Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold132
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: 2458301
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 15
Found at i:1632 original size:6 final size:6
Alignment explanation
Indices: 1623--1649 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1613 TTTAACCTTT
1623 AGTGCA AGTGCA AGTGCA AGTGCA AGT
1 AGTGCA AGTGCA AGTGCA AGTGCA AGT
1650 ACTAACTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.19
Consensus pattern (6 bp):
AGTGCA
Found at i:6106 original size:14 final size:14
Alignment explanation
Indices: 6087--6114 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6077 AGAAGAGATA
6087 TGGCATGGTCTCAC
1 TGGCATGGTCTCAC
6101 TGGCATGGTCTCAC
1 TGGCATGGTCTCAC
6115 ATTGTATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (14 bp):
TGGCATGGTCTCAC
Found at i:6783 original size:27 final size:27
Alignment explanation
Indices: 6752--6832 Score: 162
Period size: 27 Copynumber: 3.0 Consensus size: 27
6742 CATGTAAATT
6752 TAACAAAAAAGCAAATTCACATTTTAA
1 TAACAAAAAAGCAAATTCACATTTTAA
6779 TAACAAAAAAGCAAATTCACATTTTAA
1 TAACAAAAAAGCAAATTCACATTTTAA
6806 TAACAAAAAAGCAAATTCACATTTTAA
1 TAACAAAAAAGCAAATTCACATTTTAA
6833 CTTTCTCAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.56, C:0.15, G:0.04, T:0.26
Consensus pattern (27 bp):
TAACAAAAAAGCAAATTCACATTTTAA
Found at i:8324 original size:14 final size:13
Alignment explanation
Indices: 8303--8341 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
8293 TGATGGTGGC
*
8303 GATGGAGAATGTA
1 GATGGAGAATGGA
8316 GAGTGGAGAATGGA
1 GA-TGGAGAATGGA
8330 GATGGAG-ATGGA
1 GATGGAGAATGGA
8342 TTCAATCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 12 0.50
ACGTcount: A:0.36, C:0.00, G:0.46, T:0.18
Consensus pattern (13 bp):
GATGGAGAATGGA
Found at i:8503 original size:2 final size:2
Alignment explanation
Indices: 8496--8549 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
8486 AACGCGTAAG
8496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8538 AT AT AT AT AT AT
1 AT AT AT AT AT AT
8550 GGGGATTGAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10019 original size:28 final size:28
Alignment explanation
Indices: 9959--10039 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
9949 ATTAATAATT
* *
9959 TATTTTATATATATTAAT-ATGTTCTTAA
1 TATTTTTTATATATTAATAAT-TTATTAA
9987 -ATTTTTTATATATTAATAATTTATTAA
1 TATTTTTTATATATTAATAATTTATTAA
* *
10014 TATTTTTTA-AGCACTAATAATTTATT
1 TATTTTTTATA-TATTAATAATTTATT
10040 TTATTTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (28 bp):
TATTTTTTATATATTAATAATTTATTAA
Found at i:10121 original size:21 final size:21
Alignment explanation
Indices: 10071--10125 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
10061 TTGTAGCGTG
10071 ATCATGTTATTTT-TTATATT
1 ATCATGTTATTTTATTATATT
**
10091 A-CATAATATTTTAATTAT-TT
1 ATCATGTTATTTT-ATTATATT
10111 ATCATGTTATTTTAT
1 ATCATGTTATTTTAT
10126 GCCATACCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 9 0.32
20 6 0.21
21 13 0.46
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (21 bp):
ATCATGTTATTTTATTATATT
Found at i:11083 original size:6 final size:6
Alignment explanation
Indices: 11072--11114 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
11062 TTTAAAAAAC
*
11072 AAGAGA AAGAGA GAAG-GA AAG-GA AAGAGA AAGAGG AAGAGA AA
1 AAGAGA AAGAGA -AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AA
11115 AAAAAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 8 0.24
6 22 0.67
7 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (6 bp):
AAGAGA
Found at i:11120 original size:23 final size:23
Alignment explanation
Indices: 11065--11121 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
11055 AATTTTTTTT
11065 AAAAAACAAGAGAAAGAGAGAAGG
1 AAAAAA-AAGAGAAAGAGAGAAGG
**
11089 AAAGGAAAGAGAAAGAG-GAAGAG
1 AAAAAAAAGAGAAAGAGAGAAG-G
11112 AAAAAAAAGA
1 AAAAAAAAGA
11122 AAAAAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.14
23 20 0.71
24 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (23 bp):
AAAAAAAAGAGAAAGAGAGAAGG
Found at i:13813 original size:8 final size:8
Alignment explanation
Indices: 13800--13825 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13790 ATGCCAACCC
13800 TATATATG
1 TATATATG
13808 TATATATG
1 TATATATG
13816 TATATATG
1 TATATATG
13824 TA
1 TA
13826 CTATCTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:19134 original size:43 final size:43
Alignment explanation
Indices: 19067--19150 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
19057 GGATGACTAG
*
19067 GGACAACATATTATGTTCGACATCAAGTCATTCTTAATCAAAA
1 GGACAACAGATTATGTTCGACATCAAGTCATTCTTAATCAAAA
* * *
19110 GGACAATAGATTATGTTTGGCATCAAGTCATTCTTAATCAA
1 GGACAACAGATTATGTTCGACATCAAGTCATTCTTAATCAA
19151 CTTTATAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (43 bp):
GGACAACAGATTATGTTCGACATCAAGTCATTCTTAATCAAAA
Found at i:20957 original size:15 final size:14
Alignment explanation
Indices: 20939--20989 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
20929 ATATTTAATT
20939 ATTTAATATTTAAAA
1 ATTTAA-ATTTAAAA
20954 ATTTTAAATATTAAAA
1 A-TTTAAAT-TTAAAA
*
20970 ATTTACAATTTTAAA
1 ATTTA-AATTTAAAA
20985 ATTTA
1 ATTTA
20990 TTTTTGCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTAAATTTAAAA
Found at i:21353 original size:14 final size:14
Alignment explanation
Indices: 21334--21360 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21324 AACTATAGTC
21334 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
21348 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
21361 GCTTGCCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:21831 original size:18 final size:18
Alignment explanation
Indices: 21798--21832 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21788 GGTGGTAGCG
* *
21798 CTTTATGTTTGTTAGTGT
1 CTTTATGTCTGGTAGTGT
21816 CTTTATGTCTGGTAGTG
1 CTTTATGTCTGGTAGTG
21833 ATATTTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.09, G:0.26, T:0.54
Consensus pattern (18 bp):
CTTTATGTCTGGTAGTGT
Found at i:24697 original size:16 final size:17
Alignment explanation
Indices: 24676--24712 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24666 GAGCCAACGA
24676 AAATGATGG-AGCAAGG
1 AAATGATGGAAGCAAGG
*
24692 AAATGATGGAAGTAAGG
1 AAATGATGGAAGCAAGG
24709 AAAT
1 AAAT
24713 AGAACGTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.49, C:0.03, G:0.32, T:0.16
Consensus pattern (17 bp):
AAATGATGGAAGCAAGG
Found at i:25420 original size:68 final size:68
Alignment explanation
Indices: 25305--25702 Score: 499
Period size: 68 Copynumber: 5.8 Consensus size: 68
25295 AGAGGAGTAG
* * * ** * *
25305 CTTAGTGTCATTGAATGTGAGGCCATGGTGGCAATTAGACTTGTGAAGTCTTAACTTGATGAAAG
1 CTTAGTGTCACTGAATGTAATGCCAAAGTGGCAATTAGACTTATGAAGTCTTAACTTGATGGAAG
25370 TGA
66 TGA
* * * * ** * *
25373 GTTAGTGTCACTGAATGTAATGCCAAAGTAGCAATCAGACTTATGAAGTTTTAGTTTGATGGGAT
1 CTTAGTGTCACTGAATGTAATGCCAAAGTGGCAATTAGACTTATGAAGTCTTAACTTGATGGAAG
25438 TGA
66 TGA
*
25441 CTTAGTGTCACTAAATGTAATGCCAAAGTGGCAATTAGACTTATGAAGTCTTAACTTGATGGAAG
1 CTTAGTGTCACTGAATGTAATGCCAAAGTGGCAATTAGACTTATGAAGTCTTAACTTGATGGAAG
25506 TGA
66 TGA
* * * * *
25509 CTTGGTGTCATTTAATGTAATGCCAAAGTGGCGATTAGACTTATGAAGTCTTAACTTAATGGAAG
1 CTTAGTGTCACTGAATGTAATGCCAAAGTGGCAATTAGACTTATGAAGTCTTAACTTGATGGAAG
*
25574 TGC
66 TGA
* * * * * *
25577 CTTGGTGTCACTGAATATAATGCCAAAGTGGTAATCAGACTTATGAAGTCTTCACTTAATGGAAG
1 CTTAGTGTCACTGAATGTAATGCCAAAGTGGCAATTAGACTTATGAAGTCTTAACTTGATGGAAG
25642 TGA
66 TGA
* * * *
25645 CTTGGTGTCATTGAATGTAATGCCAAAAGTGGCGATTAGACTTGTGAAGTCTTAACTT
1 CTTAGTGTCACTGAATGTAATGCC-AAAGTGGCAATTAGACTTATGAAGTCTTAACTT
25703 TTCTAAAATT
Statistics
Matches: 284, Mismatches: 45, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
68 256 0.90
69 28 0.10
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (68 bp):
CTTAGTGTCACTGAATGTAATGCCAAAGTGGCAATTAGACTTATGAAGTCTTAACTTGATGGAAG
TGA
Found at i:36059 original size:20 final size:20
Alignment explanation
Indices: 36012--36086 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
36002 AAAAAGACAT
*
36012 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
36031 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
36052 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
36072 AATGTATCGATACAT
1 AATGTATCGATACAT
36087 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:36080 original size:40 final size:39
Alignment explanation
Indices: 36009--36086 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
35999 GGTAAAAAGA
* *
36009 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
36048 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
36087 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:36797 original size:28 final size:28
Alignment explanation
Indices: 36696--37928 Score: 576
Period size: 27 Copynumber: 43.8 Consensus size: 28
36686 CACTGACACA
* **
36696 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
36725 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
36755 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
* *
36785 CGTGGGCTTTGAAA-GAGTGCCACTGACA
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
36813 CGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
36841 CGTGGG-TTTGCAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
36868 TGTGGGCTTTGAAAAGAGTGCCACTAATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
36897 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
36926 TGTGGGCTTTGAAATGAGTGCCACTAACTT
1 TGTGGGCTTTGAAAGGA-TGCCACTGAC-T
*
36956 GTGTGGGCTTT-AAAAGAGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
36985 TGTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
37013 TGTGGGCTTCGCAATGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
37041 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
37069 TGCGTGGGCTTTGAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTG-AAAGGATGCCACTGACT
* *
37100 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
37129 TGTGAGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
37157 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
37185 TGTTTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TG--TGGGCTTTGAAAGGA-TGCCACTGACT
* *
37215 TGTGGGCTTCGTAATGG-TGCCACTGACTT
1 TGTGGGCTTTG-AAAGGATGCCACTGAC-T
* *
37244 GTGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * *
37276 GTGTGGGCTTTGAAATGGGTGCCACAGAGT
1 -TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
37306 TGT-GGATTTTAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
** * * * *
37334 TGTGGATTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * * * *
37362 TGTGGATTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
37390 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37417 TGTGGTC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37444 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37471 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37498 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37525 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37552 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37579 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37606 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37633 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* ** * * *
37660 TGTGGAC-TAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37687 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
37715 TGTGGAC-TTAAAAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
* * * * * *
37743 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37770 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
37797 TGTGGTC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * * *
37825 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
37852 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
37879 TGTGGAC-TTAAAAGAATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
37906 TGTGGACTTTAAAAGGATGCCAC
1 TGTGGGCTTTGAAAGGATGCCAC
37929 GAAGTTGTGG
Statistics
Matches: 1075, Mismatches: 95, Indels: 69
0.87 0.08 0.06
Matches are distributed among these distances:
26 4 0.00
27 438 0.41
28 334 0.31
29 121 0.11
30 99 0.09
31 53 0.05
32 26 0.02
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:36932 original size:58 final size:58
Alignment explanation
Indices: 36671--37356 Score: 580
Period size: 58 Copynumber: 11.8 Consensus size: 58
36661 TTGTGTAGGT
* * ** * *
36671 TTTGAAAAAAGTTGCCACTGACACATGTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGC
1 TTTGAAAAGAG-TGCCACTG--ACTTGTGGGCTTTGAAAAGAGTGCCACT-AATT-TGTGGGC
* * * * *
36734 TTT-AAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGA-TGCCACTGACTCGTGGGC
1 TTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGC
** * * * *
36792 TTTG-AAAGAGTGCCACTGACACGTGGGCTTTGAAAAG-GTACCACTGACTCGTGGG-
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGC
* * *
36847 TTTG-CAAGGGTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGC
*
36904 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAATGAGTGCCACTAACTTGTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAA-TT-TGTGGGC
36964 TTT-AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGAA-TTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT-AATTTGTGGGC
* * * * * * *
37020 TTCGCAATG-GTGCCACTGACTTGTGGGCTTCG-AAAGGGTGCCACTGACTTGCGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT-AATT-TGTGGGC
* * *
37078 TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGAGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGC
* * * * *
37136 TTT-AAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACCGACTTGTTTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA-CTAATT-TGTGGGC
* * * * *
37194 TTTG-AAAGAGTGCCACTGAATTGTGGGCTTCGTAATG-GTGCCACTGACTTGTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT-AATT-TGTGGGC
* * * * * * *
37252 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTGCCAC-AGAGTTGT-GGA
1 TTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTA-ATTTGTGGGC
* * * * * *
37312 TTTTAAAAGAGTGCCACGGAGTTGT-GGATTTTAAAAGGGTGCCAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
37357 GGAGTTGTGG
Statistics
Matches: 524, Mismatches: 73, Indels: 59
0.80 0.11 0.09
Matches are distributed among these distances:
55 32 0.06
56 116 0.22
57 45 0.09
58 152 0.29
59 76 0.15
60 45 0.09
61 28 0.05
62 20 0.04
63 10 0.02
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (58 bp):
TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGC
Found at i:36982 original size:172 final size:173
Alignment explanation
Indices: 36696--37737 Score: 788
Period size: 162 Copynumber: 6.1 Consensus size: 173
36686 CACTGACACA
* **
36696 TGTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGT
1 TGTGGGCTTCGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAAGGGTGCCACTGACTT--GT
* * * * **
36760 GGGCTTTGAAAGGA-TGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACACGTGGGCTTTG
64 GGGCTTTGAAATGAGTGCCACTAACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
36824 AAAAGGTACCACTGACTCGTGGG-TTTGCAAGGGTGTCACTGACT
129 AAAAGGTGCCACTGACTTGTGGGCTTTGCAAGGGTGCCACTGACT
* * * *
36868 TGTGGGCTTTGAAAAGAGTGCCACT-AATT-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
1 TGTGGGCTTCGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGG
36931 GCTTTGAAATGAGTGCCACTAACTTGTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTG
66 GCTTTGAAATGAGTGCCACTAAC-T-TGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
36996 -AAAGAGTGCCACTGAATTGTGGGCTTCGCAATGGTGCCACTGACT
129 AAAAG-GTGCCACTGACTTGTGGGCTTTGCAAGGGTGCCACTGACT
*
37041 TGTGGGCTTCG-AAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGG
1 TGTGGGCTTCGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGG
* * *
37105 GCTTTGAAAAGAGTGCCACTAACTTGTGAGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAA
66 GCTTTGAAATGAGTGCCACTAACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
* * * * *
37170 AGGGTGCCACCGACTTGTTTGGGCTTTGAAAGAGTGCCACTGAAT
131 AAGGTGCCACTGACTTG--TGGGCTTTGCAAGGGTGCCACTGACT
* * * * *
37215 TGTGGGCTTCGTAATG-GTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1 TGTGGGCTTCGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAAGGG-TGCCACTGAC-T-TG
* * ** * * *
37279 TGGGCTTTGAAATGGGTGCCAC-AGAGTTGTGGATTTTAAAAGAGTGCCACGGAGTTGT-GGATT
63 TGGGCTTTGAAATGAGTGCCACTA-ACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTT
* * * ** ** * *
37342 TTAAAAGGGTGCCACGGAGTTGTGGATTTTAAAAGGGTGCCACGGAGT
127 TGAAAA-GGTGCCACTGACTTGTGGGCTTTGCAAGGGTGCCACTGACT
* * * * * * * *
37390 TATGGACTT--AAAAGGGTGCCACGGAGTT--GTGGTC-TT-AAAAGGGTGCCACAGAGTTGTGG
1 TGTGGGCTTCGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGG
* * * ** * * * * * *
37449 AC-TT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGAC-TT-AA
66 GCTTTGAAATGAGTGCCACTAACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
* * * ** * *
37509 AAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGT
131 AA-GGTGCCACTGACTTGTGGGCTTTGCAAGGGTGCCACTGACT
* * * * * * *
37552 TGTGGACTT--AAAAGGGTGCCACGGAGTT--GTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGG
1 TGTGGGCTTCGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGG
* * * * * * * * * *
37611 AC-TT-AAAAGGGTGCCAC-AGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC--TAA
66 GCTTTGAAATGAGTGCCACTA-ACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGA
* * * ** * *
37670 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGT
130 AAA-GGTGCCACTGACTTGTGGGCTTTGCAAGGGTGCCACTGACT
*
37715 TGTGGACTT--AAAAGAGATGCCAC
1 TGTGGGCTTCGAAAAGAG-TGCCAC
37738 GGAGTTATGG
Statistics
Matches: 762, Mismatches: 84, Indels: 56
0.84 0.09 0.06
Matches are distributed among these distances:
161 1 0.00
162 153 0.20
163 58 0.08
164 29 0.04
165 22 0.03
166 2 0.00
167 6 0.01
168 1 0.00
169 23 0.03
170 24 0.03
171 28 0.04
172 139 0.18
173 38 0.05
174 127 0.17
175 39 0.05
176 10 0.01
177 62 0.08
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.26
Consensus pattern (173 bp):
TGTGGGCTTCGAAAAGAGTGCCACTGACTTGCGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGG
GCTTTGAAATGAGTGCCACTAACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
AAGGTGCCACTGACTTGTGGGCTTTGCAAGGGTGCCACTGACT
Found at i:37408 original size:27 final size:27
Alignment explanation
Indices: 37292--38029 Score: 1179
Period size: 27 Copynumber: 27.0 Consensus size: 27
37282 GCTTTGAAAT
* *
37292 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* *
37320 GAGTGCCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
37348 GGGTGCCACGGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
37376 GGGTGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37403 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37430 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
37457 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37484 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
37511 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37538 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
37565 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
37592 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37619 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37646 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
37673 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
37701 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
37728 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
37756 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37783 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37810 GGGATGCCACGGAGTTATGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
37838 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37865 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
37892 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
37920 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
37947 GGGATGCCACGGAGTTTTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
37975 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
38002 GGGTGCCACGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
38029 G
1 G
38030 AGGTCACACT
Statistics
Matches: 667, Mismatches: 38, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
27 469 0.70
28 198 0.30
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:39049 original size:12 final size:12
Alignment explanation
Indices: 39032--39063 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
39022 AGGGTGAAAA
39032 GGTTTTTTTTTT
1 GGTTTTTTTTTT
39044 GG-TTTTTTTTT
1 GGTTTTTTTTTT
39055 -GTTTTTTTT
1 GGTTTTTTTT
39064 AAGGATTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 16 0.84
12 2 0.11
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
GGTTTTTTTTTT
Found at i:39365 original size:23 final size:24
Alignment explanation
Indices: 39339--39390 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
39329 TTTTATTTTG
*
39339 TTTTTGCACTTTTTCTTTTCA-TT
1 TTTTTGCACTTTTGCTTTTCAGTT
** *
39362 TTTTTGTGCTTTTGCTTTTGAGTT
1 TTTTTGCACTTTTGCTTTTCAGTT
39386 TTTTT
1 TTTTT
39391 TTGTCATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (24 bp):
TTTTTGCACTTTTGCTTTTCAGTT
Found at i:45667 original size:118 final size:118
Alignment explanation
Indices: 45481--45718 Score: 476
Period size: 118 Copynumber: 2.0 Consensus size: 118
45471 CTAAGATGAA
45481 CATGGCATTTTAGTCACAAAATATGGCATCAAAACATCAAGACAATCCTACAACTACCACATCCA
1 CATGGCATTTTAGTCACAAAATATGGCATCAAAACATCAAGACAATCCTACAACTACCACATCCA
45546 AGGCCACAATAATGCATAATGTTCTTAAAAGGGTCATGGAAGCATAATAAGCT
66 AGGCCACAATAATGCATAATGTTCTTAAAAGGGTCATGGAAGCATAATAAGCT
45599 CATGGCATTTTAGTCACAAAATATGGCATCAAAACATCAAGACAATCCTACAACTACCACATCCA
1 CATGGCATTTTAGTCACAAAATATGGCATCAAAACATCAAGACAATCCTACAACTACCACATCCA
45664 AGGCCACAATAATGCATAATGTTCTTAAAAGGGTCATGGAAGCATAATAAGCT
66 AGGCCACAATAATGCATAATGTTCTTAAAAGGGTCATGGAAGCATAATAAGCT
45717 CA
1 CA
45719 CTAAAATGAT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 120 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (118 bp):
CATGGCATTTTAGTCACAAAATATGGCATCAAAACATCAAGACAATCCTACAACTACCACATCCA
AGGCCACAATAATGCATAATGTTCTTAAAAGGGTCATGGAAGCATAATAAGCT
Found at i:46537 original size:20 final size:20
Alignment explanation
Indices: 46490--46564 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
46480 AAAAAGACAT
*
46490 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
46509 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
46530 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
46550 AATGTATCGATACAT
1 AATGTATCGATACAT
46565 CATGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:46558 original size:40 final size:39
Alignment explanation
Indices: 46487--46564 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
46477 GGTAAAAAGA
* *
46487 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
46526 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
46565 CATGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:47423 original size:13 final size:14
Alignment explanation
Indices: 47405--47438 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
47395 CAATACATAT
47405 AATTTTAAA-TTTA
1 AATTTTAAACTTTA
47418 AATTTTAAACTTTA
1 AATTTTAAACTTTA
47432 AACTTTT
1 AA-TTTT
47439 GTTAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTAAACTTTA
Found at i:50266 original size:2 final size:2
Alignment explanation
Indices: 50261--50295 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
50251 ATATATTATC
50261 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
50296 TAGTAGTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:50572 original size:2 final size:2
Alignment explanation
Indices: 50565--50624 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
50555 CAGATCAGTA
50565 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
50607 CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT
50625 ATACATATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:51151 original size:2 final size:2
Alignment explanation
Indices: 51144--51192 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
51134 TCAGAACATG
51144 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51186 AT AT AT A
1 AT AT AT A
51193 AGAGCACGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:63018 original size:5 final size:5
Alignment explanation
Indices: 63004--63033 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
62994 CAGGGCATCC
*
63004 CCATG TCATG CCATG CCATG CCATG CCATG
1 CCATG CCATG CCATG CCATG CCATG CCATG
63034 TCGCCAGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (5 bp):
CCATG
Found at i:63172 original size:2 final size:2
Alignment explanation
Indices: 63159--63198 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
63149 ATTCATTTGT
*
63159 GA GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
63199 TGGCAGAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:65038 original size:5 final size:5
Alignment explanation
Indices: 65028--65060 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
65018 CGAGGGTGGC
65028 TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCC
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCC
65061 TCACCCTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.61, G:0.00, T:0.21
Consensus pattern (5 bp):
TCCCA
Found at i:67511 original size:2 final size:2
Alignment explanation
Indices: 67504--67542 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
67494 CCCATCCAGG
67504 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67543 GTGGAAAAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:68633 original size:38 final size:37
Alignment explanation
Indices: 68533--68642 Score: 139
Period size: 37 Copynumber: 2.9 Consensus size: 37
68523 ATCATTTTTG
* * *
68533 TTAACCGGTGACATGATTCAAAATAAAAATTACTATT
1 TTAACCGGTGACATGGTTCAAAACAAAAACTACTATT
* * *
68570 TTTACCGATGATATGGTTCAAAACAAAAACTACTATT
1 TTAACCGGTGACATGGTTCAAAACAAAAACTACTATT
* *
68607 TTAAATCGGTGGCATGGTTCAAAACAAAAACTACTA
1 TT-AACCGGTGACATGGTTCAAAACAAAAACTACTA
68643 GTGACATAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
37 33 0.54
38 28 0.46
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
TTAACCGGTGACATGGTTCAAAACAAAAACTACTATT
Found at i:69259 original size:23 final size:22
Alignment explanation
Indices: 69224--69280 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
69214 TTTTTTTATT
69224 TTTTTAATTTTTT-TTAATAAAA
1 TTTTTAATTTTTTATT-ATAAAA
* *
69246 TTTTTGATTATTTTATTTTAAAA
1 TTTTTAATT-TTTTATTATAAAA
69269 -TTTT-ATTTTTTA
1 TTTTTAATTTTTTA
69281 ATAAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 3 0.10
22 12 0.39
23 9 0.29
24 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTTAATTTTTTATTATAAAA
Found at i:69797 original size:26 final size:27
Alignment explanation
Indices: 69763--69814 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
69753 ATTTTTTTTT
*
69763 AATATTTATA-AACATTTAA-TTAAATA
1 AATAATTATATAA-ATTTAAGTTAAATA
69789 AATAATTATATAAATTTAAGTTAAAT
1 AATAATTATATAAATTTAAGTTAAAT
69815 TATATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AATAATTATATAAATTTAAGTTAAATA
Found at i:69867 original size:16 final size:17
Alignment explanation
Indices: 69819--69874 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
69809 TTAAATTATA
* *
69819 TTAAATAATTATTATGAT
1 TTAAATATTTA-TATAAT
*
69837 TTAAATATTTTTATAAT
1 TTAAATATTTATATAAT
69854 TTAAA-ATTTATATAA-
1 TTAAATATTTATATAAT
69869 TTAAAT
1 TTAAAT
69875 TTAAAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 5 0.15
16 9 0.27
17 10 0.30
18 9 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAAATATTTATATAAT
Found at i:69877 original size:14 final size:16
Alignment explanation
Indices: 69835--69870 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
69825 AATTATTATG
*
69835 ATTTAAATATTTTTATA
1 ATTTAAA-ATTTATATA
69852 ATTTAAAATTTATATA
1 ATTTAAAATTTATATA
69868 ATT
1 ATT
69871 AAATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTAAAATTTATATA
Found at i:69929 original size:16 final size:16
Alignment explanation
Indices: 69910--69968 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
69900 ATAAATTATA
69910 AAAATATAAAATAATT
1 AAAATATAAAATAATT
* *
69926 AAAACATAATATAAATTT
1 AAAATATAAAAT-AA-TT
* *
69944 AATATAAAAAATAATT
1 AAAATATAAAATAATT
69960 AAAATATAA
1 AAAATATAA
69969 CACTATATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 19 0.58
17 4 0.12
18 10 0.30
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATATAAAATAATT
Found at i:69950 original size:50 final size:50
Alignment explanation
Indices: 69876--70001 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 50
69866 TAATTAAATT
* * * * * *
69876 TAAAATTAACATAAAATTATTATAATAAATTATAAAAATATAA-AATA-A
1 TAAAAATAATATAAATTTAATATAAAAAATAATAAAAATATAACAATATA
* *
69924 TTAAAACATAATATAAATTTAATATAAAAAATAATTAAAATATAACACTATA
1 -TAAAA-ATAATATAAATTTAATATAAAAAATAATAAAAATATAACAATATA
* *
69976 TAAAAATAATATAAATATAACATAAA
1 TAAAAATAATATAAATTTAATATAAA
70002 TACAGAACAT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
49 5 0.08
50 50 0.78
51 8 0.12
52 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (50 bp):
TAAAAATAATATAAATTTAATATAAAAAATAATAAAAATATAACAATATA
Found at i:69987 original size:11 final size:11
Alignment explanation
Indices: 69912--70001 Score: 52
Period size: 11 Copynumber: 8.7 Consensus size: 11
69902 AAATTATAAA
69912 AATAT-AAAAT
1 AATATAAAAAT
69922 AAT-TAAAACAT
1 AATATAAAA-AT
**
69933 AATATAAATTT
1 AATATAAAAAT
69944 AATATAAAAAAT
1 AATAT-AAAAAT
69956 AAT-T---AA-
1 AATATAAAAAT
* *
69962 AATATAACACT
1 AATATAAAAAT
69973 -ATATAAAAAT
1 AATATAAAAAT
*
69983 AATATAAATAT
1 AATATAAAAAT
*
69994 AACATAAA
1 AATATAAA
70002 TACAGAACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
6 3 0.05
7 3 0.05
9 1 0.02
10 15 0.25
11 28 0.46
12 11 0.18
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:69991 original size:27 final size:26
Alignment explanation
Indices: 69896--69999 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 26
69886 ATAAAATTAT
* * *
69896 TATAATAAATTATAAAAATATAAAATA
1 TATAA-AAATAATATAAATATAACATA
*
69923 -ATTAAAACATAATATAAAT-TTA-ATA
1 TA-TAAAA-ATAATATAAATATAACATA
69948 TA-AAAAATAAT-TAAAATATAACACTA
1 TATAAAAATAATAT-AAATATAACA-TA
69974 TATAAAAATAATATAAATATAACATA
1 TATAAAAATAATATAAATATAACATA
70000 AATACAGAAC
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
22 1 0.02
23 9 0.14
24 6 0.09
25 4 0.06
26 12 0.19
27 31 0.48
28 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
TATAAAAATAATATAAATATAACATA
Found at i:70411 original size:23 final size:22
Alignment explanation
Indices: 70385--70444 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
70375 TTTAATACTT
*
70385 ATATAAAAAATAATACAAATATA
1 ATATAAAAAATAATA-AAATAAA
* *
70408 ATATTAAAAATTTATTAAAATAAA
1 ATA-TAAAAA-ATAATAAAATAAA
70432 ATATAAAAAATAA
1 ATATAAAAAATAA
70445 ATATAACATG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
22 2 0.07
23 9 0.30
24 15 0.50
25 4 0.13
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATAAAAAATAATAAAATAAA
Found at i:70531 original size:13 final size:13
Alignment explanation
Indices: 70513--70537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70503 TATTTTAAAT
70513 AATAAAAAATATG
1 AATAAAAAATATG
70526 AATAAAAAATAT
1 AATAAAAAATAT
70538 AAACACGTAG
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AATAAAAAATATG
Found at i:70797 original size:42 final size:42
Alignment explanation
Indices: 70742--70825 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
70732 GTTAATTTTT
* *
70742 ATTAAGTTAAAATTAAAATTTTAATTCTAATTTATTCAATTA
1 ATTAAGTTAAAATTAAAATTTTAATTCTAATTCACTCAATTA
*
70784 ATTAAGCTT-AAATTAAAATTTTAATTCTGATTCACTCAATTA
1 ATTAAG-TTAAAATTAAAATTTTAATTCTAATTCACTCAATTA
70826 TAAAAGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 36 0.95
43 2 0.05
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (42 bp):
ATTAAGTTAAAATTAAAATTTTAATTCTAATTCACTCAATTA
Found at i:78254 original size:3 final size:3
Alignment explanation
Indices: 78246--78277 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
78236 TTGTGATAGG
78246 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
78278 AAGAGATGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:85111 original size:2 final size:2
Alignment explanation
Indices: 85102--85134 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
85092 CTTCAAAAAA
85102 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85135 TGAATATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:90179 original size:2 final size:2
Alignment explanation
Indices: 90170--90202 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
90160 CTTCAAAAAA
90170 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90203 TGAATATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:97278 original size:7 final size:7
Alignment explanation
Indices: 97266--97300 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
97256 CATGTTCATA
97266 TATTTTT
1 TATTTTT
97273 TATTTTT
1 TATTTTT
97280 TATTTTAAT
1 TATTTT--T
97289 TATTTTT
1 TATTTTT
97296 TATTT
1 TATTT
97301 ATATTGTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 19 0.73
9 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TATTTTT
Found at i:97685 original size:102 final size:102
Alignment explanation
Indices: 97564--97761 Score: 369
Period size: 102 Copynumber: 1.9 Consensus size: 102
97554 TATATTTTGA
* *
97564 CATATTTAGATATTTATATTCTATTCATGTTATGCTCTTATGTAGTATTTTAATTATTTTTTCTA
1 CATATTTAGATATTTATATTCTATTCATATTATGCTCTCATGTAGTATTTTAATTATTTTTTCTA
97629 GGTTTCGATTGTGTTGTGTCTCAATTTAATTTTATAT
66 GGTTTCGATTGTGTTGTGTCTCAATTTAATTTTATAT
*
97666 CATATTTATATATTTATATTCTATTCATATTATGCTCTCATGTAGTATTTTAATTATTTTTTCTA
1 CATATTTAGATATTTATATTCTATTCATATTATGCTCTCATGTAGTATTTTAATTATTTTTTCTA
97731 GGTTTCGATTGTGTTGTGTCTCAATTTAATT
66 GGTTTCGATTGTGTTGTGTCTCAATTTAATT
97762 CATATTTTTA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.56
Consensus pattern (102 bp):
CATATTTAGATATTTATATTCTATTCATATTATGCTCTCATGTAGTATTTTAATTATTTTTTCTA
GGTTTCGATTGTGTTGTGTCTCAATTTAATTTTATAT
Found at i:97817 original size:102 final size:101
Alignment explanation
Indices: 97603--97806 Score: 238
Period size: 102 Copynumber: 2.0 Consensus size: 101
97593 TTATGCTCTT
* *
97603 ATGTAGTATTTTAATTATTTTTTCTAGGTTTCGATTGTGTTGTGTCTCAATTTAATTTTATATCA
1 ATGTAATATTTTAATTATTTTTTCTAGGTTTCGATTGTGTTGTGTCTCAATTTAATTTCATAT-A
* * *****
97668 TATTTATATATTTATATTCTATTCATATTATGCTCTC
65 TATTTATATATTTATATTATATTAATATTATGAGAAA
*
97705 ATGTAGTATTTTAATTATTTTTTCTAGGTTTCGATTGTGTTGTGTCTCAATTTAA-TTCATAT-T
1 ATGTAATATTTTAATTATTTTTTCTAGGTTTCGATTGTGTTGTGTCTCAATTTAATTTCATATAT
97768 -TTTATATAGTTTATCATTATAATTTAAT-TTA-GAGAAA
66 ATTTATATA-TTTAT-ATTAT-A-TTAATATTATGAGAAA
97805 AT
1 AT
97807 TTTATATATT
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
98 8 0.09
99 6 0.07
100 7 0.08
101 10 0.11
102 59 0.66
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (101 bp):
ATGTAATATTTTAATTATTTTTTCTAGGTTTCGATTGTGTTGTGTCTCAATTTAATTTCATATAT
ATTTATATATTTATATTATATTAATATTATGAGAAA
Found at i:98024 original size:16 final size:16
Alignment explanation
Indices: 97997--98061 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
97987 CTTGATACGT
97997 TTATTATTTATATTATA
1 TTATT-TTTATATTATA
* *
98014 TTATTTTTATATCATG
1 TTATTTTTATATTATA
98030 TTATATTTTA-ATTAT-
1 TTAT-TTTTATATTATA
*
98045 TT-TTTTCATATTATA
1 TTATTTTTATATTATA
98060 TT
1 TT
98062 TATATCATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.10
14 6 0.15
15 4 0.10
16 17 0.41
17 10 0.24
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (16 bp):
TTATTTTTATATTATA
Found at i:98069 original size:16 final size:16
Alignment explanation
Indices: 98001--98071 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 16
97991 ATACGTTTAT
*
98001 TATTTATATTATATTA
1 TATTTATATCATATTA
* *
98017 TTTTTATATCATGTTA
1 TATTTATATCATATTA
98033 TA-TT-T-T-A-ATTA
1 TATTTATATCATATTA
*
98044 T-TTT-TTTCATATTA
1 TATTTATATCATATTA
98058 TATTTATATCATAT
1 TATTTATATCATAT
98072 CTTAATTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
11 7 0.16
12 2 0.05
13 2 0.05
14 6 0.14
15 5 0.12
16 21 0.49
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (16 bp):
TATTTATATCATATTA
Found at i:98226 original size:22 final size:22
Alignment explanation
Indices: 98176--98230 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
98166 TAAATAATAA
*
98176 TAATTTAATTTATTAATTTAAAT
1 TAATATAA-TTATTAATTTAAAT
*
98199 TTATATAATTATTAATTT-AAT
1 TAATATAATTATTAATTTAAAT
*
98220 TAA-ATATTTAT
1 TAATATAATTAT
98231 AAATAGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.25
21 5 0.18
22 10 0.36
23 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATATAATTATTAATTTAAAT
Found at i:99529 original size:6 final size:6
Alignment explanation
Indices: 99518--99576 Score: 64
Period size: 6 Copynumber: 9.2 Consensus size: 6
99508 ATAAGAAGTT
* *
99518 ATAAAA ATAAAA ATAAAA ATAAAA ATAAATA ACAAAA GTAAAAAA ATAAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA-A ATAAAA --ATAAAA AT-AAAA
99570 ATAAAA A
1 ATAAAA A
99577 AGAAAGATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 30 0.65
7 11 0.24
8 5 0.11
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:99536 original size:7 final size:7
Alignment explanation
Indices: 99520--99577 Score: 55
Period size: 7 Copynumber: 7.7 Consensus size: 7
99510 AAGAAGTTAT
99520 AAAAAT-
1 AAAAATA
99526 AAAAATA
1 AAAAATA
*
99533 AAAATAAA
1 AAAA-ATA
99541 AATAAATA
1 AA-AAATA
99549 ACAAAAGTAA
1 A-AAAA-T-A
99559 AAAAATA
1 AAAAATA
99566 AAAAATA
1 AAAAATA
99573 AAAAA
1 AAAAA
99578 GAAAGATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
6 6 0.14
7 17 0.39
8 11 0.25
9 8 0.18
10 2 0.05
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:99541 original size:40 final size:40
Alignment explanation
Indices: 99497--99576 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
99487 ATTATTAAAT
* *
99497 TAAAAAGAAATATA-AGAAGTTATAAAAAT-AAAAATAAAAA
1 TAAAAAGAAATA-ACAAAAG-TAAAAAAATAAAAAATAAAAA
*
99537 TAAAAATAAATAACAAAAGTAAAAAAATAAAAAATAAAAA
1 TAAAAAGAAATAACAAAAGTAAAAAAATAAAAAATAAAAA
99577 AGAAAGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 9 0.26
40 26 0.74
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (40 bp):
TAAAAAGAAATAACAAAAGTAAAAAAATAAAAAATAAAAA
Found at i:99582 original size:27 final size:28
Alignment explanation
Indices: 99532--99587 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
99522 AAATAAAAAT
99532 AAAAATAAAAATAAATAACAAAAG-TAA
1 AAAAATAAAAATAAATAACAAAAGATAA
99559 AAAAATAAAAAATAAA-AA-AGAAAGATAA
1 AAAAAT-AAAAATAAATAACA-AAAGATAA
99587 A
1 A
99588 TAGGTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 1 0.04
27 12 0.46
28 13 0.50
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.12
Consensus pattern (28 bp):
AAAAATAAAAATAAATAACAAAAGATAA
Found at i:102500 original size:70 final size:70
Alignment explanation
Indices: 102416--102553 Score: 231
Period size: 70 Copynumber: 2.0 Consensus size: 70
102406 AATATCTGTA
*
102416 AATAATACGCTATTGGGGAACAACAACAGCATTTCCATATCCATAAACGATTGCAAGGTGGATAT
1 AATAATACACTATTGGGGAACAACAACAGCATTTCCATATCCATAAACGATTGCAAGGTGGATAT
102481 TAGTT
66 TAGTT
* * * *
102486 AATAATACACTATTGGGGAACAGCGACAGCCTTTCCATATCCCTAAACGATTGCAAGGTGGATAT
1 AATAATACACTATTGGGGAACAACAACAGCATTTCCATATCCATAAACGATTGCAAGGTGGATAT
102551 TAG
66 TAG
102554 GTGGAAAGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (70 bp):
AATAATACACTATTGGGGAACAACAACAGCATTTCCATATCCATAAACGATTGCAAGGTGGATAT
TAGTT
Found at i:103022 original size:2 final size:2
Alignment explanation
Indices: 103015--103047 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
103005 GAAGTTCAAT
103015 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
103048 TTTAAGTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:103783 original size:3 final size:3
Alignment explanation
Indices: 103777--103808 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
103767 TGTTATTACT
103777 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
103809 TTCTGAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:104158 original size:15 final size:15
Alignment explanation
Indices: 104133--104179 Score: 76
Period size: 15 Copynumber: 3.0 Consensus size: 15
104123 TTACTCAAAT
104133 TTAATATTTAAATTAA
1 TTAA-ATTTAAATTAA
104149 TTAAATTTAAATTAA
1 TTAAATTTAAATTAA
104164 TTAAATTTAATATTAA
1 TTAAATTTAA-ATTAA
104180 AATTTATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 21 0.70
16 9 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAAATTTAAATTAA
Found at i:104170 original size:37 final size:37
Alignment explanation
Indices: 104129--104249 Score: 120
Period size: 37 Copynumber: 3.2 Consensus size: 37
104119 TTTTTTACTC
104129 AAATTTAATATTTAAATTAATTAAATTTAAATTA-ATT
1 AAATTTAATATTTAAATTAATTAAATTT-AATTATATT
* * *
104166 AAATTTAATATTAAAATTTATTAAATTTAATTATTTT
1 AAATTTAATATTTAAATTAATTAAATTTAATTATATT
* * * * *
104203 AAA-TTAATTATTTGAATTATTTTAAGTATAATTTATTTT
1 AAATTTAA-TATTTAAATTA-ATTAAATTTAA-TTATATT
104242 AAATTTAA
1 AAATTTAA
104250 ATGATGTTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
36 9 0.13
37 39 0.56
38 8 0.11
39 10 0.14
40 4 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (37 bp):
AAATTTAATATTTAAATTAATTAAATTTAATTATATT
Found at i:104188 original size:22 final size:22
Alignment explanation
Indices: 104149--104212 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
104139 TTTAAATTAA
*
104149 TTAA-ATTTAAATTAATTAAAT
1 TTAATATTAAAATTAATTAAAT
*
104170 TTAATATTAAAATTTATTAAAT
1 TTAATATTAAAATTAATTAAAT
*
104192 TTAATTATTTTAAATTAATTA
1 TTAA-TA-TTAAAATTAATTA
104213 TTTGAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 4 0.11
22 19 0.53
23 2 0.06
24 11 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAATATTAAAATTAATTAAAT
Found at i:104206 original size:15 final size:14
Alignment explanation
Indices: 104139--104215 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 14
104129 AAATTTAATA
*
104139 TTTAAATTAATTAAA
1 TTTAAATTAATT-AT
*
104154 TTTAAATTAATTAAA
1 TTTAAATTAATT-AT
104169 TTTAATATTAAAATT-T
1 TTTAA-ATT--AATTAT
*
104185 ATTAAATTTAATTAT
1 TTTAAA-TTAATTAT
104200 TTTAAATTAATTAT
1 TTTAAATTAATTAT
104214 TT
1 TT
104216 GAATTATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
14 14 0.26
15 27 0.50
16 9 0.17
18 4 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAAATTAATTAT
Found at i:104851 original size:15 final size:16
Alignment explanation
Indices: 104828--104882 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
104818 ATTGAAATCG
*
104828 AAATAACTT-AATCCA
1 AAATGACTTAAATCCA
104843 AAATGACTTAAAAT-CA
1 AAATGACTT-AAATCCA
* * *
104859 AAGTGACTTGAACCCA
1 AAATGACTTAAATCCA
104875 AAATGACT
1 AAATGACT
104883 CAGGCCTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.31
16 19 0.59
17 3 0.09
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (16 bp):
AAATGACTTAAATCCA
Found at i:107688 original size:2 final size:2
Alignment explanation
Indices: 107681--107715 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107671 GCTCCTGTAT
107681 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
107716 TGGGTATGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:109993 original size:2 final size:2
Alignment explanation
Indices: 109988--110029 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
109978 ATGTGTGTGC
* * *
109988 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AG AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110030 GTTTCATCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (2 bp):
AT
Found at i:111522 original size:22 final size:21
Alignment explanation
Indices: 111480--111522 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
111470 TAAAAGTAAA
** *
111480 AATTTTTTACTATTGTGCTAT
1 AATTTTTTACTATCATACTAT
111501 AATTTGTTTACTATCATACTAT
1 AATTT-TTTACTATCATACTAT
111523 TTTATCAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (21 bp):
AATTTTTTACTATCATACTAT
Found at i:113602 original size:15 final size:15
Alignment explanation
Indices: 113582--113640 Score: 59
Period size: 15 Copynumber: 3.8 Consensus size: 15
113572 CATGGTTTAA
113582 TTAAAATATAAATTT
1 TTAAAATATAAATTT
113597 TTAAAATATAAATTGT
1 TTAAAATATAAATT-T
*
113613 TATAATTAAGA-AAATTT
1 T-TAA--AATATAAATTT
113630 TT-AAATATAAA
1 TTAAAATATAAA
113641 CATTTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
13 3 0.08
14 3 0.08
15 15 0.41
16 3 0.08
17 5 0.14
18 5 0.14
19 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TTAAAATATAAATTT
Found at i:114798 original size:105 final size:106
Alignment explanation
Indices: 114594--114826 Score: 276
Period size: 105 Copynumber: 2.2 Consensus size: 106
114584 GACTTTTTTT
* * ** *
114594 AATATTTAGCTAATTTAAATTTAAATAAATTAATAAAAATTATATATTTAAGTAGGGACAGTTTA
1 AATATTTA-TTAATTTAAATTTAAATAAATTAATAAAAATTATATATTTAAATAGAAAAAGTTTA
**
114659 TTAATTTTAAATTTATTTATTATCATGTAGACTCTATATTTA
65 TTAATTTTAAATAAATTTATTATCATGTAGACTCTATATTTA
* * * *
114701 AATATTTATTAATTTAACTTTAAATAAATTAAT-AAAATTCTATATTTAAATTGAAAAATTTTAT
1 AATATTTATTAATTTAAATTTAAATAAATTAATAAAAATTATATATTTAAATAGAAAAAGTTTAT
* * *
114765 TGATTTTAAAGTAAATTAATATTA-CCTG-A-ACTCTATTTTTA
66 TAATTTTAAA-TAAATT--TATTATCATGTAGACTCTATATTTA
114806 AATATTTATTAATTTAAATTT
1 AATATTTATTAATTTAAATTT
114827 TTAAATTCAT
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
105 64 0.59
106 28 0.26
107 11 0.10
108 5 0.05
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (106 bp):
AATATTTATTAATTTAAATTTAAATAAATTAATAAAAATTATATATTTAAATAGAAAAAGTTTAT
TAATTTTAAATAAATTTATTATCATGTAGACTCTATATTTA
Found at i:114829 original size:57 final size:57
Alignment explanation
Indices: 114768--114883 Score: 130
Period size: 57 Copynumber: 2.0 Consensus size: 57
114758 ATTTTATTGA
* *
114768 TTTTAAAGTAAATTAATATTACC-TG-A-ACTCTATTTTTAAATATTTATTAATTTAAAT
1 TTTTAAA-TAAATT-ATA-TACCTTGTAGACTCTACTTTTAAATATCTATTAATTTAAAT
** * *
114825 TTTTAAATTCATTTTATACCTTGTAGACTCTACTTTTAAGTATCTATTAATTTAAAT
1 TTTTAAATAAATTATATACCTTGTAGACTCTACTTTTAAATATCTATTAATTTAAAT
114882 TT
1 TT
114884 AGTTCAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
54 4 0.08
55 4 0.08
56 5 0.10
57 37 0.74
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.51
Consensus pattern (57 bp):
TTTTAAATAAATTATATACCTTGTAGACTCTACTTTTAAATATCTATTAATTTAAAT
Found at i:114980 original size:161 final size:162
Alignment explanation
Indices: 114684--114987 Score: 441
Period size: 161 Copynumber: 1.9 Consensus size: 162
114674 TTTATTATCA
* * **
114684 TGTAGACTCTATATTTAAATATTTATTAATTTAACTTTAAATAAATTAATAAAATTCTATATTTA
1 TGTAGACTCTATATTTAAATATCTATTAATTTAAATTTAAATAAATTAATAAAATTAAATATTTA
* * * *
114749 AATTGAAAAATTTTATTGATTTTAAAGTAAATTAATATTACCTGAACTCTATTTTTAAATATTTA
66 AATTAAAAAATTTCATTAATTTTAAAGTAAATTAATATAACCTGAACTCTATTTTTAAATATTTA
*
114814 TTAATTTAAATTTTTAAATTCATTTTATACCT
131 TTAATTAAAATTTTTAAATTCATTTTATACCT
* ** *
114846 TGTAGACTCTACT-TTTAAGTATCTATTAATTTAAATTTAGTTCAATTAATAAAATTAAATATTT
1 TGTAGACTCTA-TATTTAAATATCTATTAATTTAAATTTAAATAAATTAATAAAATTAAATATTT
** *
114910 AAA-TAAAAAATTTCATTAATTTTAAAGTAAATTAATATAATGTGGACTCTATTTTTAAATATTT
65 AAATTAAAAAATTTCATTAATTTTAAAGTAAATTAATATAACCTGAACTCTATTTTTAAATATTT
114974 ATTAATTAAAATTT
130 ATTAATTAAAATTT
114988 AAATAGATTA
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
161 67 0.54
162 57 0.46
163 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (162 bp):
TGTAGACTCTATATTTAAATATCTATTAATTTAAATTTAAATAAATTAATAAAATTAAATATTTA
AATTAAAAAATTTCATTAATTTTAAAGTAAATTAATATAACCTGAACTCTATTTTTAAATATTTA
TTAATTAAAATTTTTAAATTCATTTTATACCT
Found at i:116263 original size:2 final size:2
Alignment explanation
Indices: 116256--116290 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
116246 ACGGAAGTGT
116256 TA TA TA TA TA GT- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T
116291 CTGCTTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.94
3 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123419 original size:67 final size:66
Alignment explanation
Indices: 123311--123443 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 66
123301 GAACCATCTA
123311 GAAGGAAGTGCTTACTCTCTACCACCTTCGAAAGGAAGTTACTACTTTGAGAGAATGAGTTTCAA
1 GAAGGAAGTGCTTACTCTCTACCACCTTCGAAAGGAAGTTACTAC-TTGAGAGAATGAGTTTCAA
123376 TG
65 TG
* *
123378 GAAGGAAGTGCTTACTCTCTGCCACCTTCGAAAGGAAGTTACTACTTGGGAGAATGAGTTTCAAT
1 GAAGGAAGTGCTTACTCTCTACCACCTTCGAAAGGAAGTTACTACTTGAGAGAATGAGTTTCAAT
123443 G
66 G
123444 AGCAATACGA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 20 0.31
67 44 0.69
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (66 bp):
GAAGGAAGTGCTTACTCTCTACCACCTTCGAAAGGAAGTTACTACTTGAGAGAATGAGTTTCAAT
G
Found at i:124968 original size:37 final size:37
Alignment explanation
Indices: 124918--125003 Score: 172
Period size: 37 Copynumber: 2.3 Consensus size: 37
124908 CAAGAGCAAG
124918 AAAAGAGTGGGATCTTCAAATCCTGGAAAAACCCATT
1 AAAAGAGTGGGATCTTCAAATCCTGGAAAAACCCATT
124955 AAAAGAGTGGGATCTTCAAATCCTGGAAAAACCCATT
1 AAAAGAGTGGGATCTTCAAATCCTGGAAAAACCCATT
124992 AAAAGAGTGGGA
1 AAAAGAGTGGGA
125004 ATGGAATAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (37 bp):
AAAAGAGTGGGATCTTCAAATCCTGGAAAAACCCATT
Found at i:134274 original size:6 final size:6
Alignment explanation
Indices: 134265--134289 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
134255 GAATGTAGAT
134265 GTAGCA GTAGCA GTAGCA GTAGCA G
1 GTAGCA GTAGCA GTAGCA GTAGCA G
134290 AACGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (6 bp):
GTAGCA
Found at i:144216 original size:3 final size:3
Alignment explanation
Indices: 144208--144232 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
144198 TGTAGTAACA
144208 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
144233 CTTCAATCTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:150597 original size:9 final size:10
Alignment explanation
Indices: 150578--150602 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
150568 ATTAAAGATT
150578 AAATAAAAAA
1 AAATAAAAAA
150588 AAATAAAAAA
1 AAATAAAAAA
150598 AAATA
1 AAATA
150603 TAAGTAAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:160994 original size:4 final size:4
Alignment explanation
Indices: 160985--161017 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
160975 CCTACATGGG
160985 TATT TATT TATT TATT TATT TATT TATT T-TT TA
1 TATT TATT TATT TATT TATT TATT TATT TATT TA
161018 AATGAATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:161168 original size:33 final size:34
Alignment explanation
Indices: 161125--161191 Score: 127
Period size: 33 Copynumber: 2.0 Consensus size: 34
161115 GTAAGCTTTT
161125 GGGGTTATTTTTGGATATGTAAATTTGGATTATA
1 GGGGTTATTTTTGGATATGTAAATTTGGATTATA
161159 GGGG-TATTTTTGGATATGTAAATTTGGATTATA
1 GGGGTTATTTTTGGATATGTAAATTTGGATTATA
161192 AAACAATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (34 bp):
GGGGTTATTTTTGGATATGTAAATTTGGATTATA
Found at i:175048 original size:9 final size:9
Alignment explanation
Indices: 175034--175059 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
175024 CCCAAATGTT
175034 TTCACATTA
1 TTCACATTA
175043 TTCACATTA
1 TTCACATTA
175052 TTCACATT
1 TTCACATT
175060 GTCAGTCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (9 bp):
TTCACATTA
Found at i:175882 original size:3 final size:3
Alignment explanation
Indices: 175874--175919 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
175864 ATATAATACG
175874 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
175920 GAGAAGGTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:176771 original size:3 final size:3
Alignment explanation
Indices: 176763--176801 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
176753 CTTTGGCAGC
* * *
176763 AAT AAT AAT AAC AAT AAA AAT AAT AAT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
176802 GTAGTAATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:179318 original size:7 final size:7
Alignment explanation
Indices: 179306--179340 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
179296 TGAAGATAGG
179306 ATTTTTT
1 ATTTTTT
179313 ATTTTTT
1 ATTTTTT
179320 ATTTTTT
1 ATTTTTT
179327 ATTTTTT
1 ATTTTTT
179334 ATTTTTT
1 ATTTTTT
179341 CAAGGAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Found at i:184349 original size:14 final size:14
Alignment explanation
Indices: 184330--184376 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
184320 GTTTCTATAC
184330 ATATACATACATAT
1 ATATACATACATAT
184344 ATATACATACATAT
1 ATATACATACATAT
* *
184358 ATATATATATATAT
1 ATATACATACATAT
184372 ATATA
1 ATATA
184377 TATATTCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATACATACATAT
Found at i:184361 original size:4 final size:4
Alignment explanation
Indices: 184325--184381 Score: 69
Period size: 4 Copynumber: 14.2 Consensus size: 4
184315 AGATAGTTTC
* * * * *
184325 TATA CATA TACA TACA TATA TATA CATA CATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
184373 TATA TATA T
1 TATA TATA T
184382 TCCACTCTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (4 bp):
TATA
Found at i:184381 original size:10 final size:10
Alignment explanation
Indices: 184325--184378 Score: 72
Period size: 10 Copynumber: 5.4 Consensus size: 10
184315 AGATAGTTTC
184325 TATACATATA
1 TATACATATA
*
184335 CATACATATA
1 TATACATATA
*
184345 TATACATACA
1 TATACATATA
*
184355 TATATATATA
1 TATACATATA
*
184365 TATATATATA
1 TATACATATA
184375 TATA
1 TATA
184379 TATTCCACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 39 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
TATACATATA
Found at i:187323 original size:27 final size:27
Alignment explanation
Indices: 187283--187339 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 27
187273 TTCAGATTTT
187283 TTTTTTATTCTTC-AACTTTTCTAGTA
1 TTTTTTATTCTTCAAACTTTTCTAGTA
187309 TTTTTTATTCGTTCATAACTTTTCTAGTA
1 TTTTTTATTC-TTCA-AACTTTTCTAGTA
187338 TT
1 TT
187340 CAAGGAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 10 0.36
27 3 0.11
29 15 0.54
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.61
Consensus pattern (27 bp):
TTTTTTATTCTTCAAACTTTTCTAGTA
Found at i:188882 original size:30 final size:28
Alignment explanation
Indices: 188848--188911 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 28
188838 ATAATATAAA
*
188848 AATATTTA-AAAATATATAATAATTATTATT
1 AATATTTAGAAAATA-A-AATAATTAAT-TT
188878 AATATTTATGAAAATAAAATAATTAATTT
1 AATATTTA-GAAAATAAAATAATTAATTT
188907 AATAT
1 AATAT
188912 ATAATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 7 0.23
30 17 0.55
31 1 0.03
32 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
AATATTTAGAAAATAAAATAATTAATTT
Found at i:188954 original size:23 final size:23
Alignment explanation
Indices: 188906--188950 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
188896 ATAATTAATT
188906 TAATATATAATTTTATATTAAAA
1 TAATATATAATTTTATATTAAAA
* *
188929 TAAT-TATATTTTTATTTTAAAA
1 TAATATATAATTTTATATTAAAA
188951 ATAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATATATAATTTTATATTAAAA
Found at i:188960 original size:23 final size:22
Alignment explanation
Indices: 188916--188961 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
188906 TAATATATAA
**
188916 TTTTATATTAAAATAATTATAT
1 TTTTATATTAAAATAAAAATAT
*
188938 TTTTATTTTAAAAATAAAAATAT
1 TTTTATATT-AAAATAAAAATAT
188961 T
1 T
188962 ATCATTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTATATTAAAATAAAAATAT
Found at i:189810 original size:17 final size:17
Alignment explanation
Indices: 189786--189837 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
189776 TAATCAATTT
189786 AAATTAATTAATTATAA
1 AAATTAATTAATTATAA
*
189803 ATATTAATGT-ATTA-AA
1 AAATTAAT-TAATTATAA
189819 AAATT-ATTAATTATAA
1 AAATTAATTAATTATAA
189835 AAA
1 AAA
189838 GACATAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 1 0.03
15 6 0.20
16 11 0.37
17 11 0.37
18 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATTAATTAATTATAA
Found at i:190183 original size:22 final size:21
Alignment explanation
Indices: 190155--190198 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
190145 ATTTTTATAT
190155 TTAATTT-TTTAATATGAATAAA
1 TTAATTTCTTTAAT-TG-ATAAA
190177 TTAATTTCTTTAATTGATAAA
1 TTAATTTCTTTAATTGATAAA
190198 T
1 T
190199 AATGACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTTCTTTAATTGATAAA
Found at i:192529 original size:2 final size:2
Alignment explanation
Indices: 192522--192558 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
192512 AGCTGGTATT
*
192522 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
192559 GAATTATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:200883 original size:6 final size:6
Alignment explanation
Indices: 200872--200908 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
200862 GGATTCCATT
* *
200872 GGAAGA GGAAGA GGAAGA GGAAGA AGAAGA GAAAGA G
1 GGAAGA GGAAGA GGAAGA GGAAGA GGAAGA GGAAGA G
200909 AGAAAAAGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
GGAAGA
Found at i:200998 original size:2 final size:2
Alignment explanation
Indices: 200991--201029 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
200981 CAATGGGGGT
200991 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
201030 CAGGGCAAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:203844 original size:2 final size:2
Alignment explanation
Indices: 203837--203863 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
203827 CCTAACGCTT
203837 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
203864 TTGTTGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:208196 original size:21 final size:21
Alignment explanation
Indices: 208164--208210 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
208154 TGCATGGGTG
208164 ATAT-TAGCTTT-CTAATTAAC
1 ATATATAGCTTTCCTAA-TAAC
* *
208184 ATATATAGTTTTCCTAATGAC
1 ATATATAGCTTTCCTAATAAC
208205 ATATAT
1 ATATAT
208211 CTATCTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATAGCTTTCCTAATAAC
Found at i:208217 original size:4 final size:4
Alignment explanation
Indices: 208208--208234 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
208198 TAATGACATA
208208 TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TAT
208235 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:208239 original size:2 final size:2
Alignment explanation
Indices: 208232--208261 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
208222 TCTATCTATC
208232 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
208262 AAGATATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:210939 original size:2 final size:2
Alignment explanation
Indices: 210932--210971 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
210922 AAAACCCGCC
210932 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
210972 CTGGATTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:212982 original size:2 final size:2
Alignment explanation
Indices: 212975--213015 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
212965 TTTCACAAAG
212975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
213016 GATTTTTGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:215303 original size:20 final size:19
Alignment explanation
Indices: 215275--215325 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
215265 AGAAAAAGCT
215275 AAAAACTAAAAAATAAAAG
1 AAAAACTAAAAAATAAAAG
*
215294 AAAAAGCTAAAAACTAAAA-
1 AAAAA-CTAAAAAATAAAAG
* *
215313 AATAATTAAAAAA
1 AAAAACTAAAAAA
215326 AGAAAAACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.22
19 9 0.33
20 12 0.44
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (19 bp):
AAAAACTAAAAAATAAAAG
Found at i:215311 original size:34 final size:35
Alignment explanation
Indices: 215267--215332 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
215257 CAACAGAAAG
*
215267 AAAAAGCTAAAAACTAA-AAAATAAAAGAAAAAGCT
1 AAAAAGCTAAAAAATAATAAAA-AAAAGAAAAAGCT
*
215302 AAAAA-CTAAAAAATAATTAAAAAAAGAAAAA
1 AAAAAGCTAAAAAATAATAAAAAAAAGAAAAA
215333 CAAACCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 20 0.71
35 8 0.29
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (35 bp):
AAAAAGCTAAAAAATAATAAAAAAAAGAAAAAGCT
Found at i:215325 original size:27 final size:27
Alignment explanation
Indices: 215263--215317 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
215253 TTTTCAACAG
215263 AAAGAAAAAGCTAAAAACTAAAAAATA
1 AAAGAAAAAGCTAAAAACTAAAAAATA
215290 AAAGAAAAAGCTAAAAACTAAAAAATA
1 AAAGAAAAAGCTAAAAACTAAAAAATA
215317 A
1 A
215318 TTAAAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.11
Consensus pattern (27 bp):
AAAGAAAAAGCTAAAAACTAAAAAATA
Found at i:215954 original size:22 final size:24
Alignment explanation
Indices: 215928--215977 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
215918 CATAAGATTC
215928 ATTTATAAAT-TG-TAAAAATTAT
1 ATTTATAAATATGATAAAAATTAT
*
215950 ATTTATAAATGATGATTAAAATTAT
1 ATTTATAAAT-ATGATAAAAATTAT
215975 ATT
1 ATT
215978 GAAAAGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
24 2 0.08
25 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
ATTTATAAATATGATAAAAATTAT
Found at i:215989 original size:25 final size:25
Alignment explanation
Indices: 215942--215989 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
215932 ATAAATTGTA
* *
215942 AAAATTATATTTATAAATGATGATT
1 AAAATTATATTGATAAATAATGATT
215967 AAAATTATATTGA-AAAGTAATGA
1 AAAATTATATTGATAAA-TAATGA
215990 AAAAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (25 bp):
AAAATTATATTGATAAATAATGATT
Found at i:215995 original size:25 final size:25
Alignment explanation
Indices: 215941--215995 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
215931 TATAAATTGT
* * *
215941 AAAAATTATATTTATAAATGATGAT
1 AAAAATTATATTGATAAATAATGAA
*
215966 TAAAATTATATTGA-AAAGTAATGAA
1 AAAAATTATATTGATAAA-TAATGAA
215991 AAAAA
1 AAAAA
215996 AATAACAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (25 bp):
AAAAATTATATTGATAAATAATGAA
Found at i:219756 original size:2 final size:2
Alignment explanation
Indices: 219749--219783 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
219739 GGCGTAACCT
*
219749 TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
219784 TCCTCCAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:221864 original size:3 final size:3
Alignment explanation
Indices: 221856--221880 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
221846 TTTAAATTTT
221856 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
221881 CAATACAATA
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:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:225054 original size:14 final size:14
Alignment explanation
Indices: 225035--225064 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
225025 ATAATTACAA
225035 CTCTTTACAATTTC
1 CTCTTTACAATTTC
225049 CTCTTTACAATTTC
1 CTCTTTACAATTTC
225063 CT
1 CT
225065 TAACATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (14 bp):
CTCTTTACAATTTC
Found at i:226509 original size:2 final size:2
Alignment explanation
Indices: 226502--226526 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
226492 TCAAGGTACG
226502 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
226527 GTACAGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:226536 original size:2 final size:2
Alignment explanation
Indices: 226531--226563 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
226521 ATATATGTAC
226531 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
226564 GCATACAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:228925 original size:17 final size:17
Alignment explanation
Indices: 228895--228928 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
228885 GGAGGCTTCA
228895 TTTTTCTTCCTTTTTTT
1 TTTTTCTTCCTTTTTTT
*
228912 TTTTT-TTTCTTTTTTT
1 TTTTTCTTCCTTTTTTT
228928 T
1 T
228929 CAAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTTCCTTTTTTT
Found at i:229127 original size:15 final size:16
Alignment explanation
Indices: 229097--229135 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
229087 ATGTGAAATG
229097 ATAAATATAAAATAAA
1 ATAAATATAAAATAAA
*
229113 ATAAA-ATAAACTAAA
1 ATAAATATAAAATAAA
*
229128 TTAAATAT
1 ATAAATAT
229136 GAGTCTATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAATATAAAATAAA
Found at i:230488 original size:7 final size:7
Alignment explanation
Indices: 230476--230500 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
230466 AGTTAAACTG
230476 AATTTTA
1 AATTTTA
230483 AATTTTA
1 AATTTTA
230490 AATTTTA
1 AATTTTA
230497 AATT
1 AATT
230501 AAATTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:236395 original size:14 final size:14
Alignment explanation
Indices: 236376--236405 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
236366 TTACTATTAT
236376 TATTATTGAAGAAG
1 TATTATTGAAGAAG
236390 TATTATTGAAGAAG
1 TATTATTGAAGAAG
236404 TA
1 TA
236406 AAAACACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (14 bp):
TATTATTGAAGAAG
Done.