Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007018.1 Hibiscus syriacus cultivar Beakdansim tig00018129_pilon, 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: 172769
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:3734 original size:6 final size:6
Alignment explanation
Indices: 3723--3750 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3713 TAATAATAAA
3723 ATAATC ATAATC ATAATC ATAATC ATAA
1 ATAATC ATAATC ATAATC ATAATC ATAA
3751 ATAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAATC
Found at i:7460 original size:4 final size:4
Alignment explanation
Indices: 7453--7480 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
7443 TTACACACAC
7453 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7481 GAAAAATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:13530 original size:24 final size:24
Alignment explanation
Indices: 13498--13558 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
13488 CGCTAAATTT
* *
13498 ACATATAAACGAACATGTTCGCGA
1 ACATTTAAACGAACATGTTCACGA
*
13522 ACATTTAAAAGAACATGTTCACGA
1 ACATTTAAACGAACATGTTCACGA
13546 ACA-TTAAACGAAC
1 ACATTTAAACGAAC
13559 GCGTTCGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (24 bp):
ACATTTAAACGAACATGTTCACGA
Found at i:17091 original size:30 final size:30
Alignment explanation
Indices: 17027--17093 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
17017 AGACTAGCAA
* * *
17027 TGAACCGGCTGAAAACCAGTAAAATTGGGG
1 TGAACCAGCTGAAAACCAGCAAAATCGGGG
* **
17057 TGAACCAGCTGAAAACCGGCAAAATCGGTT
1 TGAACCAGCTGAAAACCAGCAAAATCGGGG
17087 TGAACCA
1 TGAACCA
17094 CGATTCACTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.16
Consensus pattern (30 bp):
TGAACCAGCTGAAAACCAGCAAAATCGGGG
Found at i:30133 original size:19 final size:20
Alignment explanation
Indices: 30109--30159 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
30099 AATGACCAAT
30109 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
30128 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
30148 AAAATCGCAACG
1 AAAATCGCAACG
30160 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:30153 original size:20 final size:20
Alignment explanation
Indices: 30109--30426 Score: 178
Period size: 20 Copynumber: 15.6 Consensus size: 20
30099 AATGACCAAT
*
30109 AAAATCGCAACGCGA-T-ATC
1 AAAATCGCAACGCGATTGA-G
*
30128 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
** ***
30148 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTGAG
**
30168 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TGAG
* **
30188 AAAATCGCAATGCGAGCTT-CC
1 AAAATCGCAACGCGA--TTGAG
**
30209 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* *
30232 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* * * *
30252 AGAATCGCAATGTGATTGAT
1 AAAATCGCAACGCGATTGAG
* * *
30272 AGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
* *
30292 ATAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTGAG
* *
30312 AGAGTCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTGAG
*
30332 AGAATCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
*
30355 AAAATCGCAACGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* *
30375 AGAATCGCAACGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * * *
30395 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTGAG
*
30415 AGAATCGCAACG
1 AAAATCGCAACG
30427 TTGAAAATAA
Statistics
Matches: 246, Mismatches: 39, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.06
20 180 0.73
21 18 0.07
22 4 0.02
23 28 0.11
24 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTGAG
Found at i:30289 original size:40 final size:40
Alignment explanation
Indices: 30213--30426 Score: 239
Period size: 40 Copynumber: 5.2 Consensus size: 40
30203 GCTTCCAAGT
*
30213 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGA-TT-G-AGAGAATCGCAATGCGATTGATAGAA
* * * *
30256 TCGCAATGTGATTGATAGAATCGCAATGCGATTGATATAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGATAGAA
* * * *
30296 TCGCAATGCGATTGAGAGAGTCGCAACGCGATTGAGAGAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGATAGAA
* * * *
30336 TCGCAACGCGATTTAGAAGAAAATCGCAACGCGACTGAGAGAA
1 TCGCAACGCGA-TT-G-AGAGAATCGCAATGCGATTGATAGAA
* *
30379 TCGCAACGCGACTGAGAGAATCGCAATGCGATTTATAGAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGATAGAA
30419 TCGCAACG
1 TCGCAACG
30427 TTGAAAATAA
Statistics
Matches: 147, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
40 96 0.65
41 4 0.03
42 4 0.03
43 43 0.29
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (40 bp):
TCGCAACGCGATTGAGAGAATCGCAATGCGATTGATAGAA
Found at i:30441 original size:103 final size:103
Alignment explanation
Indices: 30213--30446 Score: 235
Period size: 103 Copynumber: 2.3 Consensus size: 103
30203 GCTTCCAAGT
* * * * *
30213 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGA-TT-GATAG--AATCGCAATGTGATTGATAG
1 TCGCAACGCGA--TA-AAGAAAATCGCAACGCGATTTAGA-AGAAAATCGCAACGCGACTGAGAG
* * * * *
30274 AATCGCAATGCGATTGATATAATCGCAATGCGATTGAGAGAG
62 AATCGCAACGCGACTGAGAGAATCGCAATGCGATTGAGAGAA
** *
30316 TCGCAACGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAATCGCAACGCGACTGAGAGAATC
1 TCGCAACGCGATAAAGAAAATCGCAACGCGATTTAGAAGAAAATCGCAACGCGACTGAGAGAATC
* *
30381 GCAACGCGACTGAGAGAATCGCAATGCGATTTATAGAA
66 GCAACGCGACTGAGAGAATCGCAATGCGATTGAGAGAA
* *
30419 TCGCAACGTTGA-AAATAAAATCGCAACG
1 TCGCAACG-CGATAAAGAAAATCGCAACG
30447 GTCAAAAGAA
Statistics
Matches: 106, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
100 15 0.14
101 5 0.05
102 2 0.02
103 82 0.77
104 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (103 bp):
TCGCAACGCGATAAAGAAAATCGCAACGCGATTTAGAAGAAAATCGCAACGCGACTGAGAGAATC
GCAACGCGACTGAGAGAATCGCAATGCGATTGAGAGAA
Found at i:31260 original size:6 final size:6
Alignment explanation
Indices: 31249--31293 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
31239 TCTCGTCTCG
31249 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
31294 AATACGTGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:31424 original size:20 final size:20
Alignment explanation
Indices: 31403--31675 Score: 303
Period size: 20 Copynumber: 13.3 Consensus size: 20
31393 ATTTTCAACG
* *
31403 TTGCGATTTTCTAAATCGCG
1 TTGCGATTCTCTAAATCGCA
31423 TTGCGATTCTCTAAATCGCA
1 TTGCGATTCTCTAAATCGCA
* *
31443 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
31463 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
31483 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
31503 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
31523 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
*
31543 TTGCGATTCTCTTCTAAATCGCG
1 TTGCGA-T-TC-TCTAAATCGCA
* *
31566 TTGCGACTCTCTCAATCGCAA
1 TTGCGATTCTCTAAATCGC-A
*
31587 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTAAATCGCA
*
31607 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTAAATCGCA
* *
31627 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTAAATCGCA
*
31647 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TTC-TCTAAATCGCA
31670 TTGCGA
1 TTGCGA
31676 ACTTGGAAGC
Statistics
Matches: 229, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
20 177 0.77
21 19 0.08
22 5 0.02
23 28 0.12
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTCTAAATCGCA
Found at i:31468 original size:60 final size:60
Alignment explanation
Indices: 31403--31675 Score: 339
Period size: 60 Copynumber: 4.4 Consensus size: 60
31393 ATTTTCAACG
* * *
31403 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * * * *
31463 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * * *
31523 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCAA
1 TTGCGATTCTCTAAATCGCATTGCGA-T-TC-TCTAAATCGCATTGCGATTCTCTCAATCGC-A
* * *
31587 TTGCGATTCTATAAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
*
31647 TTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGA--TTC-TCTAAATCGCATTGCGA
31676 ACTTGGAAGC
Statistics
Matches: 186, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
60 87 0.47
61 27 0.15
62 7 0.04
63 41 0.22
64 24 0.13
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (60 bp):
TTGCGATTCTCTAAATCGCATTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:31714 original size:20 final size:20
Alignment explanation
Indices: 31689--31742 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
31679 TGGAAGCTCG
*
31689 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
31709 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
31729 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
31743 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:31718 original size:104 final size:104
Alignment explanation
Indices: 31403--31675 Score: 338
Period size: 104 Copynumber: 2.7 Consensus size: 104
31393 ATTTTCAACG
* * * * * * *
31403 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTAAATCGCATTGCGATTCTC-TC--AGTCGCATT
1 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCTTCTAAATCGCGTT
* * * * * *
31465 GCGATTCTCTCAGTCGC-ATTGCGATTCTCTCAGTCGCA
66 GCGACTCTCGCAATCGCAATTGCGATTCTATAAATCGCA
* * * * *
31503 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTTCTAAATCGCGTT
1 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCTTCTAAATCGCGTT
*
31568 GCGACTCTCTCAATCGCAATTGCGATTCTATAAATCGCA
66 GCGACTCTCGCAATCGCAATTGCGATTCTATAAATCGCA
*
31607 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
1 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCTTCTAAATCGCGTT
31672 GCGA
66 GCGA
31676 ACTTGGAAGC
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 45 0.30
101 2 0.01
103 22 0.15
104 81 0.54
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (104 bp):
TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCTTCTAAATCGCGTT
GCGACTCTCGCAATCGCAATTGCGATTCTATAAATCGCA
Found at i:31769 original size:19 final size:20
Alignment explanation
Indices: 31729--31779 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
31719 TTCTTTTTAA
*
31729 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
31749 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
31768 CGTTGCGATTTT
1 CGTTGCGATTTT
31780 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:34685 original size:32 final size:32
Alignment explanation
Indices: 34629--34694 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
34619 TGTGTCATGG
*
34629 CATCATTTTGGGTGGCGTGACACATACCACGT
1 CATCATTTTGGGTGACGTGACACATACCACGT
* * * *
34661 CATCATTTTGGGTGATGTGGCACATGCCATGT
1 CATCATTTTGGGTGACGTGACACATACCACGT
34693 CA
1 CA
34695 GTAACATGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (32 bp):
CATCATTTTGGGTGACGTGACACATACCACGT
Found at i:37954 original size:28 final size:28
Alignment explanation
Indices: 37914--37971 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
37904 CATTGCTTTT
*
37914 AAGCATTGACTCGACGATGTAATGTTTC
1 AAGCATTGACTCGACGATGTAATATTTC
37942 AAGCATTGACTCGACGATGTAATATTTC
1 AAGCATTGACTCGACGATGTAATATTTC
37970 AA
1 AA
37972 TTAACATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (28 bp):
AAGCATTGACTCGACGATGTAATATTTC
Found at i:42391 original size:2 final size:2
Alignment explanation
Indices: 42384--42409 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42374 ATTAAAAATG
42384 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
42410 CTAAATTATT
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):
AT
Found at i:46875 original size:24 final size:23
Alignment explanation
Indices: 46825--46874 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
46815 AACTTTTATG
46825 TTTTGGGGAGCGGAGGGGTTTTT
1 TTTTGGGGAGCGGAGGGGTTTTT
46848 TTTTGGGGAGCGGAGGGGTTTTT
1 TTTTGGGGAGCGGAGGGGTTTTT
46871 TTTT
1 TTTT
46875 TTGAATGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.04, G:0.44, T:0.44
Consensus pattern (23 bp):
TTTTGGGGAGCGGAGGGGTTTTT
Found at i:49028 original size:24 final size:24
Alignment explanation
Indices: 48995--49040 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
48985 TTAGGTTTTA
48995 TTTAATATAATAATATTTT-AAATAT
1 TTTAATATAA-AA-ATTTTGAAATAT
49020 TTTAA-ATAAAAATTTTGAAAT
1 TTTAATATAAAAATTTTGAAAT
49041 TACTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.25
23 6 0.30
24 4 0.20
25 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTAATATAAAAATTTTGAAATAT
Found at i:55893 original size:8 final size:8
Alignment explanation
Indices: 55882--55924 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
55872 ATAAAATGAT
55882 AATAAAAA
1 AATAAAAA
55890 AATAAAAA
1 AATAAAAA
*
55898 AATATATAA
1 AATA-AAAA
* *
55907 TATATAAA
1 AATAAAAA
55915 AATAAAAA
1 AATAAAAA
55923 AA
1 AA
55925 ATCACAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AATAAAAA
Found at i:59072 original size:20 final size:21
Alignment explanation
Indices: 59043--59083 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
59033 AACATTGAGA
*
59043 AAACATAAAAT-AAAAAGAAC
1 AAACAAAAAATGAAAAAGAAC
59063 AAACAAAAAATGGAAAAAGAA
1 AAACAAAAAAT-GAAAAAGAA
59084 GACGGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.07, G:0.10, T:0.07
Consensus pattern (21 bp):
AAACAAAAAATGAAAAAGAAC
Found at i:59530 original size:14 final size:14
Alignment explanation
Indices: 59511--59537 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59501 TCCCATATGT
59511 AATGGGTAAGGGAC
1 AATGGGTAAGGGAC
59525 AATGGGTAAGGGA
1 AATGGGTAAGGGA
59538 GAGATGGGGT
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:0.37, C:0.04, G:0.44, T:0.15
Consensus pattern (14 bp):
AATGGGTAAGGGAC
Found at i:62214 original size:2 final size:2
Alignment explanation
Indices: 62209--62252 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
62199 TTTTTTTCTT
62209 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62251 TA
1 TA
62253 AAACCGATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:68096 original size:31 final size:32
Alignment explanation
Indices: 68061--68130 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
68051 TTAAGGGCTA
* * * *
68061 TTTATAGTAATTTTATCATTTTAATAATT-AT
1 TTTATAATAATTTGATAAATTTAATAATTCAT
*
68092 TTTATAATAATTTGATAAATTTAATTATTCAT
1 TTTATAATAATTTGATAAATTTAATAATTCAT
68124 TTTATAA
1 TTTATAA
68131 CTTTAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (32 bp):
TTTATAATAATTTGATAAATTTAATAATTCAT
Found at i:72831 original size:28 final size:28
Alignment explanation
Indices: 72791--72846 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
72781 AAAAAGCTTC
72791 AAAACATTCTCCTTATCATCTCAAAATG
1 AAAACATTCTCCTTATCATCTCAAAATG
72819 AAAACATTCTCCTTATCATCTCAAAATG
1 AAAACATTCTCCTTATCATCTCAAAATG
72847 TTTCATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (28 bp):
AAAACATTCTCCTTATCATCTCAAAATG
Found at i:75062 original size:131 final size:131
Alignment explanation
Indices: 74902--75182 Score: 418
Period size: 131 Copynumber: 2.1 Consensus size: 131
74892 ATTATTATAT
* *
74902 TTAAAGATTAATTGTATTAGAGATGTTTTATATTTTTAAAATGAGGGTTGAATCTATAGGTTTTA
1 TTAAAGATTAAATGTATTAGAGATGTTTTATATTCTTAAAATGAGGGTTGAATCTATAGGTTTTA
* ** * * *
74967 TAGATGTAAAGGGTGAATTTATTGAATTATATAGAATTAGGACCATACTGAAAGAATATACAAGT
66 TAAATGTAAAGGGACAATTTACTGAATTATATAAAATTAGGACCAAACTGAAAGAATATACAAGT
75032 A
131 A
* * * *
75033 TTAAAGATTAAATGTATTAGAGATGTTTTATGTTCTTAAAATGAGGGTTGAATTTTTAGGTTTTG
1 TTAAAGATTAAATGTATTAGAGATGTTTTATATTCTTAAAATGAGGGTTGAATCTATAGGTTTTA
* * **
75098 TAAATGTAAAGGGACAATTTACTGAATTATATAAAATTAGGATCAAATTGAAAGAATATGTAAGT
66 TAAATGTAAAGGGACAATTTACTGAATTATATAAAATTAGGACCAAACTGAAAGAATATACAAGT
75163 A
131 A
75164 TTAAAGATTAAATGTATTA
1 TTAAAGATTAAATGTATTA
75183 TTATCCCATG
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (131 bp):
TTAAAGATTAAATGTATTAGAGATGTTTTATATTCTTAAAATGAGGGTTGAATCTATAGGTTTTA
TAAATGTAAAGGGACAATTTACTGAATTATATAAAATTAGGACCAAACTGAAAGAATATACAAGT
A
Found at i:75518 original size:20 final size:20
Alignment explanation
Indices: 75424--75792 Score: 431
Period size: 20 Copynumber: 18.4 Consensus size: 20
75414 GATTTTCCAT
* ** *
75424 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
75444 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
75464 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
75484 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
75504 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
* *
75524 AATCGCAATGCGTATCCATA
1 AATCGCAACGCGTATCCGTA
*
75544 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
75564 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
75584 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
75604 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
75624 AACCGTAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
75644 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
75664 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
75684 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
75704 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
75724 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
75744 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
75764 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
75784 AATCACAAC
1 AATCGCAAC
75793 ACTGAAATTT
Statistics
Matches: 299, Mismatches: 42, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.01
20 293 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:76514 original size:24 final size:24
Alignment explanation
Indices: 76475--76521 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
76465 AAATTTGGTC
76475 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
76499 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
76522 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:76713 original size:12 final size:12
Alignment explanation
Indices: 76696--76720 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76686 ATATAATCCT
76696 GAAGAAGAAAAA
1 GAAGAAGAAAAA
76708 GAAGAAGAAAAA
1 GAAGAAGAAAAA
76720 G
1 G
76721 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:79022 original size:19 final size:19
Alignment explanation
Indices: 79000--79306 Score: 367
Period size: 19 Copynumber: 17.4 Consensus size: 19
78990 CGGAAAATAC
*
79000 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
79019 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
79033 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
79053 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
79067 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
79086 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
*
79105 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
79119 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
79138 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
79157 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
79171 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
79190 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
79209 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
79228 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
79247 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
79261 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
79280 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
79299 AATCGCAA
1 AATCGCAA
79307 CGAGATAATC
Statistics
Matches: 250, Mismatches: 12, Indels: 52
0.80 0.04 0.17
Matches are distributed among these distances:
14 48 0.19
15 2 0.01
16 16 0.06
17 13 0.05
18 3 0.01
19 155 0.62
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:79115 original size:52 final size:52
Alignment explanation
Indices: 79028--79306 Score: 379
Period size: 52 Copynumber: 5.2 Consensus size: 52
79018 AAATCCCAAC
79028 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
79081 ATGAAAATCGCAATGTGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
79133 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
79185 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
79242 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
79294 ATGAAAATCGCAA
1 ATGAAAATCGCAA
79307 CGAGATAATC
Statistics
Matches: 214, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
52 163 0.76
53 15 0.07
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:79156 original size:71 final size:70
Alignment explanation
Indices: 79067--79311 Score: 350
Period size: 71 Copynumber: 3.5 Consensus size: 70
79057 GCAACGAGAG
*
79067 AATCGCAATGCGAAATGAAAATCGCAATGTGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGAGAAATGAAAATCGCAACGA-AGAATCGCAATGCGA
79132 AATGAA
65 AATGAA
* * * * **
79138 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCG-CAATGCGAAATTAA-AATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAATGAGA-AAT-GAAAAT-CGCAACGAAGAATCGCAATGC
79201 GAAATGAA
63 GAAATGAA
*
79209 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGAGAAATGAAAATCGCAACG-AAGAATCGCAATGCGA
79274 AATGAA
65 AATGAA
*
79280 AATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCGCAATGAGA
79312 TAATCGCAAT
Statistics
Matches: 152, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
69 5 0.03
70 8 0.05
71 126 0.83
72 7 0.05
73 6 0.04
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCGCAATGAGAAATGAAAATCGCAACGAAGAATCGCAATGCGAA
ATGAA
Found at i:79252 original size:142 final size:138
Alignment explanation
Indices: 79000--79344 Score: 509
Period size: 142 Copynumber: 2.5 Consensus size: 138
78990 CGGAAAATAC
* * *
79000 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG
1 AATCGCAATGCGAAATGAAAATCGCAAC--GAAAATCGCAATGC-GAAATTAAAATCGCAATGCG
* * *
79063 -AGAGAATCGCAATGCGAAATGAAAATCGCAATGTGAAATGAAAATCGCAACGAGAGAATCGCAA
63 AAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAA
79127 TGCGAAATGAA
128 TGCGAAATGAA
79138 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAATTAAAATCGCAATGCG-
79203 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
63 AA-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCA
79268 ATGCGAAATGAA
127 ATGCGAAATGAA
*
79280 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATAAA-CGCATTGCG
1 AATCGCAATGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAATTA-AAATCGCAATGCG
79344 A
63 A
79345 TTTTCATTTC
Statistics
Matches: 190, Mismatches: 9, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
136 2 0.01
137 16 0.08
138 37 0.19
139 2 0.01
141 2 0.01
142 128 0.67
143 3 0.02
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (138 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAATCGCAATGCGAAATTAAAATCGCAATGCGAAG
AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGC
GAAATGAA
Found at i:79307 original size:52 final size:55
Alignment explanation
Indices: 79000--79328 Score: 323
Period size: 52 Copynumber: 6.3 Consensus size: 55
78990 CGGAAAATAC
* *
79000 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
* *
79053 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
79105 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
* *
79157 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
79209 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
*
79261 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
79313 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
79329 TATAAACGCA
Statistics
Matches: 255, Mismatches: 8, Indels: 27
0.88 0.03 0.09
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 1 0.00
51 2 0.01
52 180 0.71
53 23 0.09
54 7 0.03
55 6 0.02
57 26 0.10
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:79425 original size:19 final size:19
Alignment explanation
Indices: 79335--79417 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
79325 AAATTATAAA
79335 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
79354 CCGCATTGCGA--TTC-TCT
1 -CGCATTGCGATTTTCATTT
79371 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
79388 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
79407 CGCATTGCGAT
1 CGCATTGCGAT
79418 AGTCATTTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 5 0.09
17 6 0.11
18 3 0.05
19 26 0.46
20 10 0.18
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:79542 original size:14 final size:14
Alignment explanation
Indices: 79523--79559 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
79513 CATCAATTAC
79523 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
79537 ACAAATCATCTTTT
1 ACAAATCAACTTTT
79551 ACAAATCAA
1 ACAAATCAA
79560 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:81555 original size:14 final size:14
Alignment explanation
Indices: 81536--81592 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
81526 GCGAAATGAA
81536 AATCGCAACGACAG
1 AATCGCAACGACAG
*
81550 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
81569 AATCGCAACGAAAG
1 AATCGCAACGACAG
81583 AATCGCAACG
1 AATCGCAACG
81593 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.28, G:0.19, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:81563 original size:33 final size:33
Alignment explanation
Indices: 81517--81609 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
81507 GCGAAACCAA
* *
81517 AATCGCAATGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
81550 AATCGCAACGCGAAACCAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
81583 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
81610 TGCGATATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:81606 original size:52 final size:54
Alignment explanation
Indices: 81480--81614 Score: 149
Period size: 52 Copynumber: 2.5 Consensus size: 54
81470 TAGTTTACTT
*
81480 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAATGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAA-GCGAAATG-AAA
*
81538 TCGCAA-CGACA-G--AATCGCAACGCGAAACCAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAAGCGAAATGAAA
*
81585 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
81615 TATGACGAGT
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.07
50 6 0.09
52 39 0.57
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAAGCGAAATGAAA
Found at i:81619 original size:19 final size:19
Alignment explanation
Indices: 81480--81619 Score: 111
Period size: 19 Copynumber: 7.8 Consensus size: 19
81470 TAGTTTACTT
* *
81480 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
81500 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
81519 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
81538 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
**
81552 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
81571 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
81585 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
81604 TCGCAATGCGATATGA
1 TCGCAACGCGAAATGA
81620 CGAGTGTACC
Statistics
Matches: 98, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
14 16 0.16
16 10 0.10
17 10 0.10
19 50 0.51
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:82272 original size:33 final size:33
Alignment explanation
Indices: 82227--82340 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
82217 TCTTTTGGTT
82227 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
82260 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
82293 GAAATG-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
82325 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
82341 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 31 0.41
33 45 0.59
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:82273 original size:19 final size:18
Alignment explanation
Indices: 82234--82345 Score: 95
Period size: 14 Copynumber: 6.8 Consensus size: 18
82224 GTTGAAATGA
82234 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
82249 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
82266 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
82282 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
82299 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
*
82314 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
82331 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
82346 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 24
0.74 0.04 0.22
Matches are distributed among these distances:
14 24 0.30
15 1 0.01
16 18 0.23
17 8 0.10
18 8 0.10
19 20 0.25
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:82376 original size:14 final size:14
Alignment explanation
Indices: 82357--82411 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
82347 TTTGGTTTCG
82357 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
82371 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
82390 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
82404 CGTTGCGA
1 CGTTGCGA
82412 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:82389 original size:33 final size:33
Alignment explanation
Indices: 82341--82411 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
82331 AAAATCGCAA
**
82341 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
82374 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
82407 TGCGA
1 TGCGA
82412 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:82419 original size:33 final size:33
Alignment explanation
Indices: 82352--82433 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
82342 GCGATTTTGG
***
82352 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
82385 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
82418 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
82434 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:82438 original size:20 final size:20
Alignment explanation
Indices: 82364--82452 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
82354 TCGCGTTGCG
82364 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
82384 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
82397 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
82417 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
82437 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
82453 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:82574 original size:33 final size:33
Alignment explanation
Indices: 82532--82601 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
82522 AATACTAACT
*
82532 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
82565 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
82598 TGAA
1 TGAA
82602 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:82834 original size:22 final size:22
Alignment explanation
Indices: 82782--82836 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
82772 TGGTTGTGAG
**
82782 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
82804 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
82826 GGATTTCTTCG
1 GGATTTCTTCG
82837 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:83007 original size:20 final size:20
Alignment explanation
Indices: 82982--83174 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
82972 CTTTAAATAT
82982 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
83002 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
83024 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
83043 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
83063 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
83083 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
83103 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
83123 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
83143 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
83163 CGCGTTGCGATT
1 CGCGTTGCGATT
83175 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:83169 original size:60 final size:60
Alignment explanation
Indices: 82982--83174 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
82972 CTTTAAATAT
**
82982 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
83043 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
83103 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
83163 CGCGTTGCGATT
1 CGCGTTGCGATT
83175 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:83255 original size:20 final size:20
Alignment explanation
Indices: 83230--83301 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
83220 AAGAATCGCG
*
83230 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
83250 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
83270 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
83290 TTGCGATTCTGG
1 TTGCGATTCTGG
83302 GGATCGCGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:83314 original size:40 final size:39
Alignment explanation
Indices: 83222--83317 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 39
83212 CGATTTTCAA
*
83222 GAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTG
1 GAATCGCGTTGCGATTCTGGAAACTGATTTGCGATTCTG
* **
83261 GAAACTGATTTGCGATTCTGGAAACTGATTTGCGATTCTGG
1 GAATC-GCGTTGCGATTCTGGAAACTGATTTGCGATTCT-G
*
83302 GGATCGCGTTGCGATT
1 GAATCGCGTTGCGATT
83318 TTTATTTCGC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.09
40 39 0.83
41 4 0.09
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (39 bp):
GAATCGCGTTGCGATTCTGGAAACTGATTTGCGATTCTG
Found at i:84560 original size:3 final size:3
Alignment explanation
Indices: 84552--84594 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
84542 ATGATAATTG
*
84552 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
84595 TAATAACTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:98862 original size:650 final size:649
Alignment explanation
Indices: 97320--99218 Score: 3269
Period size: 652 Copynumber: 2.9 Consensus size: 649
97310 TTTGTGTTGC
* * *
97320 CAATCGAATAATGTCACGACGTGGCACTTGGTTAAGTTGGGGCACTACTGTAGAATGAGAAATGA
1 CAATCGAATAATGTCACGGCGTGGCGCTTGGTTAAGTTGGGGCACTACTGTATAATGAGAAATGA
*
97385 TAGTAGGTGCAGAAACATTTCTCCCAAGCCTGAAATTCTTCCGCAGAGTCTTCCAAATCTCATCT
66 TAGTAGGTGCAGAAACATTTCTCCCAAGCCTGAAATTCTTCCGCAGAGTCTTCCAAATCTCCTCT
* * *
97450 TTATTAATGGCATGACAATGATCGGCATTAAACATACCCCAACTGTTGGGAAATAAACGAGTAAC
131 TTATCAGTGGCATGACAATGATCGGCATTAGACATACCCCAACTGTTGGGAAATAAACGAGTAAC
*
97515 AAGTATTTTTCCTATAACCAGATTAGTGAGAATGCGAAATAAAAACGGAAAAATAATACCCGAAA
196 AAGTATTTTTCCTATAACCAGATTAGTGAGAATGCGAAATAAAAGCGGAAAAATAATACCCGAAA
* * *
97580 TTGATAACGGAGTTCAACCAATTGTGCCTACGTCTTCAGACTGCTGC-TGATCTTTTTTAAAGAG
261 TTGATAACGGAGTTCAGCCAATTGTGCCTACGTCTCCGGACTGCTGCAT-ATCTTTTTTAAAGAG
*
97644 AGAAAATTTACAAGTGTTTACAAAACACTCTCTACTCACAAGAAAACTCTCTAGTATTGGGAGAA
325 AGAAAATTTACAGGTGTTTACAAAACACTC-CTACTCACAAGAAAACTCTCTAGTATTGGGAGAA
97709 AGAAATGATTTTGGGATGATTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAAGCTTAAGGA
389 AGAAATGATTTTGGGATGATTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAAGCTTAAGGA
* *
97774 CTTAATCTTGTAAATGCCCTAAAGTCTATAGATTAATTGTGATTATCTCATTATCATTTTTCAAC
454 CTTAATCTTGTAAATACCCTAAAGTCTATGGATTAATTGTGATTATC-CATTATCATTTTTCAAC
* *
97839 AAACATCTATCAAACTTTGAAAAATTGTTTTTCAAAGAAATATTTACTAAACTTTGAAAACCATT
518 AAACATCTACCAAACTTTGAAAAACTGTTTTTCAAAGAAATATTTAC-AAACTTTGAAAACCATT
*
97904 TTCAAAAAAATATTTACCAATCATTTTTTCAAAGTTGGTTGCCAAACTTTGAACTTAACAATACT
582 TTCAAAAAAACATTTACCAATCATTTTTTCAAAGTTGGTTGCCAAACTTTGAACTTAACAATACT
97969 TGT
647 TGT
97972 CAATCGAATAATGTCACGGCGTGGCGCTTGGTTAAGTTGGGGCACTACTGTATAATGAGAAATGA
1 CAATCGAATAATGTCACGGCGTGGCGCTTGGTTAAGTTGGGGCACTACTGTATAATGAGAAATGA
98037 TAGTAGGTGCAGAAACATTTCTCCCAAGCCTGAAATTCTTCCGCAGAGTCTTCCAAATCTCCTCT
66 TAGTAGGTGCAGAAACATTTCTCCCAAGCCTGAAATTCTTCCGCAGAGTCTTCCAAATCTCCTCT
*
98102 TTATCAGTGGCATGACAATGATCGACATTAGACATACCCCAACTGTTGGGAAATAAACGAGTAAC
131 TTATCAGTGGCATGACAATGATCGGCATTAGACATACCCCAACTGTTGGGAAATAAACGAGTAAC
* *
98167 AAGTATTTTTCCTATAATCAGATTAGTGAGAATGCGAAATAAAAGCGAAAAAATAATACCCGAAA
196 AAGTATTTTTCCTATAACCAGATTAGTGAGAATGCGAAATAAAAGCGGAAAAATAATACCCGAAA
98232 TTGATAACGGAGTTCAGCCAATTGTGCCTACGTCTCCGGACTGCTGCATATCTTTTTTAAAGAGA
261 TTGATAACGGAGTTCAGCCAATTGTGCCTACGTCTCCGGACTGCTGCATATCTTTTTTAAAGAGA
* * * *
98297 GAAAAATTACAGGTGTTTACAAAACACTCGCTACTCACAATAAAACTCTATAGTATTAGGAGAAA
326 GAAAATTTACAGGTGTTTACAAAACACTC-CTACTCACAAGAAAACTCTCTAGTATTGGGAGAAA
*
98362 GAAATGATTTTGGGATGATTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAAGCTTAAGGGC
390 GAAATGATTTTGGGATGATTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAAGCTTAAGGAC
*
98427 TTAATCTTGTAAATACCCTAAAGCCTATGGATTAATTGTGATTATCCGATTATCATTTTTCAACA
455 TTAATCTTGTAAATACCCTAAAGTCTATGGATTAATTGTGATTATCC-ATTATCATTTTTCAACA
98492 AACATCTACCAAACTTTG-AAAACTGTTTTT-AAAGGAAATATTTATCAAACTTTGAAAACCA-T
519 AACATCTACCAAACTTTGAAAAACTGTTTTTCAAA-GAAATATTTA-CAAACTTTGAAAACCATT
*
98554 TTAAAAAAAACATTTACCAATCATTTTTTCAAAGTTGGTTGCCAAACTTTGAACTTAACAATACT
582 TTCAAAAAAACATTTACCAATCATTTTTTCAAAGTTGGTTGCCAAACTTTGAACTTAACAATACT
98619 TGT
647 TGT
*
98622 CAATCGAATAATATCACGGCGTGGCGCTTGGTTAAGTTGGGGCACTACTGTATAATGAGAAATGA
1 CAATCGAATAATGTCACGGCGTGGCGCTTGGTTAAGTTGGGGCACTACTGTATAATGAGAAATGA
* * * *
98687 TAGTAGGTGCATAAATATTTCTCCCAAGCTTGAAATTCTTCCGCAGAGTCTTCCAAATTTCCTCT
66 TAGTAGGTGCAGAAACATTTCTCCCAAGCCTGAAATTCTTCCGCAGAGTCTTCCAAATCTCCTCT
*
98752 TTATCAGTGGCATGACAATGATCGGCATTAGACATACCCCAAATGTTGGGAAATAAACGAGTAAC
131 TTATCAGTGGCATGACAATGATCGGCATTAGACATACCCCAACTGTTGGGAAATAAACGAGTAAC
* **
98817 AAGTATTTTCCCTATAACCAGATTAGTGAGAATGCGAAATAAAAGCGGAAAAATAATATACGAAA
196 AAGTATTTTTCCTATAACCAGATTAGTGAGAATGCGAAATAAAAGCGGAAAAATAATACCCGAAA
*
98882 TTGATAACGGAGTTCAGCCAATTGTGCCTACGTCTCCGGACTGCTGCAGATCTTTTTTAAAGAGA
261 TTGATAACGGAGTTCAGCCAATTGTGCCTACGTCTCCGGACTGCTGCATATCTTTTTTAAAGAGA
98947 GAAAATTTACAGGTGTTTAC-AAA-A---C-ACTCACAAGAAAACTCTCTAGTATTGGGAGAAAG
326 GAAAATTTACAGGTGTTTACAAAACACTCCTACTCACAAGAAAACTCTCTAGTATTGGGAGAAAG
99006 AAATGATTTTGGGATGATTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAAGCTTAAGGACT
391 AAATGATTTTGGGATGATTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAAGCTTAAGGACT
* *
99071 TAATCTTGTAAATACCCTAAAGTCTGTGGATTAATTGTGATTATCCCATTATCATTTTTCAATAA
456 TAATCTTGTAAATACCCTAAAGTCTATGGATTAATTGTGATTAT-CCATTATCATTTTTCAACAA
* *
99136 ACATCTACCAAACTTTGAAAAACTGTTTTTCAAAGAAACATTTACCAAACTTTGAAAACTATTTT
520 ACATCTACCAAACTTTGAAAAACTGTTTTTCAAAGAAATATTTA-CAAACTTTGAAAACCATTTT
99201 CAAAAAAACATTTACCAA
584 CAAAAAAACATTTACCAA
99219 ACTTTGAAAA
Statistics
Matches: 1186, Mismatches: 53, Indels: 23
0.94 0.04 0.02
Matches are distributed among these distances:
643 171 0.14
644 39 0.03
645 23 0.02
648 1 0.00
649 3 0.00
650 401 0.34
651 37 0.03
652 510 0.43
653 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (649 bp):
CAATCGAATAATGTCACGGCGTGGCGCTTGGTTAAGTTGGGGCACTACTGTATAATGAGAAATGA
TAGTAGGTGCAGAAACATTTCTCCCAAGCCTGAAATTCTTCCGCAGAGTCTTCCAAATCTCCTCT
TTATCAGTGGCATGACAATGATCGGCATTAGACATACCCCAACTGTTGGGAAATAAACGAGTAAC
AAGTATTTTTCCTATAACCAGATTAGTGAGAATGCGAAATAAAAGCGGAAAAATAATACCCGAAA
TTGATAACGGAGTTCAGCCAATTGTGCCTACGTCTCCGGACTGCTGCATATCTTTTTTAAAGAGA
GAAAATTTACAGGTGTTTACAAAACACTCCTACTCACAAGAAAACTCTCTAGTATTGGGAGAAAG
AAATGATTTTGGGATGATTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAAGCTTAAGGACT
TAATCTTGTAAATACCCTAAAGTCTATGGATTAATTGTGATTATCCATTATCATTTTTCAACAAA
CATCTACCAAACTTTGAAAAACTGTTTTTCAAAGAAATATTTACAAACTTTGAAAACCATTTTCA
AAAAAACATTTACCAATCATTTTTTCAAAGTTGGTTGCCAAACTTTGAACTTAACAATACTTGT
Found at i:99199 original size:21 final size:20
Alignment explanation
Indices: 99171--99234 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
99161 TTTTTCAAAG
99171 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
99191 AAACTATTT-TCAAA-----A
1 AAAC-ATTTACCAAACTTTGA
99206 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
99226 AAACTATTT
1 AAAC-ATTT
99235 TCAAAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 4 0.12
15 9 0.26
20 13 0.38
21 8 0.24
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:99210 original size:35 final size:35
Alignment explanation
Indices: 99126--99253 Score: 195
Period size: 35 Copynumber: 3.6 Consensus size: 35
99116 CCATTATCAT
* * *
99126 TTTTC-AATAAACATCTACCAAACTTTGAAAAACTGT
1 TTTTCAAAAAAACATTTACCAAACTTTG-AAAACT-A
*
99162 TTTTCAAAGAAACATTTACCAAACTTTGAAAACTA
1 TTTTCAAAAAAACATTTACCAAACTTTGAAAACTA
99197 TTTTCAAAAAAACATTTACCAAACTTTGAAAACTA
1 TTTTCAAAAAAACATTTACCAAACTTTGAAAACTA
99232 TTTTCAAAAAAACATTTACCAA
1 TTTTCAAAAAAACATTTACCAA
99254 TCATTTTTTC
Statistics
Matches: 87, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
35 56 0.64
36 11 0.13
37 20 0.23
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (35 bp):
TTTTCAAAAAAACATTTACCAAACTTTGAAAACTA
Found at i:100304 original size:19 final size:22
Alignment explanation
Indices: 100265--100305 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
100255 ATTATATGAA
100265 CATATATAATTTATGCATGTAT
1 CATATATAATTTATGCATGTAT
100287 CATA-ATAA-TTAT-CATGTAT
1 CATATATAATTTATGCATGTAT
100306 GCATGTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 4 0.21
22 4 0.21
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (22 bp):
CATATATAATTTATGCATGTAT
Found at i:102036 original size:34 final size:34
Alignment explanation
Indices: 101950--102039 Score: 126
Period size: 35 Copynumber: 2.6 Consensus size: 34
101940 CCATTATCAT
* * **
101950 TTTTCAACAAACATCTACCAAACTTTGAAAACTG
1 TTTTCAAAAAACATTTACCAAACTTTGAAAACCA
*
101984 TTTTCAAAGAAACATTTACTAAACTTTGAAAACCA
1 TTTTCAAA-AAACATTTACCAAACTTTGAAAACCA
102019 TTTTCAAAAAACATTTACCAA
1 TTTTCAAAAAACATTTACCAA
102040 TCATTTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
34 19 0.39
35 30 0.61
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (34 bp):
TTTTCAAAAAACATTTACCAAACTTTGAAAACCA
Found at i:103868 original size:16 final size:16
Alignment explanation
Indices: 103849--103897 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
103839 AATAAAATTT
*
103849 ATAAATTATTAAATCC
1 ATAAATTATTAAATCA
*
103865 ATAAATTATTAAATAAA
1 ATAAATTATTAAAT-CA
103882 ATAAAATTATTAAATC
1 AT-AAATTATTAAATC
103898 GAATTTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.50
17 2 0.07
18 12 0.43
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATTATTAAATCA
Found at i:104303 original size:2 final size:2
Alignment explanation
Indices: 104296--104322 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104286 TTCAAAAATA
104296 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
104323 GAATCAATTA
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:105034 original size:18 final size:19
Alignment explanation
Indices: 104999--105035 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
104989 CACGGAAGGT
104999 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
105019 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
105036 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:119615 original size:113 final size:115
Alignment explanation
Indices: 119477--119704 Score: 284
Period size: 113 Copynumber: 2.0 Consensus size: 115
119467 AAAAACATGA
* * * * * *
119477 TTAAATTTAATTCAAAATTGAATGAATAAATAAGAGAAATGGAAAAAGAGGGT-AAAA-AAACAT
1 TTAAAATTAATCCAAAAGTGAATGAATAAATAAGAGAAAT-GAAAAA-AGAGTCAAAACAAAAAA
**
119540 TTTATAAAATTATA-AAAACTAGGG-CCCTAATTATAAATATAAAAAATTGG
64 AATATAAAATTATACAAAACTAGGGACCCTAATTATAAATATAAAAAATTGG
* *
119590 TTAAAATTAATCCAAAAGTGGATGAATTAATAAGAGAAATGAAAAAAGAGTCAAAACTAAAAAAA
1 TTAAAATTAATCCAAAAGTGAATGAATAAATAAGAGAAATGAAAAAAGAGTCAAAAC-AAAAAAA
* * *
119655 ATATGAAATTATACAAAATTAGGGACTCTAATTATAAATATAAAAAATTG
65 ATATAAAATTATACAAAACTAGGGACCCTAATTATAAATATAAAAAATTG
119705 AGAGCCCTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
111 4 0.04
112 10 0.10
113 35 0.36
114 15 0.15
115 9 0.09
116 24 0.25
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (115 bp):
TTAAAATTAATCCAAAAGTGAATGAATAAATAAGAGAAATGAAAAAAGAGTCAAAACAAAAAAAA
TATAAAATTATACAAAACTAGGGACCCTAATTATAAATATAAAAAATTGG
Found at i:127828 original size:42 final size:42
Alignment explanation
Indices: 127781--127864 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
127771 TAATGATAAT
*
127781 CGACGTTACAGAATAATCACCCTATACGTATCTTATCTCACA
1 CGACGTTACAAAATAATCACCCTATACGTATCTTATCTCACA
127823 CGACGTTACAAAATAATCACCCTATACGTATCTTATCTCACA
1 CGACGTTACAAAATAATCACCCTATACGTATCTTATCTCACA
127865 ACACCTGACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (42 bp):
CGACGTTACAAAATAATCACCCTATACGTATCTTATCTCACA
Found at i:129894 original size:2 final size:2
Alignment explanation
Indices: 129883--129947 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
129873 TTTAAAGAGT
129883 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129924 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
129948 CATCCTTTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:140000 original size:3 final size:3
Alignment explanation
Indices: 139992--140042 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
139982 TATCCCGGTT
* *
139992 TTA TTA TTA TTA TTA TTA -TA TTA TATA TTT TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
140037 TTA TTA
1 TTA TTA
140043 CAACCAGGCC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:141416 original size:21 final size:20
Alignment explanation
Indices: 141354--141430 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 20
141344 TCAGTTTCCA
*
141354 AAATCGCAACGCGATTCTTTA-
1 AAATCGCAATGCGA-T-TTTAC
**
141375 AAATCGCAATGCGATAGTAC
1 AAATCGCAATGCGATTTTAC
*
141395 AAATTCGCATTGCGATTTTAC
1 AAA-TCGCAATGCGATTTTAC
*
141416 AGAATCGCAACGCGA
1 A-AATCGCAATGCGA
141431 ATATGAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.04
20 4 0.09
21 37 0.82
22 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (20 bp):
AAATCGCAATGCGATTTTAC
Found at i:141512 original size:20 final size:20
Alignment explanation
Indices: 141418--141610 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
141408 GATTTTACAG
* ** *
141418 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
141438 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
141458 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
141478 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
141498 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
141518 AATCGTAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
141538 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
141558 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
141579 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
141599 AATCGCAACGCG
1 AATCGCAACGCG
141611 ATTTTTAAAG
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 129 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:142026 original size:32 final size:32
Alignment explanation
Indices: 141988--142056 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
141978 ATTTCACTTA
*
141988 GATTTCATTTCGCGTTACGATTCTCTTATTGC
1 GATTTCATTTCGCGTTACGATTCTCTCATTGC
* * *
142020 GATTTCATTTCGCGTTGCTATTCTCTCGTTGC
1 GATTTCATTTCGCGTTACGATTCTCTCATTGC
142052 GATTT
1 GATTT
142057 TCAAGTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (32 bp):
GATTTCATTTCGCGTTACGATTCTCTCATTGC
Found at i:142165 original size:21 final size:20
Alignment explanation
Indices: 142139--142245 Score: 93
Period size: 21 Copynumber: 5.5 Consensus size: 20
142129 TGCAGAAGAG
142139 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
142160 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
142180 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
*
142202 CCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
142216 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
142235 TCGCAACGAGA
1 TCGCAACGAGA
142246 GAATCGCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 25 0.37
22 9 0.13
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:142222 original size:14 final size:14
Alignment explanation
Indices: 142203--142256 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
142193 AAATGAAAAC
142203 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
142217 CGCAACGCGAAATGAAAAT
1 CGCAA--CG--A-GAGAAT
142236 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
142250 CGCAACG
1 CGCAACG
142257 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:142231 original size:33 final size:33
Alignment explanation
Indices: 142193--142261 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
142183 GCAACGAGAA
142193 AAATGAAAACCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAACCGCAACGAGAGAATCGCAACGCG
*
142226 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAACCGCAACGAGAGAATCGCAACGCG
142259 AAA
1 AAA
142262 CCAAAATCGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.22, G:0.23, T:0.07
Consensus pattern (33 bp):
AAATGAAAACCGCAACGAGAGAATCGCAACGCG
Found at i:142268 original size:33 final size:33
Alignment explanation
Indices: 142198--142272 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
142188 GAGAAAAATG
* **
142198 AAAACCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
142231 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
142264 AAAATCGCA
1 AAAATCGCA
142273 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.25, G:0.21, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:142324 original size:21 final size:21
Alignment explanation
Indices: 142298--142362 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
142288 CGCGTTGCGA
142298 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
142319 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
142339 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
142360 TTC
1 TTC
142363 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:142359 original size:20 final size:20
Alignment explanation
Indices: 142297--142360 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
142287 TCGCGTTGCG
142297 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
142317 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
142338 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
142358 ATT
1 ATT
142361 TCAACCAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:143260 original size:17 final size:18
Alignment explanation
Indices: 143231--143278 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
143221 GTTCTAATTG
*
143231 TATTTTTAT-TATTTTAA
1 TATTTTTATATATTTAAA
143248 T-TTTTTATATATTTAAA
1 TATTTTTATATATTTAAA
143265 TATTTTTATTATAT
1 TATTTTTA-TATAT
143279 AGTCATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 7 0.26
17 9 0.33
18 6 0.22
19 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTTTATATATTTAAA
Found at i:157041 original size:21 final size:22
Alignment explanation
Indices: 157012--157064 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
157002 TCAATTATTC
* *
157012 AATTTTTAAAAGA-TATAAAGT
1 AATTATTAAAAGATTATAAAAT
*
157033 AATTATTAAAATATTATAAAAT
1 AATTATTAAAAGATTATAAAAT
*
157055 AATAATTAAA
1 AATTATTAAA
157065 TTTTATCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTATTAAAAGATTATAAAAT
Found at i:159970 original size:71 final size:71
Alignment explanation
Indices: 159878--160022 Score: 227
Period size: 71 Copynumber: 2.0 Consensus size: 71
159868 TATAATTATG
* *
159878 TACTATATTAGAATCATTCTAAATAAATCAGGTCGAGATAAGTTTTTATATAAATCTGAAGTGTA
1 TACTATATTAGAATCATTCTAAATAAATCAGGACGAGATAAGTTTTTATATAAATCTGAAGTGCA
159943 AGTTTT
66 AGTTTT
* * * * *
159949 TACTATATTGGAATTATTCTAAATAAATCAGGACGAGTTAAGTTTTTATATAAGTTTGAAGTGCA
1 TACTATATTAGAATCATTCTAAATAAATCAGGACGAGATAAGTTTTTATATAAATCTGAAGTGCA
160014 AGTTTT
66 AGTTTT
160020 TAC
1 TAC
160023 ATAAAATTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (71 bp):
TACTATATTAGAATCATTCTAAATAAATCAGGACGAGATAAGTTTTTATATAAATCTGAAGTGCA
AGTTTT
Found at i:160016 original size:25 final size:26
Alignment explanation
Indices: 159988--160036 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
159978 AGGACGAGTT
* *
159988 AAGTTTTTATAT-AAGTTTGAAGTGC
1 AAGTTTTTACATAAAATTTGAAGTGC
160013 AAGTTTTTACATAAAATTTGAAGT
1 AAGTTTTTACATAAAATTTGAAGT
160037 TTTGGATTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (26 bp):
AAGTTTTTACATAAAATTTGAAGTGC
Found at i:163640 original size:22 final size:22
Alignment explanation
Indices: 163615--163656 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
163605 ATGAGTTATT
163615 TGATTTAAATCCAGGGGTTACA
1 TGATTTAAATCCAGGGGTTACA
*
163637 TGATTTAATTCCAGGGGTTA
1 TGATTTAAATCCAGGGGTTA
163657 TAACAGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (22 bp):
TGATTTAAATCCAGGGGTTACA
Found at i:166854 original size:40 final size:40
Alignment explanation
Indices: 166808--166932 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
166798 TGATCTCTAA
166808 TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCAT
1 TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCAT
* * * *
166848 TTCGCATTGCGA--T--AGT-T-G-AAAATCGCGTTGC-G
1 TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCAT
*
166880 TTCGCATTGCGATCTCCATTATCGCAAATTCACGTTGCAT
1 TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCAT
166920 TTCGCATTGCGAT
1 TTCGCATTGCGAT
166933 AGTTGAAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
32 12 0.17
33 11 0.16
34 2 0.03
35 1 0.01
36 4 0.06
37 1 0.01
38 2 0.03
39 11 0.16
40 25 0.36
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (40 bp):
TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCAT
Found at i:166877 original size:33 final size:33
Alignment explanation
Indices: 166840--166950 Score: 116
Period size: 33 Copynumber: 3.2 Consensus size: 33
166830 CGCAAATTCA
166840 CGTTGCATTTCGCATTGCGATAGTTGAAAATCG
1 CGTTGCATTTCGCATTGCGATAGTTGAAAATCG
* * * *
166873 CGTTGC-GTTCGCATTGCGATCTCCATTATCGCAAATTCA
1 CGTTGCATTTCGCATTGCGA--T--AGT-T-G-AAAATCG
166912 CGTTGCATTTCGCATTGCGATAGTTGAAAATCG
1 CGTTGCATTTCGCATTGCGATAGTTGAAAATCG
166945 CGTTGC
1 CGTTGC
166951 GTTTTTCCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
32 12 0.19
33 17 0.27
34 2 0.03
35 1 0.02
36 4 0.06
37 1 0.02
38 2 0.03
39 11 0.18
40 12 0.19
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (33 bp):
CGTTGCATTTCGCATTGCGATAGTTGAAAATCG
Found at i:166925 original size:72 final size:72
Alignment explanation
Indices: 166808--166953 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
166798 TGATCTCTAA
166808 TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCG
1 TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCG
166873 CGTTGCG
66 CGTTGCG
*
166880 TTCGCATTGCGATCTCCATTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCG
1 TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCG
166945 CGTTGCG
66 CGTTGCG
166952 TT
1 TT
166954 TTTCCATTTC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (72 bp):
TTCGCATTGCGATCTCCACTATCGCAAATTCACGTTGCATTTCGCATTGCGATAGTTGAAAATCG
CGTTGCG
Found at i:166937 original size:21 final size:21
Alignment explanation
Indices: 166913--167019 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 21
166903 GCAAATTCAC
*
166913 GTTGCATTTCGCATTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
166934 GTTGAAAATCGCGTTGCG-TT
1 GTTGCATTTCGCGTTGCGATA
* * *
166954 TTTCCATTTCGCATTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
166975 GTTGGAGATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
166995 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
167016 GTTG
1 GTTG
167020 AAATCGCAAC
Statistics
Matches: 59, Mismatches: 25, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:166962 original size:41 final size:40
Alignment explanation
Indices: 166917--167026 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 40
166907 ATTCACGTTG
*
166917 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCATTGCGATAGTTG-AAATCGCGTTGCGATTTTC
*
166958 CATTTCGCATTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCATTGCGATAGTT-GAAATCGCGTTGCGATTTTC
*
166999 CATTTCGCGTTGCGATAGTTGAAATCGC
1 CATTTCGCATTGCGATAGTTGAAATCGC
167027 AACGCGATCT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 7 0.11
41 56 0.88
42 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (40 bp):
CATTTCGCATTGCGATAGTTGAAATCGCGTTGCGATTTTC
Found at i:167008 original size:20 final size:20
Alignment explanation
Indices: 166942--167014 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
166932 TAGTTGAAAA
*
166942 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
166962 TCGCATTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
166983 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
167003 TCGCGTTGCGAT
1 TCGCGTTGCGAT
167015 AGTTGAAATC
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 25 0.64
21 14 0.36
ACGTcount: A:0.12, C:0.22, G:0.26, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:167026 original size:20 final size:21
Alignment explanation
Indices: 166921--167026 Score: 58
Period size: 20 Copynumber: 5.2 Consensus size: 21
166911 ACGTTGCATT
*
166921 TCGCATTGCGATAGTT-GAAAA
1 TCGCGTTGCGATAGTTCG-AAA
** * **
166942 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
* * *
166962 TCGCATTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTCGAAA
* * **
166983 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTCGAAA
167003 TCGCGTTGCGATAGTT-GAAA
1 TCGCGTTGCGATAGTTCGAAA
167023 TCGC
1 TCGC
167027 AACGCGATCT
Statistics
Matches: 59, Mismatches: 23, Indels: 7
0.66 0.26 0.08
Matches are distributed among these distances:
20 33 0.56
21 26 0.44
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTCGAAA
Found at i:167100 original size:84 final size:86
Alignment explanation
Indices: 166961--167149 Score: 319
Period size: 84 Copynumber: 2.2 Consensus size: 86
166951 GTTTTTCCAT
*
166961 TTCGCATTGCGATAGTTGGAGATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAATCG
1 TTCGCGTTGCGATAGTTGGAGATCGCGTT--G-TTTTCCATTTCGCGTTGCGATAGTTGAAATCG
167026 CAACGCGATCTCCATCATCGCAAA
63 CAACGCGATCTCCATCATCGCAAA
*
167050 TTCGTGTTGCGATAGTTGGAGATCGCG-T-TTTTCCATTTCGCGTTGCGATAGTTGAAATCGCAA
1 TTCGCGTTGCGATAGTTGGAGATCGCGTTGTTTTCCATTTCGCGTTGCGATAGTTGAAATCGCAA
167113 CGCGATCTCCATCATCGCAAA
66 CGCGATCTCCATCATCGCAAA
167134 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
167150 CTACAGTTGT
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
84 71 0.73
88 1 0.01
89 25 0.26
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (86 bp):
TTCGCGTTGCGATAGTTGGAGATCGCGTTGTTTTCCATTTCGCGTTGCGATAGTTGAAATCGCAA
CGCGATCTCCATCATCGCAAA
Found at i:167277 original size:5 final size:5
Alignment explanation
Indices: 167261--167304 Score: 79
Period size: 5 Copynumber: 8.6 Consensus size: 5
167251 CGTATTACCA
167261 CGACC ACGACC CGACC CGACC CGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGA
167305 GACGGACGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 33 0.87
6 5 0.13
ACGTcount: A:0.23, C:0.57, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:167812 original size:6 final size:6
Alignment explanation
Indices: 167796--167827 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
167786 TCTCGTCTCG
167796 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
167828 AATTCTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:167932 original size:22 final size:22
Alignment explanation
Indices: 167880--167932 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
167870 AATTTGGAAA
*
167880 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
167902 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
167924 ATCGCAACG
1 ATCGCAACG
167933 CGAAATGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:167949 original size:20 final size:20
Alignment explanation
Indices: 167924--168037 Score: 131
Period size: 20 Copynumber: 5.6 Consensus size: 20
167914 ACTGTAGACT
167924 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** *
167944 ATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAAATGGAA-A
167965 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
167985 ATCGCAACGCG-ACTGTAGACT
1 ATCGCAACGCGAAATG--GAAA
168006 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
168026 ATCGCAACGCGA
1 ATCGCAACGCGA
168038 TTTTCAACTA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.04
20 41 0.54
21 29 0.38
22 3 0.04
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:167970 original size:21 final size:21
Alignment explanation
Indices: 167921--168063 Score: 123
Period size: 21 Copynumber: 7.0 Consensus size: 21
167911 ACAACTGTAG
* *
167921 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTGA
* *
167942 A-AATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAATTTGA
* *
167962 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTTGA
* * *
167983 A-AATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAATTTGA
* *
168002 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAATTTGA
* * *
168024 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTTGA
168044 ACTATCGCAACGCGAATTTG
1 ACTATCGCAACGCGAATTTG
168064 CGATAGTGGA
Statistics
Matches: 91, Mismatches: 26, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
19 1 0.01
20 44 0.48
21 45 0.49
22 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAATTTGA
Found at i:167970 original size:41 final size:41
Alignment explanation
Indices: 167921--168059 Score: 235
Period size: 41 Copynumber: 3.4 Consensus size: 41
167911 ACAACTGTAG
167921 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCA
* *
167962 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-A
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCA
*
168002 GACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCA
168044 ACTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
168060 TTTGCGATAG
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
40 1 0.01
41 90 0.98
42 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCA
Found at i:168010 original size:82 final size:83
Alignment explanation
Indices: 167902--168059 Score: 291
Period size: 82 Copynumber: 1.9 Consensus size: 83
167892 ACTGTAGACT
167902 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTAT
1 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTAT
167967 CGCAACGCGAAATGGAAA
66 CGCAACGCGAAATGGAAA
* *
167985 ATCGCAACG-CGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTAT
1 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTAT
168049 CGCAACGCGAA
66 CGCAACGCGAA
168060 TTTGCGATAG
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 64 0.88
83 9 0.12
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.16
Consensus pattern (83 bp):
ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTAT
CGCAACGCGAAATGGAAA
Done.