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (17 bp):
TAAAACATCAAAAACCC
Found at i:258220 original size:12 final size:12
Alignment explanation
Indices: 258205--258272 Score: 75
Period size: 12 Copynumber: 5.7 Consensus size: 12
258195 ATGGCAATGA
258205 TAATGATGGTGG
1 TAATGATGGTGG
258217 TAATGATGGTGG
1 TAATGATGGTGG
* * *
258229 CAAT-ATGTATGA
1 TAATGATG-GTGG
*
258241 CAATGATGGTGG
1 TAATGATGGTGG
*
258253 TAATGAGGGTGG
1 TAATGATGGTGG
258265 TAATGATG
1 TAATGATG
258273 ATGATGATGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
11 3 0.07
12 40 0.87
13 3 0.07
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (12 bp):
TAATGATGGTGG
Found at i:258283 original size:36 final size:36
Alignment explanation
Indices: 258201--258284 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
258191 AGTAATGGCA
*
258201 ATGATAATGATGGTGGTAATGATGGTGGCAATATGT
1 ATGATAATGATGGTGGTAATGAGGGTGGCAATATGT
* *
258237 ATGACAATGATGGTGGTAATGAGGGTGGTAATGATG-
1 ATGATAATGATGGTGGTAATGAGGGTGGCAAT-ATGT
*
258273 ATGATGATGATG
1 ATGATAATGATG
258285 AGGAGTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 39 0.93
37 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.36, T:0.31
Consensus pattern (36 bp):
ATGATAATGATGGTGGTAATGAGGGTGGCAATATGT
Found at i:264621 original size:49 final size:49
Alignment explanation
Indices: 264507--265162 Score: 607
Period size: 49 Copynumber: 13.9 Consensus size: 49
264497 CGAAGAATGA
* * * * *
264507 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
264554 CAATGTGCTGAGAT-AAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGA-TTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * **
264603 CAATATGCTGATTCAAGGCCAACGATATCGAACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
264652 CAATGTGCTGATACAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
264701 CAATATGCTGATTCAAGGCCAGCAACATCGATCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* *
264750 CAATATGCTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * * *
264799 CAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
264848 CAATATGCTGATT-AACGGCCAACGATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAA-GGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* * *
264887 CAATGTGCTGATTAAAGGCCAGCAACATTGGTCTTAAAG--GCAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG-AAGGTGC
* * *
264935 CAATATGCTGATTCAAGGCCAGTGATATTGGACTT-AAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
* *
264983 CAATATGCTGATTCAAGGCCAGTGATATTAGG-C-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGAAGGTGC
* * *
265022 CAATGTGCTGATTAAAGGCCAGCGACATTGGTTTTAAAG--GCAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG-AAGGTGC
* * * * * *
265070 CAATATACTGATTCAAGGCCAGCGATATTGGACTCAATATGGTAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A-GATGAAGGTGC
* * *
265121 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
265163 CCACAAAGTT
Statistics
Matches: 506, Mismatches: 69, Indels: 66
0.79 0.11 0.10
Matches are distributed among these distances:
38 2 0.00
39 58 0.11
40 4 0.01
43 2 0.00
47 40 0.08
48 109 0.22
49 248 0.49
50 2 0.00
51 41 0.08
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGC
Found at i:264954 original size:48 final size:48
Alignment explanation
Indices: 264883--265159 Score: 252
Period size: 48 Copynumber: 5.9 Consensus size: 48
264873 TATTGGGCTT
* * *
264883 GTGCCAATGTGCTGATTAAAGGCCAGCAACATTGGTCTTAAAGGCAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAG
* * * *
264931 GTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAGATG-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAA-AGGCAAG
* *
264979 GTGCCAATATGCTGATTCAAGGCCAGTGATATTAGG-CTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGGCAAG
* * *
265018 GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTTTTAAAGGCAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAG
* * * * *
265066 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTCAATATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A-GG-CAAG
* * *
265117 GTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
265160 ATGCCACAAA
Statistics
Matches: 191, Mismatches: 23, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
38 2 0.01
39 31 0.16
48 108 0.57
49 6 0.03
50 3 0.02
51 41 0.21
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAG
Found at i:264964 original size:87 final size:87
Alignment explanation
Indices: 264795--264965 Score: 238
Period size: 88 Copynumber: 2.0 Consensus size: 87
264785 AAAGATGAAG
* *
264795 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTAAAGGCCAACAACATCGATCTTAAAGA-GAAGGTGCCAATATGCTGAT
264860 TAACGGCCAACGATATTGGGCTT
65 TAACGGCCAACGATATTGGGCTT
* * *
264883 GTGCCAATGTGCTGATTAAAGGCCAGCAACATTGGTCTTAAAG-GCAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTAAAGGCCAACAACATCGATCTTAAAGAG-AAGGTGCCAATATGCTGAT
**
264947 TCAA-GGCCAGTGATATTGG
65 T-AACGGCCAACGATATTGG
264966 ACTTAAGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
86 1 0.01
87 33 0.45
88 40 0.54
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTAAAGGCCAACAACATCGATCTTAAAGAGAAGGTGCCAATATGCTGATT
AACGGCCAACGATATTGGGCTT
Found at i:265010 original size:135 final size:136
Alignment explanation
Indices: 264599--265151 Score: 594
Period size: 135 Copynumber: 4.0 Consensus size: 136
264589 AAAGATAAAG
* * * * * ** *
264599 GTGCCAATATGCTGATTCAAGGCCAACGATATCGAACTTAAAGATG-AAGGTGCCAATGTGCTGA
1 GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTCTTAAAG--GCAAGGTGCCAATATGCTGA
* * *
264663 TACAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAACA
64 TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAG-----
* * ***
264728 TCGATCTTAAAGATGAAG
124 T-GATATT---G-GGCTT
* * * * *
264746 GTGCCAATATGCTGATTCAAGGCCAGTGACATCGGTCTTAAAGATG-AAGGTGCCAATGTGCTGA
1 GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTCTTAAAG--GCAAGGTGCCAATATGCTGA
* * **
264810 TTCAAGGCCAACGACA-TCGATCTTAAAGATGAAGGTGCCAATATGCTGATT-AACGGCCAACGA
64 TTCAAGGCCAGCGACATTGGA-CTTAAAGATGAAGGTGCCAATATGCTGATTCAA-GGCCAGTGA
264873 TATTGGGCTT
127 TATTGGGCTT
*
264883 GTGCCAATGTGCTGATTAAAGGCCAGCAACATTGGTCTTAAAGGCAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTCTTAAAGGCAAGGTGCCAATATGCTGATT
* *
264948 CAAGGCCAGTGATATTGGACTT-AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATT
66 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATT
*
265012 AGGCTT
131 GGGCTT
* *
265018 GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTTTTAAAGGCAAGGTGCCAATATACTGATT
1 GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTCTTAAAGGCAAGGTGCCAATATGCTGATT
* * * *
265083 CAAGGCCAGCGATATTGGACTCAATATGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATA
66 CAAGGCCAGCGACATTGGACTTAA-A-GATGAAGGTGCCAATATGCTGATTCAAGGCCAGTGATA
265148 TTGG
129 TTGG
265152 ACTTAAAGAT
Statistics
Matches: 360, Mismatches: 38, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
135 125 0.35
136 36 0.10
137 43 0.12
138 40 0.11
141 5 0.01
146 4 0.01
147 107 0.30
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (136 bp):
GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTCTTAAAGGCAAGGTGCCAATATGCTGATT
CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATT
GGGCTT
Found at i:265022 original size:87 final size:87
Alignment explanation
Indices: 264931--265098 Score: 239
Period size: 87 Copynumber: 1.9 Consensus size: 87
264921 TAAAGGCAAG
* * * * *
264931 GTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAGATG-AAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTAAAGGCCAGCGACATTGGACTTAA-AGGCAAGGTGCCAATATACTGAT
*
264995 TCAAGGCCAGTGATATTAGGCTT
65 TCAAGGCCAGCGATATTAGGCTT
* **
265018 GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTTTTAAAGGCAAGGTGCCAATATACTGATT
1 GTGCCAATATGCTGATTAAAGGCCAGCGACATTGGACTTAAAGGCAAGGTGCCAATATACTGATT
265083 CAAGGCCAGCGATATT
66 CAAGGCCAGCGATATT
265099 GGACTCAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 2 0.03
87 69 0.97
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (87 bp):
GTGCCAATATGCTGATTAAAGGCCAGCGACATTGGACTTAAAGGCAAGGTGCCAATATACTGATT
CAAGGCCAGCGATATTAGGCTT
Found at i:265132 original size:51 final size:48
Alignment explanation
Indices: 265018--265159 Score: 167
Period size: 51 Copynumber: 2.9 Consensus size: 48
265008 TATTAGGCTT
* * * ** * *
265018 GTGCCAATGTGCTGATTAAAGGCCAGCGACATTGGTTTTAAAGGCAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAGGAAAG
*
265066 GTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTCAATATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAA-A-GG-AAAG
* *
265117 GTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAG
265160 ATGCCACAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
48 34 0.43
49 2 0.03
50 3 0.04
51 41 0.51
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAGGAAAG
Found at i:265210 original size:34 final size:33
Alignment explanation
Indices: 265156--265281 Score: 94
Period size: 34 Copynumber: 3.8 Consensus size: 33
265146 TATTGGACTT
** * *
265156 AAAGATGCCACAAAGTTGTGGACTTACAGGAAAA
1 AAAGATGCCACGGAGGTGTGGACTTAAAGG-AAA
* *
265190 AAAGATGCCACGGAGGTGTGGGCTTAAAAGGGAA
1 AAAGATGCCACGGAGGTGTGGACTT-AAAGGAAA
* * *
265224 AAGGGTGCCACGGA-GTCGTGGACTTAAAAGG-CA
1 AAAGATGCCACGGAGGT-GTGGACTT-AAAGGAAA
* * *
265257 AAAGGTGCCATGGAGTTGTGGACTT
1 AAAGATGCCACGGAGGTGTGGACTT
265282 TGAAAAGAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
33 23 0.30
34 49 0.64
35 4 0.05
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.18
Consensus pattern (33 bp):
AAAGATGCCACGGAGGTGTGGACTTAAAGGAAA
Found at i:265294 original size:34 final size:33
Alignment explanation
Indices: 265188--265301 Score: 124
Period size: 34 Copynumber: 3.4 Consensus size: 33
265178 CTTACAGGAA
* *
265188 AAAAAGATGCCACGGAGGT-GTGGGCTTAAAAGGG
1 AAAAAGGTGCCACGGA-GTCGTGGACTTAAAA-GG
*
265222 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGG
* * *
265255 CAAAAGGTGCCATGGAGTTGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTCGTGGAC-TT-AAAAGG
265289 AAAAAGGTGCCAC
1 AAAAAGGTGCCAC
265302 TGACTTGTGG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
33 25 0.37
34 39 0.57
35 4 0.06
ACGTcount: A:0.35, C:0.14, G:0.34, T:0.17
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGG
Found at i:265310 original size:34 final size:34
Alignment explanation
Indices: 265188--265316 Score: 113
Period size: 34 Copynumber: 3.8 Consensus size: 34
265178 CTTACAGGAA
* * * *
265188 AAAAAGATGCCACGGAGGTGTGGGC-TTAAAAGGG
1 AAAAAGGTGCCACTGAGTTGTGGACTTTAAAA-GG
* * *
265222 AAAAGGGTGCCACGGAGTCGTGGAC-TTAAAAGG
1 AAAAAGGTGCCACTGAGTTGTGGACTTTAAAAGG
*
265255 CAAAAGGTGCCA-TGGAGTTGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACT-GAGTTGTGGACTTT-AAAAGG
* *
265289 AAAAAGGTGCCACTGACTTGTGGGCTTT
1 AAAAAGGTGCCACTGAGTTGTGGACTTT
265317 TGAAGGTTGC
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
33 22 0.28
34 52 0.66
35 5 0.06
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACTGAGTTGTGGACTTTAAAAGG
Found at i:265435 original size:28 final size:27
Alignment explanation
Indices: 265292--265431 Score: 201
Period size: 28 Copynumber: 5.1 Consensus size: 27
265282 TGAAAAGAAA
265292 AAGG-TGCCACTGACTTGTGGGCTTTTG
1 AAGGTTGCCACTGACTTGTGGGC-TTTG
*
265319 AAGGTTGCCACTGACTTATGGGCTTTG
1 AAGGTTGCCACTGACTTGTGGGCTTTG
* *
265346 AAGAGATGCCACTAACTTGTGGGCTTTG
1 AAG-GTTGCCACTGACTTGTGGGCTTTG
*
265374 AAGAGATGCCACTGACTTGTGGGCTTTTG
1 AAG-GTTGCCACTGACTTGTGGGC-TTTG
265403 AAGGTTGCCACTGACTTGTGGGCTTTG
1 AAGGTTGCCACTGACTTGTGGGCTTTG
265430 AA
1 AA
265432 AGGTGAAGAA
Statistics
Matches: 104, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
27 17 0.16
28 80 0.77
29 7 0.07
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (27 bp):
AAGGTTGCCACTGACTTGTGGGCTTTG
Found at i:266905 original size:29 final size:29
Alignment explanation
Indices: 266867--266944 Score: 110
Period size: 28 Copynumber: 2.8 Consensus size: 29
266857 TCCGGACCCG
266867 TTTTG-TTGTTTGTTTTTTTTTGTTTAT-T
1 TTTTGTTTGTTT-TTTTTTTTTGTTTATGT
266895 TTTTGTTTGTTTTTTTATTTTT-TTTATGT
1 TTTTGTTTGTTTTTTT-TTTTTGTTTATGT
266924 TTTTGTTT-TTTTTTTTTTTTG
1 TTTTGTTTGTTTTTTTTTTTTG
266945 CGAAGGATGC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
27 5 0.11
28 21 0.46
29 20 0.43
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.85
Consensus pattern (29 bp):
TTTTGTTTGTTTTTTTTTTTTGTTTATGT
Found at i:266906 original size:25 final size:25
Alignment explanation
Indices: 266867--266941 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 25
266857 TCCGGACCCG
266867 TTTTGTTGTTTGTTTTTTTTTGTTTA
1 TTTT-TTGTTTGTTTTTTTTTGTTTA
*
266893 TTTTTTGTTTGTTTTTTTATTTTTTTTA
1 TTTTTTGTTTG--TTTTT-TTTTGTTTA
*
266921 TGTTTTTGTTTTTTTTTTTTT
1 T-TTTTTGTTTGTTTTTTTTT
266942 TTGCGAAGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.16
26 8 0.19
27 10 0.23
28 9 0.21
29 9 0.21
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.85
Consensus pattern (25 bp):
TTTTTTGTTTGTTTTTTTTTGTTTA
Found at i:266907 original size:9 final size:8
Alignment explanation
Indices: 266867--266944 Score: 63
Period size: 8 Copynumber: 9.6 Consensus size: 8
266857 TCCGGACCCG
266867 TTTTGTTGT
1 TTTTGTT-T
266876 TTGTT-TTT
1 TT-TTGTTT
266884 TTTTGTTT
1 TTTTGTTT
*
266892 ATTT-TTT
1 TTTTGTTT
*
266899 GTTTGTTT
1 TTTTGTTT
*
266907 TTTTATTT
1 TTTTGTTT
266915 TTTT-TATGT
1 TTTTGT-T-T
266924 TTTTGTTT
1 TTTTGTTT
*
266932 TTTTTTTT
1 TTTTGTTT
266940 TTTTG
1 TTTTG
266945 CGAAGGATGC
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 9 0.16
8 35 0.61
9 10 0.18
10 3 0.05
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.85
Consensus pattern (8 bp):
TTTTGTTT
Found at i:266913 original size:19 final size:19
Alignment explanation
Indices: 266884--266938 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
266874 GTTTGTTTTT
266884 TTTTGTTTATTTTTTGTT-TG
1 TTTT-TTTATTTTTT-TTATG
266904 TTTTTTTATTTTTTTTATG
1 TTTTTTTATTTTTTTTATG
266923 TTTTTGTT-TTTTTTTT
1 TTTTT-TTATTTTTTTT
266939 TTTTTGCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.06
19 25 0.76
20 6 0.18
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.85
Consensus pattern (19 bp):
TTTTTTTATTTTTTTTATG
Found at i:266942 original size:25 final size:24
Alignment explanation
Indices: 266867--266943 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 24
266857 TCCGGACCCG
266867 TTTTGTTGTTTGTTTTTTTTTGTTTAT
1 TTTTGTT-TTTGTTTTTTTTT-TTT-T
*
266894 TTTT-TGTTTGTTTTTTTATTTTTT
1 TTTTGTTTTTGTTTTTTT-TTTTTT
*
266918 TTATGTTTTTGTTTTTTTTTTTTT
1 TTTTGTTTTTGTTTTTTTTTTTTT
266942 TT
1 TT
266944 GCGAAGGATG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
24 12 0.27
25 26 0.58
26 3 0.07
27 4 0.09
ACGTcount: A:0.04, C:0.00, G:0.10, T:0.86
Consensus pattern (24 bp):
TTTTGTTTTTGTTTTTTTTTTTTT
Found at i:266960 original size:1 final size:1
Alignment explanation
Indices: 266879--266943 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
266869 TTGTTGTTTG
* * * * * * * *
266879 TTTTTTTTTGTTTATTTTTTGTTTGTTTTTTTATTTTTTTTATGTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
266944 GCGAAGGATG
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:271924 original size:101 final size:101
Alignment explanation
Indices: 271756--272493 Score: 875
Period size: 101 Copynumber: 7.4 Consensus size: 101
271746 ATGAGAAGAA
* * * * ** *
271756 TGCCAATGTGCTAATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGACAAAGGCGCCAATATGCT
* *
271821 GATTCAAGGCCAGCAATACTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
271858 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCACCAATATACTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
271923 ATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
271959 TGCCAATGTGCTGATTCAA-G---GCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
272020 ATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
272056 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGACAAATGCGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
272121 ATTCAAGGCCAGCGATATTGGGCTTAAAGATGACAAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGG
* * *
272160 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* *
272222 ATTCAAGACCAGCGACATTGGACTTAAAAGATGACAAAGG
66 ATTCAAGGCCAGCGATATTGGACTT-AAAGATG---AAGG
* * *
272262 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCCAATGTGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* **
272318 ATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
272354 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA-A-GA-AGAAAGTGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA-AAGGCGCCAATATGCT
* * *
272416 AATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGG
**
272456 CACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
272494 GTGTCAATGT
Statistics
Matches: 570, Mismatches: 46, Indels: 40
0.87 0.07 0.06
Matches are distributed among these distances:
92 37 0.06
93 1 0.00
95 5 0.01
96 42 0.07
97 90 0.16
98 2 0.00
99 43 0.08
100 1 0.00
101 188 0.33
102 116 0.20
104 45 0.08
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (101 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:271932 original size:52 final size:52
Alignment explanation
Indices: 271757--272493 Score: 879
Period size: 52 Copynumber: 14.7 Consensus size: 52
271747 TGAGAAGAAT
* * * * ** *
271757 GCCAATGTGCTAATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGACAAAGGC
* * *
271810 GCCAATATGCTGATTCAAGGCCAGCAATACTGGACTTAAAGATG---AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
271859 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
* * * *
271911 ACCAATATACTGATTCAAGGCCAACGATATTGGACTTAAAGATG---AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
* *
271960 GCCAATGTGCTGATTCAA-G---GCGACATTGGACTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
* *
272008 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATG---AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
* * * *
272057 GCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGACAAATGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
*
272109 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
*
272161 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
* * *
272210 GCCAATGTGCTGATTCAAGACCAGCGACATTGGACTTAAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGATGACAAAGGC
*
272263 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
* * *
272306 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-GACAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
* * * *
272355 GCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA-A-GA-AGAAAGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA-AAGGC
* * *
272405 GCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
*
272457 ACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
272494 GTGTCAATGT
Statistics
Matches: 592, Mismatches: 63, Indels: 59
0.83 0.09 0.08
Matches are distributed among these distances:
43 38 0.06
44 1 0.00
45 19 0.03
46 1 0.00
48 22 0.04
49 188 0.32
50 53 0.09
51 1 0.00
52 207 0.35
53 62 0.10
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (52 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
Found at i:272318 original size:43 final size:43
Alignment explanation
Indices: 272257--272521 Score: 196
Period size: 43 Copynumber: 5.7 Consensus size: 43
272247 AAAAGATGAC
*
272257 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
272300 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
272343 AAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
1 ------AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
272392 AAAAGAAGAAAGTGCCAATATGCTAATTCAAGGCCAACGACATTGGACTT
1 ---A-AAG---GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
272442 AAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAG--G-----TG--CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
272494 ----GTGTCAATGTGCTGATTCAAGGCTAGCG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCG
272522 GCATTGGTCT
Statistics
Matches: 184, Mismatches: 21, Indels: 38
0.76 0.09 0.16
Matches are distributed among these distances:
39 22 0.12
41 1 0.01
43 40 0.22
45 2 0.01
46 6 0.03
47 4 0.02
49 39 0.21
50 37 0.20
52 33 0.18
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:272421 original size:50 final size:49
Alignment explanation
Indices: 271756--272493 Score: 584
Period size: 49 Copynumber: 14.8 Consensus size: 49
271746 ATGAGAAGAA
* * ** * *
271756 TGCCAATGTGCTAATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATT-GGACTT-AA-A-GACAAAAG
* * * * * ** *
271809 CGCCAATATGCTGATTCAAGGCCAGCAATACTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAAG
* * *
271858 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGA-CA-AAAG
* * ** *
271909 -GCACCAATATACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
1 TG--CCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAAG
* *
271959 TGCCAATGTGCTGATTCAAGG----CGACATTGGACTTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT-AA-A-GACAAAAG
* * * * ** *
272007 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAAG
* * * *
272056 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGACAAATG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT-AA-A-GACAAAAG
* * * * *
272108 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT-AA-A-GACAAAAG
* * * ** *
272160 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAAG
* * * *
272209 TGCCAATGTGCTGATTCAAGACCAGCGACATTGGACTTAAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT--AA-A-GACAAAAG
* * *
272262 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG------G
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAAG
* * *
272305 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAAG
* *
272354 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAAGA-AGAAAG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAAGACA-AAAG
* *
272404 TGCCAATATGCTAATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGA-CA-AAAG
* *
272455 -GCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 TG--CCAATATGCTGATTCAAGGCCAACGACATTGGACTT
272494 GTGTCAATGT
Statistics
Matches: 580, Mismatches: 74, Indels: 63
0.81 0.10 0.09
Matches are distributed among these distances:
43 40 0.07
45 12 0.02
46 2 0.00
47 1 0.00
48 25 0.04
49 185 0.32
50 54 0.09
51 20 0.03
52 176 0.30
53 65 0.11
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAAG
Found at i:272613 original size:28 final size:29
Alignment explanation
Indices: 272542--272625 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
272532 TAGAAGAAGA
272542 TGCCACTAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACTAACTTGTGT--GCTTTTG-AAGGGT
*
272574 TG-CACCAACTTGTGTGCTTTTGAA-GGT
1 TGCCACTAACTTGTGTGCTTTTGAAGGGT
* * *
272601 TGCCACTGACTTGTGGGTTTTTGAA
1 TGCCACTAACTTGTGTGCTTTTGAA
272626 AAGGGGAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 5 0.11
28 20 0.43
29 7 0.15
31 12 0.26
32 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.29, T:0.37
Consensus pattern (29 bp):
TGCCACTAACTTGTGTGCTTTTGAAGGGT
Found at i:272669 original size:27 final size:27
Alignment explanation
Indices: 272637--272690 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
272627 AGGGGAAAGA
272637 TGCCACGAAGTTATGGACTTAAAAGGG
1 TGCCACGAAGTTATGGACTTAAAAGGG
*
272664 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACGAAGTTATGGACTTAAAAGGG
272691 AAAAAGAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.22
Consensus pattern (27 bp):
TGCCACGAAGTTATGGACTTAAAAGGG
Found at i:272759 original size:34 final size:33
Alignment explanation
Indices: 272657--272760 Score: 109
Period size: 34 Copynumber: 3.0 Consensus size: 33
272647 TTATGGACTT
* * *
272657 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-AG
* *
272691 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAG
* *
272726 AAAAAGGTGCCATGGAGTCGTGGACTTAGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTA-AAAAG
272760 A
1 A
272761 GATGCCACTG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
33 3 0.05
34 26 0.45
35 23 0.40
36 6 0.10
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.18
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
Found at i:272779 original size:30 final size:29
Alignment explanation
Indices: 272724--272874 Score: 153
Period size: 31 Copynumber: 5.0 Consensus size: 29
272714 GGCTTTAAAA
*
272724 AGAAAAAGGTGCCA-TGGAGTCGTGGACTT
1 AGAAAAAGATGCCACT-GAGTCGTGGACTT
*
272753 AGAAAAGAGATGCCACTGAGTTGTGGACTT
1 AGAAAA-AGATGCCACTGAGTCGTGGACTT
*
272783 TGAAGGAAAGATGCCACTGAGTCGTGGACTTT
1 AGAA--AAAGATGCCACTGAGTCGTGGAC-TT
* *
272815 GGAACAAA-ATGCCACTGAGTCGTGGGCTT
1 AGAA-AAAGATGCCACTGAGTCGTGGACTT
* *
272844 TGAGAAGAGATTGCCACTGAGTCGTGGACTT
1 AGA-AAAAGA-TGCCACTGAGTCGTGGACTT
272875 TAAAAAGGTA
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
29 12 0.12
30 42 0.40
31 43 0.41
32 7 0.07
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (29 bp):
AGAAAAAGATGCCACTGAGTCGTGGACTT
Found at i:272798 original size:31 final size:30
Alignment explanation
Indices: 272740--272875 Score: 170
Period size: 31 Copynumber: 4.5 Consensus size: 30
272730 AGGTGCCATG
*
272740 GAGTCGTGGACTTAGAA-AAGAGATGCCACT
1 GAGTCGTGGACTTTGAAGAA-AGATGCCACT
*
272770 GAGTTGTGGACTTTGAAGGAAAGATGCCACT
1 GAGTCGTGGACTTTGAA-GAAAGATGCCACT
*
272801 GAGTCGTGGACTTTGGAACAAA-ATGCCACT
1 GAGTCGTGGACTTT-GAAGAAAGATGCCACT
*
272831 GAGTCGTGGGCTTTG-AGAAGAGATTGCCACT
1 GAGTCGTGGACTTTGAAGAA-AGA-TGCCACT
272862 GAGTCGTGGACTTT
1 GAGTCGTGGACTTT
272876 AAAAAGGTAT
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.03
29 2 0.02
30 37 0.40
31 46 0.49
32 5 0.05
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (30 bp):
GAGTCGTGGACTTTGAAGAAAGATGCCACT
Found at i:272827 original size:61 final size:62
Alignment explanation
Indices: 272740--272881 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 62
272730 AGGTGCCATG
*
272740 GAGTCGTGGAC-TTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGGAA-AGA-TGCCACT
1 GAGTCGTGGACTTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTG-A-GAAGAGATTGCCACT
* *
272801 GAGTCGTGGACTTTGGAACAA-A-ATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACT
1 GAGTCGTGGACTTTAGAA-AAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACT
272862 GAGTCGTGGACTTTA-AAAAG
1 GAGTCGTGGACTTTAGAAAAG
272882 GTATTTAAAG
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
59 5 0.07
60 6 0.08
61 53 0.74
62 6 0.08
63 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (62 bp):
GAGTCGTGGACTTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACT
Done.