Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006261.1 Hibiscus syriacus cultivar Beakdansim tig00014936_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: 108801
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:9209 original size:225 final size:220
Alignment explanation
Indices: 8966--9417 Score: 708
Period size: 225 Copynumber: 2.0 Consensus size: 220
8956 AAAGTTTTAC
*
8966 CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAAATATTTTTATTCA
1 CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCAAAATAA-AAAAAAATATTTTTATTCA
* * **
9031 ATAAAAACAGTGACTTAATTGAAAAAAA-TATATAGAGAGGGGTATTATTGTAATTATTCTTAAA
65 ATAAAAACAGTGACTTAATTGAAAAAAATTATATAGAGAGGGGTATTATTATAAATATTCCAAAA
* *
9095 TATATAAGGTAAAATTATATATTTTTTGGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCC
130 TATATAAGCTAAAATTATATA-TATTT---TCGGGTCGGGTATTTTTCACCCTAAACCCGAACCC
9160 GACCCGACCCGAATATCACACTTAAAAAATA
191 GACCCGACCCGAATATCACACTTAAAAAA-A
* * *
9191 CCGACCCGACCTGAATATATGAATTAGAAATCCGACCCAAAATAAAAAAAATTATTTTTATTCAA
1 CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCAAAATAAAAAAAAATATTTTTATTCAA
*
9256 TAAAAACAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTATAAATATTCCAAAAT
66 TAAAAACAGTGACTTAATTGAAAAAAATTATATAGAGAGGGGTATTATTATAAATATTCCAAAAT
* * *
9321 ATATAAGCTAAAATTATATATATTTTCGGGTCGGGTATTTTTCGCCCTAAACCTGAACTCGACCC
131 ATATAAGCTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCC
9386 GACCCGAATATCACACTTAAAAAAA
196 GACCCGAATATCACACTTAAAAAAA
*
9411 CTGACCC
1 CCGACCC
9418 AACCGACCAA
Statistics
Matches: 211, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
220 7 0.03
221 61 0.29
224 50 0.24
225 93 0.44
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.29
Consensus pattern (220 bp):
CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCAAAATAAAAAAAAATATTTTTATTCAA
TAAAAACAGTGACTTAATTGAAAAAAATTATATAGAGAGGGGTATTATTATAAATATTCCAAAAT
ATATAAGCTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCC
GACCCGAATATCACACTTAAAAAAA
Found at i:9475 original size:224 final size:222
Alignment explanation
Indices: 8966--9481 Score: 679
Period size: 225 Copynumber: 2.3 Consensus size: 222
8956 AAAGTTTTAC
* * * * *
8966 CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAAAAATATTTTTATTCA
1 CCGACCCAACCTGAATAAATAAATTAGAAATCCGACCCGAAATAAT-AAAAAATATTTTTATTCA
* * **
9031 ATAAAAACAGTGACTTAATTGAAAAAAATATATAGAGAGGGGTATTATTGTAATTATTCTTAAAT
65 ATAAAAACAGTGACTTAATTGAAAAAAATATATAGAGAGGGGTATTATTATAAATATTCCAAAAT
* *
9096 ATATAAGGTAAAATTATATATTTTTTGGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCG
130 ATATAAGCTAAAATTATATATTATTT--GTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCG
9161 ACCCGACCCGAATATCACACTTAAAAAATA
193 ACCCGACCCGAATATCACACTTAAAAAATA
* * * *
9191 CCGACCCGACCTGAATATATGAATTAGAAATCCGACCCAAAATAA-AAAAAATTATTTTTATTCA
1 CCGACCCAACCTGAATAAATAAATTAGAAATCCGACCCGAAATAATAAAAAA-TATTTTTATTCA
*
9255 ATAAAAACAGTGACTTAATTGAAAAAAATTATATATAGAGGGGTATTATTATAAATATTCCAAAA
65 ATAAAAACAGTGACTTAATTGAAAAAAA-TATATAGAGAGGGGTATTATTATAAATATTCCAAAA
* * *
9320 TATATAAGCTAAAATTATATA-TATTT-TCGGGTCGGGTATTTTTCGCCCTAAACCTGAACTCGA
129 TATATAAGCTAAAATTATATATTATTTGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGA
9383 CCCGACCCGAATATCACACTTAAAAAA-A
194 CCCGACCCGAATATCACACTTAAAAAATA
*
9411 CTGACCCAACC-GACCA-AAATAAAGTTTCACCTG-AA-CCGACCCGAAATAATAAAAAATATTT
1 CCGACCCAACCTGA--ATAAATAAA--TT-A---GAAATCCGACCCGAAATAATAAAAAATATTT
9472 TTATTCAATA
58 TTATTCAATA
9482 TATAAATAAG
Statistics
Matches: 262, Mismatches: 18, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
219 2 0.01
220 15 0.06
221 62 0.24
222 2 0.01
223 7 0.03
224 72 0.27
225 101 0.39
226 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (222 bp):
CCGACCCAACCTGAATAAATAAATTAGAAATCCGACCCGAAATAATAAAAAATATTTTTATTCAA
TAAAAACAGTGACTTAATTGAAAAAAATATATAGAGAGGGGTATTATTATAAATATTCCAAAATA
TATAAGCTAAAATTATATATTATTTGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGACC
CGACCCGAATATCACACTTAAAAAATA
Found at i:11751 original size:17 final size:18
Alignment explanation
Indices: 11718--11752 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11708 TTAAATCAAA
11718 AGATTAAAGAGTTAGGAG
1 AGATTAAAGAGTTAGGAG
*
11736 AGATTAAATA-TTAGGAG
1 AGATTAAAGAGTTAGGAG
11753 TTTTTGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.26
Consensus pattern (18 bp):
AGATTAAAGAGTTAGGAG
Found at i:13627 original size:20 final size:20
Alignment explanation
Indices: 13602--13639 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13592 GTCGAGGGTT
13602 CATAGGTCATTCGGGACATA
1 CATAGGTCATTCGGGACATA
*
13622 CATAGGTCCTTCGGGACA
1 CATAGGTCATTCGGGACA
13640 ATTTCACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (20 bp):
CATAGGTCATTCGGGACATA
Found at i:28271 original size:12 final size:12
Alignment explanation
Indices: 28250--28330 Score: 63
Period size: 12 Copynumber: 6.8 Consensus size: 12
28240 TAGTGCCACG
* *
28250 TTCATTCATTTA
1 TTCATCCATTCA
28262 TTCATCCATTCA
1 TTCATCCATTCA
* *
28274 TCCATCCATCCA
1 TTCATCCATTCA
* *
28286 TCCATCCATCCA
1 TTCATCCATTCA
* *
28298 TCCATCCATCCA
1 TTCATCCATTCA
* *
28310 TCCATCCATCCA
1 TTCATCCATTCA
*
28322 TCCATCCAT
1 TTCATCCAT
28331 GGAAATCTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.25, C:0.42, G:0.00, T:0.33
Consensus pattern (12 bp):
TTCATCCATTCA
Found at i:28281 original size:4 final size:4
Alignment explanation
Indices: 28264--28330 Score: 125
Period size: 4 Copynumber: 16.8 Consensus size: 4
28254 TTCATTTATT
*
28264 CATC CATT CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
28312 CATC CATC CATC CATC CAT
1 CATC CATC CATC CATC CAT
28331 GGAAATCTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.25, C:0.48, G:0.00, T:0.27
Consensus pattern (4 bp):
CATC
Found at i:29517 original size:4 final size:4
Alignment explanation
Indices: 29508--31233 Score: 3230
Period size: 4 Copynumber: 432.5 Consensus size: 4
29498 ATAGTTTATA
*
29508 ATAC ATAC ATAC ATAC ATAG ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
29556 ATAC ATAC ATAC ATAC --AC ATAC ATAC ACAC ATAC ACAC ATAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
29602 ATAC ATAC ACAC ATAC ACAC ATAC ACAC ACAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
29650 ATAC ATAC ACAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29698 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29746 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29794 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29842 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
29890 ATAC ATAC ATAC ATATGC ATGC ATGC ATGC ATGC ATGC ATCC ATGC ATGC
1 ATAC ATAC ATAC ATA--C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
29940 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29988 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30036 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30084 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30132 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30180 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30228 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30276 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30324 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30372 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30420 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30468 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30516 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30564 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30612 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30660 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30706 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30754 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30802 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30848 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30896 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30944 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30992 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
31040 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
31088 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
31136 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
31184 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
31232 AT
1 AT
31234 TCTTTATTTA
Statistics
Matches: 1694, Mismatches: 20, Indels: 16
0.98 0.01 0.01
Matches are distributed among these distances:
2 6 0.00
4 1685 0.99
6 3 0.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:32587 original size:81 final size:83
Alignment explanation
Indices: 32404--32597 Score: 259
Period size: 82 Copynumber: 2.4 Consensus size: 83
32394 TCTAAATTTA
* *
32404 AATAATATCTTTTAAATTTAAAATATTAAACCTGAGAGTTTTACTCCAACAAAAACTCTTTTAAT
1 AATAATATCTTTTAAATTTAAAATATTAAACCCGAGAGTTTGACTCCAACAAAAACTCTTTTAAT
*
32469 ATCTAAATTTAAACAAAT
66 ATATAAATTTAAACAAAT
* * *
32487 AATAATATCTTTTAAATTT-AAATATTAAACCCGAGAGTTTGATTCCAACTAGATA-TC-TTTAA
1 AATAATATCTTTTAAATTTAAAATATTAAACCCGAGAGTTTGACTCCAAC-AAAAACTCTTTTAA
* *
32549 TATATAAATTTAAATAGAT
65 TATATAAATTTAAACAAAT
* * *
32568 AATAACATATTTTACATTTAAAATATTAAA
1 AATAATATCTTTTAAATTTAAAATATTAAA
32598 TAGATATATA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
81 37 0.38
82 39 0.40
83 22 0.22
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.39
Consensus pattern (83 bp):
AATAATATCTTTTAAATTTAAAATATTAAACCCGAGAGTTTGACTCCAACAAAAACTCTTTTAAT
ATATAAATTTAAACAAAT
Found at i:40515 original size:12 final size:12
Alignment explanation
Indices: 40468--40517 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
40458 GTCATACCAT
40468 TTTTTATTTTAC
1 TTTTTATTTTAC
40480 TTATTTATTTT--
1 TT-TTTATTTTAC
* *
40491 TATATAGTTTTAC
1 TTTTTA-TTTTAC
40504 TTTTTATTTTAC
1 TTTTTATTTTAC
40516 TT
1 TT
40518 ATCTTTTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
10 3 0.10
11 5 0.17
12 10 0.33
13 12 0.40
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (12 bp):
TTTTTATTTTAC
Found at i:59814 original size:22 final size:22
Alignment explanation
Indices: 59786--59839 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
59776 TATCATATCT
59786 AGAACATGATAGCTTCAGGGTA
1 AGAACATGATAGCTTCAGGGTA
59808 AGAACATGATAGCTTCAGGGTA
1 AGAACATGATAGCTTCAGGGTA
*
59830 AGAACCTGAT
1 AGAACATGAT
59840 TTACGTGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (22 bp):
AGAACATGATAGCTTCAGGGTA
Found at i:60354 original size:19 final size:21
Alignment explanation
Indices: 60305--60354 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
60295 CTGTGCTAGC
60305 AGTATCAATA-TATACCCTTG
1 AGTATCAATACTATACCCTTG
* *
60325 GGTATCGATACT-TACCC-TG
1 AGTATCAATACTATACCCTTG
60344 AGTATCAATAC
1 AGTATCAATAC
60355 CAAAAATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 11 0.44
20 13 0.52
21 1 0.04
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (21 bp):
AGTATCAATACTATACCCTTG
Found at i:61832 original size:15 final size:16
Alignment explanation
Indices: 61805--61834 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61795 AAATGACTTT
61805 TATAAATATATTTTTA
1 TATAAATATATTTTTA
61821 TATAAA-ATATTTTT
1 TATAAATATATTTTT
61835 TGTTTACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATAAATATATTTTTA
Found at i:63859 original size:40 final size:40
Alignment explanation
Indices: 63709--63858 Score: 246
Period size: 40 Copynumber: 3.8 Consensus size: 40
63699 AGGACACTAA
* *
63709 GTGTATATGGTGGGCACGACCTTATGAGTAATACACTTTG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
*
63749 GTGTATATGGTGGGCACGACCTTGTGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
* *
63789 GTGTATATGGTGGGCACGACCTTATATGTAGTACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
*
63829 GTGTATATGGTGGGAACGACCTTATGTGTA
1 GTGTATATGGTGGGCACGACCTTATGTGTA
63859 GCACTACGGT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (40 bp):
GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
Found at i:64842 original size:29 final size:30
Alignment explanation
Indices: 64777--64841 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
64767 AACCATTCAC
* *
64777 AACTTTTCTAAAATTACAAATTGGTCCCCT
1 AACTTTTCTAAAATTACAAAATAGTCCCCT
64807 AACTTTTC-AAAATTACAAAATAGT-CCCT
1 AACTTTTCTAAAATTACAAAATAGTCCCCT
*
64835 AAGTTTT
1 AACTTTT
64842 TATAAGGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 10 0.31
29 14 0.44
30 8 0.25
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (30 bp):
AACTTTTCTAAAATTACAAAATAGTCCCCT
Found at i:69576 original size:311 final size:311
Alignment explanation
Indices: 68645--69556 Score: 1763
Period size: 311 Copynumber: 2.9 Consensus size: 311
68635 GATAGATAAA
*
68645 AAAAGGAAACTAAATACAACGTTAAGTATGATTTTTGAAAAAATAATAATCAGATGACCAAAACA
1 AAAAGGAAACTAAATATAACGTTAAGTATGATTTTTGAAAAAATAATAATCAGATGACCAAAACA
*
68710 GAAAAAAATAATAGAT-GAATGGCTAAATAGATAATTTATTATTTTATAATTACGTGTGAATTTC
66 GAAAAAAATAATAGATAG-ATGGCTAAATAGATAATTTATTATTTTATAATTATGTGTGAATTTC
68774 ATAATTTTAGGTCTTGACCAGGTGCTCTTCCCGCCTTTGCTCAGATACGGGTCTGAGAGCTTTTA
130 ATAATTTTAGGTCTTGACCAGGTGCTCTTCCCGCCTTTGCTCAGATACGGGTCTGAGAGCTTTTA
68839 TTCTACCGGAGGTGAAAGTGAAAAGAGAAAAGAAGGAAAGTCATTTGTTAGATTAGCTTCCAAAT
195 TTCTACCGGAGGTGAAAGTGAAAAGAGAAAAGAAGGAAAGTCATTTGTTAGATTAGCTTCCAAAT
68904 GGTTTATGGTGATTATAAGATATTATATGTTCAAAAAAAATTTTAATTATTG
260 GGTTTATGGTGATTATAAGATATTATATGTTCAAAAAAAATTTTAATTATTG
68956 AAAAGGAAACTAAATATAACGTTAAGTATGATTTTTGAAAAAATAATAATCAGATGACCAAAACA
1 AAAAGGAAACTAAATATAACGTTAAGTATGATTTTTGAAAAAATAATAATCAGATGACCAAAACA
69021 GAAAAAAATAATAGATAGATGGCTAAATAGATAATTTATTATTTTATAATTATGTGTGAATTTCA
66 GAAAAAAATAATAGATAGATGGCTAAATAGATAATTTATTATTTTATAATTATGTGTGAATTTCA
69086 TAATTTTAGGTCTTGACCAGGTGCTCTTCCCGCCTTTGCTCAGATACGGGTCTGAGAGCTTTTAT
131 TAATTTTAGGTCTTGACCAGGTGCTCTTCCCGCCTTTGCTCAGATACGGGTCTGAGAGCTTTTAT
69151 TCTACCGGAGGTGAAAGTGAAAAGAGAAAAGAAGGAAAGTCATTTGTTAGATTAGCTTCCAAATG
196 TCTACCGGAGGTGAAAGTGAAAAGAGAAAAGAAGGAAAGTCATTTGTTAGATTAGCTTCCAAATG
*
69216 GTTTATGGTGATTATAAGATATTATATGTTCAAAAAAAAATTTAATTATTG
261 GTTTATGGTGATTATAAGATATTATATGTTCAAAAAAAATTTTAATTATTG
69267 AAAAGGAAACTAAATATAACGTTAAGTATGATTTTTGAAAAAATAATAATCAGATGACCAAAACA
1 AAAAGGAAACTAAATATAACGTTAAGTATGATTTTTGAAAAAATAATAATCAGATGACCAAAACA
69332 GAAAAAAATAATAGATAGATGGCTAAATAGATAATTTATTATTTTATAATTATGTGTGAATTTCA
66 GAAAAAAATAATAGATAGATGGCTAAATAGATAATTTATTATTTTATAATTATGTGTGAATTTCA
69397 TAATTTTAGGTCTTGACCAGGTGCTCTTCCCGCCTTTGCTCAGATACGGGTCTGAGAGCTTTTAT
131 TAATTTTAGGTCTTGACCAGGTGCTCTTCCCGCCTTTGCTCAGATACGGGTCTGAGAGCTTTTAT
69462 TCTACCGGAGGTGAAAGTGAAAAGAGAAAAGAAGGAAAGTCATTTGTTAGATTAGCTTCCAAATG
196 TCTACCGGAGGTGAAAGTGAAAAGAGAAAAGAAGGAAAGTCATTTGTTAGATTAGCTTCCAAATG
* *
69527 GTTTAAGGTAATTATAAGATATTATATGTT
261 GTTTATGGTGATTATAAGATATTATATGTT
69557 TAAATTTTTT
Statistics
Matches: 595, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
311 594 1.00
312 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (311 bp):
AAAAGGAAACTAAATATAACGTTAAGTATGATTTTTGAAAAAATAATAATCAGATGACCAAAACA
GAAAAAAATAATAGATAGATGGCTAAATAGATAATTTATTATTTTATAATTATGTGTGAATTTCA
TAATTTTAGGTCTTGACCAGGTGCTCTTCCCGCCTTTGCTCAGATACGGGTCTGAGAGCTTTTAT
TCTACCGGAGGTGAAAGTGAAAAGAGAAAAGAAGGAAAGTCATTTGTTAGATTAGCTTCCAAATG
GTTTATGGTGATTATAAGATATTATATGTTCAAAAAAAATTTTAATTATTG
Found at i:72156 original size:8 final size:8
Alignment explanation
Indices: 72143--72177 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
72133 TCCATCAATT
72143 TTTCTTAA
1 TTTCTTAA
72151 TTTCTTAA
1 TTTCTTAA
72159 TTTCTTAA
1 TTTCTTAA
72167 TTTCTTCAA
1 TTTCTT-AA
72176 TT
1 TT
72178 CATCCTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTCTTAA
Found at i:72995 original size:19 final size:20
Alignment explanation
Indices: 72971--73015 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
72961 TACTCGACTT
72971 GAAAAACTCATGA-CTACTC
1 GAAAAACTCATGAGCTACTC
*
72990 GAAAAACTCGTGAGCTACTC
1 GAAAAACTCATGAGCTACTC
73010 GAAAAA
1 GAAAAA
73016 TAATATACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (20 bp):
GAAAAACTCATGAGCTACTC
Found at i:78564 original size:11 final size:11
Alignment explanation
Indices: 78548--78586 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
78538 AAAAAGTTAT
78548 TTTTTATTCTA
1 TTTTTATTCTA
*
78559 TTTTTA-TCTC
1 TTTTTATTCTA
*
78569 TTTTTCTTCTA
1 TTTTTATTCTA
78580 TTTTTAT
1 TTTTTAT
78587 CACTTCTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTATTCTA
Found at i:78572 original size:21 final size:21
Alignment explanation
Indices: 78548--78587 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
78538 AAAAAGTTAT
78548 TTTTTATTCTATTTTTATCTC
1 TTTTTATTCTATTTTTATCTC
*
78569 TTTTTCTTCTATTTTTATC
1 TTTTTATTCTATTTTTATC
78588 ACTTCTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATTCTATTTTTATCTC
Found at i:85511 original size:63 final size:61
Alignment explanation
Indices: 85294--85541 Score: 207
Period size: 63 Copynumber: 4.0 Consensus size: 61
85284 TTAGTTTGAA
* * * ** * * * * *
85294 ATTTAATAGGCATATTAAATCTTATTTAAGATAGTTGGCCCATGGATGTATAATTTTAATGGT
1 ATTTAATAGTCATATTAAACCTTATTTAAGATAATT-AACAAT-AATCTATATTTTTAATGGC
* * * * *
85357 ATTTAATGGTCATATTAAACCTTATTTAAGATAGTTAACCAT-ATC---CTTTTTAATGGT
1 ATTTAATAGTCATATTAAACCTTATTTAAGATAATTAACAATAATCTATATTTTTAATGGC
* * * *
85414 ATTCAATAGTCATATTAAACCTTATCTAAAATAATTCAACAATGAATCTATGTTTTTAATGGC
1 ATTTAATAGTCATATTAAACCTTATTTAAGATAATT-AACAAT-AATCTATATTTTTAATGGC
* * *
85477 ATTTAATAGTCATGTTAAACCTTATTTAAGATAATTGTACAATAAATGTATAATTTTTAATGGC
1 ATTTAATAGTCATATTAAACCTTATTTAAGATAATT-AACAAT-AATCTAT-ATTTTTAATGGC
85541 A
1 A
85542 ATGATATATT
Statistics
Matches: 153, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
57 41 0.27
58 5 0.03
60 5 0.03
62 4 0.03
63 86 0.56
64 12 0.08
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (61 bp):
ATTTAATAGTCATATTAAACCTTATTTAAGATAATTAACAATAATCTATATTTTTAATGGC
Found at i:85748 original size:31 final size:31
Alignment explanation
Indices: 85713--85777 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
85703 AAGGGGGATA
* *
85713 AAATATATTTAATCATAGAAAATGAGGGGAC
1 AAATATAATTAACCATAGAAAATGAGGGGAC
85744 AAATATAATTAACCATAGAAAATGAGGGGAC
1 AAATATAATTAACCATAGAAAATGAGGGGAC
85775 AAA
1 AAA
85778 ATCAACATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.08, G:0.18, T:0.22
Consensus pattern (31 bp):
AAATATAATTAACCATAGAAAATGAGGGGAC
Found at i:87214 original size:13 final size:14
Alignment explanation
Indices: 87191--87220 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
87181 TATGGGAAAG
87191 AAATAATAATAATA
1 AAATAATAATAATA
87205 AAATAA-AATAATA
1 AAATAATAATAATA
87218 AAA
1 AAA
87221 GAAATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:88454 original size:3 final size:3
Alignment explanation
Indices: 88419--88491 Score: 80
Period size: 3 Copynumber: 24.7 Consensus size: 3
88409 ACCTGAAAAA
* *
88419 AAT AA- AAT AA- AAT AAGT AAT ATAT AA- AAA AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AA-T AAT A-AT AAT AAT AAT AAT AAT AAT AAT
*
88463 AAT AAT AAT AAT AAT AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
88492 ATAAATAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.10
3 48 0.80
4 6 0.10
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:88612 original size:29 final size:28
Alignment explanation
Indices: 88553--88641 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 28
88543 CTATATATCA
88553 TATATACATTTTTAAAAATGATTTTAGAAAAC
1 TATATA-A-TTTTAAAAATG-TTTTA-AAAAC
88585 TATATAATTTTAAAAATGTTTTTAAAAAC
1 TATATAATTTTAAAAATG-TTTTAAAAAC
**
88614 CGTATAATTTTCAAAAATGTTTTAAAAA
1 TATATAATTTT-AAAAATGTTTTAAAAA
88642 TGATATATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
29 23 0.43
30 23 0.43
31 1 0.02
32 6 0.11
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (28 bp):
TATATAATTTTAAAAATGTTTTAAAAAC
Found at i:88648 original size:29 final size:30
Alignment explanation
Indices: 88562--88648 Score: 110
Period size: 29 Copynumber: 3.0 Consensus size: 30
88552 ATATATACAT
88562 TTTTAAAAATGATTTTAGAAAACT-ATATAA
1 TTTTAAAAATGATTTTA-AAAACTGATATAA
* *
88592 TTTTAAAAATGTTTTTAAAAACCG-TATAA
1 TTTTAAAAATGATTTTAAAAACTGATATAA
88621 TTTTCAAAAATG-TTTTAAAAA-TGATATA
1 TTTT-AAAAATGATTTTAAAAACTGATATA
88649 TTATATATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.02
29 27 0.53
30 23 0.45
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (30 bp):
TTTTAAAAATGATTTTAAAAACTGATATAA
Found at i:88737 original size:75 final size:72
Alignment explanation
Indices: 88620--88848 Score: 246
Period size: 75 Copynumber: 3.1 Consensus size: 72
88610 AAACCGTATA
* * * * * *
88620 ATTTTCAAAAATGTTTTAAAAA-TGATATATTATATATATTTTCAACATGTTTTTCAAAAACTCT
1 ATTTTC-AAAACGTTTTAAAAACT-ATATAATATAAATGTTTTCAAAATG-TTTT-AAAAACTAT
*
88684 ATGTTATATTT
62 ATATTATATTT
88695 ATTTTCAAAACGTTTT-AAAACTATATAACATATAAATGTTTTCAAAATGTTTTAAAAAACTATA
1 ATTTTCAAAACGTTTTAAAAACTATAT-A-ATATAAATGTTTTCAAAATGTTTT-AAAAACTATA
88759 TATTATATATAT
63 TATTATAT-T-T
* * * *
88771 ATATTCAAAATGTTTTAAAAACTATATAATATATATGTTTTAAAAAATGTTTTAAAAACTATATA
1 ATTTTCAAAACGTTTTAAAAACTATATAATATAAATGTTTT-CAAAATGTTTTAAAAACTATATA
*
88836 TCATATTT
65 TTATATTT
88844 ATTTT
1 ATTTT
88849 TAATGTTTTC
Statistics
Matches: 133, Mismatches: 14, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
73 13 0.10
74 32 0.24
75 52 0.39
76 26 0.20
77 10 0.08
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (72 bp):
ATTTTCAAAACGTTTTAAAAACTATATAATATAAATGTTTTCAAAATGTTTTAAAAACTATATAT
TATATTT
Found at i:88740 original size:37 final size:38
Alignment explanation
Indices: 88621--88849 Score: 188
Period size: 37 Copynumber: 6.1 Consensus size: 38
88611 AACCGTATAA
* *
88621 TTTTCAAAAATGTTTTAAAAA-TGATAT-A-TTATATATA
1 TTTTC-AAAATGTTTTAAAAACT-ATATAACATATATATG
* * ** * *
88658 TTTTCAACATGTTTTTCAAAAACTCTAT--GTTATATTTA
1 TTTTCAAAATG-TTTT-AAAAACTATATAACATATATATG
* *
88696 TTTTCAAAACGTTTT-AAAACTATATAACATATAAATG
1 TTTTCAAAATGTTTTAAAAACTATATAACATATATATG
** *
88733 TTTTCAAAATGTTTTAAAAAACTATATATTATATATATA
1 TTTTCAAAATGTTTT-AAAAACTATATAACATATATATG
*
88772 TATTCAAAATGTTTTAAAAACTATAT-A-ATATATATG
1 TTTTCAAAATGTTTTAAAAACTATATAACATATATATG
* * *
88808 TTTTAAAAAATGTTTTAAAAACTATATATCATATTTAT-
1 TTTT-CAAAATGTTTTAAAAACTATATAACATATATATG
88846 TTTT
1 TTTT
88850 AATGTTTTCA
Statistics
Matches: 158, Mismatches: 23, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
35 9 0.06
36 16 0.10
37 53 0.34
38 40 0.25
39 40 0.25
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (38 bp):
TTTTCAAAATGTTTTAAAAACTATATAACATATATATG
Found at i:88976 original size:24 final size:24
Alignment explanation
Indices: 88949--89007 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
88939 ATATGAGGAT
88949 CGTGCCACAAGAGCAGAGGAAACG
1 CGTGCCACAAGAGCAGAGGAAACG
88973 CGTGCCACAAGAGCAGAGGAAACG
1 CGTGCCACAAGAGCAGAGGAAACG
* *
88997 AGTGTCACAAG
1 CGTGCCACAAG
89008 GACATAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.24, G:0.32, T:0.07
Consensus pattern (24 bp):
CGTGCCACAAGAGCAGAGGAAACG
Found at i:90515 original size:17 final size:19
Alignment explanation
Indices: 90481--90530 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
90471 ATAAATATTA
90481 AATATATTCATTATTTATG
1 AATATATTCATTATTTATG
*
90500 AATATATTTTTATTATTTAAT-
1 AATATA--TTCATTATTT-ATG
90521 AATATATTCA
1 AATATATTCA
90531 ATAATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 9 0.35
21 15 0.58
22 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
AATATATTCATTATTTATG
Found at i:90549 original size:10 final size:12
Alignment explanation
Indices: 90513--90553 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
90503 ATATTTTTAT
90513 TATTTAATAATA
1 TATTTAATAATA
*
90525 TATTCAATAATA
1 TATTTAATAATA
*
90537 TATTTAAAAATA
1 TATTTAATAATA
90549 TATTT
1 TATTT
90554 GTTTAATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTTAATAATA
Found at i:90636 original size:23 final size:23
Alignment explanation
Indices: 90610--90653 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
90600 AATGTTCGTA
* * *
90610 AATATGTTTATTTAGTATTTGAT
1 AATATATTCATTTAATATTTGAT
90633 AATATATTCATTTAATATTTG
1 AATATATTCATTTAATATTTG
90654 TGAATGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
AATATATTCATTTAATATTTGAT
Found at i:107844 original size:46 final size:46
Alignment explanation
Indices: 107767--108389 Score: 790
Period size: 46 Copynumber: 13.5 Consensus size: 46
107757 TTTATGACGT
* * * * *
107767 TAATACACAGTTATGTATTTTCATTTGTGGCATCCTTTCATACCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* * * **
107813 TAATGAATCGTTATGCATTTTTATTTATGGCATCCTTTCATGCAAA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* * *
107859 TAATACAACGTTATGTATTTTCATTTATGGCATCCTTT--TGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* *
107903 TAATGCACCGTTATACATTTTCATTTATGTCATCCTTTCATGCCGAAATGCA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCC-----G-A
*
107955 TAAATATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGA
1 T--A-ATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* * *
108004 TAATGCACCGTTATGCA-TTTCATTTATGGAATCTTTTCATGACGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* *
108049 TAATACACCGTTATGCATTTTCATTTATGGCATCCTTTCATACCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* * *
108095 TAATGCACCGTTATTCAATTTTTATTTATAGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGC-ATTTTCATTTATGGCATCCTTTCATGCCGA
* * *
108142 TAATGCACCGTTATTCATTTTCATTTATGGCATTCTTTCATGCAGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* * * *
108188 TAATGCAACATTATGCATTTTCATTTATTGTATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* *
108234 TAATGCACCGTTATGTATTTTCATTTATGGCATTCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
* *
108280 TAATGTACCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
*
108326 TAATGCACTG-T-TGCA-TTTCATTTATGGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
108369 TAATGCACCGTTATGCATTTT
1 TAATGCACCGTTATGCATTTT
108390 TTATTCATTC
Statistics
Matches: 497, Mismatches: 64, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
43 37 0.07
44 42 0.08
45 45 0.09
46 283 0.57
47 44 0.09
49 2 0.00
50 1 0.00
51 1 0.00
52 2 0.00
54 1 0.00
55 39 0.08
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (46 bp):
TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCGA
Found at i:107965 original size:55 final size:56
Alignment explanation
Indices: 107905--108010 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 56
107895 TTTGCCGATA
*
107905 ATGCACCGTTATACATTTTCATTTATGTCATCCTTTCATGCCGA-AATGCATAAAT
1 ATGCACCGTTATACATTTTCATTTATGGCATCCTTTCATGCCGATAATGCATAAAT
* *
107960 ATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCTGATAATGCA
1 ATGCACCGTTATACATTTTCATTTATGGCATCCTTTCATGCCGATAATGCA
108011 CCGTTATGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 41 0.87
56 6 0.13
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (56 bp):
ATGCACCGTTATACATTTTCATTTATGGCATCCTTTCATGCCGATAATGCATAAAT
Done.