Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003256.1 Hibiscus syriacus cultivar Beakdansim tig00006842_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: 97166
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:5678 original size:10 final size:10
Alignment explanation
Indices: 5659--5729 Score: 52
Period size: 10 Copynumber: 6.5 Consensus size: 10
5649 TATTTAAATG
*
5659 ATAAATGAAC
1 ATAAACGAAC
5669 ATAAACGAACGGC
1 ATAAACGAA---C
5682 ATAAACGAACAC
1 ATAAACG-A-AC
*
5694 AATAAATGAAC
1 -ATAAACGAAC
*
5705 ATAAATGAAC
1 ATAAACGAAC
*
5715 TTAAACGAAC
1 ATAAACGAAC
5725 ATAAA
1 ATAAA
5730 TGAAAATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
10 30 0.60
11 2 0.04
12 2 0.04
13 14 0.28
14 1 0.02
15 1 0.02
ACGTcount: A:0.58, C:0.15, G:0.11, T:0.15
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:5738 original size:10 final size:10
Alignment explanation
Indices: 5695--5738 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
5685 AACGAACACA
5695 ATAAATGAAC
1 ATAAATGAAC
5705 ATAAATGAAC
1 ATAAATGAAC
* *
5715 TTAAACGAAC
1 ATAAATGAAC
*
5725 ATAAATGAAA
1 ATAAATGAAC
5735 ATAA
1 ATAA
5739 TTTTTTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.20
Consensus pattern (10 bp):
ATAAATGAAC
Found at i:5931 original size:14 final size:14
Alignment explanation
Indices: 5914--5944 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5904 AACGCATATA
*
5914 AACGAACATAGACG
1 AACGAACATAAACG
5928 AACGAACATAAACG
1 AACGAACATAAACG
5942 AAC
1 AAC
5945 ATATTATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.23, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:8114 original size:59 final size:59
Alignment explanation
Indices: 8048--8167 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
8038 CGCTTTAATT
8048 GAAATAATCCTTTCATCCTCCCCTATCTCTAGGATGTCATAAATTTGTTTCAACTGAAA
1 GAAATAATCCTTTCATCCTCCCCTATCTCTAGGATGTCATAAATTTGTTTCAACTGAAA
* * *
8107 GAAATAATCCTTTCTTCCTCCCCTTTCTCTAGGATGTCATAAATTTGTTTCAATTGAAA
1 GAAATAATCCTTTCATCCTCCCCTATCTCTAGGATGTCATAAATTTGTTTCAACTGAAA
8166 GA
1 GA
8168 TTCGGCTCGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (59 bp):
GAAATAATCCTTTCATCCTCCCCTATCTCTAGGATGTCATAAATTTGTTTCAACTGAAA
Found at i:10441 original size:12 final size:12
Alignment explanation
Indices: 10424--10464 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10414 GAGAATGGGA
10424 TTTATTTTGGTT
1 TTTATTTTGGTT
10436 TTTATTTTCGG--
1 TTTATTTT-GGTT
*
10447 TTTATTTTGTTT
1 TTTATTTTGGTT
10459 TTTATT
1 TTTATT
10465 ATTATCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 1 0.04
11 8 0.32
12 14 0.56
13 2 0.08
ACGTcount: A:0.10, C:0.02, G:0.12, T:0.76
Consensus pattern (12 bp):
TTTATTTTGGTT
Found at i:11507 original size:29 final size:29
Alignment explanation
Indices: 11465--11530 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
11455 ATGACCTTCT
11465 AGACCCCTCTACATTTGCTTACATATAAA
1 AGACCCCTCTACATTTGCTTACATATAAA
11494 AGACCCCTCTACATTTGCTTACATATAAA
1 AGACCCCTCTACATTTGCTTACATATAAA
*
11523 ATACCCCT
1 AGACCCCT
11531 TTTCTAGACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (29 bp):
AGACCCCTCTACATTTGCTTACATATAAA
Found at i:15487 original size:35 final size:37
Alignment explanation
Indices: 15429--15497 Score: 99
Period size: 35 Copynumber: 1.9 Consensus size: 37
15419 TACTAAAGAT
*
15429 AATCCTAAGAAAATACAAAAGATAATTATTTAAATTTA
1 AATCCTAAGAAAATACAAAAGATAAATA-TTAAATTTA
15467 AATCCT-A-AAAATA-AAAAGATAAATATTAAAT
1 AATCCTAAGAAAATACAAAAGATAAATATTAAAT
15498 CTTGAATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.20
35 11 0.37
36 6 0.20
37 1 0.03
38 6 0.20
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.29
Consensus pattern (37 bp):
AATCCTAAGAAAATACAAAAGATAAATATTAAATTTA
Found at i:20210 original size:20 final size:20
Alignment explanation
Indices: 20187--20226 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20177 TTTCTCTAAA
20187 AAATT-AATTATAATATTTTT
1 AAATTCAATT-TAATATTTTT
*
20207 AAATTCAGTTTAATATTTTT
1 AAATTCAATTTAATATTTTT
20227 TTACGGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
AAATTCAATTTAATATTTTT
Found at i:20845 original size:4 final size:4
Alignment explanation
Indices: 20836--20866 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
20826 GTTTCATGGG
20836 TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TAT
20867 ATATATAGAG
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:0.26, C:0.23, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:21329 original size:11 final size:11
Alignment explanation
Indices: 21315--21346 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
21305 GGATATAATA
21315 ATTATATTATT
1 ATTATATTATT
21326 ATTATATTATT
1 ATTATATTATT
21337 A--ATATTATT
1 ATTATATTATT
21346 A
1 A
21347 ATACTGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATATTATT
Found at i:31527 original size:42 final size:41
Alignment explanation
Indices: 31461--31567 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
31451 TTCACAATTT
* * * *
31461 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
31502 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* *
31544 ATAAGTCCTTCGGGCCATCCGTAA
1 ATAAATCCTTCGGGCCATCAGTAA
31568 AACCTTCGGG
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:31731 original size:214 final size:214
Alignment explanation
Indices: 31344--31745 Score: 687
Period size: 214 Copynumber: 1.9 Consensus size: 214
31334 GTGAAGCAAA
* *
31344 CCATCCATAAGACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAATGATGTTTTAA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
* *
31409 GAAGATGGAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
66 GAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* * *
31474 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATCTGTAAGCCTTTAGAGCA
31539 AGATGATAAGTCCTTCGGG
196 AGATGATAAGTCCTTCGGG
* * *
31558 CCATCCGTAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAACGATGTTTTGA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
*
31623 GAAGATGAAATTTTTGAAAACAAATAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
66 GAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* *
31688 TCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATTTGTAAGCCTT
131 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATCTGTAAGCCTT
31746 CACCGAAGAG
Statistics
Matches: 175, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
214 175 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (214 bp):
CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
GAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATCTGTAAGCCTTTAGAGCA
AGATGATAAGTCCTTCGGG
Found at i:31841 original size:42 final size:42
Alignment explanation
Indices: 31781--31864 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
31771 ATCAGTAAGT
*
31781 GCCATCAGTAAGTTTTTCGAGCATGATGATGAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
*
31823 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
31865 ATAATTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGG
Found at i:31973 original size:42 final size:41
Alignment explanation
Indices: 31910--32001 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 41
31900 AAATTCATCA
*
31910 GTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
1 GTAAGTCTTTCGAGCATGATGAT-AAATCCTTCGGGCCATTT
* *
31952 GTAAGTCTTTCGAGTGA-GATGATAAGTCCTTCGGGCCATTT
1 GTAAGTCTTTCGAG-CATGATGATAAATCCTTCGGGCCATTT
*
31993 -TAAGCCTTT
1 GTAAGTCTTT
32002 TCGGAATAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 8 0.18
41 16 0.36
42 20 0.44
43 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
GTAAGTCTTTCGAGCATGATGATAAATCCTTCGGGCCATTT
Found at i:32644 original size:53 final size:53
Alignment explanation
Indices: 32368--32627 Score: 405
Period size: 53 Copynumber: 4.9 Consensus size: 53
32358 AGAATCACAC
*
32368 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
32421 CAAAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
32474 CAGAAGATTGTTCAAGTTTTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
*
32527 CAGAAGATTGTTCGAGTTCTACTCCCTGAAACAAGAGGGAG-GAAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCG-AACCCGTAGG
** *
32580 CAGAAGATTGTTTTAGTTCTACTCCCTAAAGCAAGAGGGAGCGAACCC
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCC
32628 ACTGGTCGAA
Statistics
Matches: 189, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
53 188 0.99
54 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:32815 original size:11 final size:11
Alignment explanation
Indices: 32801--32832 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32791 GGATATAATA
32801 ATTATATTATT
1 ATTATATTATT
32812 ATTATATTATT
1 ATTATATTATT
32823 A--ATATTATT
1 ATTATATTATT
32832 A
1 A
32833 ATACTGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTATATTATT
Found at i:36483 original size:58 final size:58
Alignment explanation
Indices: 36418--36540 Score: 203
Period size: 58 Copynumber: 2.1 Consensus size: 58
36408 GAAACTCGAT
* *
36418 CCGACCCGAGTTTAG-GAGTGACTTCACCCGACTCGACTTTTTGATATAAAACCCGAAC
1 CCGACCCGAGTTTAGAGA-TGACTTCACCCGACCCGACTTTTTGATATAAAACCCAAAC
*
36476 TCGACCCGAGTTTAGAGATGACTTCACCCGACCCGACTTTTTGATATAAAACCCAAAC
1 CCGACCCGAGTTTAGAGATGACTTCACCCGACCCGACTTTTTGATATAAAACCCAAAC
36534 CCGACCC
1 CCGACCC
36541 AAAATAAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
58 58 0.97
59 2 0.03
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (58 bp):
CCGACCCGAGTTTAGAGATGACTTCACCCGACCCGACTTTTTGATATAAAACCCAAAC
Found at i:40180 original size:31 final size:31
Alignment explanation
Indices: 40095--40180 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 31
40085 ACGCTGATTG
* * *
40095 AATTTAAAAATTAAATTAATATTATATTTTA
1 AATTTAATAATTAAATTAATATTTTATTTAA
* * *
40126 ATTTTAATGATCAAATTAATATTTTATTTAA
1 AATTTAATAATTAAATTAATATTTTATTTAA
*
40157 AATTTAGTAATTAAATTAATATTT
1 AATTTAATAATTAAATTAATATTT
40181 CATCAAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (31 bp):
AATTTAATAATTAAATTAATATTTTATTTAA
Found at i:43413 original size:2 final size:2
Alignment explanation
Indices: 43406--43430 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43396 TCAAACCCTA
43406 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
43431 AACAAGCTGA
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:50887 original size:32 final size:31
Alignment explanation
Indices: 50851--50927 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
50841 CGGGGCCGTG
*
50851 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
50883 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
50914 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
50928 GTCACCTTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:50910 original size:63 final size:63
Alignment explanation
Indices: 50804--50927 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
50794 CCCTAAGGGA
* * ** *
50804 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
50867 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
50928 GTCACCTTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:51810 original size:7 final size:7
Alignment explanation
Indices: 51798--51845 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
51788 TCAAAGAAAG
51798 CAACGGT
1 CAACGGT
51805 CAACGGT
1 CAACGGT
51812 CAACGGT
1 CAACGGT
51819 CAACGGT
1 CAACGGT
51826 CAACGGT
1 CAACGGT
*
51833 C--GGGT
1 CAACGGT
51838 CAACGGT
1 CAACGGT
51845 C
1 C
51846 GGGTCGGGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 4 0.11
7 33 0.89
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (7 bp):
CAACGGT
Found at i:51852 original size:17 final size:17
Alignment explanation
Indices: 51847--51889 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
51837 TCAACGGTCG
51847 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
51864 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
51881 GGTCGGGTC
1 GGTCGGGTC
51890 AGACCGGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:51889 original size:22 final size:22
Alignment explanation
Indices: 51830--51877 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
51820 AACGGTCAAC
51830 GGTCGGGTCAACGGTCGGGTCG
1 GGTCGGGTCAACGGTCGGGTCG
51852 GGTCGGGTCAACGGTCGGGTCG
1 GGTCGGGTCAACGGTCGGGTCG
51874 GGTC
1 GGTC
51878 AACGGTCGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.23, G:0.50, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCAACGGTCGGGTCG
Found at i:51890 original size:12 final size:12
Alignment explanation
Indices: 51809--51872 Score: 78
Period size: 12 Copynumber: 5.3 Consensus size: 12
51799 AACGGTCAAC
*
51809 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
51823 GGTCAACGGTCG
1 GGTCAACGGTCG
51835 GGTCAACGGTCG
1 GGTCAACGGTCG
*
51847 GGTC--GGGTCG
1 GGTCAACGGTCG
51857 GGTCAACGGTCG
1 GGTCAACGGTCG
51869 GGTC
1 GGTC
51873 GGGTCAACGG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.20
12 25 0.56
14 11 0.24
ACGTcount: A:0.16, C:0.25, G:0.42, T:0.17
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:51925 original size:9 final size:9
Alignment explanation
Indices: 51886--51984 Score: 63
Period size: 9 Copynumber: 10.3 Consensus size: 9
51876 TCAACGGTCG
*
51886 GGTCAGACC
1 GGTCAAACC
*
51895 GGTCAAACT
1 GGTCAAACC
* *
51904 GATTCAGACC
1 G-GTCAAACC
51914 GGTCAAACC
1 GGTCAAACC
*
51923 GGTTCGAACC
1 GG-TCAAACC
*
51933 GGTTGAAACC
1 GG-TCAAACC
*
51943 GGTCAAATC
1 GGTCAAACC
51952 GGTCAGAACC
1 GGTCA-AACC
*
51962 GGTTGAAAACC
1 GG-T-CAAACC
*
51973 GGTTAAACC
1 GGTCAAACC
51982 GGT
1 GGT
51985 TTCCAGCAGC
Statistics
Matches: 70, Mismatches: 15, Indels: 10
0.74 0.16 0.11
Matches are distributed among these distances:
9 34 0.49
10 28 0.40
11 7 0.10
12 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.18
Consensus pattern (9 bp):
GGTCAAACC
Found at i:51933 original size:19 final size:19
Alignment explanation
Indices: 51892--51985 Score: 68
Period size: 19 Copynumber: 4.8 Consensus size: 19
51882 GTCGGGTCAG
* *
51892 ACCGGTCAAACTGATTC-A
1 ACCGGTCAAACCGGTTCGA
51910 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTCGA
* *
51930 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTCGA
*
51949 ATCGGTCAGAACCGGTT-GAAA
1 ACCGGTCA-AACCGGTTCG--A
*
51970 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
51986 TCCAGCAGCC
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.03
19 33 0.55
20 18 0.30
21 7 0.12
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:51946 original size:29 final size:31
Alignment explanation
Indices: 51911--51985 Score: 111
Period size: 29 Copynumber: 2.5 Consensus size: 31
51901 ACTGATTCAG
51911 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
51940 ACCGGTCAAATCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
51970 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
51986 TCCAGCAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 14 0.35
31 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:57097 original size:17 final size:17
Alignment explanation
Indices: 57075--57136 Score: 89
Period size: 17 Copynumber: 3.9 Consensus size: 17
57065 AACGGTCAAC
57075 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
57092 GGTCAA----C-GGTCG
1 GGTCAACGGTCGGGTCG
57104 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
57121 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
57137 AGACTGGTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.28
13 1 0.03
16 1 0.03
17 27 0.68
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:57102 original size:7 final size:7
Alignment explanation
Indices: 57055--57085 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
57045 GTCAAAGAAA
57055 GTCAACG
1 GTCAACG
57062 GTCAACG
1 GTCAACG
57069 GTCAACG
1 GTCAACG
57076 GTCAACG
1 GTCAACG
57083 GTC
1 GTC
57086 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:57114 original size:29 final size:29
Alignment explanation
Indices: 57061--57137 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 29
57051 GAAAGTCAAC
*
57061 GGTCAACGGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTC--GGGTCAACGGTCGGGTCG
57092 GGTCAACGGTCGGGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCAACGGTCGGGTCG
57121 GGTCAACGGTCGGGTCA
1 GGTCAACGGTCGGGTCA
57138 GACTGGTCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 34 0.76
31 11 0.24
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.17
Consensus pattern (29 bp):
GGTCAACGGTCGGGTCAACGGTCGGGTCG
Found at i:57137 original size:12 final size:12
Alignment explanation
Indices: 57087--57119 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
57077 TCAACGGTCG
57087 GGTCGGGTCAAC
1 GGTCGGGTCAAC
57099 GGTCGGGTCAAC
1 GGTCGGGTCAAC
57111 GGTCGGGTC
1 GGTCGGGTC
57120 GGGTCAACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.24, G:0.45, T:0.18
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:57190 original size:20 final size:21
Alignment explanation
Indices: 57165--57223 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
57155 CATACCGGTC
57165 AAACCGGTTCGAACCGGTTG-
1 AAACCGGTTCGAACCGGTTGA
57185 AAACCGG-TCAGAACCGGTTGA
1 AAACCGGTTC-GAACCGGTTGA
*
57206 AAACCGGTT-AAACCGGTT
1 AAACCGGTTCGAACCGGTT
57224 TCCAGCAGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 2 0.06
20 25 0.71
21 7 0.20
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.19
Consensus pattern (21 bp):
AAACCGGTTCGAACCGGTTGA
Found at i:57202 original size:30 final size:28
Alignment explanation
Indices: 57158--57222 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 28
57148 ACTGATTCAT
57158 ACCGGTCAAACCGGTTCG-AACCGGTTGAA
1 ACCGGTCAAACCGGTT-GAAACCGGTT-AA
57187 ACCGGTCAGAACCGGTTGAAAACCGGTTAA
1 ACCGGTCA-AACCGGTTG-AAACCGGTTAA
57217 ACCGGT
1 ACCGGT
57223 TTCCAGCAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 9 0.27
30 16 0.48
31 8 0.24
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (28 bp):
ACCGGTCAAACCGGTTGAAACCGGTTAA
Found at i:57223 original size:9 final size:10
Alignment explanation
Indices: 57165--57223 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
57155 CATACCGGTC
57165 AAACCGGTTCG
1 AAACCGGTT-G
57176 -AACCGGTTG
1 AAACCGGTTG
*
57185 AAACCGG-TC
1 AAACCGGTTG
57194 AGAACCGGTTG
1 A-AACCGGTTG
57205 AAAACCGGTT-
1 -AAACCGGTTG
57215 AAACCGGTT
1 AAACCGGTT
57224 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
9 12 0.29
10 20 0.48
11 9 0.21
12 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.19
Consensus pattern (10 bp):
AAACCGGTTG
Found at i:61642 original size:11 final size:11
Alignment explanation
Indices: 61623--61700 Score: 56
Period size: 11 Copynumber: 7.4 Consensus size: 11
61613 AATTTGATAA
*
61623 ATTTAATAATT
1 ATTTTATAATT
*
61634 ATTTTATAATA
1 ATTTTATAATT
* *
61645 ATTTGATGA--
1 ATTTTATAATT
*
61654 ATTTAATAATT
1 ATTTTATAATT
61665 ATTTTATAA-T
1 ATTTTATAATT
* *
61675 ATTTTATTGATA
1 ATTTTA-TAATT
61687 ATTTTATAA-T
1 ATTTTATAATT
61697 ATTT
1 ATTT
61701 CAAAGTTTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
9 7 0.13
10 11 0.21
11 28 0.54
12 6 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (11 bp):
ATTTTATAATT
Found at i:61650 original size:31 final size:31
Alignment explanation
Indices: 61607--61675 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
61597 CTTATAAATC
61607 ATAATAAATTTGATAAATTTAATAATTATTTT
1 ATAAT-AATTTGATAAATTTAATAATTATTTT
*
61639 ATAATAATTTGATGAATTTAATAATTATTTT
1 ATAATAATTTGATAAATTTAATAATTATTTT
61670 ATAATA
1 ATAATA
61676 TTTTATTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 31 0.86
32 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (31 bp):
ATAATAATTTGATAAATTTAATAATTATTTT
Found at i:62915 original size:18 final size:18
Alignment explanation
Indices: 62894--62929 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62884 AGATCTAATT
*
62894 TTAAATATATTATTAAAA
1 TTAAATATATTAGTAAAA
*
62912 TTAAATTTATTAGTAAAA
1 TTAAATATATTAGTAAAA
62930 ATAATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTAAATATATTAGTAAAA
Found at i:72219 original size:2 final size:2
Alignment explanation
Indices: 72212--72248 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
72202 AAACAATTAT
72212 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
72249 AATTATGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:73413 original size:31 final size:29
Alignment explanation
Indices: 73380--73440 Score: 77
Period size: 34 Copynumber: 1.9 Consensus size: 29
73370 GTTGTTAGTA
73380 TTTTTTAATTTTTATATGACATTTTATTTTATTT
1 TTTTTTAATTTTTA-AT-A-ATTTTATTTTA--T
73414 TTTTTTAATTTTTAATAATTTTATTTT
1 TTTTTTAATTTTTAATAATTTTATTTT
73441 TATGACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 10 0.37
32 1 0.04
33 2 0.07
34 14 0.52
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (29 bp):
TTTTTTAATTTTTAATAATTTTATTTTAT
Found at i:73459 original size:23 final size:22
Alignment explanation
Indices: 73433--73476 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
73423 TTTTAATAAT
*
73433 TTTATTTTTATGACATATTTTTA
1 TTTATTTTGATGACAT-TTTTTA
73456 TTTATTTTGATGACATTTTTT
1 TTTATTTTGATGACATTTTTT
73477 GTCTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (22 bp):
TTTATTTTGATGACATTTTTTA
Found at i:84686 original size:15 final size:15
Alignment explanation
Indices: 84666--84701 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
84656 TTAAAAGGTT
84666 ATTTATTTTTAAATA
1 ATTTATTTTTAAATA
84681 ATTTA-TTTTAAATA
1 ATTTATTTTTAAATA
84695 ATTTATT
1 ATTTATT
84702 AGTATGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATTTTTAAATA
Found at i:84723 original size:64 final size:65
Alignment explanation
Indices: 84664--84886 Score: 131
Period size: 66 Copynumber: 3.4 Consensus size: 65
84654 ATTTAAAAGG
* * *
84664 TTATTTATTTTTAAATAATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAA-ATA
1 TTATTTAGTTTTAATTAATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATA-A
84728 T
65 T
** * * * * * *
84729 AAAATTTA-TTTTAAATAATTTATTAGTATAT-TTTTATTTTAAAATATGGATTGATTTATTTTA
1 -TTATTTAGTTTTAATTAATTTATT-TTAAATAATTTA--TT--AGTATGAATTGATTTATTTTA
84792 AATAAT
60 AATAAT
* *
84798 TTA-TTA--TATAGATTGATTTTATTTTAAATAATTTATTAGTAT--ATTGATTTATTTTAAAAT
1 TTATTTAGTTTTA-ATT-AATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT-AAAT
84858 ATGGAT
63 A---AT
* *
84864 TGATTTA-TTTTAAATAATTTATT
1 TTATTTAGTTTTAATTAATTTATT
84887 AGTATAGATT
Statistics
Matches: 122, Mismatches: 20, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
62 13 0.11
63 5 0.04
64 4 0.03
65 20 0.16
66 25 0.20
67 16 0.13
68 15 0.12
69 23 0.19
70 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (65 bp):
TTATTTAGTTTTAATTAATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAAT
Found at i:84765 original size:47 final size:50
Alignment explanation
Indices: 84680--84825 Score: 174
Period size: 51 Copynumber: 2.8 Consensus size: 50
84670 ATTTTTAAAT
84680 AATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATAT-A-A
1 AATTTATTTTAAATAATTTATTAGTA--TATT-ATTTATTTTAAAATATGATA
*
84731 AATTTATTTTAAATAATTTATTAGTATATT-TTTATTTTAAAATATGGATT
1 AATTTATTTTAAATAATTTATTAGTATATTATTTATTTTAAAATAT-GATA
*
84781 GATTTATTTTAAATAATTTATTA-TATAGATTGATTTTATTTTAAA
1 AATTTATTTTAAATAATTTATTAGTAT--ATT-A-TTTATTTTAAA
84826 TAATTTATTA
Statistics
Matches: 85, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 15 0.18
49 8 0.09
50 22 0.26
51 29 0.34
54 11 0.13
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (50 bp):
AATTTATTTTAAATAATTTATTAGTATATTATTTATTTTAAAATATGATA
Found at i:84824 original size:32 final size:32
Alignment explanation
Indices: 84773--85160 Score: 553
Period size: 32 Copynumber: 12.7 Consensus size: 32
84763 TATTTTAAAA
84773 TATGGATTGATTTATTTTAAATAATTTATTA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
84804 TATAGATTGATTTTATTTTAAATAATTTATTAG
1 TATGGATTGA-TTTATTTTAAATAATTTATTAG
84837 TAT--ATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
84857 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
84889 TATAGATTGATTTATTTT-AATAA-TTA-T--
1 TATGGATTGATTTATTTTAAATAATTTATTAG
84916 T-TGGAATTGATTTATTTTAAATAATTTATTAG
1 TATGG-ATTGATTTATTTTAAATAATTTATTAG
84948 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
84980 TATGAATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
85012 TATGAATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
85044 TATGAATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
85076 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
85108 TATGAATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
85140 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
85161 ATATGGATTG
Statistics
Matches: 326, Mismatches: 10, Indels: 41
0.86 0.03 0.11
Matches are distributed among these distances:
20 3 0.01
21 1 0.00
22 9 0.03
23 4 0.01
26 8 0.02
27 14 0.04
28 5 0.02
29 8 0.02
30 8 0.02
31 20 0.06
32 240 0.74
33 6 0.02
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:84917 original size:96 final size:93
Alignment explanation
Indices: 84857--85240 Score: 466
Period size: 96 Copynumber: 4.2 Consensus size: 93
84847 TATTTTAAAA
**
84857 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AATAA-TTATTTGG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAATAATTTATTTAT
84920 AATTGATTTATTTTAAATAATTTA-TTAG
65 AATTGATTTATTTTAAATAATTTATTTAG
84948 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAATAATTTATT--T
85013 ATGAATTGATTTATTTTAAATAATTTATTT-G
63 AT-AATTGATTTATTTTAAATAATTTATTTAG
*
85044 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAATAATTTATT--T
85109 ATGAATTGATTTATTTTAAATAATTTATTT-G
63 AT-AATTGATTTATTTTAAATAATTTATTTAG
* *
85140 TATGGATTGATTTATTTT-AA-AA--TA-T-G---GATTGATTTATTATT--GTAGTTGTA--TA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATT-TTAAATAATT-TATTTA
* *
85192 -GATTGATTTATTTTAAATAACTTA-TTAG
64 TAATTGATTTATTTTAAATAATTTATTTAG
85220 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
85241 ATATGGATTG
Statistics
Matches: 273, Mismatches: 8, Indels: 34
0.87 0.03 0.11
Matches are distributed among these distances:
79 2 0.01
80 41 0.15
81 2 0.01
82 2 0.01
85 4 0.01
86 14 0.05
87 2 0.01
90 2 0.01
91 49 0.18
92 7 0.03
93 5 0.02
94 2 0.01
95 3 0.01
96 135 0.49
97 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (93 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAATAATTTATTTATA
ATTGATTTATTTTAAATAATTTATTTAG
Found at i:85302 original size:80 final size:80
Alignment explanation
Indices: 85113--85264 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
85103 ATTAGTATGA
* * **
85113 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATATTAAATAAATTATCAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
*
85178 ATTGTAGTTGTATAG
66 ATTGTAATTGTATAG
* * *
85193 ATTGATTTATTTTAAATAACTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATATTAAATAAATTATCAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
85258 -TT-TAATT
66 ATTGTAATT
85265 TATTATTGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 4 0.06
79 2 0.03
80 63 0.91
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (80 bp):
ATTGATTTATATTAAATAAATTATCAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
ATTGTAATTGTATAG
Found at i:85319 original size:31 final size:31
Alignment explanation
Indices: 85284--85342 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
85274 AGTTGTATGG
* * *
85284 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAATATTGCAAAACTAAA
85315 ATTATTTAAATCTCAATATTGCAAAACT
1 ATTATTTAAATCTCAATATTGCAAAACT
85343 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAATATTGCAAAACTAAA
Found at i:90233 original size:31 final size:31
Alignment explanation
Indices: 90198--90260 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
90188 ACATAGTTAT
90198 TCAAAAGGATGAGTTTAGGCATGAAAAACAA
1 TCAAAAGGATGAGTTTAGGCATGAAAAACAA
90229 TCAAAAGGATGAGTTTAGGCATGAAAAACAA
1 TCAAAAGGATGAGTTTAGGCATGAAAAACAA
90260 T
1 T
90261 AGATACCGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.21
Consensus pattern (31 bp):
TCAAAAGGATGAGTTTAGGCATGAAAAACAA
Done.