Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold819
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: 72985
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:1415 original size:17 final size:16
Alignment explanation
Indices: 1374--1416 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1364 ATATCTAAAG
1374 ATTTTAATAAAATTAT
1 ATTTTAATAAAATTAT
1390 ATGTTTAATAAAA-TATT
1 AT-TTTAATAAAATTA-T
1407 ATTTCTAATA
1 ATTT-TAATA
1417 TTGAAACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTTAATAAAATTAT
Found at i:10686 original size:13 final size:13
Alignment explanation
Indices: 10668--10698 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10658 ACAATTCATC
10668 ATGTATCGATACA
1 ATGTATCGATACA
10681 ATGTATCGATACA
1 ATGTATCGATACA
*
10694 TTGTA
1 ATGTA
10699 CCATGTATCG
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:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:10686 original size:33 final size:33
Alignment explanation
Indices: 10646--10714 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
10636 CCGTTACAAG
* *
10646 CAATGTATTGATACAATT-CATCATGTATCGATA
1 CAATGTATCGATAC-ATTGCACCATGTATCGATA
*
10679 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGCACCATGTATCGATA
10712 CAA
1 CAA
10715 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGCACCATGTATCGATA
Found at i:11419 original size:22 final size:22
Alignment explanation
Indices: 11385--11426 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11375 AGATAAACAT
*
11385 ATTTTTCCACCTTTATCAAAAC
1 ATTTCTCCACCTTTATCAAAAC
*
11407 ATTTCTCCTCCTTTATCAAA
1 ATTTCTCCACCTTTATCAAA
11427 TCTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTCTCCACCTTTATCAAAAC
Found at i:16050 original size:13 final size:13
Alignment explanation
Indices: 16032--16080 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
16022 CATGGGACAA
16032 TGTATCGATACAT
1 TGTATCGATACAT
16045 TGTATCGATACA-
1 TGTATCGATACAT
16057 TG-AT-GA-A-AT
1 TGTATCGATACAT
16066 TGTATCGATACAT
1 TGTATCGATACAT
16079 TG
1 TG
16081 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16053 original size:33 final size:34
Alignment explanation
Indices: 16011--16080 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
16001 CTACCACTGT
16011 TTGTATCGATACATG-GGACAA-TGTATCGATACA
1 TTGTATCGATACATGAGGA-AATTGTATCGATACA
*
16044 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGAGGAAATTGTATCGATACA
16078 TTG
1 TTG
16081 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAGGAAATTGTATCGATACA
Found at i:20230 original size:52 final size:52
Alignment explanation
Indices: 20150--20278 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
20140 CGAAATATGA
20150 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
20202 AAATTTGCCTGCATGTATCGATATATTTTGTAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
20254 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
20279 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:20289 original size:52 final size:52
Alignment explanation
Indices: 20150--20298 Score: 230
Period size: 52 Copynumber: 2.9 Consensus size: 52
20140 CGAAATATGA
*
20150 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTGATAGTGTATCGATACATCTGGGC
*
20202 AAATTTGCCTGCATGTATCGATATATTTTG-TAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTTGATAGTGTATCGATACATCTGGGC
**
20254 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTGAT-AGTGTATCGATACA
20299 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
50 1 0.01
51 1 0.01
52 84 0.94
53 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTGATAGTGTATCGATACATCTGGGC
Found at i:20305 original size:13 final size:13
Alignment explanation
Indices: 20287--20311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20277 CAAAGATCAG
20287 TGTATCGATACAA
1 TGTATCGATACAA
20300 TGTATCGATACA
1 TGTATCGATACA
20312 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:20378 original size:19 final size:18
Alignment explanation
Indices: 20354--20447 Score: 73
Period size: 19 Copynumber: 5.6 Consensus size: 18
20344 TAGCTTAAAT
20354 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
20373 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
20386 TGTATCGGTACAACACTTA
1 TGTATCGATACAA-ACTTA
20405 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
20418 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
20438 TGTATCGATA
1 TGTATCGATA
20448 TAAATCATTG
Statistics
Matches: 60, Mismatches: 2, Indels: 25
0.69 0.02 0.29
Matches are distributed among these distances:
13 21 0.35
14 2 0.03
16 4 0.07
18 1 0.02
19 22 0.37
20 10 0.17
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:20391 original size:13 final size:13
Alignment explanation
Indices: 20373--20429 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
20363 ACAAAACTTA
20373 TGTATCGATACAT
1 TGTATCGATACAT
*
20386 TGTATCGGTACAACACTT
1 TGTATC-G-A-TACA--T
20404 ATGTATCGATACAT
1 -TGTATCGATACAT
20418 TGTATCGATACA
1 TGTATCGATACA
20430 ACACTTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 18 0.50
14 2 0.06
15 1 0.03
16 6 0.17
17 1 0.03
18 2 0.06
19 6 0.17
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:20398 original size:32 final size:32
Alignment explanation
Indices: 20352--20447 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
20342 AGTAGCTTAA
*
20352 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
20384 ATTGTATCGGTACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
20416 ATTGTATCGATACAACACTTTATGTATCGATA
1 ATTGTATCGATACAACAC-TTATGTATCGATA
20448 TAAATCATTG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 47 0.78
33 13 0.22
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:21359 original size:3 final size:3
Alignment explanation
Indices: 21351--21375 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21341 TGAAGAGGAA
21351 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
21376 GTGACTCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:28607 original size:34 final size:32
Alignment explanation
Indices: 28547--28611 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
28537 CCACTATTTG
*
28547 TATCGATACATGGGACATGTATCGATACATTA
1 TATCGATACATGGGAAATGTATCGATACATTA
*
28579 TATCGATACATGATGAAATTGTATCGATACATT
1 TATCGATACATG-GGAAA-TGTATCGATACATT
28612 GCTTGTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 3 0.10
34 14 0.48
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (32 bp):
TATCGATACATGGGAAATGTATCGATACATTA
Found at i:33094 original size:21 final size:20
Alignment explanation
Indices: 33067--33122 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
33057 ATTACAAGCA
* *
33067 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATGCACC
*
33087 ACTGTATCGATTACAATGGACC
1 A-TGTATCGA-TACAATGCACC
33109 ATGTATCGATACAA
1 ATGTATCGATACAA
33123 ATAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 6 0.19
21 16 0.52
22 9 0.29
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGCACC
Found at i:35415 original size:10 final size:11
Alignment explanation
Indices: 35390--35450 Score: 56
Period size: 10 Copynumber: 5.6 Consensus size: 11
35380 AAGTATTTGC
35390 AAGAAGCAAGAG
1 AAGAAG-AAGAG
35402 AAGAAGAA-AG
1 AAGAAGAAGAG
*
35412 AAGAAGAAACAG
1 AAGAAG-AAGAG
*
35424 AA-AAAAAGAG
1 AAGAAGAAGAG
*
35434 AAGAAG-ACAG
1 AAGAAGAAGAG
35444 AAGAAGA
1 AAGAAGA
35451 TATTACTAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 23 0.56
11 8 0.20
12 10 0.24
ACGTcount: A:0.67, C:0.05, G:0.28, T:0.00
Consensus pattern (11 bp):
AAGAAGAAGAG
Found at i:40588 original size:11 final size:11
Alignment explanation
Indices: 40572--40613 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
40562 CGGTTCAACT
40572 AAAAAAAAGAA
1 AAAAAAAAGAA
40583 AAAAAAAAGAGA
1 AAAAAAAAGA-A
*
40595 AAAAAAGGAGAA
1 AAAAAA-AAGAA
40607 AAAAAAA
1 AAAAAAA
40614 TAGAGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.37
12 14 0.52
13 3 0.11
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:40610 original size:13 final size:12
Alignment explanation
Indices: 40572--40613 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 12
40562 CGGTTCAACT
40572 AAAAAAAAGA-A
1 AAAAAAAAGAGA
40583 AAAAAAAAGAG-
1 AAAAAAAAGAGA
*
40594 AAAAAAAGGAGA
1 AAAAAAAAGAGA
40606 AAAAAAAA
1 AAAAAAAA
40614 TAGAGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 20 0.74
12 7 0.26
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAGA
Found at i:48146 original size:52 final size:51
Alignment explanation
Indices: 48061--48184 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
48051 ATATGAAAAG
* *
48061 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
48112 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
48164 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
48185 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:48197 original size:51 final size:50
Alignment explanation
Indices: 48061--48204 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
48051 ATATGAAAAG
* *
48061 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
48113 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
48164 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
48205 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:48211 original size:13 final size:13
Alignment explanation
Indices: 48193--48217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48183 CAAAGATCAG
48193 TGTATCGATACAA
1 TGTATCGATACAA
48206 TGTATCGATACA
1 TGTATCGATACA
48218 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:48295 original size:33 final size:33
Alignment explanation
Indices: 48258--48324 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
48248 AGTAGCTTAA
48258 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
48291 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
48324 A
1 A
48325 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:48298 original size:13 final size:13
Alignment explanation
Indices: 48280--48304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48270 CAAAAAAATA
48280 TGTATCGATACAT
1 TGTATCGATACAT
48293 TGTATCGATACA
1 TGTATCGATACA
48305 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:49542 original size:27 final size:27
Alignment explanation
Indices: 49494--51535 Score: 2292
Period size: 27 Copynumber: 75.0 Consensus size: 27
49484 CAGTGGCATT
* * *
49494 CCTTTTAAAGTCCATAAGTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
49522 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
49549 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
49576 CCTTTTAAGTCCACAACTCCGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
49603 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
49630 CCTTTTAAGTCCATAAGTGCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
** *
49657 CCTTTTAAAGTCCACAACTCTATGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
49685 CCTTTTAAGTCCACACCTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * **
49712 TCTTTTAAGTCCACAAGTCCATAACAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
49739 CCTTTTAAAGTCCACAACTCTGTGACAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
49767 CCTTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
49795 CCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
49822 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
49849 CCTTTTAAGTCCACAAGTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
49876 CCTTTTAAGTCCACAAGTCTGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
49903 CCTTTTAAAGTCCACAACTCCGTGGTAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
**
49931 CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* **
49958 CTTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* ** *
49985 CCTTTTAAGTCCACAAGTCTATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
50012 CCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
50039 CCTTTTAAAGTCCACAACTCCATGACAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
**
50067 CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
50094 CCTTTTAAGTCCACAACACCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
50121 CCTTTTAAGTCCAGAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
50148 CCTTTTAAAGTCCACAACTTCGTGGCGC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
50176 TCTTTTAAGTTCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
50203 CCTTTTAAGTCCACAACTCCGTGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
50229 TCTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
50257 CCTTTTAAGTCCATAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
50284 CCTTTCATGACCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
50311 CCTATTAAGTCCATAAGTGCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
50338 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
50365 CCTTTTAAGTCCACAAGTGCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
50392 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
50419 CCTTTTAAGTCCACAAGTCCGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
50446 CCTTTTAAGTCCACAACACCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
50473 CCTTTTAAGTCCAGAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
50500 CCTTTTAAAGTCCATAACTTCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
50528 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
50555 TCTTTTAAGTCCACAAGTCCGTAGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
50582 CCTTTTAAGTCCACAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
50609 CCTTTTAAAGTCCACAACTCCGTGACAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
50637 CCTTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
50665 CCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
50692 CTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
50719 CCTTTTAAATCCAGAAGTCTGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
** *
50746 CCTTTTAAGTCCACAACTTTGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
50773 CCTTTTAAAGTCCACAACTTCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
**
50801 CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
50828 CCTTTTAAGTCCACAAGTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
50855 CTTTTTAAGTCCATAACCCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
50882 CCTTTTAAAGTCCACAACTTCATGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
50910 CCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
50937 CCTTTTAAGTCCACAACTCCATGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
50963 TCTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
50991 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
51018 TCTTTTAAGTCCACAAGTCCGTAGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
51045 CCTTTTAAGTCCATAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
51072 CCTTTTAAAGTCCACAACTCTGTGACAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
51100 CCTTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
51128 CCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
51155 CTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
51182 CCTTTTAAATCCAGAAGTCTGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
** *
51209 CCTTTTAAGTCCACAACTTTGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
51236 CCTTTTAAAGTCCACAACTTCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
**
51264 CCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
51291 CCTTTTAAGTCCACAAGTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
51318 CTTTTTAAGTCCATAACCCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
51345 CCTTTTAAAGTCCACAACTTCATGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
51373 CCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
51400 CCTTTTAAGTCCACAACTCCATGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
51426 TCTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
51454 CCTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
51481 CCTTTCATGACCACAACTCCATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
51508 TCTTTTAAG-CTCACAAGTCAGTGGCAC
1 CCTTTTAAGTC-CACAACTCCGTGGCAC
51535 C
1 C
51536 TTTGCAAAGC
Statistics
Matches: 1721, Mismatches: 274, Indels: 39
0.85 0.13 0.02
Matches are distributed among these distances:
26 16 0.01
27 1328 0.77
28 377 0.22
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:49572 original size:54 final size:54
Alignment explanation
Indices: 49494--51795 Score: 2297
Period size: 54 Copynumber: 42.1 Consensus size: 54
49484 CAGTGGCATT
* *
49494 CCTTTTAAAGTCCATAAGTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
49549 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
49603 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAAGTGCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
** * *
49657 CCTTTTAAAGTCCACAACTCTATGGCATCCTTTTAAGTCCACACCTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * ** * * *
49712 TCTTTTAAGTCCACAAGTCCATAACACCCTTTTAAAGTCCACAACTCTGTGACAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * * *
49767 CCTTTTAAAGTCCACAACTTCGTGGCACCCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
49822 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAAGTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
49876 CCTTTTAAGTCCACAAGTCTGTGGTACCCTTTTAAAGTCCACAACTCCGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
** **
49931 CCTTTTAAGTCCACAACTTTGTGGCA-CCTTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCAC
* ** *
49985 CCTTTTAAGTCCACAAGTCTATGGCATCCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * **
50039 CCTTTTAAAGTCCACAACTCCATGACACCCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
50094 CCTTTTAAGTCCACAACACCGTGGCATCCTTTTAAGTCCAGAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
50148 CCTTTTAAAGTCCACAACTTCGTGGC-GCTCTTTTAAGTTCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCAC
* * * *
50203 CCTTTTAAGTCCACAACTCCGTGGCAT-CTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * * *
50257 CCTTTTAAGTCCATAACTCCGTGGCATCCTTTCATGACCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
50311 CCTATTAAGTCCATAAGTGCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* *
50365 CCTTTTAAGTCCACAAGTGCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
50419 CCTTTTAAGTCCACAAGTCCGTGGTATCCTTTTAAGTCCACAACACCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * * *
50473 CCTTTTAAGTCCAGAAGTTCGTGGCACCCTTTTAAAGTCCATAACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * *
50528 CCTTTTAAGTCCACAACTCTGTGGCA-CTCTTTTAAGTCCACAAGTCCGTAGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCAC
* * * *
50582 CCTTTTAAGTCCACAAGTTCGTGGCACCCTTTTAAAGTCCACAACTCCGTGACAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * * *
50637 CCTTTTAAAGTCCACAACTTCGTGGCACCCTTTTAACTCCACAACTCTGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * * * *
50692 CTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAATCCAGAAGTCTGTGGTAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
** * * * *
50746 CCTTTTAAGTCCACAACTTTGTGGTACCCTTTTAAAGTCCACAACTTCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
** * * *
50801 CCTTTTAAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACAAGTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
50855 CTTTTTAAGTCCATAACCCCGTGGCACCCTTTTAAAGTCCACAACTTCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
50910 CCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCATGGCA-
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
50963 TCTTTTAAATTCTATAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
51018 TCTTTTAAGTCCACAAGTCCGTAGCATCCTTTTAAGTCCATAAGTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
51072 CCTTTTAAAGTCCACAACTCTGTGACACCCTTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
51128 CCTTTTAACTCCACAACTCTGTGGCATCTTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * ** *
51182 CCTTTTAAATCCAGAAGTCTGTGGTATCCTTTTAAGTCCACAACTTTGTGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* **
51236 CCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTTTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
51291 CCTTTTAAGTCCACAAGTCCGTGGCATCTTTTTAAGTCCATAACCCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
51345 CCTTTTAAAGTCCACAACTTCATGGCACCCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
51400 CCTTTTAAGTCCACAACTCCATGGCAT-CTTTTAAATTCTATAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * * *
51454 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTCATGACCACAACTCCATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * * **
51508 TCTTTTAAG-CTCACAAGTCAGTGGCA-CCTTTGCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAGTC-CACAACTCCGTGGCATCCTTT--TAAGTCCACAACTCCGTGGCAC
* * * * * * ** *
51563 CCTTTCAAAGTCCAC-AGTCAGTGACATCCTTTCAAAGCCCACGAA-TTAGTGACAC
1 CCTTT-TAAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCAC-AACTCCGTGGCAC
* * * * * ** *
51618 CCTTTCAAAG-CTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAATGGTA-
1 CCTTT-TAAGTC-CACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCAC
* * * ** * * ** *
51673 TCTTTTCAAAAGCCCACAAGTTAGTGGCATCTTCTTTTTTAAAGCCCACAAGTTAGTGACAC
1 CCTTTT---AAGTCCACAACTCCGTGGCATC--C--TTTT-AAGTCCACAACTCCGTGGCAC
* **
51735 CCTTTTAAAGTCCACAAGTTAGTGGCATCCGTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCAC
51791 CCTTT
1 CCTTT
51796 CAAAACCCAC
Statistics
Matches: 1924, Mismatches: 276, Indels: 93
0.84 0.12 0.04
Matches are distributed among these distances:
53 21 0.01
54 1054 0.55
55 640 0.33
56 137 0.07
57 24 0.01
58 2 0.00
59 1 0.00
60 22 0.01
61 18 0.01
62 5 0.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (54 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:49717 original size:109 final size:108
Alignment explanation
Indices: 49472--51538 Score: 2179
Period size: 109 Copynumber: 19.0 Consensus size: 108
49462 AACCTTTTCA
* * * * * * *
49472 AAGTCCACGATTCAGTGGCATTCCTTTTAAAGTCCATAAGTCCGTGGCATCCTTTTAAGTCCACA
1 AAGTCCACAACTCCGTGGCACT-CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* *
49537 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
64 ACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * *
49582 AAGTCCACAACTCCGTGGTA-TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAA
1 AAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * *
49646 GTGCGTGGCACCCTTTTAAAGTCCACAACTCTATGGCATCCTTTT
65 CTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTT
* * * * **
49691 AAGTCCACACCTCTGTGGCACTCTTTTAAGTCCACAAGTCCATAACACCCTTTTAAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAA
* * *
49756 CTCTGTGACACCCTTTTAAAGTCCACAACT-TCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTT-AAGTCCACAACTCT-GTGGCATCCTTTT
* * *
49801 AACTCCACAACTCTGTGGCA-TCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * * * * *
49865 GTCTGTGGCATCCTTTTAAGTCCACAAGTCTGTGGTACCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * ** *
49909 AAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTTTGTGGCACCTTTTTAAGTCCACAA
1 -AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
** * *
49974 CTTTGTGGCACCCTTTTAAGTCCACAAGTCTATGGCATCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * *
50018 AAGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCATGACACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
** * *
50083 CTTTGTGGCACCCTTTTAAGTCCACAACACCGTGGCATCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * * * * *
50127 AAGTCCAGAAGTTCGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCGCTCTTTTAAGTTCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
*
50192 CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAT-CTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * * * * *
50235 AAATTCTATAACTCCGTGGCA-TCCTTTTAAGTCCATAACTCCGTGGCATCCTTTCATGACCACA
1 -AAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* * * *
50299 ACTCCGTGGCATCCTATTAAGTCCATAAGTGC-GTGGCATCCTTTT
64 ACTCCGTGGCACCCTTTTAAGTCCACAACT-CTGTGGCATCCTTTT
* * * *
50344 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAGTGCGTGGCATCCTTTTAAGTCCACAAC
1 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
* * *
50409 TCCGTGGCACCCTTTTAAGTCCACAAGTCCGTGGTATCCTTTT
66 TCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * *
50452 AAGTCCACAACACCGTGGCA-TCCTTTTAAGTCCAGAAGTTCGTGGCACCCTTTTAAAGTCCATA
1 AAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACA
* *
50516 ACTTCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCA-CTCTTTT
64 ACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATC-CTTTT
* * * *
50561 AAGTCCACAAGTCCGTAGCA-TCCTTTTAAGTCCACAAGTTCGTGGCACCCTTTTAAAGTCCACA
1 AAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACA
* *
50625 ACTCCGTGACACCCTTTTAAAGTCCACAACT-TCGTGGCACCCTTTT
64 ACTCCGTGGCACCCTTTT-AAGTCCACAACTCT-GTGGCATCCTTTT
* * * *
50671 AACTCCACAACTCTGTGGCA-TCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAATCCAGAA
1 AAGTCCACAACTCCGTGGCACTC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * * * * * *
50735 GTCTGTGGTATCCTTTTAAGTCCACAACTTTGTGGTACCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* **
50779 AAAGTCCACAACTTCGTGGCA-TCCTTTTAAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACA
1 -AAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* * * * * * *
50843 AGTCCGTGGCATCTTTTTAAGTCCATAACCCCGTGGCACCCTTTT
64 ACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * *
50888 AAAGTCCACAACTTCATGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAA
1 -AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * * * * *
50953 CTCCATGGCA-TCTTTTAAATTCTATAACTCCGTGGCATCCTTTT
65 CTCCGTGGCACCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTT
* * * * *
50997 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAAGTCCGTAGCATCCTTTTAAGTCCATAAG
1 AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
* * *
51062 TTCGTGGCACCCTTTTAAAGTCCACAACTCTGTGACACCCTTTT
66 TCCGTGGCACCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTT
* * * * * *
51106 AAAGTCCACAACTTCGTGGCACCCTTTTAACTCCACAACTCTGTGGCATCTTTTTAAGTCCACAA
1 -AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * * *
51171 CTCCGTGGCACCCTTTTAAATCCAGAAGTCTGTGGTATCCTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
** * * * *
51215 AAGTCCACAACTTTGTGGTACCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
** * * *
51280 CTTTGTGGCACCCTTTTAAGTCCACAAGTCCGTGGCATCTTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * *
51324 AAGTCCATAACCCCGTGGCACCCTTTTAAAGTCCACAACTTCATGGCACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCACTCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* **
51389 CTCCATGGCACCCTTTTAAGTCCACAACTCCATGGCAT-CTTTT
65 CTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * * * *
51432 AAATTCTATAACTCCGTGGCA-TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTCATGACCACA
1 -AAGTCCACAACTCCGTGGCACT-CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
* ** * *
51496 ACTCCATGGCATTCTTTTAAG-CTCACAAGTCAGTGGCA-CCTTT
64 ACTCCGTGGCACCCTTTTAAGTC-CACAACTCTGTGGCATCCTTT
51539 GCAAAGCCCA
Statistics
Matches: 1680, Mismatches: 243, Indels: 70
0.84 0.12 0.04
Matches are distributed among these distances:
107 2 0.00
108 487 0.29
109 941 0.56
110 249 0.15
111 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (108 bp):
AAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
TCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
Found at i:51717 original size:32 final size:29
Alignment explanation
Indices: 49485--51836 Score: 424
Period size: 27 Copynumber: 85.9 Consensus size: 29
49475 TCCACGATTC
* * * *
49485 AGTGGCATTCCTTTTAAAGTCCATAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
49514 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
49541 CGTGGCA-CCCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
49568 CGTGGCA-CCCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * *
49595 CGTGGTAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
49622 CGTGGCAT-CCTTTT-AAGTCCATAAGTG
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
49649 CGTGGCA-CCCTTTTAAAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* **
49678 A-TGGCAT-CCTTTT-AAGTCCACACCTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
49705 -GTGGCA-CTCTTTT-AAGTCCACAAGTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
** * *
49732 A-TAACA-CCCTTTTAAAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
49760 -GTGACA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
49787 CGTGGCA-CCCTTTT-AA-CTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGC-CCACAAGT-T
* *
49815 -GTGGCAT-CCTTTT-AAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
*
49842 -GTGGCA-CCCTTTT-AAGTCCACAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
*
49869 -GTGGCAT-CCTTTT-AAGTCCACAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * * *
49896 -GTGGTA-CCCTTTTAAAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
49923 CGTGGTA-CCCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
49950 TGTGGCA--CCTTTTTAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
49977 TGTGGCA-CCCTTTT-AAGTCCACAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * * *
50005 A-TGGCAT-CCTTTT-AAGTCCATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50031 CGTGGCA-CCCTTTTAAAGTCCACAACTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
50060 A-TGACA-CCCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * ***
50086 TGTGGCA-CCCTTTT-AAGTCCACAACAC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50113 CGTGGCAT-CCTTTT-AAGTCCAGAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50140 CGTGGCA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * ** * *
50168 CGTGGC-GCTCTTTT-AAGTTCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50195 CGTGGCA-CCCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* ** * * * *
50222 CGTGGCAT--CTTTTAAATTCTATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * *
50249 CGTGGCAT-CCTTTT-AAGTCCATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * * *
50276 CGTGGCAT-CC-TTTCATGACCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * *
50303 CGTGGCAT-CCTATT-AAGTCCATAAGTG
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50330 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50357 CGTGGCA-CCCTTTT-AAGTCCACAAGTG
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50384 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50411 CGTGGCA-CCCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * ***
50438 CGTGGTAT-CCTTTT-AAGTCCACAACAC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50465 CGTGGCAT-CCTTTT-AAGTCCAGAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50492 CGTGGCA-CCCTTTTAAAGTCCATAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50520 CGTGGCAT-CCTTTT-AAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
50548 -GTGGCA-CTCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50574 CGTAGCAT-CCTTTT-AAGTCCACAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50601 CGTGGCA-CCCTTTTAAAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50629 CGTGACA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
50657 CGTGGCA-CCCTTTT-AA-CTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGC-CCACAAGT-T
* * * *
50685 -GTGGCAT--CTTTTTAAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50711 CGTGGCA-CCCTTTTAAA-TCCAGAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
50739 -GTGGTAT-CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50765 TGTGGTA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50793 CGTGGCAT-CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50820 TGTGGCA-CCCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * ***
50847 CGTGGCAT--CTTTTTAAGTCCATAACCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50874 CGTGGCA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
50902 CA-TGGCA-CCCTTTT-AAGTCCACAACTCC
1 -AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
50930 A-TGGCA-CCCTTTT-AAGTCCACAACTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
** * * * *
50957 A-TGGCAT--CTTTTAAATTCTATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
50983 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
51010 CGTGGCA-CTCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
51037 CGTAGCAT-CCTTTT-AAGTCCATAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
51064 CGTGGCA-CCCTTTTAAAGTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
51093 -GTGACA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
51120 CGTGGCA-CCCTTTT-AA-CTCCACAACTCT
1 AGTGGCATCCCTTTTAAAGC-CCACAAGT-T
* * * *
51148 -GTGGCAT--CTTTTTAAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
51174 CGTGGCA-CCCTTTTAAA-TCCAGAAGTCT
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
51202 -GTGGTAT-CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
51228 TGTGGTA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
51256 CGTGGCAT-CCTTTT-AAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
51283 TGTGGCA-CCCTTTT-AAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * ***
51310 CGTGGCAT--CTTTTTAAGTCCATAACCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
51337 CGTGGCA-CCCTTTTAAAGTCCACAACTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
51365 CA-TGGCA-CCCTTTT-AAGTCCACAACTCC
1 -AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
51393 A-TGGCA-CCCTTTT-AAGTCCACAACTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
** * * * *
51420 A-TGGCAT--CTTTTAAATTCTATAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
51446 CGTGGCAT-CCTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * * * *
51473 CGTGGCAT-CC-TTTCATGACCACAACTCC
1 AGTGGCATCCCTTTTAAAGCCCACAAGT-T
* * *
51501 A-TGGCAT-TCTTTT-AAGCTCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
*
51527 AGTGGCA--CCTTTGCAAAGCCCACAAGTT
1 AGTGGCATCCCTTT-TAAAGCCCACAAGTT
* * *
51555 AGTGGCA-CCCTTTCAAAGTCCAC-AGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
51582 AGTGACAT-CCTTTCAAAGCCCACGAA-TT
1 AGTGGCATCCCTTTTAAAGCCCAC-AAGTT
* * * *
51610 AGTGACA-CCCTTTCAAAGCTCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * *
51638 AGTGGCAT-CCTTTCAAAGTCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* *
51666 AATGGTAT--CTTTTCAAAAGCCCACAAGTT
1 AGTGGCATCCCTTTT--AAAGCCCACAAGTT
*
51695 AGTGGCATCTTCTTTTTTAAAGCCCACAAGTT
1 AGTGGCATC--C-CTTTTAAAGCCCACAAGTT
* *
51727 AGTGACA-CCCTTTTAAAGTCCACAAGTT
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
51755 AGTGGCATCCGTTTT-AAGTCCACAACTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
* * * *
51783 CGTGGCA-CCCTTTCAAAACCCACAAGTC
1 AGTGGCATCCCTTTTAAAGCCCACAAGTT
51811 AGTGGCA-CCCTTCTCTAAAGCCCACA
1 AGTGGCATCCCTT-T-TAAAGCCCACA
51837 CAAGTCGGTG
Statistics
Matches: 1962, Mismatches: 226, Indels: 269
0.80 0.09 0.11
Matches are distributed among these distances:
26 61 0.03
27 1272 0.65
28 554 0.28
29 41 0.02
30 9 0.00
31 1 0.00
32 20 0.01
34 4 0.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (29 bp):
AGTGGCATCCCTTTTAAAGCCCACAAGTT
Found at i:51824 original size:117 final size:117
Alignment explanation
Indices: 51514--51824 Score: 329
Period size: 117 Copynumber: 2.7 Consensus size: 117
51504 GCATTCTTTT
* * * * *
51514 AAGCTCACAAGTCAGTGGCA-CCTTTGCAAAGCCCACAAGTTAGTGGCACCCTTTC-AAAGTCCA
1 AAGCTCACAAGTCAGTGGCATCCTTT-CAAAGTCCACAACTCAATGGCACCCTTTCAAAAGCCCA
* * *
51577 C-AGTCAGT-G-A-CATC-CTTTCAAAGCCCACGAATTAGTGACACCCTTTCA
65 CAAGTCAGTGGCACCTTCTTTTTTAAAGCCCACGAATTAGTGACACCCTTTCA
* * * *
51625 AAGCTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAATGGTATCTTTTCAAAAGCCCAC
1 AAGCTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAACTCAATGGCACCCTTTCAAAAGCCCAC
* * *
51690 AAGTTAGTGGCATCTTCTTTTTTAAAGCCCAC-AAGTTAGTGACACCCTTTTA
66 AAGTCAGTGGCACCTTCTTTTTTAAAGCCCACGAA-TTAGTGACACCCTTTCA
* * **
51742 AAG-TCCACAAGTTAGTGGCATCCGTTT-TAAGTCCACAACTCCGTGGCACCCTTTCAAAA-CCC
1 AAGCT-CACAAGTCAGTGGCATCC-TTTCAAAGTCCACAACTCAATGGCACCCTTTCAAAAGCCC
51804 ACAAGTCAGTGGCACCCTTCT
64 ACAAGTCAGTGGCA-CCTTCT
51825 CTAAAGCCCA
Statistics
Matches: 167, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
111 43 0.26
112 13 0.08
113 6 0.04
114 1 0.01
115 1 0.01
116 22 0.13
117 78 0.47
118 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (117 bp):
AAGCTCACAAGTCAGTGGCATCCTTTCAAAGTCCACAACTCAATGGCACCCTTTCAAAAGCCCAC
AAGTCAGTGGCACCTTCTTTTTTAAAGCCCACGAATTAGTGACACCCTTTCA
Found at i:51848 original size:32 final size:31
Alignment explanation
Indices: 51803--51969 Score: 185
Period size: 32 Copynumber: 5.2 Consensus size: 31
51793 TTTCAAAACC
*
51803 CACAAGTCAGTGGC-ACCCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCC-TCTC-AAAGCCCA
*
51835 CACAAGTCGGTGGCAACCCTCTCCAAAGTCCA
1 CACAAGTCGGTGGCAACCCTCT-CAAAGCCCA
* *
51867 CACAAGTCGCTAGCAACCC-CATTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCTC--TCAAAGCCCA
*
51899 CACAAGTCGGTGGCAACCCTCTCCAAAGTCCA
1 CACAAGTCGGTGGCAACCCTCT-CAAAGCCCA
* * *
51931 CACAAGTCGCTGGCAACCCCCTTTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTC-TCAAAGCCCA
51963 CACAAGT
1 CACAAGT
51970 TTGTGGCATT
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
31 2 0.02
32 106 0.91
33 8 0.07
ACGTcount: A:0.30, C:0.38, G:0.16, T:0.16
Consensus pattern (31 bp):
CACAAGTCGGTGGCAACCCTCTCAAAGCCCA
Found at i:51872 original size:64 final size:64
Alignment explanation
Indices: 51803--51969 Score: 243
Period size: 64 Copynumber: 2.6 Consensus size: 64
51793 TTTCAAAACC
51803 CACAAGTCAG-TGGC-ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCC
1 CACAAGTC-GCTGGCAACCC-TCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCC
51866 A
64 A
*
51867 CACAAGTCGCTAGCAACCC-CAT-TCAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCC
1 CACAAGTCGCTGGCAACCCTC-TCT-AAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCC
51930 A
64 A
* *
51931 CACAAGTCGCTGGCAACCCCCTTTAAAGCCCACACAAGT
1 CACAAGTCGCTGGCAACCCTCTCTAAAGCCCACACAAGT
51970 TTGTGGCATT
Statistics
Matches: 95, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
63 3 0.03
64 86 0.91
65 6 0.06
ACGTcount: A:0.30, C:0.38, G:0.16, T:0.16
Consensus pattern (64 bp):
CACAAGTCGCTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCA
Found at i:51977 original size:64 final size:64
Alignment explanation
Indices: 51826--51969 Score: 261
Period size: 64 Copynumber: 2.2 Consensus size: 64
51816 CACCCTTCTC
51826 TAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTAGCAACCCCATT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTAGCAACCCCATT
* * *
51890 CAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTGGCAACCCCCTT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTAGCAACCCCATT
51954 TAAAGCCCACACAAGT
1 TAAAGCCCACACAAGT
51970 TTGTGGCATT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 76 1.00
ACGTcount: A:0.31, C:0.38, G:0.16, T:0.15
Consensus pattern (64 bp):
TAAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGTCCACACAAGTCGCTAGCAACCCCATT
Found at i:58446 original size:39 final size:39
Alignment explanation
Indices: 58387--58474 Score: 92
Period size: 38 Copynumber: 2.3 Consensus size: 39
58377 TTACTTTTAT
* **
58387 TTCT-CCC-TTAATCAAAATAATTTTAACAAATTTGTACA
1 TTCTCCCCTTTAATCAAAATAATTGTAAC-AATTTACACA
* * *
58425 TTCTCCCCTTTAAT-AAGATAATTGTAGCAATTTACGCA
1 TTCTCCCCTTTAATCAAAATAATTGTAACAATTTACACA
58463 TTCTCCCCTTTA
1 TTCTCCCCTTTA
58475 TCTCCCCCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
38 23 0.55
39 14 0.33
40 5 0.12
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.40
Consensus pattern (39 bp):
TTCTCCCCTTTAATCAAAATAATTGTAACAATTTACACA
Found at i:58516 original size:21 final size:21
Alignment explanation
Indices: 58475--58518 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58465 CTCCCCTTTA
* *
58475 TCTCCCCCATTTATTAATAAT
1 TCTCCCCCATTAATCAATAAT
58496 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCATTAATCAA-TAAT
58517 TC
1 TC
58519 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCCCCCATTAATCAATAAT
Found at i:60346 original size:13 final size:13
Alignment explanation
Indices: 60328--60364 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
60318 AATCACCCTG
60328 TATCGATACAATA
1 TATCGATACAATA
*
60341 TATCGATACAATG
1 TATCGATACAATA
60354 TATCGATACAA
1 TATCGATACAA
60365 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:64306 original size:21 final size:21
Alignment explanation
Indices: 64277--64321 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
64267 AAGTTTTCAT
*
64277 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
64297 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
64319 TTT
1 TTT
64322 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:66557 original size:13 final size:13
Alignment explanation
Indices: 66539--66564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66529 AATTTTTTTG
66539 TGTATCGATACAT
1 TGTATCGATACAT
66552 TGTATCGATACAT
1 TGTATCGATACAT
66565 ACTTGCTGTA
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:71121 original size:13 final size:13
Alignment explanation
Indices: 71103--71128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71093 ACATGCTGCT
71103 TTGTATCGATACA
1 TTGTATCGATACA
71116 TTGTATCGATACA
1 TTGTATCGATACA
71129 ATGTTATTGT
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
Done.