Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022442.1 Corchorus olitorius cultivar O-4 contig22475, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 112913
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:2478 original size:67 final size:67
Alignment explanation
Indices: 2379--2507 Score: 215
Period size: 67 Copynumber: 1.9 Consensus size: 67
2369 AGACACGAAG
*
2379 ATACACGAGAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGGTACACAAGAAGAAAA
1 ATACACGAGAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGATACACAAGAAGAAAA
2444 CA
66 CA
* *
2446 ATACAC-ATGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGATACACGAGAAGA
1 ATACACGA-GAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGATACACAAGAAGA
2508 CATAGCCTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 1 0.02
67 57 0.98
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (67 bp):
ATACACGAGAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGATACACAAGAAGAAAA
CA
Found at i:2523 original size:49 final size:49
Alignment explanation
Indices: 2446--2829 Score: 391
Period size: 59 Copynumber: 7.3 Consensus size: 49
2436 GAAGAAAACA
2446 ATACAC-ATGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
1 ATACACGA-GAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
* *
2495 ATACACGAGAAGACATAGCCTCCACAGTGAGGAGAGGCCAGACACGAAG
1 ATACACGAGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
*
2544 GTACACGAGAAGACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
1 ATACAC-----G----A-GAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
2603 ATACACGAGAAG----AGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
1 ATACACGAGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
2648 ATACACGAGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
1 ATACACGAGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
*
2697 GTACACGAGAAGACACACAAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
1 ATACAC--G-AG-------AAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
*
2756 GTACACGAGAAGACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
1 ATACAC-----G----A-GAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
* *
2815 GTAAACGAGAAGACA
1 ATACACGAGAAGACA
2830 CGGTGGTGCT
Statistics
Matches: 293, Mismatches: 10, Indels: 64
0.80 0.03 0.17
Matches are distributed among these distances:
45 45 0.15
49 99 0.34
50 3 0.01
51 1 0.00
52 2 0.01
54 3 0.01
58 1 0.00
59 135 0.46
62 2 0.01
65 1 0.00
66 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.30, T:0.08
Consensus pattern (49 bp):
ATACACGAGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACACGAAG
Found at i:2538 original size:116 final size:110
Alignment explanation
Indices: 2369--2829 Score: 557
Period size: 108 Copynumber: 4.2 Consensus size: 110
2359 CAACACGCGA
2369 AGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGGTACAC
1 AGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGGTACAC
2434 AAGAAGAAAACAATACACATGAAGACATAGCCTCCGCAGTGAGGCGAGGCC
66 -AGAAGAAAAC---ACAC--GAAGACATAGCCTCCGCAGTGAGGCGAGGCC
*
2485 AGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGGAGAGGCCAGACACGAAGGTACAC
1 AGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGGTACAC
*
2550 -G-AGAAGACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCC
66 AGAAGAAAACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCC
* *
2593 AGACACGAAGATACACGAGAAG----AGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGATACAC
1 AGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGGTACAC
2654 ----G-------A-GAAGACATAGCCTCCGCAGTGAGGCGAGGCC
66 AGAAGAAAACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCC
* *
2687 AGACACGAAGGTACACGAGAAGACACACAAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACAC
1 AGACACGAAGATACAC--G-AG-------AAGACATAGCCTCCACAGTGAGGCGAGGCCAGACAC
*
2752 GAAGGTACAC-G-AGAAGACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCC
56 GAAGGTACACAGAAGAAAACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCC
* *
2805 AGACACGAAGGTAAACGAGAAGACA
1 AGACACGAAGATACACGAGAAGACA
2830 CGGTGGTGCT
Statistics
Matches: 313, Mismatches: 8, Indels: 56
0.83 0.02 0.15
Matches are distributed among these distances:
94 46 0.15
95 1 0.00
96 1 0.00
97 2 0.01
102 1 0.00
104 39 0.12
108 97 0.31
110 5 0.02
113 6 0.02
114 1 0.00
115 2 0.01
116 65 0.21
117 1 0.00
118 46 0.15
ACGTcount: A:0.38, C:0.26, G:0.29, T:0.07
Consensus pattern (110 bp):
AGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGGCGAGGCCAGACACGAAGGTACAC
AGAAGAAAACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCC
Found at i:2625 original size:45 final size:45
Alignment explanation
Indices: 2552--2709 Score: 235
Period size: 45 Copynumber: 3.4 Consensus size: 45
2542 AGGTACACGA
* *
2552 GAAGACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACAC
1 GAAGATACACG-AGA-AGAGCCTCCGCAGTGAGGCGAGGCCAGACAC
2599 GAAGATACACGAGAAGAGCCTCCGCAGTGAGGCGAGGCCAGACAC
1 GAAGATACACGAGAAGAGCCTCCGCAGTGAGGCGAGGCCAGACAC
2644 GAAGATACACGAGAAGACATAGCCTCCGCAGTGAGGCGAGGCCAGACAC
1 GAAGATACACGAGAAG----AGCCTCCGCAGTGAGGCGAGGCCAGACAC
*
2693 GAAGGTACACGAGAAGA
1 GAAGATACACGAGAAGA
2710 CACACAAAGA
Statistics
Matches: 104, Mismatches: 3, Indels: 10
0.89 0.03 0.09
Matches are distributed among these distances:
45 47 0.45
46 3 0.03
47 10 0.10
49 44 0.42
ACGTcount: A:0.35, C:0.26, G:0.32, T:0.07
Consensus pattern (45 bp):
GAAGATACACGAGAAGAGCCTCCGCAGTGAGGCGAGGCCAGACAC
Found at i:2649 original size:153 final size:153
Alignment explanation
Indices: 2462--2768 Score: 578
Period size: 153 Copynumber: 2.0 Consensus size: 153
2452 ATGAAGACAT
2462 AGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGG
1 AGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGG
*
2527 AGAGGCCAGACACGAAGGTACACGAGAAGACACACGAAGACATAGCCTCCGCAGTGAGGCGAGGC
66 AGAGGCCAGACACGAAGGTACACGAGAAGACACACAAAGACATAGCCTCCGCAGTGAGGCGAGGC
2592 CAGACACGAAGATACACGAGAAG
131 CAGACACGAAGATACACGAGAAG
*
2615 AGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGATACACGAGAAGACATAGCCTCCGCAGTGAGG
1 AGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGG
*
2680 CGAGGCCAGACACGAAGGTACACGAGAAGACACACAAAGACATAGCCTCCGCAGTGAGGCGAGGC
66 AGAGGCCAGACACGAAGGTACACGAGAAGACACACAAAGACATAGCCTCCGCAGTGAGGCGAGGC
*
2745 CAGACACGAAGGTACACGAGAAG
131 CAGACACGAAGATACACGAGAAG
2768 A
1 A
2769 CACACGAAGA
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 150 1.00
ACGTcount: A:0.36, C:0.26, G:0.31, T:0.07
Consensus pattern (153 bp):
AGCCTCCGCAGTGAGGCGAGGCCAGACACGAAGATACACGAGAAGACATAGCCTCCACAGTGAGG
AGAGGCCAGACACGAAGGTACACGAGAAGACACACAAAGACATAGCCTCCGCAGTGAGGCGAGGC
CAGACACGAAGATACACGAGAAG
Found at i:4113 original size:4 final size:4
Alignment explanation
Indices: 4104--4179 Score: 152
Period size: 4 Copynumber: 19.0 Consensus size: 4
4094 AAAAAAAGAG
4104 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC
4152 AGAC AGAC AGAC AGAC AGAC AGAC AGAC
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC
4180 TTGGATCTGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 72 1.00
ACGTcount: A:0.50, C:0.25, G:0.25, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:5420 original size:31 final size:31
Alignment explanation
Indices: 5348--5420 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
5338 TTTTTCTAGC
* *
5348 AAACGCCACTATATAGTGGCGTTTGGGTTAA
1 AAACGCCACTGTATAGCGGCGTTTGGGTTAA
* *
5379 AAACGCCACTGTATAGCGGTGTTTGGGTTAG
1 AAACGCCACTGTATAGCGGCGTTTGGGTTAA
5410 AAACGCCACTG
1 AAACGCCACTG
5421 ATGGTTTCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AAACGCCACTGTATAGCGGCGTTTGGGTTAA
Found at i:7020 original size:27 final size:27
Alignment explanation
Indices: 6982--7035 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
6972 TCTGCAACTT
*
6982 CTTTTCCACAATGACGACAATTCAATC
1 CTTTTCCACAATGACGACAATCCAATC
*
7009 CTTTTCCACAATGAGGACAATCCAATC
1 CTTTTCCACAATGACGACAATCCAATC
7036 TTCCACCCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.28
Consensus pattern (27 bp):
CTTTTCCACAATGACGACAATCCAATC
Found at i:8099 original size:29 final size:30
Alignment explanation
Indices: 8039--8110 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
8029 ATACCGTACA
* *
8039 GGTCCCTCTACTTACAAAAAGGGATCGATTT
1 GGTCCCTCTAC-TACAAAAACGGATCAATTT
* *
8070 GGTCCCCCTACTACAAAAACTG-TCAATTT
1 GGTCCCTCTACTACAAAAACGGATCAATTT
8099 GGTCCCTCTACT
1 GGTCCCTCTACT
8111 TATAATTTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 17 0.47
30 9 0.25
31 10 0.28
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (30 bp):
GGTCCCTCTACTACAAAAACGGATCAATTT
Found at i:8454 original size:29 final size:30
Alignment explanation
Indices: 8408--8484 Score: 102
Period size: 29 Copynumber: 2.5 Consensus size: 30
8398 TGACACCAAA
8408 TTATAAGTAGAGGGACCAAATTGAT-AGTTT
1 TTAT-AGTAGAGGGACCAAATTGATCAGTTT
**
8438 TTATAGTAGAGGGACCAAATTGATCCTTTT
1 TTATAGTAGAGGGACCAAATTGATCAGTTT
*
8468 TTGAAAGTAGAGGGACC
1 TT-ATAGTAGAGGGACC
8485 TGTATGGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.48
30 9 0.21
31 13 0.31
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (30 bp):
TTATAGTAGAGGGACCAAATTGATCAGTTT
Found at i:8849 original size:18 final size:18
Alignment explanation
Indices: 8826--8861 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8816 GAATGCAGTG
8826 GCAGTGGCATATATATAT
1 GCAGTGGCATATATATAT
8844 GCAGTGGCATATATATAT
1 GCAGTGGCATATATATAT
8862 ATTCTGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (18 bp):
GCAGTGGCATATATATAT
Found at i:19465 original size:31 final size:31
Alignment explanation
Indices: 19401--19468 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 31
19391 TTTTTGTTCC
*
19401 AAAACAAACGAAATTTTTTTTTGCCAAATAAA
1 AAAACAAACGAAATTTTTTTTTG-CAAAAAAA
**
19433 AAAACAAATCGATTTTTTTTTTTG-AAAAAAA
1 AAAACAAA-CGAAATTTTTTTTTGCAAAAAAA
19464 AAAAC
1 AAAAC
19469 CAGAGAGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 11 0.34
32 8 0.25
33 13 0.41
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.32
Consensus pattern (31 bp):
AAAACAAACGAAATTTTTTTTTGCAAAAAAA
Found at i:21048 original size:38 final size:38
Alignment explanation
Indices: 20997--21118 Score: 129
Period size: 38 Copynumber: 3.0 Consensus size: 38
20987 GCTCTTGTCT
20997 TAGACACAAACTTCAAATTCCATAATTATAATATAACA
1 TAGACACAAACTTCAAATTCCATAATTATAATATAACA
* * *
21035 TAGACACAAACTTCATATTAGTCTGTCATTACTCATAAATATAAACA
1 TAGACACAAACTTCA-A--A-T-T-CCA-TAATTAT-AATAT-AACA
21082 TAGACACAAACTTCAAATTCCATAATTAT-ATATAACA
1 TAGACACAAACTTCAAATTCCATAATTATAATATAACA
21119 GGTTTTACTA
Statistics
Matches: 69, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
37 4 0.06
38 19 0.28
39 1 0.01
40 5 0.07
41 3 0.04
42 2 0.03
43 2 0.03
44 3 0.04
45 5 0.07
46 6 0.09
47 19 0.28
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (38 bp):
TAGACACAAACTTCAAATTCCATAATTATAATATAACA
Found at i:21774 original size:2 final size:2
Alignment explanation
Indices: 21767--21793 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21757 TATTATGACA
21767 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21794 ATTTGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22651 original size:67 final size:67
Alignment explanation
Indices: 22543--22674 Score: 264
Period size: 67 Copynumber: 2.0 Consensus size: 67
22533 AGGGTACATC
22543 TTTAAGGCATTTGCTAGTACTAGTACATCTGAGAATTCTTAACAAGACATTCTCAAAGATACAAT
1 TTTAAGGCATTTGCTAGTACTAGTACATCTGAGAATTCTTAACAAGACATTCTCAAAGATACAAT
22608 CT
66 CT
22610 TTTAAGGCATTTGCTAGTACTAGTACATCTGAGAATTCTTAACAAGACATTCTCAAAGATACAAT
1 TTTAAGGCATTTGCTAGTACTAGTACATCTGAGAATTCTTAACAAGACATTCTCAAAGATACAAT
22675 GAGACAGAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (67 bp):
TTTAAGGCATTTGCTAGTACTAGTACATCTGAGAATTCTTAACAAGACATTCTCAAAGATACAAT
CT
Found at i:23148 original size:36 final size:36
Alignment explanation
Indices: 23101--23191 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
23091 CTGCAACTTC
*
23101 TTTTCCACAATGAAGACAATCCAAGCTTACAGCTTG
1 TTTTCCACAATGAAGACAATCCAAGCTTACAGCTCG
23137 TTTTCCACAATGAAGACAATCCAAGCTTACAGCTCG
1 TTTTCCACAATGAAGACAATCCAAGCTTACAGCTCG
* *
23173 ATTTCCACAATGACGACAA
1 TTTTCCACAATGAAGACAA
23192 CAACCCAATC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.25
Consensus pattern (36 bp):
TTTTCCACAATGAAGACAATCCAAGCTTACAGCTCG
Found at i:31527 original size:72 final size:72
Alignment explanation
Indices: 31410--31554 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
31400 TGTTATAGGG
31410 GCTAAATACATGCCGAGAAACAAATTTAACAAAAAGTGTACACAACAGATTTTCAGATTTTCAAA
1 GCTAAATACATGCCGAGAAACAAATTTAACAAAAAGTGTACACAACAGATTTTCAGATTTTCAAA
31475 TTTAACC
66 TTTAACC
31482 GCTAAATACATGCCGAGAAACAAATTTAACAAAAAGTGTACACAACAGATTTTCAGATTTTCAAA
1 GCTAAATACATGCCGAGAAACAAATTTAACAAAAAGTGTACACAACAGATTTTCAGATTTTCAAA
31547 TTTAACC
66 TTTAACC
31554 G
1 G
31555 TGTTAGGTCC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (72 bp):
GCTAAATACATGCCGAGAAACAAATTTAACAAAAAGTGTACACAACAGATTTTCAGATTTTCAAA
TTTAACC
Found at i:32772 original size:21 final size:20
Alignment explanation
Indices: 32743--32781 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
32733 CTATGATTTC
32743 AATGAGTTATTTAAGAAGACGA
1 AATGAGTTA-TTAA-AAGACGA
32765 AATG-GTTATTAAAAGAC
1 AATGAGTTATTAAAAGAC
32782 CTTGGTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 4 0.24
22 4 0.24
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
AATGAGTTATTAAAAGACGA
Found at i:38450 original size:4 final size:4
Alignment explanation
Indices: 38441--38471 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
38431 CTCAAAAGCA
38441 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
38472 AAAAGTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:43606 original size:1 final size:1
Alignment explanation
Indices: 43600--43632 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
43590 CAACATCACT
43600 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
43633 TCCTCCCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:45547 original size:15 final size:15
Alignment explanation
Indices: 45523--45577 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
45513 AACTAGATTG
*
45523 AAATATTTAAAACTT
1 AAATAATTAAAACTT
*
45538 AAATAATTAAAA--A
1 AAATAATTAAAACTT
*
45551 AAATATTTAAAACTT
1 AAATAATTAAAACTT
45566 AAATAATTAAAA
1 AAATAATTAAAA
45578 AAATGGACAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 11 0.33
15 22 0.67
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAATTAAAACTT
Found at i:45555 original size:28 final size:28
Alignment explanation
Indices: 45523--45580 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
45513 AACTAGATTG
45523 AAATATTTAAAACTTAAATAATTAAAAA
1 AAATATTTAAAACTTAAATAATTAAAAA
45551 AAATATTTAAAACTTAAATAATTAAAAA
1 AAATATTTAAAACTTAAATAATTAAAAA
45579 AA
1 AA
45581 TGGACATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (28 bp):
AAATATTTAAAACTTAAATAATTAAAAA
Found at i:51874 original size:36 final size:36
Alignment explanation
Indices: 51831--51978 Score: 188
Period size: 36 Copynumber: 3.9 Consensus size: 36
51821 ACCCTTAGAG
*
51831 GGGTGATCAAGGTAATCCGGATTACCACACCTTTAA
1 GGGTGATCAGGGTAATCCGGATTACCACACCTTTAA
*
51867 GGGTGATCAGGGTAATCCGGATTACCATCCAGATCACCCTTAGA
1 GGGTGATCAGGGTAATCCGGATT---A-CC--A-CACCTTTA-A
*
51911 GGGGTGATCAGGGTAATCCGGATTACCACACCTCTAA
1 -GGGTGATCAGGGTAATCCGGATTACCACACCTTTAA
51948 GGGTGATCAGGGTAATCCGGATTACCACACC
1 GGGTGATCAGGGTAATCCGGATTACCACACC
51979 AAACCAAAAA
Statistics
Matches: 99, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
36 53 0.54
37 1 0.01
38 6 0.06
39 2 0.02
40 2 0.02
41 2 0.02
42 2 0.02
43 7 0.07
44 1 0.01
45 23 0.23
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (36 bp):
GGGTGATCAGGGTAATCCGGATTACCACACCTTTAA
Found at i:51949 original size:81 final size:81
Alignment explanation
Indices: 51812--51974 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
51802 TATGGTGGTA
*
51812 ATCCAGATCACCCTTAGAGGGGTGATCAAGGTAATCCGGATTACCACACCTTTAAGGGTGATCAG
1 ATCCAGATCACCCTTAGAGGGGTGATCAAGGTAATCCGGATTACCACACCTCTAAGGGTGATCAG
51877 GGTAATCCGGATTACC
66 GGTAATCCGGATTACC
*
51893 ATCCAGATCACCCTTAGAGGGGTGATCAGGGTAATCCGGATTACCACACCTCTAAGGGTGATCAG
1 ATCCAGATCACCCTTAGAGGGGTGATCAAGGTAATCCGGATTACCACACCTCTAAGGGTGATCAG
51958 GGTAATCCGGATTACC
66 GGTAATCCGGATTACC
51974 A
1 A
51975 CACCAAACCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (81 bp):
ATCCAGATCACCCTTAGAGGGGTGATCAAGGTAATCCGGATTACCACACCTCTAAGGGTGATCAG
GGTAATCCGGATTACC
Found at i:63953 original size:6 final size:6
Alignment explanation
Indices: 63942--63968 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
63932 ACAAACCCAT
63942 ATATAC ATATAC ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATA
63969 AATAGGATAA
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:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:64596 original size:11 final size:11
Alignment explanation
Indices: 64572--64606 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
64562 TTGACAGCGC
64572 AACAAAAACAA
1 AACAAAAACAA
* *
64583 AACGAAAACGA
1 AACAAAAACAA
64594 AACAAAAACAA
1 AACAAAAACAA
64605 AA
1 AA
64607 AACAGAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.77, C:0.17, G:0.06, T:0.00
Consensus pattern (11 bp):
AACAAAAACAA
Found at i:67477 original size:38 final size:38
Alignment explanation
Indices: 67426--67501 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
67416 AACGTGTATC
67426 TTTTGGGGTATTTCATAAGAGTGATGCTACTTAGGTTT
1 TTTTGGGGTATTTCATAAGAGTGATGCTACTTAGGTTT
67464 TTTTGGGGTATTTCATAAGAGTGATGCTACTTAGGTTT
1 TTTTGGGGTATTTCATAAGAGTGATGCTACTTAGGTTT
67502 AGTTTGCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (38 bp):
TTTTGGGGTATTTCATAAGAGTGATGCTACTTAGGTTT
Found at i:70531 original size:54 final size:54
Alignment explanation
Indices: 70457--70564 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
70447 GAAAGGACTT
*
70457 AACTTTCAGGTTCTTCACTCGAAAGGGTTAATCTCAAATTAAACAAAAAATTAG
1 AACTTTCAGATTCTTCACTCGAAAGGGTTAATCTCAAATTAAACAAAAAATTAG
* * *
70511 AACTTTCAGATTTTTGACTCGAAAGGGTTAGTCTCAAATTAAACAAAAAATTAG
1 AACTTTCAGATTCTTCACTCGAAAGGGTTAATCTCAAATTAAACAAAAAATTAG
70565 TAAAAATACT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (54 bp):
AACTTTCAGATTCTTCACTCGAAAGGGTTAATCTCAAATTAAACAAAAAATTAG
Found at i:72370 original size:23 final size:23
Alignment explanation
Indices: 72339--72383 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
72329 GAAAGATATA
*
72339 TATTTTAATTATAA-TAATTAGTT
1 TATTCTAATT-TAATTAATTAGTT
72362 TATTCTAATTTAATTAATTAGT
1 TATTCTAATTTAATTAATTAGT
72384 GTCAACTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTCTAATTTAATTAATTAGTT
Found at i:72688 original size:2 final size:2
Alignment explanation
Indices: 72681--72718 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
72671 CAAACCATGC
72681 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
72719 TCTCAGGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75858 original size:2 final size:2
Alignment explanation
Indices: 75851--75875 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75841 TTTAATGCTG
75851 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 A
75876 ATCAGTTTGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84315 original size:13 final size:13
Alignment explanation
Indices: 84277--84314 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
84267 ATACTATTGG
*
84277 TGAAAAAAGAAAT
1 TGAAAAAAGAAAA
*
84290 TGAAAAATGAAAA
1 TGAAAAAAGAAAA
84303 TGAAAAAA-AAAA
1 TGAAAAAAGAAAA
84315 AAATTGAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
TGAAAAAAGAAAA
Found at i:85477 original size:2 final size:2
Alignment explanation
Indices: 85470--85495 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
85460 TAGTCTATTG
85470 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
85496 CTTTAATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90103 original size:93 final size:93
Alignment explanation
Indices: 89944--90236 Score: 419
Period size: 93 Copynumber: 3.2 Consensus size: 93
89934 AAGTGAAGCG
**
89944 GTTGAAGAAATAGAGAA-CAAAGTTGAGGTTACCAAGGATGAA-CTGCAGATTGAGGCACCAGCT
1 GTTGAAGAAGCAGAGAATC-AAGTTGAGGTTACCAAGGATGAAGC-GCAGATTGAGGCACCAGCT
* *
90007 TCAGAGGATGAAATTCCTTCAGCTCCACAA
64 TCAGAGGCTGAAATTCCTTCAGCTTCACAA
* * *
90037 GTTGAAGAAGCAGAGAATCAAGTTCAGGTTACCAAGGACGAAGCGCAGGTTGAGGCACCAGCTTC
1 GTTGAAGAAGCAGAGAATCAAGTTGAGGTTACCAAGGATGAAGCGCAGATTGAGGCACCAGCTTC
90102 AGAGGCTGAAATTCCTTCAGCTTCACAA
66 AGAGGCTGAAATTCCTTCAGCTTCACAA
* * * * *
90130 GTTGAAGAAGCAGAGAATCCAGTTGAGATCACCAAAGATGAAGTGCAGATTGAGGCACCAGCTTC
1 GTTGAAGAAGCAGAGAATCAAGTTGAGGTTACCAAGGATGAAGCGCAGATTGAGGCACCAGCTTC
*
90195 AGAGGCTGAAATTCCTTCAACTTCACAA
66 AGAGGCTGAAATTCCTTCAGCTTCACAA
* *
90223 GTTAAAGAGGCAGA
1 GTTGAAGAAGCAGA
90237 AGCTGCACCT
Statistics
Matches: 180, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
93 178 0.99
94 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (93 bp):
GTTGAAGAAGCAGAGAATCAAGTTGAGGTTACCAAGGATGAAGCGCAGATTGAGGCACCAGCTTC
AGAGGCTGAAATTCCTTCAGCTTCACAA
Found at i:98571 original size:2 final size:2
Alignment explanation
Indices: 98564--98603 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
98554 CATAAAAGTG
98564 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
98604 AACATAAAAA
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):
TA
Found at i:105915 original size:27 final size:27
Alignment explanation
Indices: 105885--105940 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
105875 TTCTGGTTAT
105885 TTAGAATTTTCCTTATTTTAATATCAA
1 TTAGAATTTTCCTTATTTTAATATCAA
105912 TTAGAATTTTCCTTATTTTAATATCAA
1 TTAGAATTTTCCTTATTTTAATATCAA
105939 TT
1 TT
105941 CTCTTATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.54
Consensus pattern (27 bp):
TTAGAATTTTCCTTATTTTAATATCAA
Found at i:106026 original size:18 final size:18
Alignment explanation
Indices: 106003--106041 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
105993 TTCCCTTTCC
106003 ATTTCTAATTTCTATTTG
1 ATTTCTAATTTCTATTTG
*
106021 ATTTCTAATTTTTATTTG
1 ATTTCTAATTTCTATTTG
106039 ATT
1 ATT
106042 AATGACTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTCTAATTTCTATTTG
Found at i:106134 original size:129 final size:129
Alignment explanation
Indices: 105945--106183 Score: 433
Period size: 129 Copynumber: 1.9 Consensus size: 129
105935 TCAATTCTCT
* * * *
105945 TATGAATGATCTTGTTTAAAATATTTATTTTTAATATCAATTCTCTTTTTCCCTTTCCATTTCTA
1 TATGAATGATCTTGCTTAAAATATTTACTTTTAATATCAATTCTCTTGTTCCCTTACCATTTCTA
*
106010 ATTTCTATTTGATTTCTAATTTTTATTTGATTAATGACTTTGAACCAAACAAGTAGCCATTATG
66 ATTTCTATTTGATTTCTAATTTCTATTTGATTAATGACTTTGAACCAAACAAGTAGCCATTATG
106074 TATGAATGATCTTGCTTAAAATATTTACTTTTAATATCAATTCTCTTGTTCCCTTACCATTTCTA
1 TATGAATGATCTTGCTTAAAATATTTACTTTTAATATCAATTCTCTTGTTCCCTTACCATTTCTA
106139 ATTTCTATTTGATTTCTAATTTCTATTTGATTAATGACTTTGAAC
66 ATTTCTATTTGATTTCTAATTTCTATTTGATTAATGACTTTGAAC
106184 ATCAAATTTC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 105 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.50
Consensus pattern (129 bp):
TATGAATGATCTTGCTTAAAATATTTACTTTTAATATCAATTCTCTTGTTCCCTTACCATTTCTA
ATTTCTATTTGATTTCTAATTTCTATTTGATTAATGACTTTGAACCAAACAAGTAGCCATTATG
Found at i:106155 original size:18 final size:18
Alignment explanation
Indices: 106132--106170 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
106122 TTCCCTTACC
106132 ATTTCTAATTTCTATTTG
1 ATTTCTAATTTCTATTTG
106150 ATTTCTAATTTCTATTTG
1 ATTTCTAATTTCTATTTG
106168 ATT
1 ATT
106171 AATGACTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (18 bp):
ATTTCTAATTTCTATTTG
Found at i:106334 original size:33 final size:33
Alignment explanation
Indices: 106292--106356 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
106282 TATTGCATCG
106292 AAGTTGCATCAAAGCCGAATAGAAGCGTAAGTA
1 AAGTTGCATCAAAGCCGAATAGAAGCGTAAGTA
* *
106325 AAGTTGCATCAAAGCCGAGTAGAGGCGTAAGT
1 AAGTTGCATCAAAGCCGAATAGAAGCGTAAGT
106357 GAAGAGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.18
Consensus pattern (33 bp):
AAGTTGCATCAAAGCCGAATAGAAGCGTAAGTA
Found at i:106824 original size:23 final size:23
Alignment explanation
Indices: 106797--106844 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
106787 ATTGGACTGT
106797 GAAGCAATTATCTTTTGCTGGTA
1 GAAGCAATTATCTTTTGCTGGTA
106820 GAAGCAATTATCTTTTGCTGGTA
1 GAAGCAATTATCTTTTGCTGGTA
106843 GA
1 GA
106845 TTGCAATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (23 bp):
GAAGCAATTATCTTTTGCTGGTA
Found at i:108927 original size:333 final size:333
Alignment explanation
Indices: 108229--112913 Score: 5832
Period size: 333 Copynumber: 14.1 Consensus size: 333
108219 GCCTAATTTG
* * * *
108229 AATATATAATTCAACGGCAGAAAGATTGAAGGGCTTTTCAGGCGTCTAATATCATTTTTTTTCAA
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCA--TTTTTTCAA
** * ** * ** * * * *
108294 TT-TTTTTCGTATTAATTTCCGATTAAATCGAAATATTATTCAGATGCTCATAAAATCAAATTCT
64 TTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCT
* * * * ** *
108358 TAAATCCAATGTGGCTGAGATTTGGGATGACGAATATAGATATTTCAATGAGTCGTTTG-GCCAA
129 TAAATCCATTGTGGCTGAGATTTTGGTTAATTAATATAGATATTTCAATGAGTC-TTGGCGCCAA
* * * * * *
108422 AAATCATGCAAAACTTAGCCGGAGCCTCGGAACCCGTTTTTAGCCAAAAACCCTGAT-GTAACAG
193 AAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT--TAG
* * * *
108486 TACACGATTTCGACAAAAATTTTGCAAAAACTGACCCGAAAGATTTTTTCTCAATTTTTAACCGA
256 TACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGC
108551 AATACTCGTAAAA
321 AATACTCGTAAAA
* * * * * *
108564 AATATCTAATTCAACG-CCAAAAGGTTGAAGGGCTTTTCACGCGTCTAAGAACATTTTTTTTCAA
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCA--TTTTTTCAA
* ** * * ** * * *
108628 TT-TTTTCTAAATAAATTCCGGATTAAATCGAAACATGATTCAGATGCTCG-AAAATCAAATCCT
64 TTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCT
* ** ** * * *
108691 TAAATCCAATGCAGCTGAGATTCAGGTTCATAAATATAGATATTTCAATGAGCCTTGGCGCCAAA
129 TAAATCCATTGTGGCTGAGATTTTGGTTAATTAATATAGATATTTCAATGAGTCTTGGCGCCAAA
* ** * * * * *
108756 AATCATTCAAATTTAAGTCGGGGCCTCGGAACGCGTTTTTAACCAAAAACCGTGAT-GTAACGTA
194 AATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA-GTA
* * ** * * *
108820 CACGATGTCGGCAAAAATTTTACAAAAACGGATCTGAAAGATTTTTCCTCAATTTCTAACCGCAA
258 CACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAA
108885 TACTCGTAAAA
323 TACTCGTAAAA
*
108896 AATATATAATTCAACGAGAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
** *
108961 -TTTATCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
66 CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
* * *
109025 AATCCATTTTGGCTGATA-TTTGGTTAAATTAATATATATATTTCAATGAGTCTTGGCGCCAAAA
131 AATCCATTGTGGCTGAGATTTTGGTT-AATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAA
* * * * * * *
109089 ATCATGCAAATCTAAACCGGAGCCCCGGAACGTGTTTTTAGTCAAAAACCGTGAT-GTAACGTAC
195 ATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA-GTAC
* *
109153 ACGATGTCGGCAAAAATTTTGC-AAAATCTGACCCCGAAAGATTTTTCCTCAATTTTAAACCGCA
259 ACGATTTCGGCAAAAATTTTGCAAAAAT-TGA-CCCGAAAGATTTTTCCTCAATTTTTAACCGCA
* * *
109217 CTAGTTGTAAAA
322 ATACTCGTAAAA
* *
109229 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTTACGCTTCTAATATCATTTTTTCATTT
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
* *
109294 TTTTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
66 CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
109359 AATCCATTGTGGC-G-GATGTTTGGTTACATTAATATAGATATTTCAATGAGTCTTGGCGCCAAA
131 AATCCATTGTGGCTGAGAT-TTTGGTTA-ATTAATATAGATATTTCAATGAGTCTTGGCGCCAAA
* * * * * *
109422 TATCATGCAAAACTGAGCCGGGACCGCAGAACGCATTTTTAGCCAAAAACTGTGATGGTTAGTAC
194 AATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTAC
*
109487 ACGATTTCGGCAAAAATTTTGCAAAAATTGATCCGAAAGATTTTTCCTCAATTTTTAACCGCAAT
259 ACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAAT
109552 ACTCGTAAAA
324 ACTCGTAAAA
* * * *
109562 AATATATAATTCAATGATAAAAATATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTACAATT
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
*
109627 CTTTCCCGAATTAATTTCTAATTAAATCGAAAGAAGATTCAGATGATCGTAAAAACAAATCCTTA
66 CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
* * * * *
109692 AATCCATTGTGGCTGAAATTTGGGATAATTAATATAGATATTTCAATGAGTCTTGGGGTCAAAAA
131 AATCCATTGTGGCTGAGATTTTGGTTAATTAATATAGATATTTCAATGAGTCTTGGCG-CCAAAA
109757 ATCATGCAAAACTGAGCCGGGGCACCC-GAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTAC
195 ATCATGCAAAACTGAGCCGGGGC-CCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTAC
* * * **
109821 ACGATTTCGG-AAAACAATTTGCAAAAATTGACCCAGAAA-AATTTTCCTCAAATTTTAACTACA
259 ACGATTTCGGCAAAA-ATTTTGCAAAAATTGACCC-GAAAGATTTTTCCTCAATTTTTAACCGCA
*
109884 ATACTTGT-AAA
322 ATACTCGTAAAA
*
109895 AATATATAATTCAAC-ACAAAAAAGATTGAAGGGGTTTTCACGCTTCTAATATCATTTTTTCAAT
1 AATATATAATTCAACGAC-AAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAAT
* *
109959 TCTTTCACGAATTAATTTCTAATTAAATCGATACAAGATTCAGATGATCGTAAAAACAAATCCTT
65 TCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTT
* * * * ** *
110024 AGATCCGTTGTGGCTGATA-TTTGTTTAGATTAATATAGACGTTTCAATGAGTCTTGGCGCAAAA
130 AAATCCATTGTGGCTGAGATTTTGGTTA-ATTAATATAGATATTTCAATGAGTCTTGGCGCCAAA
* * * * * * **
110088 AATCATGCAAATCTAAGACGAGGCCCCGGAACGTGTTTTTAGCAAAAAACCGTGAT-GAAACGTA
194 AATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA-GTA
* *
110152 CACGATGTCGGCAAAAATTTTGCAAAAACTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAA
258 CACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAA
110217 TACTCGTAAAA
323 TACTCGTAAAA
* * * * *
110228 AATATATAATTCAACGCCAAAAATATTGAAGGGCTTTACACGCTTCTAATATAATTTTTACAATT
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
* *
110293 CTTTTCCGAATTAGTTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
66 CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
* * * * *
110358 AATCCATTATGGCTGATATTTT-TTTAGATTAATATAGATGTTTCAATGAGTCTTGGTGCCAAAA
131 AATCCATTGTGGCTGAGATTTTGGTTA-ATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAA
* * * * *
110422 ATCATGCAAAACTGAGCCAGGACCCCGGAACGTGTTTTTAGCCAAAAACTGTGATGGTTAGAACA
195 ATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACA
* *
110487 CGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCATTTTTTAACCGTAATA
260 CGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATA
* *
110552 GTCATAAAA
325 CTCGTAAAA
*
110561 AATATATAATTCAACGATAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
* *
110626 CTTTCCCGAATTAATTTCTAATTAAATCGAAAGAAGATTCAGAGGATCGTAAAAACAAATCCTTA
66 CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
* * * * * * *
110691 AATCCATTGTGACTGAGATTTGGGATAATTAATTTAGATATTTCAATGAGTCTTGGTGTCGAAAA
131 AATCCATTGTGGCTGAGATTTTGGTTAATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAA
* *
110756 TCATGCAAAACTGAGCCGGGGTCCCC-GAATGCGTTTTTAGCCAAAAACCGT-A-----ACGCAC
196 TCATGCAAAACTGAGCCGGGG-CCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA-GTAC
* * **
110814 ACGATTTC-G----------GCAAAAATTGACCC-ATAAAATTTTTCCTCAAATTTTAACCATAA
259 ACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGA-AAGATTTTTCCTCAATTTTTAACCGCAA
* * *
110867 AACTTGTTAAA
323 TACTCGTAAAA
* * *
110878 AATATATAATTCATC-ACCAAAAAGATTGAAGTGCTTTAT-ACGCTTCTAATATCATTTTTACAA
1 AATATATAATTCAACGA-CAAAAAGATTGAAGGGCTTT-TCACGCTTCTAATATCATTTTTTCAA
* **
110941 TTCTTTCCCGAATTAATTTATAATTAAATCGAAACAAGATTCAGATGATCGGCAAAACAAATCCT
64 TTCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCT
* * * *
111006 TAAATCCATTATCGCTGATATTTAT--TTAGATTAATATAAATATTTCAATGAGTCTT-GCGCCA
129 TAAATCCATTGTGGCTGAGATTT-TGGTTA-ATTAATATAGATATTTCAATGAGTCTTGGCGCCA
* * * * ** * *
111068 AAAATCATGGAAAACAGAGTCGGGGCCCCGTAACATGTTTTTAGCCAAAAACTGTGATGCTTAGT
192 AAAATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGT
*
111133 ACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAGCCGCA
257 ACACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCA
111198 ATACTCGTAAAA
322 ATACTCGTAAAA
* * * * *
111210 AATATATAATACAAGGAGAAAAATATTGAAGGGCTTTTCACGCTTCTAATAGCATTTTTTCAATT
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
* * * *
111275 CTTTCCCGAATTAATTTCTTATTAAATCGAAAGAATATTCAGATGATTGTAAAAACAAATCCTTA
66 CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
* * * *
111340 AGTCCATTGTGGCTGAGA-TTTGTGATAATTAATATAGATATTTCAATGAGTCTTGGTGTCAAAA
131 AATCCATTGTGGCTGAGATTTTG-GTTAATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAA
* * ** * *
111404 ATCATGCTAAACTGAGCCGGGGGCCTTGAGCG-GTTTTTTAGCCAAAAACCGTGATAGTTAGTAC
195 ATCATGCAAAACTGAGCCGGGGCCCCGGAACGCG-TTTTTAGCCAAAAACCGTGATGGTTAGTAC
** * * * *
111468 ACGATTTCAACAAATATTTTGCAAAAATTGACCTAGAAA-ATTTTTCCGCAATTTTTAACCACAA
259 ACGATTTCGGCAAAAATTTTGCAAAAATTGACC-CGAAAGATTTTTCCTCAATTTTTAACCGCAA
*
111532 TACTTGTAAAA
323 TACTCGTAAAA
* *
111543 AATATTTAATTCAAC-ACCAAAAAGATTGAAGGGGTTTTCACGCTTCTAATATCATTTTTTCAAT
1 AATATATAATTCAACGA-CAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAAT
* * *
111607 TCTCTCCCGAATTAATTTCTAAATAAATCGATACAAGATTCAGATGATCGTAAAAACAAATCCTT
65 TCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTT
* * * * *
111672 AGATCCGTTGTGGCTGATA-TTTGTTTAGATTCATATAGATATTTCAATGAGTCTTGGCGCCAAA
130 AAATCCATTGTGGCTGAGATTTTGGTTA-ATTAATATAGATATTTCAATGAGTCTTGGCGCCAAA
* * * * * * **
111736 AATCATGCAAATCTAAGAC-GGGCCCCGGAACGAGTTTTTAACAAAAAACCGTGAT-GAAACGTA
194 AATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTA-GTA
* * *
111799 CAAGATGTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGGTTTTTCCTCAATTTTTAACCGCAA
258 CACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAA
111864 TACTCGTAAAA
323 TACTCGTAAAA
* *
111875 AATATATAATTCAACG-CTAAAATGATTGAAGGGCTTTACACGCTTCTAATATCATTTTTTCAAT
1 AATATATAATTCAACGAC-AAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAAT
* *
111939 ACTTTCCCGAATTAATTTCTAATTAAATCGAAAGAAGATTCAGATGATCGTAAAAACAAATCCTT
65 TCTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTT
* * * *
112004 AAATCCATTGTGGCTGAGATTTGGGATAATTAATATAGATATTTCAATGAGTCTTGGTGTCAAAA
130 AAATCCATTGTGGCTGAGATTTTGGTTAATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAA
* * *
112069 ATCATGAAAAACTGAACCGGGGGCCCC-GAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTAC
195 ATCATGCAAAACTGAGCC-GGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTAC
*
112133 ACGATTTCGGCAAATATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAAT
259 ACGATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAAT
112198 ACTCGTAAAA
324 ACTCGTAAAA
* * * * * *
112208 AATATATTATTCAATGATAAGAAGATTGAAGGACTTTTCACGCTTCTAATATCATTTTTTCAATA
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
* * * *
112273 CTTTCCCGAATTAATTTCTAATTCAATCGAAAGAAGATTCA-ATTGATTGTAAAAACAAATCATT
66 CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGA-TGATCGTAAAAACAAATCCTT
* * * *
112337 AAATCCATTGTGGCTGAGATTTGGGGTAATTAATATAGATATTTCAATGAGTCTTGGTGTCAAAA
130 AAATCCATTGTGGCTGAGATTTTGGTTAATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAA
* * * * *
112402 ATCATGCAAAACTGAGCCGAGGCCCCCGAAAGCATTTTTAGCCAAAAACGGTGATGGTTAGTACA
195 ATCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACA
* * * *
112467 CGATTTCGGAAAAAATTTTGCAAAAATTGACCCAGAAA-AATTTTCCTCATTTTTTAACCACAAT
260 CGATTTCGGCAAAAATTTTGCAAAAATTGACCC-GAAAGATTTTTCCTCAATTTTTAACCGCAAT
*
112531 ACTTGTAAAA
324 ACTCGTAAAA
* * ** *
112541 AATATATAATTCAATGATAAAAAGAACGAAGGACTTTTCACGCTTCTAATATCATTTTTTCAATT
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
* * * *
112606 CTTTCCCGAATTAATTTCTAATTAAATCGAAAGAGGATTCAGATGATTGTAAAAACAAATCATTA
66 CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
* * * * * *
112671 AATCCATTGTGGCTGAGATTTAGGATAATTAATATAGATATTTCAATGAGTCTTGGTGTCTAAGA
131 AATCCATTGTGGCTGAGATTTTGGTTAATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAA
* * * *
112736 TCATGCAAAACTGAGCCGAGGCCCCCGAAAGCGTTTTTAGCCAAAAACCGTAAATGGTTAGTACA
196 TCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGT-GATGGTTAGTACA
* * **
112801 CGATTTCGGAAAAAATTTTGCAAAAATTGACCCAGAAA-AATTTTCCTCAATTTTTAACCATAAT
260 CGATTTCGGCAAAAATTTTGCAAAAATTGACCC-GAAAGATTTTTCCTCAATTTTTAACCGCAAT
*
112865 ACTTGTAAAA
324 ACTCGTAAAA
* * *
112875 AATTTATAATTCAATGA-TAAAAGATTGAAGGGCTTTTCA
1 AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCA
Statistics
Matches: 3817, Mismatches: 452, Indels: 164
0.86 0.10 0.04
Matches are distributed among these distances:
315 4 0.00
316 49 0.01
317 204 0.05
318 1 0.00
321 11 0.00
322 2 0.00
327 2 0.00
328 11 0.00
330 1 0.00
331 77 0.02
332 823 0.22
333 2079 0.54
334 522 0.14
335 31 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (333 bp):
AATATATAATTCAACGACAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTTCAATT
CTTTCCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTA
AATCCATTGTGGCTGAGATTTTGGTTAATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAA
TCATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACAC
GATTTCGGCAAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATAC
TCGTAAAA
Done.