Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold358
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: 583678
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 2 of 4
Found at i:172324 original size:13 final size:13
Alignment explanation
Indices: 172303--172333 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
172293 CGATACATGG
*
172303 TACAATGTATCGA
1 TACATTGTATCGA
172316 TACATTGTATCGA
1 TACATTGTATCGA
172329 TACAT
1 TACAT
172334 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:172329 original size:33 final size:32
Alignment explanation
Indices: 172287--172353 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
172277 CTATCACTAT
172287 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
172320 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
172353 T
1 T
172354 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:174390 original size:14 final size:14
Alignment explanation
Indices: 174371--174399 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
174361 TGATTTTAAC
174371 GATACGTGAATAGT
1 GATACGTGAATAGT
174385 GATACGTGAATAGT
1 GATACGTGAATAGT
174399 G
1 G
174400 TGAACAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (14 bp):
GATACGTGAATAGT
Found at i:174454 original size:10 final size:10
Alignment explanation
Indices: 174435--174465 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
174425 GTATCGATAC
174435 ATGAACAGTG
1 ATGAACAGTG
*
174445 ATGAATAGTG
1 ATGAACAGTG
174455 ATGAACAGTG
1 ATGAACAGTG
174465 A
1 A
174466 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:174553 original size:53 final size:53
Alignment explanation
Indices: 174489--174625 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
174479 CTACTACCAA
*
174489 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
174542 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
174595 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
174626 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:174732 original size:21 final size:21
Alignment explanation
Indices: 174706--174746 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
174696 GTCAACCTTG
174706 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
174727 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
174747 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:176407 original size:13 final size:13
Alignment explanation
Indices: 176389--176413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
176379 ACTGAAGCAA
176389 TGTATCGATACAT
1 TGTATCGATACAT
176402 TGTATCGATACA
1 TGTATCGATACA
176414 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:177042 original size:23 final size:24
Alignment explanation
Indices: 176997--177043 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
176987 CAAAGAATTG
*
176997 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
177021 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
177044 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:180154 original size:13 final size:13
Alignment explanation
Indices: 180136--180161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
180126 ACTATTTATG
180136 ATGTATCGATACA
1 ATGTATCGATACA
180149 ATGTATCGATACA
1 ATGTATCGATACA
180162 TGAATAGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:180285 original size:53 final size:53
Alignment explanation
Indices: 180205--180341 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
180195 CCACTACCAA
* *
180205 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
180258 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
180311 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
180342 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 64 0.80
54 16 0.20
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:181699 original size:21 final size:21
Alignment explanation
Indices: 181675--181735 Score: 122
Period size: 21 Copynumber: 2.9 Consensus size: 21
181665 AGATATTAAA
181675 AATTGGCTAATGAAAATAATG
1 AATTGGCTAATGAAAATAATG
181696 AATTGGCTAATGAAAATAATG
1 AATTGGCTAATGAAAATAATG
181717 AATTGGCTAATGAAAATAA
1 AATTGGCTAATGAAAATAA
181736 GAAAAATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (21 bp):
AATTGGCTAATGAAAATAATG
Found at i:184375 original size:13 final size:13
Alignment explanation
Indices: 184357--184381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
184347 ACACACAATA
184357 TGTATCGATACAT
1 TGTATCGATACAT
184370 TGTATCGATACA
1 TGTATCGATACA
184382 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:184378 original size:32 final size:33
Alignment explanation
Indices: 184337--184404 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
184327 GTAGCCAAAC
*
184337 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
184369 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
184402 TTG
1 TTG
184405 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:189471 original size:13 final size:13
Alignment explanation
Indices: 189453--189477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
189443 ACACACAATA
189453 TGTATCGATACAT
1 TGTATCGATACAT
189466 TGTATCGATACA
1 TGTATCGATACA
189478 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:189474 original size:32 final size:33
Alignment explanation
Indices: 189433--189500 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
189423 GTAGCCAAAC
*
189433 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
189465 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
189498 TTG
1 TTG
189501 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:194567 original size:13 final size:13
Alignment explanation
Indices: 194549--194573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
194539 ACACACAATA
194549 TGTATCGATACAT
1 TGTATCGATACAT
194562 TGTATCGATACA
1 TGTATCGATACA
194574 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:194570 original size:32 final size:33
Alignment explanation
Indices: 194529--194596 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
194519 GTAGCCAAAC
*
194529 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
194561 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
194594 TTG
1 TTG
194597 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:200765 original size:13 final size:13
Alignment explanation
Indices: 200747--200783 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
200737 ACAGCATTCT
*
200747 TTGTATTGATACA
1 TTGTATCGATACA
200760 TTGTATCGATACA
1 TTGTATCGATACA
*
200773 CTGTATCGATA
1 TTGTATCGATA
200784 TAGGGGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:203223 original size:20 final size:20
Alignment explanation
Indices: 203200--203250 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
203190 CACATTTAAA
203200 TGTATCGATACATGTTGCAT
1 TGTATCGATACATGTTGCAT
203220 TGTATCGATACATGTTGCAT
1 TGTATCGATACATGTTGCAT
203240 TGTATCGATAC
1 TGTATCGATAC
203251 TTGAGAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATGTTGCAT
Found at i:203329 original size:19 final size:20
Alignment explanation
Indices: 203305--203355 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
203295 TAGCCAAACT
**
203305 TGTATCGATACA-CACAGTA
1 TGTATCGATACACCACAAAA
*
203324 TGTATCGATACACCATAAAA
1 TGTATCGATACACCACAAAA
203344 TGTATCGATACA
1 TGTATCGATACA
203356 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCACAAAA
Found at i:205628 original size:13 final size:13
Alignment explanation
Indices: 205610--205637 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
205600 ACAACATTCC
205610 TTGTATCGATACA
1 TTGTATCGATACA
205623 TTGTATCGATACA
1 TTGTATCGATACA
205636 TT
1 TT
205638 AGGTACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:207097 original size:22 final size:23
Alignment explanation
Indices: 207069--207121 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
207059 TTTTTACATA
*
207069 AAGGGGGAGAAGATAAT-TGTTT
1 AAGGGGGAGAAGATAATCCGTTT
207091 AA-GGGG-G-AGATAATCCGTTT
1 AAGGGGGAGAAGATAATCCGTTT
207111 AAGGGGGAGAA
1 AAGGGGGAGAA
207122 TTTTTAAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 7 0.27
20 7 0.27
21 8 0.31
22 3 0.12
23 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.40, T:0.21
Consensus pattern (23 bp):
AAGGGGGAGAAGATAATCCGTTT
Found at i:207103 original size:19 final size:19
Alignment explanation
Indices: 207079--207132 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
207069 AAGGGGGAGA
207079 AGATAATTGTTTAAGGGGG
1 AGATAATTGTTTAAGGGGG
*
207098 AGATAATCCGTTTAAGGGGG
1 AGATAAT-TGTTTAAGGGGG
207118 AG--AATT-TTTAAGGGG
1 AGATAATTGTTTAAGGGG
207133 AGAAAAACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 9 0.28
18 3 0.09
19 7 0.22
20 13 0.41
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.30
Consensus pattern (19 bp):
AGATAATTGTTTAAGGGGG
Found at i:210044 original size:21 final size:21
Alignment explanation
Indices: 210020--210059 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
210010 GATATTAAAA
210020 AATTGGCTAATGAAAATAATG
1 AATTGGCTAATGAAAATAATG
210041 AATTGGCTAATGAAAATAA
1 AATTGGCTAATGAAAATAA
210060 GAAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (21 bp):
AATTGGCTAATGAAAATAATG
Found at i:213784 original size:13 final size:13
Alignment explanation
Indices: 213766--213791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213756 CATTAAGAAA
213766 TGTATCGATACAT
1 TGTATCGATACAT
213779 TGTATCGATACAT
1 TGTATCGATACAT
213792 AGCTTGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:235982 original size:20 final size:21
Alignment explanation
Indices: 235959--236015 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
235949 ACAATTCAAA
**
235959 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGTTAAAGAT
**
235979 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTAAAGAT
236000 GTATCGATACATGTTA
1 GTATCGATACATGTTA
236016 TTGGAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (21 bp):
GTATCGATACATGTTAAAGAT
Found at i:236067 original size:19 final size:19
Alignment explanation
Indices: 236043--236139 Score: 92
Period size: 13 Copynumber: 5.6 Consensus size: 19
236033 TAGCCAAACT
236043 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
236062 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
236075 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
236094 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
236107 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
236128 TGTATCGATACA
1 TGTATCGATACA
236140 TTGGCTTGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 20 0.31
14 2 0.03
15 4 0.06
17 4 0.06
18 1 0.02
19 19 0.30
20 1 0.02
21 13 0.20
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:236084 original size:32 final size:32
Alignment explanation
Indices: 236043--236139 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
236033 TAGCCAAACT
236043 TGTATCGATACACAAAATATGTATCGATACAA
1 TGTATCGATACACAAAATATGTATCGATACAA
236075 TGTATCGATACACAAAATATGTATCGATACAA
1 TGTATCGATACACAAAATATGTATCGATACAA
236107 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC--AAAATATGTATCGATACA
236140 TTGGCTTGTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 45 0.71
34 18 0.29
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAATATGTATCGATACAA
Found at i:242283 original size:45 final size:45
Alignment explanation
Indices: 242214--242316 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
242204 ATGTCCAAAA
*
242214 TGTATCGATACATGTGTTTGTGTATCGATACATCTGGA-AATTCAC
1 TGTATCGATACATGTGTTTGTGTATCGATACAT-TGGACAATACAC
* * *
242259 TGTATCGATACAT-TTTTCTTTGTATCGATACATTGTATCAATACAC
1 TGTATCGATACATGTGTT-TGTGTATCGATACATTGGA-CAATACAC
242305 TGTATCGATACA
1 TGTATCGATACA
242317 GGGGGATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 6 0.12
45 27 0.53
46 18 0.35
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (45 bp):
TGTATCGATACATGTGTTTGTGTATCGATACATTGGACAATACAC
Found at i:242296 original size:13 final size:13
Alignment explanation
Indices: 242278--242316 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
242268 ACATTTTTCT
242278 TTGTATCGATACA
1 TTGTATCGATACA
*
242291 TTGTATCAATACA
1 TTGTATCGATACA
*
242304 CTGTATCGATACA
1 TTGTATCGATACA
242317 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:242471 original size:20 final size:20
Alignment explanation
Indices: 242428--242473 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
242418 AAATCTTTTG
242428 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
242449 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
242469 CAAAA
1 CAAAA
242474 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:244745 original size:224 final size:225
Alignment explanation
Indices: 244350--244798 Score: 758
Period size: 224 Copynumber: 2.0 Consensus size: 225
244340 AGGGGGAGAT
* * * * **
244350 TGTTAGGTTCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGATATTATTTTGAAAATGCC
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGACTGAATAAAACCGAAAATTATTTTGAAAATAAC
*
244415 AAAATTATGTTTTATTCAATTAAGTACTTAATAAATTTTGTACCAAATGATTTTTGATTCATCAA
66 AAAATTATGTTTTATTCAATTAAGTACTTAATAAATTTTGTACCAAATGATTTTTGATTCACCAA
*
244480 ATGTTTTCTAGTTAAGTACAAATGTTTTCAAGGCCTAAAATGATTGATTTTTAAGTTAAAACATA
131 ATGTTTTCTAGTTAAGTACAAATGTTTTCAAAGCCTAAAATGATTGATTTTTAAGTTAAAACATA
244545 TCAAAGTATCGATACATA-GTATTTGTATC
196 TCAAAGTATCGATACATAGGTATTTGTATC
244574 TGTTAGGATCTTGGTTTTGATATAACAAAGGACTGAATAAAACCGAAAATTATTTTGAAAATAAC
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGACTGAATAAAACCGAAAATTATTTTGAAAATAAC
* *
244639 AATAA-TATGTTTTATTCAATTAAGTGCTTTATAAATTTTGTACCAAATGATTTTTGATTCACCA
66 AA-AATTATGTTTTATTCAATTAAGTACTTAATAAATTTTGTACCAAATGATTTTTGATTCACCA
* *
244703 AATGTTTTCTAGTTAAGTATAAATGTTTTCAAAGCTTAAAATGATTGATTTTTAAGTTAAAACAT
130 AATGTTTTCTAGTTAAGTACAAATGTTTTCAAAGCCTAAAATGATTGATTTTTAAGTTAAAACAT
*
244768 ATCAAAGTATTGATACATAGGTATTTGTATC
195 ATCAAAGTATCGATACATAGGTATTTGTATC
244799 AATACATTAA
Statistics
Matches: 210, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
224 197 0.94
225 13 0.06
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (225 bp):
TGTTAGGATCTTGGTTTTGATATAACAAAGGACTGAATAAAACCGAAAATTATTTTGAAAATAAC
AAAATTATGTTTTATTCAATTAAGTACTTAATAAATTTTGTACCAAATGATTTTTGATTCACCAA
ATGTTTTCTAGTTAAGTACAAATGTTTTCAAAGCCTAAAATGATTGATTTTTAAGTTAAAACATA
TCAAAGTATCGATACATAGGTATTTGTATC
Found at i:244974 original size:13 final size:13
Alignment explanation
Indices: 244956--244981 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
244946 TACACCAAGT
244956 ATGTATCGATACA
1 ATGTATCGATACA
244969 ATGTATCGATACA
1 ATGTATCGATACA
244982 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:244979 original size:32 final size:33
Alignment explanation
Indices: 244938--245001 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
244928 TAGCCAAACT
**
244938 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
244970 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
245002 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:251141 original size:13 final size:13
Alignment explanation
Indices: 251123--251148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
251113 ACATTTTTCT
251123 TTGTATCGATACA
1 TTGTATCGATACA
251136 TTGTATCGATACA
1 TTGTATCGATACA
251149 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:253699 original size:19 final size:19
Alignment explanation
Indices: 253677--253740 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 19
253667 TAGCCAAACT
253677 TGTATCGATACACCAAATA
1 TGTATCGATACACCAAATA
253696 TGTATCGAT--A-C--A-A
1 TGTATCGATACACCAAATA
253709 TGTATCGATACACCAAATA
1 TGTATCGATACACCAAATA
253728 TTGTATCGATACA
1 -TGTATCGATACA
253741 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 1 0.03
16 2 0.05
17 1 0.03
18 1 0.03
19 10 0.26
20 12 0.32
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (19 bp):
TGTATCGATACACCAAATA
Found at i:253713 original size:13 final size:13
Alignment explanation
Indices: 253695--253720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
253685 TACACCAAAT
253695 ATGTATCGATACA
1 ATGTATCGATACA
253708 ATGTATCGATACA
1 ATGTATCGATACA
253721 CCAAATATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:253718 original size:32 final size:33
Alignment explanation
Indices: 253677--253740 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
253667 TAGCCAAACT
253677 TGTATCGATACACCAAATA-TGTATCGATACAA
1 TGTATCGATACACCAAATATTGTATCGATACAA
253709 TGTATCGATACACCAAATATTGTATCGATACA
1 TGTATCGATACACCAAATATTGTATCGATACA
253741 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACCAAATATTGTATCGATACAA
Found at i:254671 original size:13 final size:13
Alignment explanation
Indices: 254653--254678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
254643 TACACAAAAT
254653 ATGTATCGATACA
1 ATGTATCGATACA
254666 ATGTATCGATACA
1 ATGTATCGATACA
254679 TTGGCTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:255241 original size:948 final size:932
Alignment explanation
Indices: 253533--255421 Score: 2957
Period size: 948 Copynumber: 2.0 Consensus size: 932
253523 ATAGGTATTT
* *
253533 GTATCAATACATTAAGGTTGACTTAGGCTAAAATTGTCAAAACCCTTAAAAGTATCGATACACAA
1 GTATCAATACATTAAGGTTGACATAGGATAAAATTGTCAAAACCCTTAAAAGTATCGATACACAA
253598 TTCAAAGTATCGATACATGTTGCAATGTATCGATACATGAAAAAGATGTATCGATACATTTCTTG
66 TTCAAAGTATCGATACATGTTGCAATGTATCGATACATGAAAAAGATGTATCGATACATTTCTTG
253663 GCAGTAGCCAAACTTGTATCGATACACCAAATATGTATCGATACAATGTATCGATACACCAAATA
131 GCAGTAGCCAAACTTGTATCGATACACC-AATA--TA-C-AT--AATGTATCGATA-ACC-AATA
253728 TTGTATCGATACATTGGCTTGTAACGGCTAGAAACAGCTATATTTTCAAATATGTATCGATAAAT
187 TTGTATCGATACATTGGCTTGTAACGGCTAGAAACAGCTATATTTTCAAATATGTATCGATAAAT
* * *
253793 CAAAAATTGTATCGATACATTTACACGGGAAATCATTAAAACAAGCTCCAACGAGTCAATAACGG
252 CAAAAATTGTATCGATACATTCACACGGGAAATCATTAAAACAAGCTCCAACAAGCCAATAACGG
* * *
253858 CTAGAAACTCCACTAATCAAACTCCAACGGCTACAACAACATTGAAGCCTATAAATAAGGGCTTC
317 CTAGAAACTCCACCAATCAAACTCCAACGGCTACAACAACATTCAAGCCTATAAATAAGAGCTTC
* *
253923 TAGCAGCAAAACAAAACAAGAGGCAAGAAGAATCAAGCAAGAAACATCTAGCATTCAAAGATCAA
382 CAGCAGCAAAACAAAACAAGAGGCAAGAAGAACCAAGCAAGAAACATCTAGCATTCAAAGATCAA
253988 AGCATTTTATATTTTTTCAAGAGCTTTTGTTCATATTGTCATTATTTTTCTAGATCTTTGTATTT
447 AGCATTTTATATTTTTTCAAGAGCTTTTGTTCATATTGTCATTATTTTTCTAGATCTTTGTATTT
* * *
254053 TGATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTGTTTGTAGTAAAT
512 TAATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTATTTGTAGAAAAT
**
254118 CTTTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAACTTCTTTGGAACTTGTGGTATAGTTC
577 CCGTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAACTTCTTTGGAACTTGTGGTATAGTTC
*
254183 GCAAAGAGATTGTAAGGTTGGTATCTTAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTG
642 GCAAAGAGATTGTAAGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTG
254248 CCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAG
707 CCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAG
*
254313 AGGATGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTA
772 AGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTA
** * *
254378 ATCTCTTTTCGAAATT-GTTTTGTTTCAAAATTTGTTCAAAACCCGAAAATTCGAAAAGAACCAA
837 ATCTCTTTTC--AATTCGAATTG-TGC----TGT-TTCAAAACCCGAAAATTCGAAAAGAACCAA
254442 TTCA-CCCCCCTCTTGGTTCGTTACTTGATAAGCTTTCA
894 TTCACCCCCCCTCTTGGTTCGTTACTTGATAAGCTTTCA
* *
254480 GTATCGATACATTAAGGTTGACATAGGATAAAATTGTCAAAACCCTTAAAAGTGTCGATACACAA
1 GTATCAATACATTAAGGTTGACATAGGATAAAATTGTCAAAACCCTTAAAAGTATCGATACACAA
254545 TTCAAAGTATCGATACATGTTGCAATGTATCGATACATGAAAAAGATGTATCGATACATGTCATT
66 TTCAAAGTATCGATACATGTTGCAATGTATCGATACATGAAAAAGATGTATCGAT--A---C---
254610 GGAATTTCTTGGCAGTAGCCAAACTTGTATCGATACA-C-A-A-A-AT-ATGTATCGAT-A-C-A
123 ---ATTTCTTGGCAGTAGCCAAACTTGTATCGATACACCAATATACATAATGTATCGATAACCAA
* *
254666 -A-TGTATCGATACATTGGCTTGTAACGGCTAGAAACGGCTATATTTTCAAATATGTATCGATAC
185 TATTGTATCGATACATTGGCTTGTAACGGCTAGAAACAGCTATATTTTCAAATATGTATCGATAA
*
254729 ATCAAAAATTGTATCGATACATTCACACGGGAAATCATTAAAATAAGCTCCAAACAAGCCAATAA
250 ATCAAAAATTGTATCGATACATTCACACGGGAAATCATTAAAACAAGCTCC-AACAAGCCAATAA
254794 CGGCTAGAAACTCCACCAATCAAACTCCAACGGCTACAACAACATTCAAGCCTATAAATAAGAGC
314 CGGCTAGAAACTCCACCAATCAAACTCCAACGGCTACAACAACATTCAAGCCTATAAATAAGAGC
* * *
254859 TTCCAGCAGCAAAACACAAGAAGAGAG-AAGTAGAACCAAGCAAGAAACATCTAGCATTCAAAGT
379 TTCCAGCAGCAAAACAAAACAAGAG-GCAAGAAGAACCAAGCAAGAAACATCTAGCATTC-AA--
** *
254923 TTTCTTAGATCAAAGTGTTTTGTA-TTTTTCAAGAGCTTTTGTTCATATTGTCATTATTTTTCTA
440 ------AGATCAAAGCATTTTATATTTTTTCAAGAGCTTTTGTTCATATTGTCATTATTTTTCT-
* *
254987 AGCTCTTTGTA-TTTAATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAATTT
498 AGATCTTTGTATTTTAATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTT
255051 TATTTGTAGAAAAATCCGTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAA-TCTCTTTGGA
563 TATTTGTAG-AAAATCCGTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAACT-TCTTTGGA
*
255115 ACTTGTGGTATAGTTTGCAAAGAGATTGTAAGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTG
626 ACTTGTGGTATAGTTCGCAAAGAGATTGTAAGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTG
255180 TAAGGTTATACCTTTGCCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAG
691 TAAGGTTATACCTTTGCCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAG
255245 GAAGTGTCGAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTC
756 GAAGTGTCGAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTC
*
255310 AAGTTTTCCTTCCCTAATCTCTTTTCATTTCGAATTGTGCTGTTTCAAAACCCGAAAATTCGAAA
821 AAGTTTTCCTTCCCTAATCTCTTTTCAATTCGAATTGTGCTGTTTCAAAACCCGAAAATTCGAAA
255375 AGAACCAATTCACCCCCCCTCTTGGTTCGTTACTTGATAAGCTTTCA
886 AGAACCAATTCACCCCCCCTCTTGGTTCGTTACTTGATAAGCTTTCA
255422 AAGACGCTAA
Statistics
Matches: 879, Mismatches: 36, Indels: 59
0.90 0.04 0.06
Matches are distributed among these distances:
938 109 0.12
939 126 0.14
940 4 0.00
941 34 0.04
942 37 0.04
943 1 0.00
945 10 0.01
946 5 0.01
947 219 0.25
948 294 0.33
949 1 0.00
951 1 0.00
952 1 0.00
954 1 0.00
955 1 0.00
957 1 0.00
958 34 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (932 bp):
GTATCAATACATTAAGGTTGACATAGGATAAAATTGTCAAAACCCTTAAAAGTATCGATACACAA
TTCAAAGTATCGATACATGTTGCAATGTATCGATACATGAAAAAGATGTATCGATACATTTCTTG
GCAGTAGCCAAACTTGTATCGATACACCAATATACATAATGTATCGATAACCAATATTGTATCGA
TACATTGGCTTGTAACGGCTAGAAACAGCTATATTTTCAAATATGTATCGATAAATCAAAAATTG
TATCGATACATTCACACGGGAAATCATTAAAACAAGCTCCAACAAGCCAATAACGGCTAGAAACT
CCACCAATCAAACTCCAACGGCTACAACAACATTCAAGCCTATAAATAAGAGCTTCCAGCAGCAA
AACAAAACAAGAGGCAAGAAGAACCAAGCAAGAAACATCTAGCATTCAAAGATCAAAGCATTTTA
TATTTTTTCAAGAGCTTTTGTTCATATTGTCATTATTTTTCTAGATCTTTGTATTTTAATTTCGA
GCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTATTTGTAGAAAATCCGTGTTGT
CATAAGGTTGTGGTAAACCTTGAGAGAGAACTTCTTTGGAACTTGTGGTATAGTTCGCAAAGAGA
TTGTAAGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTGCCTTAAAGG
TAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAGAGGACGTAG
GTGCCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAATCTCTTTT
CAATTCGAATTGTGCTGTTTCAAAACCCGAAAATTCGAAAAGAACCAATTCACCCCCCCTCTTGG
TTCGTTACTTGATAAGCTTTCA
Found at i:257610 original size:13 final size:13
Alignment explanation
Indices: 257592--257616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
257582 TACAAAGATC
257592 AATGTATCGATAT
1 AATGTATCGATAT
257605 AATGTATCGATA
1 AATGTATCGATA
257617 CATTGAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:257615 original size:33 final size:33
Alignment explanation
Indices: 257573--257636 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
257563 AAATTCCCAG
257573 ATGTATCGATACAAAG-ATCAATGTATCGATATA
1 ATGTATCGATACAAAGAAT-AATGTATCGATATA
**
257606 ATGTATCGATACATTGAATAATGTATCGATA
1 ATGTATCGATACAAAGAATAATGTATCGATA
257637 CATTTCTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATATA
Found at i:257628 original size:20 final size:20
Alignment explanation
Indices: 257603--257640 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
257593 ATGTATCGAT
257603 ATAATGTATCGATACATTGA
1 ATAATGTATCGATACATTGA
257623 ATAATGTATCGATACATT
1 ATAATGTATCGATACATT
257641 TCTTGGCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
ATAATGTATCGATACATTGA
Found at i:257714 original size:21 final size:19
Alignment explanation
Indices: 257668--257721 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
257658 TAGCGATACA
257668 TTGTATCGATACAATACTT
1 TTGTATCGATACAATACTT
* *
257687 ATGTATCGATACATTTACTAT
1 TTGTATCGATACA-ATACT-T
*
257708 TTGTATCGACACAA
1 TTGTATCGATACAA
257722 ATTGTTGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACAATACTT
Found at i:258192 original size:12 final size:12
Alignment explanation
Indices: 258175--258200 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
258165 TATTCCTAAA
258175 GAAGGTCCAATG
1 GAAGGTCCAATG
258187 GAAGGTCCAATG
1 GAAGGTCCAATG
258199 GA
1 GA
258201 TGACGAATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (12 bp):
GAAGGTCCAATG
Found at i:264260 original size:1 final size:1
Alignment explanation
Indices: 264254--264332 Score: 59
Period size: 1 Copynumber: 79.0 Consensus size: 1
264244 ATTATCTTCT
* * * * * ** * *
264254 AAAAAAAACAAAAACAAAAACAAAAAAAAAACAAAAACAAAAAAAAAAATCAAAAATAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
264319 AAACAAAGAAAAAA
1 AAAAAAAAAAAAAA
264333 GAGAGAAAAG
Statistics
Matches: 57, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:264268 original size:6 final size:6
Alignment explanation
Indices: 264257--264325 Score: 88
Period size: 6 Copynumber: 11.5 Consensus size: 6
264247 ATCTTCTAAA
*
264257 AAAAAC AAAAAC AAAAAC AAAAA- AAAAAC AAAAAC AAAAAA AAAAATC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA-C
*
264305 AAAAAT AAAAA- ACAAAAC AAA
1 AAAAAC AAAAAC A-AAAAC AAA
264326 GAAAAAAGAG
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
5 6 0.11
6 44 0.79
7 6 0.11
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:264284 original size:23 final size:23
Alignment explanation
Indices: 264254--264332 Score: 97
Period size: 23 Copynumber: 3.3 Consensus size: 23
264244 ATTATCTTCT
264254 AAAAAAAACAAAAACAAAAACAA
1 AAAAAAAACAAAAACAAAAACAA
*
264277 AAAAAAAACAAAAACAAAAAAAA
1 AAAAAAAACAAAAACAAAAACAA
*
264300 AAATCAAAAATAAAAA-ACAAAACAA
1 AAA--AAAAACAAAAACA-AAAACAA
*
264325 AGAAAAAA
1 AAAAAAAA
264333 GAGAGAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
23 30 0.61
24 1 0.02
25 18 0.37
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (23 bp):
AAAAAAAACAAAAACAAAAACAA
Found at i:264331 original size:17 final size:17
Alignment explanation
Indices: 264254--264332 Score: 95
Period size: 17 Copynumber: 4.5 Consensus size: 17
264244 ATTATCTTCT
*
264254 AAAAAAAACAAAAACAA
1 AAAAAAAAAAAAAACAA
*
264271 AAACAAAAAAAAAACAA
1 AAAAAAAAAAAAAACAA
264288 AAACAAAAAAAAAAATCAA
1 AAA-AAAAAAAAAAA-CAA
*
264307 AAATAAAAAACAAAACAA
1 AAA-AAAAAAAAAAACAA
*
264325 AGAAAAAA
1 AAAAAAAA
264333 GAGAGAAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
17 23 0.43
18 15 0.28
19 16 0.30
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAACAA
Found at i:268622 original size:52 final size:52
Alignment explanation
Indices: 268544--268693 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 52
268534 CGAAATATGA
*
268544 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
268596 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
268648 AAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTA-AT-AGTGTATCGATACAT
268694 TTGAGTAATG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:269612 original size:67 final size:68
Alignment explanation
Indices: 269490--269616 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
269480 ATTGGGTTTT
* * *
269490 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
269555 AGA
66 AGA
* * * *
269558 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
269617 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:269665 original size:122 final size:120
Alignment explanation
Indices: 269450--269670 Score: 302
Period size: 122 Copynumber: 1.8 Consensus size: 120
269440 GATGAGAAAA
* *
269450 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGC
1 ATGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATGAAGGTGCCAATATGC
*
269515 TGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAG
66 TGATTCAAGGCCAGCAATATTGAACTTAAAGATGAAGATGAGAAAAGTGATAAAG
* * * * *
269570 ATGCCAATATGTTGATTCACGGCCAACGATATTGGG-CTTAAAGATGA-GAAAAAGGATGTCAAT
1 ATGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATG---AAGG-TGCCAAT
* *
269633 GTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATG
62 ATGCTGATTCAAGGCCAGCAATATTGAACTTAAAGATG
269671 GAAAAGGTGC
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 1 0.01
119 10 0.11
120 31 0.36
121 4 0.05
122 41 0.47
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (120 bp):
ATGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCAATATTGAACTTAAAGATGAAGATGAGAAAAGTGATAAAG
Found at i:269666 original size:55 final size:54
Alignment explanation
Indices: 269569--269697 Score: 154
Period size: 55 Copynumber: 2.4 Consensus size: 54
269559 AAGTGATAAA
* * * * *
269569 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAG-AAAAG
* * * *
269624 GATGTCAATGTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATG-GAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAGAAAAG
269677 G-TGCCAATATGCTGATTCAAG
1 GATGCCAATATGCTGATTCAAG
269698 CTATATTGGA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 18 0.28
53 6 0.09
54 1 0.02
55 39 0.61
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (54 bp):
GATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAGAAAAG
Found at i:269729 original size:227 final size:225
Alignment explanation
Indices: 269275--269721 Score: 550
Period size: 227 Copynumber: 2.0 Consensus size: 225
269265 TCATTGCAAT
* * * *
269275 GTGCCACTATGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAGGATGAAGAGTGATA
1 GTGCCAATATGCAGATTCAAGGCCAGCAACACTGGACTTAAAAATGAAGAGGATGAAAAGTGATA
*
269340 AAAGGACCAATACGTTGATTCATGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATGTCAA
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATGTCAA
* * * *
269405 TGTGCTGATTCACGGTCAGCGACAATAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAA
131 TGTGCTGATTCAAGGCCAGCGACAATAGACTTAAAGATGAGAAAAATGCCAATATGCTGATTCAA
**
269470 GGCCAACAACATTGGGTTTTAAAGATGATGAAG
196 GG---ACAACATTGGGACTTAAAGATGATGAAG
* * * * *
269503 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGA-GAAAAGTGATA
1 GTGCCAATATGCAGATTCAAGGCCAGCAACACTGGACTTAAAAATGAAGAGGATGAAAAGTGATA
* *
269567 AAGATG-CCAATATGTTGATTCACGGCCAACGATATTGGGCTT-AAAGATGAGAAAAAGGATGTC
66 AA-AGGACCAATACGTTGATTCACGGCCAACGATATTGGG-TTCAAAGATGAGAAAAAGGATGTC
* * * *
269630 AATGTGCTGATTCAAGGCCAGCTA-TATTGAACTTAAAGATG-GAAAAGGTGCCAATATGCTGAT
129 AATGTGCTGATTCAAGGCCAGCGACAATAG-ACTTAAAGATGAGAAAA-ATGCCAATATGCTGAT
* * *
269693 TCAA-G-CTATATT-GGACTTAAAGGTGATGA
192 TCAAGGACAACATTGGGACTTAAAGATGATGA
269722 GGATGAAGAG
Statistics
Matches: 190, Mismatches: 25, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
221 14 0.07
222 5 0.03
226 9 0.05
227 113 0.59
228 49 0.26
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.24
Consensus pattern (225 bp):
GTGCCAATATGCAGATTCAAGGCCAGCAACACTGGACTTAAAAATGAAGAGGATGAAAAGTGATA
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATGTCAA
TGTGCTGATTCAAGGCCAGCGACAATAGACTTAAAGATGAGAAAAATGCCAATATGCTGATTCAA
GGACAACATTGGGACTTAAAGATGATGAAG
Found at i:269774 original size:170 final size:172
Alignment explanation
Indices: 269438--269796 Score: 448
Period size: 170 Copynumber: 2.1 Consensus size: 172
269428 AATAGACTTG
*** *
269438 AAGATGAG-AAAA--ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATG
1 AAGATGAGAAAAAGGATGCCAATGTGCTGATTCAAGGCCAACAACATTGGAACTTAAAGATGATA
*
269500 AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGA
66 AAGGTGCCAATATGCTGATTCAA---CAGCAATATTGGACTTAAAGATGAAGAGGAGAAAAGTGA
* *
269565 TAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTT-A
128 TAAAGAGGCCAATACGTTGATTCACGGCCAACGATATTGGG-TTCA
* * * *
269610 AAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTATATT-GAACTTAAAGATGGA-
1 AAGATGAGAAAAAGGATGCCAATGTGCTGATTCAAGGCCAACAACATTGGAACTTAAAGAT-GAT
* * * *
269673 AAAGGTGCCAATATGCTGATTC-A-AGCTATATTGGACTTAAAGGTGATGAGGATGAAGAGTGAT
65 AAAGGTGCCAATATGCTGATTCAACAGCAATATTGGACTTAAAGATGAAGAGGA-GAAAAGTGAT
*
269736 AAA-AGGACCAATACGTTGATTCATGGCCAACGATATTGGGTTCA
129 AAAGAGG-CCAATACGTTGATTCACGGCCAACGATATTGGGTTCA
269780 AAGATGAGAAAAAGGAT
1 AAGATGAGAAAAAGGAT
269797 AAAGGAGCCA
Statistics
Matches: 164, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
169 29 0.18
170 61 0.37
172 8 0.05
173 5 0.03
174 30 0.18
175 31 0.19
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (172 bp):
AAGATGAGAAAAAGGATGCCAATGTGCTGATTCAAGGCCAACAACATTGGAACTTAAAGATGATA
AAGGTGCCAATATGCTGATTCAACAGCAATATTGGACTTAAAGATGAAGAGGAGAAAAGTGATAA
AGAGGCCAATACGTTGATTCACGGCCAACGATATTGGGTTCA
Found at i:270038 original size:394 final size:398
Alignment explanation
Indices: 269307--270116 Score: 1299
Period size: 394 Copynumber: 2.0 Consensus size: 398
269297 CCTGCAACAC
**
269307 TGGACTTAAAAATGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCATGGCCAACGA
1 TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCATGGCCAACGA
* * * ** *
269372 TATTGGGTTCAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCACGGTCAGCGACAATAGACTT
66 TATTGGGTTCAAAGATGAGAAAAAGGA-GTAAAGGAGCCAATTCACGGTCAGCGACAATAGACTC
* * *
269437 GAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATGAA
130 GAAGATGAGAAAAATGACAATGCGCTGATTCAAGACCAACAACATTGGGTTTTAAAGATGATGAA
269502 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATA
195 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATA
269567 AAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
260 AAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAA
*
269632 TGTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTC-A
325 TGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAA
269696 -AGCTATAT
390 CAGCTATAT
269704 TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCATGGCCAACGA
1 TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCATGGCCAACGA
* * * *
269769 TATTGGGTTCAAAGATGAGAAAAAGGA-TAAAGGAGCCAATAT-GCGG-CTAGCGATATTAGGCT
66 TATTGGGTTCAAAGATGAGAAAAAGGAGTAAAGGAGCCAAT-TCACGGTC-AGCGACAATAGACT
* * * * * **
269831 CGAAGATGTGAAAAATGATAATGCGCTGATTCATGACTAGCGTCATTGGGTTTTAAAGATGATGA
129 CGAAGATGAGAAAAATGACAATGCGCTGATTCAAGACCAACAACATTGGGTTTTAAAGATGATGA
269896 AGGTG-CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGAT
194 AGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGAT
*
269960 AACGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCA
259 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCA
*
270025 ATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCA
324 ATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCA
270090 AGGCCAGCTATAT
389 A---CAGCTATAT
270103 TGGACTTAAAGGTG
1 TGGACTTAAAGGTG
270117 TCAATGTGCT
Statistics
Matches: 381, Mismatches: 25, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
394 186 0.49
395 82 0.22
396 1 0.00
397 90 0.24
399 22 0.06
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.25
Consensus pattern (398 bp):
TGGACTTAAAGGTGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCATGGCCAACGA
TATTGGGTTCAAAGATGAGAAAAAGGAGTAAAGGAGCCAATTCACGGTCAGCGACAATAGACTCG
AAGATGAGAAAAATGACAATGCGCTGATTCAAGACCAACAACATTGGGTTTTAAAGATGATGAAG
GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAA
AGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAAT
GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAC
AGCTATAT
Found at i:270060 original size:55 final size:52
Alignment explanation
Indices: 269965--270472 Score: 329
Period size: 43 Copynumber: 10.6 Consensus size: 52
269955 GTGATAACGA
* * * * * **
269965 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAGG
* * *
270019 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATG
1 -TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* *
270072 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * * *
270115 TGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
270164 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * * * *
270207 TGCCAATGTGCTGATTTAAGGGCAGCTACATTGGACTTAAAGAT-G--AAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
270256 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-------G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* *
270301 T--CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
270348 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* *
270391 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* *
270440 TGCCAACATGCTGATTCAAGGCCAGCTATATTG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTG
270473 GGCTTAGAAG
Statistics
Matches: 376, Mismatches: 48, Indels: 64
0.77 0.10 0.13
Matches are distributed among these distances:
43 148 0.39
44 3 0.01
45 1 0.00
46 1 0.00
47 2 0.01
48 2 0.01
49 144 0.38
51 1 0.00
52 32 0.09
53 5 0.01
54 1 0.00
55 36 0.10
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
Found at i:270141 original size:43 final size:43
Alignment explanation
Indices: 270071--270483 Score: 439
Period size: 43 Copynumber: 9.0 Consensus size: 43
270061 GATGGAAAAT
270071 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * *
270114 GTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAG
*
270163 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * * *
270206 GTGCCAATGTGCTGATTTAAGGGCAGCTACATTGGACTTAAAGATG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G
*
270252 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * * *
270298 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
*
270347 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
270390 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
* *
270439 GTGCCAACATGCTGATTCAAGGCCAGCTATATTGGGCTTAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAG
270483 G
1 G
270484 GTTGCCACCA
Statistics
Matches: 312, Mismatches: 34, Indels: 47
0.79 0.09 0.12
Matches are distributed among these distances:
43 146 0.47
44 8 0.03
45 3 0.01
46 2 0.01
47 3 0.01
48 4 0.01
49 146 0.47
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
Found at i:270205 original size:92 final size:92
Alignment explanation
Indices: 270014--270483 Score: 778
Period size: 92 Copynumber: 5.1 Consensus size: 92
270004 AAGATGAGAA
* *
270014 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 AAAGG-TGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
270079 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
270110 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
270175 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
270202 AAAGGTGCCAATGTGCTGATTTAAGGGCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
270267 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
270294 AAAGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
270359 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
270386 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAACATGC
1 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
270451 TGATTCAAGGCCAGCTATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
270478 AGAAGG
1 A-AAGG
270484 GTTGCCACCA
Statistics
Matches: 354, Mismatches: 19, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
92 302 0.85
93 4 0.01
94 1 0.00
95 42 0.12
96 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (92 bp):
AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:270522 original size:33 final size:33
Alignment explanation
Indices: 270478--270671 Score: 266
Period size: 33 Copynumber: 5.9 Consensus size: 33
270468 TATTGGGCTT
270478 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
270511 AGAATGGTTGCCACCAACTTGTGTGGGCTTTA-
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* ** *
270543 AGAATGGTTGCCACTGACTTGTGTGGGCTTTTG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
270576 A-AAGGATTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* * * * *
270608 AAAAGGGTTGCCACCGACTTATGTAGGCTTTGG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
270641 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTT
270672 TGAAAAGGAG
Statistics
Matches: 142, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
32 56 0.39
33 86 0.61
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:270849 original size:32 final size:31
Alignment explanation
Indices: 270682--271238 Score: 295
Period size: 32 Copynumber: 17.8 Consensus size: 31
270672 TGAAAAGGAG
* * *
270682 AAAGATGCCACGGAGTTGTAGACTTAAAAG-
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
* * *
270712 ---GGTGCTACGGAATTGTGGACTTAAAAGGGA
1 AAAGGTGCCACGGAGTCGTGGACTTAAAA--GA
* * *
270742 AAAGGAGTGCCACAGAGTTGTGGGCTTTGAAAAG-
1 AAA-G-GTGCCACGGAGTCGTGGAC-TT-AAAAGA
* * * *
270776 -AAGATGCAACGGAGTTGTGGACTTTGAAAGGA
1 AAAGGTGCCACGGAGTCGTGGAC-TT-AAAAGA
*
270808 ACAAGGTGCCACGGGGTCGTGGACTTAAAAAGA
1 A-AAGGTGCCACGGAGTCGTGGACTT-AAAAGA
* **
270841 AAAGGTGCCACGGAGTGGTGGGTTTGAAAAGAA
1 AAAGGTGCCACGGAGTCGTGGACTT-AAAAG-A
* *
270874 AAAGGTGCCACGGAGTTGTGGGCTTAAAAG-
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
**
270904 ---GGTGCCACGGAGTCGTGGACTTTGAAGA
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
** * **
270932 AAAAATGCCACTGAGTCGTGGACTT-TGAGA
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
* * * ** *
270962 CAAA-ATGCCACTGAGTCATGGACTTTGAATA
1 -AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
*
270993 AAAGGATGCCACTGAGTCGTGGACTTAAAAGGA
1 AAAGG-TGCCACGGAGTCGTGGACTTAAAA-GA
* *
271026 ACAAGGTGCCACGGGGTTGTGGACTTTGAAAAGGA
1 A-AAGGTGCCACGGAGTCGTGGAC-TT-AAAA-GA
* * * *
271061 AAAGGTGCAACAGAGTTGTGGGCTTAAAAG-
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
**
271091 ---GGTGCCACGGAGTCGTGGACTTTGAAGA
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
** * **
271119 AAAAATGCCACTGAGTCGTGGACTT-TGAGA
1 AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
* * * **
271149 CAAA-ATGCCACTGAGTCATGGACTTTGAAGA
1 -AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
*
271180 AAAGGATGCCACTGAGTCGTGGACTTAAAAGGA
1 AAAGG-TGCCACGGAGTCGTGGACTTAAAA-GA
* *
271213 ACAAGGTGCCACGGGGTTGTGGACTT
1 A-AAGGTGCCACGGAGTCGTGGACTT
271239 TGATGCCACT
Statistics
Matches: 419, Mismatches: 72, Indels: 69
0.75 0.13 0.12
Matches are distributed among these distances:
27 66 0.16
29 1 0.00
30 52 0.12
31 73 0.17
32 77 0.18
33 73 0.17
34 47 0.11
35 24 0.06
36 2 0.00
37 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (31 bp):
AAAGGTGCCACGGAGTCGTGGACTTAAAAGA
Found at i:270869 original size:27 final size:28
Alignment explanation
Indices: 270810--271206 Score: 82
Period size: 31 Copynumber: 12.9 Consensus size: 28
270800 TGAAAGGAAC
* *
270810 AAGGTGCCACGGGGTCGTGGACTTAAAAAGAA
1 AAGGTGCCACGGAGTCGTGGGCTT----AGAA
* *
270842 AAGGTGCCACGGAGTGGTGGGTTTGAAAAGAAA
1 AAGGTGCCACGGAGTCGTGGGCTT----AG-AA
*
270875 AAGGTGCCACGGAGTTGTGGGCTTA-AA
1 AAGGTGCCACGGAGTCGTGGGCTTAGAA
* *
270902 AGGGTGCCACGGAGTCGTGGACTTTGAAGAA
1 AAGGTGCCACGGAGTCGTGGGC-TT--AGAA
** * *
270933 AAAATGCCACTGAGTCGTGGACTTTGAGACA
1 AAGGTGCCACGGAGTCGTGGGC-TT-AGA-A
* * * * *
270964 AA-ATGCCACTGAGTCATGGACTTTGAATAA
1 AAGGTGCCACGGAGTCGTGGGC-TT--AGAA
* *
270994 AAGGATGCCACTGAGTCGTGGACTTAAAAGGAA
1 AAGG-TGCCACGGAGTCGTGGGCTT---A-GAA
* * *
271027 CAAGGTGCCACGGGGTTGTGGACTTTGAAAAGGAA
1 -AAGGTGCCACGGAGTCGTGGGC-TT----A-GAA
* * *
271062 AAGGTGCAACAGAGTTGTGGGCTTA-AA
1 AAGGTGCCACGGAGTCGTGGGCTTAGAA
* *
271089 AGGGTGCCACGGAGTCGTGGACTTTGAAGAA
1 AAGGTGCCACGGAGTCGTGGGC-TT--AGAA
** * *
271120 AAAATGCCACTGAGTCGTGGACTTTGAGACA
1 AAGGTGCCACGGAGTCGTGGGC-TT-AGA-A
* * * *
271151 AA-ATGCCACTGAGTCATGGACTTTGAAGAA
1 AAGGTGCCACGGAGTCGTGGGC-TT--AGAA
* *
271181 AAGGATGCCACTGAGTCGTGGACTTA
1 AAGG-TGCCACGGAGTCGTGGGCTTA
271207 AAAGGAACAA
Statistics
Matches: 300, Mismatches: 43, Indels: 47
0.77 0.11 0.12
Matches are distributed among these distances:
27 40 0.13
28 4 0.01
29 3 0.01
30 56 0.19
31 61 0.20
32 61 0.20
33 43 0.14
34 24 0.08
35 8 0.03
ACGTcount: A:0.31, C:0.16, G:0.32, T:0.21
Consensus pattern (28 bp):
AAGGTGCCACGGAGTCGTGGGCTTAGAA
Found at i:270948 original size:31 final size:31
Alignment explanation
Indices: 270906--271326 Score: 302
Period size: 30 Copynumber: 13.8 Consensus size: 31
270896 CTTAAAAGGG
*
270906 TGCCACGGAGTCGTGGACTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
270937 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* * *
270967 TGCCACTGAGTCATGGACTTTGAATAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA-AA
** **
270999 TGCCACTGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACTGAGTCGTGGACTTTGAA-GAA-AAAA
* * *
271032 TGCCACGGGGTTGTGGACTTTGAA-AAGGAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA--AAAA
* * * * ***
271064 GGTGCAACAGAGTTGTGGGC-TT--A-AAAGGG
1 --TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
271093 TGCCACGGAGTCGTGGACTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
271124 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
271154 TGCCACTGAGTCATGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA-AA
** **
271186 TGCCACTGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACTGAGTCGTGGACTTTGAA-GAA-AAAA
* * *
271219 TGCCACGGGGTTGTGGACTTT---G-----A
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
271242 TGCCACTGAGTCATGGACTTTGAA-AAGAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA-AAAA
*
271273 TGCCACTGAGTCGTGGACTTTG--GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAA-AAA
* *
271303 TGCCACTGAATTGTGGACTTTGAA
1 TGCCACTGAGTCGTGGACTTTGAA
271327 AAGGTATTTG
Statistics
Matches: 307, Mismatches: 55, Indels: 55
0.74 0.13 0.13
Matches are distributed among these distances:
23 17 0.06
27 14 0.05
28 2 0.01
29 3 0.01
30 81 0.26
31 81 0.26
32 46 0.15
33 45 0.15
34 18 0.06
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:270978 original size:61 final size:61
Alignment explanation
Indices: 270906--271325 Score: 312
Period size: 61 Copynumber: 6.9 Consensus size: 61
270896 CTTAAAAGGG
270906 TGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
* * * * ** **
270967 TGCCACTGAGTCATGGACTTTGAATAAAAGGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTCGTGGACTTTGAAGAAAA-AATGCCACTGAGTCGTGGACTT-TGA-G-ACAAAA
* * * * * * *
271032 TGCCACGGGGTTGTGGACTTTGAA-AAGGAAAAGGTGCAACAGAGTTGTGGGC-TT-A-A-AAGG
1 TGCCACGGAGTCGTGGACTTTGAAGAA--AAAA--TGCCACTGAGTCGTGGACTTTGAGACAA-A
*
271092 G
61 A
271093 TGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
* * * ** **
271154 TGCCACTGAGTCATGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTCGTGGACTTTGAAGAAAA-AATGCCACTGAGTCGTGGACTT-TGA-G-ACAAAA
* * * * *
271219 TGCCACGGGGTTGTGGACTTT---G-----ATGCCACTGAGTCATGGACTTTGAAAAGAAAA
1 TGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTG-AGACAAAA
* * * *
271273 TGCCACTGAGTCGTGGACTTTG--GAAAGAGATGCCACTGAATTGTGGACTTTGA
1 TGCCACGGAGTCGTGGACTTTGAAGAAA-AAATGCCACTGAGTCGTGGACTTTGA
271326 AAAGGTATTT
Statistics
Matches: 283, Mismatches: 50, Indels: 53
0.73 0.13 0.14
Matches are distributed among these distances:
54 21 0.07
55 1 0.00
56 21 0.07
58 14 0.05
59 2 0.01
60 8 0.03
61 99 0.35
62 47 0.17
63 2 0.01
64 5 0.02
65 46 0.16
66 3 0.01
67 14 0.05
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (61 bp):
TGCCACGGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:271079 original size:187 final size:187
Alignment explanation
Indices: 270670--271241 Score: 783
Period size: 187 Copynumber: 3.0 Consensus size: 187
270660 TGTGTGGGCT
* * * * * * *
270670 TTTGAAAAGGAGAAAGATGCCACGGAGTTGTAGACTTAAAAGGGTGCTACGGAATTGTGGACTTA
1 TTTGAAAAGGA-AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTCGTGGACTTT
* * * * * * * * **
270735 AAAGGGAAAAGGAGTGCCACAGAGTTGTGGGCTTTGA-AAAGAAGATGCAACGGAGTTGTGGACT
65 GAA--GAAAA--AATGCCACTGAGTCGTGGACTTTGAGACA-AA-ATGCCACTGAGTCATGGACT
* * * * *
270799 TTGAAAGGAACAAGG-TGCCACGGGGTCGTGGACTTAAAAAGAA-AAGGTGCCACGGAGTGGTGG
124 TTG-AA-GAA-AAGGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGG
*
270862 -G
186 AC
*
270863 TTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTCGTGGACTTTG
1 TTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTCGTGGACTTTG
*
270928 AAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTGAATA
66 AAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTGAAGA
270993 AAAGGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGAC
131 AAAGGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGAC
* *
271050 TTTGAAAAGGAAAAGGTGCAACAGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTCGTGGACTTTG
1 TTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTCGTGGACTTTG
271115 AAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTGAAGA
66 AAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTGAAGA
271180 AAAGGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGAC
131 AAAGGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGAC
271237 TTTGA
1 TTTGA
271242 TGCCACTGAG
Statistics
Matches: 346, Mismatches: 29, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
184 4 0.01
185 27 0.08
186 20 0.06
187 207 0.60
188 23 0.07
189 2 0.01
190 5 0.01
192 48 0.14
193 10 0.03
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (187 bp):
TTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTCGTGGACTTTG
AAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGAGTCATGGACTTTGAAGA
AAAGGATGCCACTGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGAC
Found at i:272589 original size:11 final size:11
Alignment explanation
Indices: 272555--272581 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
272545 TTTCTGTGTG
272555 TTTTTTTTGTT
1 TTTTTTTTGTT
272566 TTTTTTTTGTT
1 TTTTTTTTGTT
272577 TTTTT
1 TTTTT
272582 GTTTTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:279552 original size:52 final size:52
Alignment explanation
Indices: 279474--279602 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
279464 TGAAATATGA
* *
279474 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGC
* *
279526 AAATTTACCTGCATGTATCGATACATTTTATAATTTATCAATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGC
*
279578 AAATTTGCCTGCATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACA
279603 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGC
Found at i:279622 original size:52 final size:51
Alignment explanation
Indices: 279474--279622 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
279464 TGAAATATGA
279474 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * * *
279526 AAATTTACCTGCATGTATCGATACATTTTATAATTTATCAATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
279578 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTACCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
279623 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (51 bp):
AAATTTACCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:279629 original size:13 final size:13
Alignment explanation
Indices: 279611--279635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
279601 CAAAGATCAG
279611 TGTATCGATACAA
1 TGTATCGATACAA
279624 TGTATCGATACA
1 TGTATCGATACA
279636 TTTTTTTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:279696 original size:13 final size:13
Alignment explanation
Indices: 279678--279702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
279668 CAAAAAAAAA
279678 TGTATCGATACAT
1 TGTATCGATACAT
279691 TGTATCGATACA
1 TGTATCGATACA
279703 AAACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:279729 original size:17 final size:17
Alignment explanation
Indices: 279691--279741 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
279681 ATCGATACAT
279691 TGTATCGATACAAAACTTTA
1 TGTATCGATAC--AA-TTTA
279711 TGTATCGATACAATTTA
1 TGTATCGATACAATTTA
279728 TGTATCGATA-AATT
1 TGTATCGATACAATT
279742 GTATCGATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.13
17 14 0.45
18 2 0.06
20 11 0.35
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTATCGATACAATTTA
Found at i:280150 original size:61 final size:58
Alignment explanation
Indices: 279963--280227 Score: 330
Period size: 61 Copynumber: 4.6 Consensus size: 58
279953 GGTGTCTACA
* * *
279963 GTGGCATTTTCCAGTCCTTAAAGAGCAGGA--C--GCCTTTCAAAGCCCACACAAGTTG
1 GTGGCACTTT-CAGTCCTCAAAGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTG
280018 GTGGCACCTTTCAGTCCTCAAAGAGCAGGATG----CCTTTCAAAGCCCACACAAGTTG
1 GTGGCA-CTTTCAGTCCTCAAAGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTG
*
280073 GTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTG
1 GTGGCACTTT-CAGTCCTCAAAGAGCAGGATGCTTTC-CTTT-CAAAGCCCACACAAGTTG
* *
280134 GTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCACACGAGTTG
1 GTGGCA-CTTTCAGTCCTCAAAGAGCAGGATG-CTTTCC-TTTCAAAGCCCACACAAGTTG
*
280195 GTGGCACTTGTTAGTCCTCAAAGAGCAGGATGC
1 GTGGCACTT-TCAGTCCTCAAAGAGCAGGATGC
280228 ACTTTATTTT
Statistics
Matches: 188, Mismatches: 8, Indels: 23
0.86 0.04 0.11
Matches are distributed among these distances:
54 3 0.02
55 74 0.39
56 3 0.02
59 1 0.01
60 8 0.04
61 88 0.47
62 11 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (58 bp):
GTGGCACTTTCAGTCCTCAAAGAGCAGGATGCTTTCCTTTCAAAGCCCACACAAGTTG
Found at i:280161 original size:116 final size:114
Alignment explanation
Indices: 279963--280227 Score: 362
Period size: 116 Copynumber: 2.3 Consensus size: 114
279953 GGTGTCTACA
*
279963 GTGGCATTTTCCAGTCCTTAAAGAGCAGGA--CGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
280026 TTTCAGTCCTCAAAGAGCAGGA-TGCC-TTTCAAAGCCCACACAAGTTG
66 TTTCAGTCCTCAAAGAGCAGGACTGCCTTTTCAAAGCCCACACAAGTTG
*
280073 GTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC--GC-CTTT-CAAAGCCCACACAAGTTGGTGG
* *
280138 CACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCACACGAGTTG
62 CACCTTTCAGTCCTCAAAGAGCAGGA---C-TGCCTTTTCAAAGCCCACACAAGTTG
280195 GTGGCACTTGTT--AGTCCTCAAAGAGCAGGATGC
1 GTGGCA-TT-TTCCAGTCCTCAAAGAGCAGGATGC
280228 ACTTTATTTT
Statistics
Matches: 137, Mismatches: 4, Indels: 16
0.87 0.03 0.10
Matches are distributed among these distances:
110 29 0.21
112 1 0.01
114 1 0.01
115 4 0.03
116 48 0.35
121 3 0.02
122 47 0.34
123 2 0.01
124 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (114 bp):
GTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCGCCTTTCAAAGCCCACACAAGTTGGTGGCACC
TTTCAGTCCTCAAAGAGCAGGACTGCCTTTTCAAAGCCCACACAAGTTG
Found at i:280296 original size:42 final size:42
Alignment explanation
Indices: 280208--280306 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
280198 GCACTTGTTA
* *
280208 GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTCTTTCTTTC
1 GTCCTCAAAGAACAGGATGCACTTTATTTCCCTCTTTCTTTC
* * *
280250 GTCCTCAAAGAATAGGATGTA-TTTCATTTCCCTTTTTCCTTT-
1 GTCCTCAAAGAACAGGATGCACTTT-ATTTCCCTCTTT-CTTTC
280292 GTCCTCGAAA-AACAG
1 GTCCTC-AAAGAACAG
280307 CACGTACTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.06
42 38 0.79
43 7 0.15
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (42 bp):
GTCCTCAAAGAACAGGATGCACTTTATTTCCCTCTTTCTTTC
Found at i:280414 original size:40 final size:42
Alignment explanation
Indices: 280317--280416 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
280307 CACGTACTCT
* *
280317 TTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
* * * *
280360 TCTTCCTTTATCCTCAAGGAGCAAGAC-CTATTTC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTTC
280400 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
280417 AAAGTGGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 17 0.35
41 5 0.10
42 22 0.46
43 4 0.08
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
Found at i:281102 original size:20 final size:20
Alignment explanation
Indices: 281077--281129 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
281067 TACCCAGATG
*
281077 TATCGATACATT-TTGCATTA
1 TATCGATACATTGCT-CATTA
*
281097 TATCGATACATTGCTCATTG
1 TATCGATACATTGCTCATTA
281117 TATCGATACATTG
1 TATCGATACATTG
281130 TATCAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (20 bp):
TATCGATACATTGCTCATTA
Found at i:281140 original size:53 final size:53
Alignment explanation
Indices: 281075--281181 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
281065 TTTACCCAGA
* * *
281075 TGTATCGATACATT-TTGCATTATATCGATACATTGCT-CATTGTATCGATACAT
1 TGTATCAATACATTGCT-CATTATATCGATACATT-CTACAATGTATCGATACAT
* *
281128 TGTATCAATACATTGCTCATTGTATCGATACATTTTACAATGTATCGATACAT
1 TGTATCAATACATTGCTCATTATATCGATACATTCTACAATGTATCGATACAT
281181 T
1 T
281182 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 45 0.96
54 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (53 bp):
TGTATCAATACATTGCTCATTATATCGATACATTCTACAATGTATCGATACAT
Found at i:281144 original size:33 final size:33
Alignment explanation
Indices: 281092--281161 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
281082 ATACATTTTG
*
281092 CATTATATCGATACATTGCTCATTGTATCGATA
1 CATTATATCAATACATTGCTCATTGTATCGATA
*
281125 CATTGTATCAATACATTGCTCATTGTATCGATA
1 CATTATATCAATACATTGCTCATTGTATCGATA
281158 CATT
1 CATT
281162 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (33 bp):
CATTATATCAATACATTGCTCATTGTATCGATA
Found at i:281161 original size:13 final size:13
Alignment explanation
Indices: 281112--281142 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
281102 ATACATTGCT
*
281112 CATTGTATCGATA
1 CATTGTATCAATA
281125 CATTGTATCAATA
1 CATTGTATCAATA
281138 CATTG
1 CATTG
281143 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:283611 original size:28 final size:27
Alignment explanation
Indices: 283579--283678 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 27
283569 TCACAATCAG
*
283579 GGATACTCTAACCCCGTTATTTCATCGA
1 GGATACTCCAACCCCGTTATTTC-TCGA
**
283607 GGATACTCCAACCCTATTATTTC-CGA
1 GGATACTCCAACCCCGTTATTTCTCGA
* * *
283633 GGGGATACTCCAACCCCGTCATTTCCTAGG
1 --GGATACTCCAACCCCGTTATTT-CTCGA
283663 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
283679 GTTTTATTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
26 3 0.05
28 55 0.92
29 1 0.02
30 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTTCTCGA
Found at i:283797 original size:79 final size:79
Alignment explanation
Indices: 283634--283804 Score: 229
Period size: 79 Copynumber: 2.2 Consensus size: 79
283624 TATTTCCGAG
* *
283634 GGGATACTCCAACCCCGTCATTTCCTAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCA
1 GGGATACTCCAACCCCGTCATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCA
* * *
283699 ATTTTTCATAATCA
66 ATTCTCCACAATCA
* * *
283713 GGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACA-CT
1 GGGATACTCCAACCCCGTCATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATC-
283777 AATTCTCCACAATC-
65 AATTCTCCACAATCA
*
283791 GAGGATATTCCAAC
1 G-GGATACTCCAAC
283805 TCCGATTTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 2 0.02
79 79 0.98
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTCATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCA
ATTCTCCACAATCA
Found at i:283848 original size:51 final size:51
Alignment explanation
Indices: 283740--283857 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
283730 TTATTTTCGA
* *
283740 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTAATTCTCCACAATC
1 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTCTCCACAATC
* * * * *
283791 GAGGATATTCCAACTCC-GATTTTATTTCCAAAACACCAATT-TCTCACAGTT
1 GGGGATACTCCAACCCCAG-TTTTATTTCCAAAACACCAATTCTC-CACAATC
283842 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
283858 TGTTATTTCT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 3 0.05
51 52 0.95
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAATTCTCCACAATC
Found at i:283996 original size:121 final size:127
Alignment explanation
Indices: 283663--284009 Score: 399
Period size: 121 Copynumber: 2.7 Consensus size: 127
283653 ATTTCCTAGG
* * * *
283663 GGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTT-TCATAATCAGGGATACTCCAA-C
1 GGATACTCCAACTCCGATTTTATTTCCAAAACA-CCATTTTCT-ATAATCAGGGATACTCCAACC
* *
283726 CTCGTTATTTTCGAGGGGATACTCCAACCCC-AGTTTTATTTCTAAAACACTAATTCTCCACAAT
64 CT-GTTATTTTTGAGGGGATACTCCAACCCCGAGCTTTA-TTCT--AACACTAATTCTCCACAAT
283790 CGA
125 CGA
* * * * **
283793 GGATATTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAGTTGGGGATACTCCAACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCATTTTCT-ATAATCAGGGATACTCCAACCC
*
283858 TGTTATTTCTGAGGGGATACTCCAACCCCGA-CTTTA-T-T-AC-C-AATT-TCCACAATCGA
65 TGTTATTTTTGAGGGGATACTCCAACCCCGAGCTTTATTCTAACACTAATTCTCCACAATCGA
* * * *
283914 GGATACTCCAACTCCGATTTTATTTTCAAAATACTGATTTTCTATAATCAGGGATACTTCAACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACAC-CATTTTCTATAATCAGGGATACTCCAACCC
283979 TGTTATTTTTGAGGGGATACTCCAACCCCGA
65 TGTTATTTTTGAGGGGATACTCCAACCCCGA
284010 TTTTTATTTC
Statistics
Matches: 189, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
121 89 0.47
122 10 0.05
123 1 0.01
124 2 0.01
127 1 0.01
128 1 0.01
129 5 0.03
130 76 0.40
131 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (127 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACACCATTTTCTATAATCAGGGATACTCCAACCCT
GTTATTTTTGAGGGGATACTCCAACCCCGAGCTTTATTCTAACACTAATTCTCCACAATCGA
Found at i:289564 original size:19 final size:18
Alignment explanation
Indices: 289539--289606 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
289529 AATTCAACGA
289539 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
289557 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
289573 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
289589 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
289607 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 27 0.63
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:289577 original size:32 final size:32
Alignment explanation
Indices: 289541--289603 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
289531 TTCAACGATT
*
289541 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
289573 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
289604 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:289578 original size:13 final size:13
Alignment explanation
Indices: 289560--289584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
289550 ACATAAGTGT
289560 TGTATCGATACAA
1 TGTATCGATACAA
289573 TGTATCGATACA
1 TGTATCGATACA
289585 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:289661 original size:13 final size:13
Alignment explanation
Indices: 289643--289670 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
289633 ATACATTACT
289643 CATTGTATCGATA
1 CATTGTATCGATA
289656 CATTGTATCGATA
1 CATTGTATCGATA
289669 CA
1 CA
289671 CTGATCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:289668 original size:33 final size:33
Alignment explanation
Indices: 289626--289691 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
289616 GCCAAGAAAA
*
289626 TGTATCGATACA-TTACTCATTGTATCGATACAT
1 TGTATCGATACACTGA-TCATTGTATCGATACAT
*
289659 TGTATCGATACACTGATCTTTGTATCGATACAT
1 TGTATCGATACACTGATCATTGTATCGATACAT
289692 GCAGGCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACACTGATCATTGTATCGATACAT
Found at i:293126 original size:13 final size:13
Alignment explanation
Indices: 293108--293142 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
293098 TTTCACCATA
293108 TATCGATACAATG
1 TATCGATACAATG
*
293121 TATCGATACACTG
1 TATCGATACAATG
293134 TATCGATAC
1 TATCGATAC
293143 TGAGTGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:293230 original size:20 final size:19
Alignment explanation
Indices: 293183--293236 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
293173 TATTGATATC
293183 AATATGTATCGATACCAAG
1 AATATGTATCGATACCAAG
* *
293202 AACATGTATCGATACTAAG
1 AATATGTATCGATACCAAG
293221 TAATATGTATCGATAC
1 -AATATGTATCGATAC
293237 ATCTGGGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (19 bp):
AATATGTATCGATACCAAG
Found at i:305355 original size:13 final size:13
Alignment explanation
Indices: 305336--305375 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
305326 ATAGTAACCC
305336 ATGTATCGATACA
1 ATGTATCGATACA
* *
305349 TTGTATCCATACA
1 ATGTATCGATACA
305362 ATGTATCGATACA
1 ATGTATCGATACA
305375 A
1 A
305376 AAAACATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:310912 original size:52 final size:51
Alignment explanation
Indices: 310827--310950 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 51
310817 ATATGAAAAG
* *
310827 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAA
*
310878 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTAGGCAAA
310930 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
310951 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 21 0.31
52 42 0.62
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAA
Found at i:310963 original size:51 final size:50
Alignment explanation
Indices: 310827--310970 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 50
310817 ATATGAAAAG
* *
310827 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTAGGCAAAT
*
310879 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTAGGCAAAT
310930 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
310971 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.40
52 41 0.49
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTAGGCAAAT
Found at i:310977 original size:13 final size:13
Alignment explanation
Indices: 310959--310983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
310949 CAAAGATCAG
310959 TGTATCGATACAA
1 TGTATCGATACAA
310972 TGTATCGATACA
1 TGTATCGATACA
310984 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:311064 original size:13 final size:13
Alignment explanation
Indices: 311046--311070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
311036 CAGAAAAATA
311046 TGTATCGATACAT
1 TGTATCGATACAT
311059 TGTATCGATACA
1 TGTATCGATACA
311071 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:311968 original size:175 final size:170
Alignment explanation
Indices: 311612--311986 Score: 400
Period size: 170 Copynumber: 2.2 Consensus size: 170
311602 CCACTGTGCA
* ** * *
311612 GATTCAAGGCCTGCCACCCTGGACTTAAAGATGATGAGGATGAAGAGCGATAAAAGGACCAATAC
1 GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
311677 GTTGATTCACGGCCAACGATATTGGGTTCAAAGATAAGAAAAAGGATAAAAGAGCCAATATGCGG
66 GTTGATTCACGGCCAACGATATTGGGTTCAAAGATAAGAAAAAGGATAAAAGAGCCAATATGCGG
* * * *
311742 CTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
131 CCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCT
* * * *
311782 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATA
1 GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAA-AGGACCAATA
* * * * * * **
311845 TGTTGATTCATGGCCAACGATATTGGGCTT-AAAGATGACGAAAAAGGATGTCAATGTGCTGAT-
65 CGTTGATTCACGGCCAACGATATTGGG-TTCAAAGAT-AAGAAAAAGGA--TAAAAGAGCCAATA
* *
311908 T-CAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCT
126 TGC--GGCCAGCGACATTGAACTTAAAGAT---AAAGGTGCCAATATGCT
* *
311957 GATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATTCAAGGCCAGCCACATTGGACTTAAAG
311987 GTGCCAATGT
Statistics
Matches: 170, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
169 48 0.28
170 49 0.29
171 1 0.01
172 29 0.17
175 43 0.25
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (170 bp):
GATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
GTTGATTCACGGCCAACGATATTGGGTTCAAAGATAAGAAAAAGGATAAAAGAGCCAATATGCGG
CCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCT
Found at i:312105 original size:49 final size:49
Alignment explanation
Indices: 311896--312781 Score: 1128
Period size: 49 Copynumber: 18.7 Consensus size: 49
311886 AAAAGGATGT
*
311896 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
311948 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
311991 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
312039 CAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
312088 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
312136 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
312185 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
312234 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
312277 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
312326 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
312369 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
312418 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
312461 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
312510 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
312553 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
312602 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
312654 TAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
312697 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
312746 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
312782 GAAGGGTTGC
Statistics
Matches: 727, Mismatches: 66, Indels: 85
0.83 0.08 0.10
Matches are distributed among these distances:
43 227 0.31
45 4 0.01
47 5 0.01
48 95 0.13
49 328 0.45
52 68 0.09
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:312325 original size:92 final size:92
Alignment explanation
Indices: 311887--312781 Score: 1149
Period size: 92 Copynumber: 9.5 Consensus size: 92
311877 AGATGACGAA
* * * *
311887 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAAT
311952 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
311983 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
* *
312047 TGATTCAAGGCCAGCTACATTAGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
312074 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
* *
312138 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
312171 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
*
312236 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
312269 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
312334 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
312361 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
312426 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
312453 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
312518 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * *
312545 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
* *
312610 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTATATTGGAC-T-----T
* * * * *
312643 GGAAAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
312702 TGCTGAGTCAAGGCCAGCTACATTGGACTT
63 TGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
312732 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
312782 GAAGGGTTGC
Statistics
Matches: 746, Mismatches: 31, Indels: 47
0.91 0.04 0.06
Matches are distributed among these distances:
87 3 0.00
88 1 0.00
89 2 0.00
91 38 0.05
92 392 0.53
93 1 0.00
94 3 0.00
95 78 0.10
96 6 0.01
97 143 0.19
98 37 0.05
99 1 0.00
100 2 0.00
101 39 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:312850 original size:34 final size:34
Alignment explanation
Indices: 312781--312850 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 34
312771 TATTGGGCTT
*
312781 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTAGGA
312815 AGAA-GGTTGCCACCGACTTGTGTGGGCTCTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCT-TAGGA
312849 AG
1 AG
312851 GGAGAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.20, C:0.19, G:0.37, T:0.24
Consensus pattern (34 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTAGGA
Found at i:312893 original size:34 final size:32
Alignment explanation
Indices: 312855--313460 Score: 422
Period size: 34 Copynumber: 18.6 Consensus size: 32
312845 AGGAAGGGAG
*
312855 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTAAAA-GG-AA
*
312890 AAGAGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AA-AGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
312920 AGAGTGCCACAGAGTCGTGGGCTTTGAAAA-GAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
312953 GAAGGTGCCACAGAGTTGTGGGCTTTAAA-G--
1 -AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
**
312983 --AGTGCCACGGAGTCATGGGCTTTGAAAAGAGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAAG-G-AA
313017 AAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
313051 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
1 AAA-GTGCCACGGAGTTGTGGGC-TT-AAAA-GG-AA
*
313088 AAGAGTGCCACAGAGTTGTGGGCTTTAAAA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
313121 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
1 AAA-GTGCCACGGAGTTGTGGGC-TT-AAAA-GG-AA
*
313158 AAGAGTGCCACAGAGTTGTGGGCTTTAAAA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
313191 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAA-GTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
313225 AAAGGTGCCACGGAGTTGTAGGCTTAAACGG--
1 AAA-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
313256 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
* *
313287 AAAGTGCCACAGAATTGTGGGCTTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
313318 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
*
313349 AAAGTGCCACGGAATTGTGGGCTTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
313380 ---GTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
313409 CAAGGTGCCACGGAGTTGTGGGCTTTAAA-GAA
1 -AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
313441 AAAATGCCACTGAGTCGTGG
1 AAAGTGCCACGGAGTTGTGG
313461 ACTTTGAGAC
Statistics
Matches: 471, Mismatches: 47, Indels: 110
0.75 0.07 0.18
Matches are distributed among these distances:
27 51 0.11
28 36 0.08
29 23 0.05
30 5 0.01
31 17 0.04
32 11 0.02
33 90 0.19
34 114 0.24
35 35 0.07
36 15 0.03
37 72 0.15
38 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:312969 original size:98 final size:98
Alignment explanation
Indices: 312855--313465 Score: 444
Period size: 98 Copynumber: 6.3 Consensus size: 98
312845 AGGAAGGGAG
* * *
312855 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
1 AAAGGTGCCACAGAGTTGTGGGCTTTAAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
* *
312918 AAAGAGTGCCACAGAGTCGTGGGCTTTGAAAAGAA
64 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* **
312953 GAAGGTGCCACAGAGTTGTGGGCTTT-------AAAGAGTGCCACGGAGTCATGGGCTTTGAAAA
1 AAAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-----
313011 GAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAACAGAA
61 -A-AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA-AGAA
* *
313051 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACAGAGTTGTGGGCTTT-AAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTT-A
*
313116 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
62 AA-AAAGA-GTGCCACGGAGTTGTGGGCTTTGAAAA--GAA
313157 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAG-GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AA
* * *
313221 AGAAAAAGGTGCCACGGAGTTGTAGGC-TT-AAACG--
63 A-AAAGA-GTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* * * *
313255 ---GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCACAGAATTGTGGGCTTT--A
1 AAAGGTGCCACAGAGTTGTGGGCTTTAAA-A-GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
* *
313313 AAAGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAA
64 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAA-A-GAA
* * * *
313348 AAAAGTGCCACGGAATTGTGGGCTTTAAAAG-----G-GTGCCACGGAGTTGTGGAC-TTAAAAG
1 AAAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-
*
313406 GAACAAGGTGCCACGGAGTTGTGGGCTTT--AAAGAA
65 -AA-GA-GTGCCACGGAGTTGTGGGCTTTGAAAAGAA
* * * *
313441 AAA-ATGCCACTGAGTCGTGGACTTT
1 AAAGGTGCCACAGAGTTGTGGGCTTT
313466 GAGACAAAAT
Statistics
Matches: 425, Mismatches: 42, Indels: 98
0.75 0.07 0.17
Matches are distributed among these distances:
89 24 0.06
90 44 0.10
91 4 0.01
92 17 0.04
93 13 0.03
94 19 0.04
95 48 0.11
96 20 0.05
97 8 0.02
98 74 0.17
99 2 0.00
100 1 0.00
102 5 0.01
103 28 0.07
104 59 0.14
105 3 0.01
106 11 0.03
107 21 0.05
108 24 0.06
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (98 bp):
AAAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
Found at i:313029 original size:37 final size:34
Alignment explanation
Indices: 312979--313437 Score: 453
Period size: 34 Copynumber: 13.9 Consensus size: 34
312969 TGTGGGCTTT
**
312979 AAAGAGTGCCACGGAGTCATGGGCTTTGAAAAGAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
*
313016 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
313051 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
*
313087 AAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
313121 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
*
313157 AAAGAGTGCCACAGAGTTGTGGGCTTT-AAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
313191 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
313225 AAAGGTGCCACGGAGTTGTAGGC-TT-AAACG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
313255 ---GGTGCCACGGAGTTGTGGAC-TTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAGAA
* * *
313286 AAAAGTGCCACAGAATTGTGGGCTTT-AAAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
313317 ---GGTGCCACGGAGTTGTGGAC-TTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAGAA
* *
313348 AAAAGTGCCACGGAATTGTGGGCTTT-AAAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
313379 ---GGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
313409 CAAGGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAA
313438 GAAAAAATGC
Statistics
Matches: 355, Mismatches: 36, Indels: 65
0.78 0.08 0.14
Matches are distributed among these distances:
27 24 0.07
28 41 0.12
29 4 0.01
32 4 0.01
33 67 0.19
34 107 0.30
35 24 0.07
36 17 0.05
37 67 0.19
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
Found at i:313153 original size:70 final size:69
Alignment explanation
Indices: 312979--313465 Score: 519
Period size: 70 Copynumber: 7.4 Consensus size: 69
312969 TGTGGGCTTT
** * *
312979 AAAGAGTGCCACGGAGTCATGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
313044 AACAGAA
64 AA-AGAA
* *
313051 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
313116 AAGAA
65 AAGAA
* *
313121 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
313186 AAGAA
65 AAGAA
* * *
313191 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTAGGC-TTAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
*
313253 CG--
66 AGAA
* * *
313255 ---GGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAA-AGTGCCACAGAATTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
313314 AAG--
65 AAGAA
* *
313317 ---GGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
313376 AAG--
65 AAGAA
*
313379 ---GGTGCCACGGAGTTGTGGAC-TTAAAA-GGAACAAG-GTGCCACGGAGTTGTGGGCTTT-AA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
313437 AGAA
66 AGAA
* * *
313441 AAA-ATGCCACTGAGTCGTGGACTTT
1 AAAGGTGCCACGGAGTTGTGGACTTT
313466 GAGACAAAAT
Statistics
Matches: 382, Mismatches: 21, Indels: 31
0.88 0.05 0.07
Matches are distributed among these distances:
59 3 0.01
60 6 0.02
61 67 0.18
62 89 0.23
63 3 0.01
64 16 0.04
65 2 0.01
66 6 0.02
67 17 0.04
68 7 0.02
69 4 0.01
70 100 0.26
71 58 0.15
72 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (69 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
AGAA
Found at i:313266 original size:27 final size:27
Alignment explanation
Indices: 313228--313403 Score: 97
Period size: 28 Copynumber: 5.9 Consensus size: 27
313218 AAAAGAAAAA
313228 GGTGCCACGGAGTTGTAGG-CTTAAACG
1 GGTGCCACGGAGTTGT-GGACTTAAACG
313255 GGTGCCACGGAGTTGTGGACTTAAA-G
1 GGTGCCACGGAGTTGTGGACTTAAACG
* * * *
313281 ATGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAAG
1 --G------GTGCCACGGAGTTGTGGAC-TTAAACG
313317 GGTGCCACGGAGTTGTGGACTTAAA-G
1 GGTGCCACGGAGTTGTGGACTTAAACG
* * *
313343 ATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG
1 --G------GTGCCACGGAGTTGTGGAC-TTAAACG
313379 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
313404 AGGAACAAGG
Statistics
Matches: 118, Mismatches: 10, Indels: 42
0.69 0.06 0.25
Matches are distributed among these distances:
26 4 0.03
27 32 0.27
28 35 0.30
34 35 0.30
35 10 0.08
36 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAACG
Found at i:313476 original size:30 final size:31
Alignment explanation
Indices: 313381--313498 Score: 121
Period size: 30 Copynumber: 3.8 Consensus size: 31
313371 TTTAAAAGGG
* * * **
313381 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACTGAGTCGTGGACTTTAAA-GAA-AAAA
* * *
313414 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
* *
313445 TGCCACTGAGTCGTGGACTTT-GAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
313475 TGCCACTGAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
313499 AAGGTATTTG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 28 0.38
31 21 0.28
32 3 0.04
33 22 0.30
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
Found at i:321793 original size:52 final size:51
Alignment explanation
Indices: 321708--321831 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
321698 ATATGAAAAG
* *
321708 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
321759 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
321811 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
321832 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:321844 original size:51 final size:50
Alignment explanation
Indices: 321708--321851 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
321698 ATATGAAAAG
* *
321708 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
321760 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
321811 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
321852 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:321858 original size:13 final size:13
Alignment explanation
Indices: 321840--321864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
321830 CAAAGATCAG
321840 TGTATCGATACAA
1 TGTATCGATACAA
321853 TGTATCGATACA
1 TGTATCGATACA
321865 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:321945 original size:13 final size:13
Alignment explanation
Indices: 321927--321951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
321917 CAGAAAAATA
321927 TGTATCGATACAT
1 TGTATCGATACAT
321940 TGTATCGATACA
1 TGTATCGATACA
321952 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:325709 original size:13 final size:13
Alignment explanation
Indices: 325691--325716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
325681 ACACACAATA
325691 TGTATCGATACAT
1 TGTATCGATACAT
325704 TGTATCGATACAT
1 TGTATCGATACAT
325717 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:325732 original size:33 final size:32
Alignment explanation
Indices: 325671--325738 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
325661 GTAGCCAAAT
*
325671 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
325703 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
325736 TTG
1 TTG
325739 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:331909 original size:33 final size:33
Alignment explanation
Indices: 331861--331923 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
331851 AAAACTCAGA
*
331861 TGTATCGATATAGCATTCTCTGTATCGATACAG
1 TGTATCGATACAGCATTCTCTGTATCGATACAG
*
331894 TGTATTGATACAGCATTCTCTGTATCGATA
1 TGTATCGATACAGCATTCTCTGTATCGATA
331924 GAAGGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAGCATTCTCTGTATCGATACAG
Found at i:331923 original size:20 final size:20
Alignment explanation
Indices: 331861--331923 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
331851 AAAACTCAGA
*
331861 TGTATCGATATAGCATTCTC
1 TGTATCGATACAGCATTCTC
331881 TGTATCGATACAG-------
1 TGTATCGATACAGCATTCTC
*
331894 TGTATTGATACAGCATTCTC
1 TGTATCGATACAGCATTCTC
331914 TGTATCGATA
1 TGTATCGATA
331924 GAAGGGGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
13 12 0.36
20 21 0.64
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAGCATTCTC
Found at i:334414 original size:13 final size:13
Alignment explanation
Indices: 334396--334420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
334386 AGATTGCACA
334396 GTATCGATACATT
1 GTATCGATACATT
334409 GTATCGATACAT
1 GTATCGATACAT
334421 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:334433 original size:20 final size:21
Alignment explanation
Indices: 334408--334460 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
334398 ATCGATACAT
**
334408 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
334428 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
334449 TGTATCGATACA
1 TGTATCGATACA
334461 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:334537 original size:20 final size:20
Alignment explanation
Indices: 334494--334545 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
334484 TAGCCAAATT
*
334494 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
*
334513 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
334533 TGTATCGATACAT
1 TGTATCGATACAT
334546 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:335929 original size:20 final size:19
Alignment explanation
Indices: 335904--335959 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
335894 TACTGCCAGT
*
335904 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACA-ATG
*
335924 TTCATGTATCAATACAATG
1 TTCATGTATCGATACAATG
**
335943 AACATGTATCGATACAA
1 TTCATGTATCGATACAA
335960 AGCATAATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:342851 original size:104 final size:103
Alignment explanation
Indices: 342667--342883 Score: 357
Period size: 104 Copynumber: 2.1 Consensus size: 103
342657 AACGTACTTG
342667 ATTCTAAAGTAAATTACTAATATGCCTCATAAAGTATACTTTTGACATAAAAGTATCTAATAACC
1 ATTCTAAAGTAAATTACTAATATGCCTCATAAAGTATACTTTTGACATAAAAGTATCTAATAACC
* * *
342732 TTAAAGGGCTTGATAATATTATGAAACGACTAACCTTA
66 TTAAAGGGCTCGATAATATCATGAAACGAATAACCTTA
*
342770 ATTCTAAATTAAATTACTAATATTGCCTCATAAAGTATACTTTTGACATAAAAGTATCTAATAAC
1 ATTCTAAAGTAAATTACTAATA-TGCCTCATAAAGTATACTTTTGACATAAAAGTATCTAATAAC
*
342835 CTTAAAGGGCTCGATAATATCATGAAATGAATAACC-T-
65 CTTAAAGGGCTCGATAATATCATGAAACGAATAACCTTA
342872 ATCTCTAAAGTA
1 AT-TCTAAAGTA
342884 CACTTTTGAC
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
102 2 0.02
103 30 0.28
104 74 0.70
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (103 bp):
ATTCTAAAGTAAATTACTAATATGCCTCATAAAGTATACTTTTGACATAAAAGTATCTAATAACC
TTAAAGGGCTCGATAATATCATGAAACGAATAACCTTA
Found at i:343080 original size:157 final size:155
Alignment explanation
Indices: 342800--343103 Score: 344
Period size: 157 Copynumber: 1.9 Consensus size: 155
342790 TATTGCCTCA
* * * * *
342800 TAAAGTATACTTTTGACATAAAAGTATCTAATAACCTTAAAGGGCTCGATAATATCATGAAATGA
1 TAAAGTATACATTCGACATAAAAGTATCTAATAACCTCAAAGGACTCAATAATATCATGAAATGA
* ** * * *
342865 ATAACCTATCTCTAAAGTACACTTTTGACATTAAAGCATCTCAATGAGTATAAGGGACTCGGTTC
66 ATAACCTATCTCTAAAGTACACCTTTGACAGGAAAGCATCTCAATAACTATAAAGGACTCGGTT-
342930 TAAAGTAAAATTACTAAAATAACCCC
130 TAAAGTAAAATTACTAAAATAACCCC
* * *
342956 TAAAGTATACATTCGACATAATAGTATCATAGTAACC-CAAATGGACTCAATAATATCATTAAAT
1 TAAAGTATACATTCGACATAAAAGTATC-TAATAACCTCAAA-GGACTCAATAATATCATGAAAT
** * * *
343020 GAATAACCTATCTCTAAAGTACACCTTTGATGGGAAAGTAT-TCCGATAAACT-TAAAGGACTTG
64 GAATAACCTATCTCTAAAGTACACCTTTGACAGGAAAGCATCT-CAAT-AACTATAAAGGACTCG
* * *
343083 GTTTTAGGTAAAATTATTAAA
127 GTTTAAAGTAAAATTACTAAA
343104 GTGGCCTCTA
Statistics
Matches: 122, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
156 44 0.36
157 76 0.62
158 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (155 bp):
TAAAGTATACATTCGACATAAAAGTATCTAATAACCTCAAAGGACTCAATAATATCATGAAATGA
ATAACCTATCTCTAAAGTACACCTTTGACAGGAAAGCATCTCAATAACTATAAAGGACTCGGTTT
AAAGTAAAATTACTAAAATAACCCC
Found at i:345817 original size:13 final size:13
Alignment explanation
Indices: 345799--345824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
345789 CAATTTTTTG
345799 TGTATCGATACAT
1 TGTATCGATACAT
345812 TGTATCGATACAT
1 TGTATCGATACAT
345825 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.