Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_152 ID=scaffold_152-JGI_221_v2.0
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: 10688
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:256 original size:23 final size:24
Alignment explanation
Indices: 207--257 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
197 GGTTTTCTTC
***
207 TTATTTATTATTATATATATTGTT
1 TTATTTATTATTATATATATCACT
*
231 TTATTT-TTTTTATATATATCACT
1 TTATTTATTATTATATATATCACT
254 TTAT
1 TTAT
258 ATATGTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TTATTTATTATTATATATATCACT
Found at i:298 original size:16 final size:17
Alignment explanation
Indices: 266--298 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
256 ATATATGTTG
*
266 TTTTAAAATTTTGTTTA
1 TTTTAAAATTGTGTTTA
283 TTTTAAAATTGT-TTTA
1 TTTTAAAATTGTGTTTA
299 ATTCCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTAAAATTGTGTTTA
Found at i:405 original size:26 final size:26
Alignment explanation
Indices: 370--430 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
360 ATAAGACTAA
* *
370 TTATTTTAAGTTACTTTATATATTAT
1 TTATTTTAAGTTACTTTACATATTAC
*
396 TTATTTTAAGTTATTTTACATATTAC
1 TTATTTTAAGTTACTTTACATATTAC
422 TTATTTTAA
1 TTATTTTAA
431 AATTAACCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTACATATTAC
Found at i:4841 original size:10 final size:10
Alignment explanation
Indices: 4826--4860 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
4816 TCAGATTCAA
4826 AAAAAATAAT
1 AAAAAATAAT
4836 AAAAAAT-AT
1 AAAAAATAAT
*
4845 CAAAAATAAT
1 AAAAAATAAT
4855 AAAAAA
1 AAAAAA
4861 GGTCAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:4866 original size:19 final size:19
Alignment explanation
Indices: 4827--4868 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4817 CAGATTCAAA
*
4827 AAAAATAATAAAAAATATC
1 AAAAATAATAAAAAAGATC
*
4846 AAAAATAATAAAAAAGGTC
1 AAAAATAATAAAAAAGATC
4865 AAAA
1 AAAA
4869 TCAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAAATAATAAAAAAGATC
Found at i:7254 original size:44 final size:44
Alignment explanation
Indices: 7191--7375 Score: 275
Period size: 44 Copynumber: 4.2 Consensus size: 44
7181 GCGAAGCGGA
* *
7191 TTGAAGATTGTGAATCCTATCTCCTTGGACAGTAGTGGAATAGG
1 TTGAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGGAATAGG
7235 TTGAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGGAATAGG
1 TTGAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGGAATAGG
* * *
7279 TTGAAGATTGT-AAGTCCTATCT-CCTTGAGCAACAGTGGAGTAGG
1 TTGAAGATTGTGAA-TCCTATCTCCCTGGA-CAGCAGTGGAATAGG
* *
7323 TTGAAGATTGTGAATCCTATCTCCCTAGACAGCAATGGAATAGG
1 TTGAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGGAATAGG
7367 TTGAAGATT
1 TTGAAGATT
7376 ACAGATCTTA
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
43 7 0.05
44 114 0.89
45 7 0.05
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
TTGAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGGAATAGG
Found at i:7404 original size:88 final size:87
Alignment explanation
Indices: 7220--7406 Score: 268
Period size: 88 Copynumber: 2.1 Consensus size: 87
7210 TCTCCTTGGA
* * *
7220 CAGTAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAG
1 CAGTAGTGGAGTAGGTTGAAGATTGTGAATCCTATCTCCCTAGACAGCAATGGAATAGGTTGAAG
* * *
7285 ATTGTA-AGTCCTATCTCCTTGAG
66 A-T-TACAGTCTTATCTCCCTAAG
**
7308 CAACAGTGGAGTAGGTTGAAGATTGTGAATCCTATCTCCCTAGACAGCAATGGAATAGGTTGAAG
1 CAGTAGTGGAGTAGGTTGAAGATTGTGAATCCTATCTCCCTAGACAGCAATGGAATAGGTTGAAG
7373 ATTACAGATCTTATCTCCCTAAG
66 ATTACAG-TCTTATCTCCCTAAG
7396 CAGTAGTGGAG
1 CAGTAGTGGAG
7407 CAAATCAAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 2 0.02
87 3 0.03
88 82 0.94
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (87 bp):
CAGTAGTGGAGTAGGTTGAAGATTGTGAATCCTATCTCCCTAGACAGCAATGGAATAGGTTGAAG
ATTACAGTCTTATCTCCCTAAG
Found at i:7426 original size:88 final size:88
Alignment explanation
Indices: 7246--7432 Score: 198
Period size: 88 Copynumber: 2.1 Consensus size: 88
7236 TGAAGATTGT
* * * *
7246 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCTTGAGCAA
1 GAATCCTATCTCCCTAGACAGCAATGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAAGCAA
* ** ** ** *
7311 CAGTGGAGTAGGTTGAAGATTGT
66 CAGTGGAGCAAATCAAAGACGGC
*
7334 GAATCCTATCTCCCTAGACAGCAATGGAATAGGTTGAAGA-T-TACAGATCTTATCTCCCTAAGC
1 GAATCCTATCTCCCTAGACAGCAATGGAATAGGTTGAAGATTGTA-AG-TCCTATCTCCCTAAGC
**
7397 AGTAGTGGAGCAAATCAAAGACGGC
64 AACAGTGGAGCAAATCAAAGACGGC
*
7422 GAATCTTATCT
1 GAATCCTATCT
7433 TCCCAAGGTA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
86 2 0.02
87 3 0.04
88 76 0.94
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (88 bp):
GAATCCTATCTCCCTAGACAGCAATGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTAAGCAA
CAGTGGAGCAAATCAAAGACGGC
Found at i:7507 original size:176 final size:176
Alignment explanation
Indices: 7296--7865 Score: 761
Period size: 176 Copynumber: 3.2 Consensus size: 176
7286 TTGTAAGTCC
* * *
7296 TATCTCCTTGAGCAACAGTGGAGTAGGTTGAAGATTGT-GAATCCTATCTCCCTAGACAGCAATG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG-ATCCTATCTCCCTAGACAGCAGTG
* *
7360 GAATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGCGAA
65 GAATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAA
* * *
7425 TCTTATCTTCCCAAGGTAGTAGGGAAACGGATTTAAGCCACTACCCT
130 TCTTATCTTCCCAAGATAGTAGGGAAACAGATTTAAGCCACTAGCCT
* * * * * **
7472 TATCTCCCTGAGCAGCGGTAGAGTAGGTTGAAGATTTTAGA-CCTTATCT-CCTTGAAAATAGTG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCC-TATCTCCCTAGACAGCAGTG
* * *
7535 GAGTAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAA
65 GAATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAA
*
7600 TCTTATCTTCCCAATATAGTAGGGAAGA-AGATTTAAGCCACTAGCCT
130 TCTTATCTTCCCAAGATAGTAGGGAA-ACAGATTTAAGCCACTAGCCT
* * * * *
7647 TATCTCCTTGAGCAGCAATGGAGTAGGTCGAAGATTGTAGATCCTATCTCCCTGGACAGCAGTTG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAGACAGCAGTGG
* * * **
7712 AATAGGTGGAAGATTACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATTGAAGACGATGAAT
66 AATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
* *
7777 CTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACTTGCCT
131 CTTATCTTCCCAAGATAGTAGGGAAACAGATTTAAGCCACTAGCCT
* * ** *
7823 TATCTCCCTGAGTAGTAGTGGAGTAGACTGAAGATAGTAGATC
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATC
7866 TTGTCTTCCT
Statistics
Matches: 339, Mismatches: 49, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
175 152 0.45
176 186 0.55
177 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (176 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAGACAGCAGTGG
AATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
CTTATCTTCCCAAGATAGTAGGGAAACAGATTTAAGCCACTAGCCT
Found at i:7517 original size:44 final size:44
Alignment explanation
Indices: 7469--7573 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 44
7459 AAGCCACTAC
* *
7469 CCTTATCTCCCTGAGCAGCGGTAGAGTAGGTTGAAGATTTTAGA
1 CCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTTCAGA
* * ** *
7513 CCTTATCTCCTTGA-AAATAGTGGAGTAGGTTGAAGATTTCAGA
1 CCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTTCAGA
* *
7556 TCTTATCTCCCTAAGCAG
1 CCTTATCTCCCTGAGCAG
7574 TAGTGGAGCA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
43 34 0.71
44 14 0.29
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (44 bp):
CCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTTCAGA
Found at i:7867 original size:88 final size:88
Alignment explanation
Indices: 7424--8043 Score: 312
Period size: 88 Copynumber: 7.0 Consensus size: 88
7414 AAGACGGCGA
* * * ** * * *
7424 ATCTTATCTTCCCAAGGTAGTAGGGAAACGGATTTAAGCCACTACCCTTATCTCCCTGAGCAGCG
1 ATCTTATCTTCCCAAGATAGTAGGGAAGCAGATCGAAGACACTAGCCTTATCTCCCTGAGCAGCA
* * **
7489 GTAGAGTAGGTTGAAGATTTTAG
66 GTGGAGTAGATTGAAGATAGTAG
* * * * * * ** * *
7512 ACCTTATC-TCCTTGAAAATAGT--GG-AGTAGGTTGAAGA-TTTCAGATCTTATCTCCCTAAGC
1 ATCTTATCTTCC--CAAGATAGTAGGGAAGCAGATCGAAGACACT-AG-CCTTATCTCCCTGAGC
* * * ** * *
7572 AGTAGTGGAGCAGATCGAAGACGGCAA
62 AGCAGTGGAGTAGATTGAAGATAGTAG
* * ** * *
7599 ATCTTATCTTCCCAATATAGTAGGGAAGAAGATTTAAGCCACTAGCCTTATCTCCTTGAGCAGCA
1 ATCTTATCTTCCCAAGATAGTAGGGAAGCAGATCGAAGACACTAGCCTTATCTCCCTGAGCAGCA
* * * *
7664 ATGGAGTAGGTCGAAGATTGTAG
66 GTGGAGTAGATTGAAGATAGTAG
* ** * * * * * * * * * *
7687 ATCCTATC-TCCCTGGACAGCAGTTGAA-TAGGTGGAAGATTAC-AGATCTTATCTCTCTAAGCA
1 ATCTTATCTTCCCAAGATAGTAG-GGAAGCAGATCGAAGA-CACTAG-CCTTATCTCCCTGAGCA
* * *
7749 GTAGTGGAGCAGATTGAAGA-CG-ATG
63 GCAGTGGAGTAGATTGAAGATAGTA-G
** * * * *
7774 AATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACTTGCCTTATCTCCCTGAGTAGT
1 -ATCTTATCTTCCCAAGATAGTAGGGAAGCAGATCGAAGACACTAGCCTTATCTCCCTGAGCAGC
*
7839 AGTGGAGTAGACTGAAGATAGTAG
65 AGTGGAGTAGATTGAAGATAGTAG
* * * ** * *
7863 ATCTTGTCTT-CC-TGTACTGGTATTGAAGCAGATCGAAGACACCAGCCTTGTCTCCCTGAGCAG
1 ATCTTATCTTCCCAAG-A-TAGTAGGGAAGCAGATCGAAGACACTAGCCTTATCTCCCTGAGCAG
* *
7926 CAGTGGAGTAGGTTGAAAATAGTAG
64 CAGTGGAGTAGATTGAAGATAGTAG
* * * * * * * *
7951 ATCTTGTCTTCCTCTA-CTGGTAGCGAAGCAGATCGAAGATAGCAAGTCTTATCTCCCTGAGCAG
1 ATCTTATCTTCC-CAAGATAGTAGGGAAGCAGATCGAAGACA-CTAGCCTTATCTCCCTGAGCAG
*
8015 CAGTGGAGTAGATTGAAGATAGCAG
64 CAGTGGAGTAGATTGAAGATAGTAG
8040 ATCT
1 ATCT
8044 CGCTTCCTTG
Statistics
Matches: 391, Mismatches: 116, Indels: 49
0.70 0.21 0.09
Matches are distributed among these distances:
85 1 0.00
86 17 0.04
87 64 0.16
88 224 0.57
89 82 0.21
90 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (88 bp):
ATCTTATCTTCCCAAGATAGTAGGGAAGCAGATCGAAGACACTAGCCTTATCTCCCTGAGCAGCA
GTGGAGTAGATTGAAGATAGTAG
Found at i:7933 original size:176 final size:176
Alignment explanation
Indices: 7296--7942 Score: 536
Period size: 176 Copynumber: 3.7 Consensus size: 176
7286 TTGTAAGTCC
* * * * * * * * *
7296 TATCTCCTTGAGCAACAGTGGAGTAGGTTGAAGATTGT-GAATCCTATCTCCCTAGACAGCAATG
1 TATCTCCCTGAGCAGCAATGGAGTAGCTCGAAGATAGTAG-ATCCTATCTCCCTGGACAGCAGTT
* * * * * * ** * *
7360 GAATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGCGAA
65 GAACAGATCGAAGATCACAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAA
* * *
7425 TCTTATCTTCCCAAGGTAGTAGGGAA-ACGGATTTAAGCCACTACCCT
130 TCTTATCTTCCCAAGATAGTAGGGAAGA-AGATTTAAGCCACTAGCCT
** * * * ** * * ** *
7472 TATCTCCCTGAGCAGCGGTAGAGTAGGTTGAAGATTTTAGA-CCTTATCT-CCTTGAAAATAGTG
1 TATCTCCCTGAGCAGCAATGGAGTAGCTCGAAGATAGTAGATCC-TATCTCCCTGGACAGCAGTT
** * * ** * * *
7535 GAGTAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAA
65 GAACAGATCGAAGATCACAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAA
*
7600 TCTTATCTTCCCAATATAGTAGGGAAGAAGATTTAAGCCACTAGCCT
130 TCTTATCTTCCCAAGATAGTAGGGAAGAAGATTTAAGCCACTAGCCT
* * *
7647 TATCTCCTTGAGCAGCAATGGAGTAGGTCGAAGATTGTAGATCCTATCTCCCTGGACAGCAGTTG
1 TATCTCCCTGAGCAGCAATGGAGTAGCTCGAAGATAGTAGATCCTATCTCCCTGGACAGCAGTTG
* * * * * * **
7712 AATAGGTGGAAGATTACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATTGAAGACGATGAAT
66 AACAGATCGAAGATCACAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAAT
* *
7777 CTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCCACTTGCCT
131 CTTATCTTCCCAAGATAGTAGGGAAGAAGATTTAAGCCACTAGCCT
* * * * * * * * *
7823 TATCTCCCTGAGTAGTAGTGGAGTAGACT-GAAGATAGTAGATCTTGTCTTCCTGTACTGGTA-T
1 TATCTCCCTGAGCAGCAATGGAGTAG-CTCGAAGATAGTAGATCCTATCTCCCTGGAC-AGCAGT
* * * * *
7886 TGAAGCAGATCGAAGA-CACCAG-CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAA
64 TGAA-CAGATCGAAGATCA-CAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
7943 AATAGTAGAT
Statistics
Matches: 398, Mismatches: 64, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
175 152 0.38
176 231 0.58
177 15 0.04
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (176 bp):
TATCTCCCTGAGCAGCAATGGAGTAGCTCGAAGATAGTAGATCCTATCTCCCTGGACAGCAGTTG
AACAGATCGAAGATCACAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACAAAT
CTTATCTTCCCAAGATAGTAGGGAAGAAGATTTAAGCCACTAGCCT
Found at i:8073 original size:89 final size:88
Alignment explanation
Indices: 7819--8058 Score: 329
Period size: 88 Copynumber: 2.7 Consensus size: 88
7809 TAAGCCACTT
* * *
7819 GCCTTATCTCCCTGAGTAGTAGTGGAGTAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTGGT
1 GCCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATAGTAGATCTTGTCTTCCTGTACTGGT
* *
7884 ATTGAAGCAGATCGAAGACACCA
66 AGTGAAGCAGATCGAAGACACAA
* * * *
7907 GCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGTAGATCTTGTCTTCCTCTACTGGT
1 GCCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATAGTAGATCTTGTCTTCCTGTACTGGT
* *
7972 AGCGAAGCAGATCGAAGATAGCAA
66 AGTGAAGCAGATCGAAGACA-CAA
* * *
7996 GTCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATAGCAGATCTCG-CTTCCTTGTACTG
1 GCCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATAGTAGATCTTGTCTTCC-TGTACTG
8059 ACAGTAAAGT
Statistics
Matches: 132, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
88 80 0.61
89 52 0.39
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (88 bp):
GCCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATAGTAGATCTTGTCTTCCTGTACTGGT
AGTGAAGCAGATCGAAGACACAA
Found at i:8900 original size:14 final size:15
Alignment explanation
Indices: 8879--8913 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
8869 AAAATTATAT
8879 ATATAATAAAAGTCC
1 ATATAATAAAAGTCC
*
8894 A-ATAATAACAGTCC
1 ATATAATAAAAGTCC
8908 ATATAA
1 ATATAA
8914 CAAACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (15 bp):
ATATAATAAAAGTCC
Found at i:10320 original size:16 final size:15
Alignment explanation
Indices: 10294--10327 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10284 TTTATTTATG
*
10294 TTATTTTAAATTTTT
1 TTATTTTAAATTGTT
10309 TTATTTTAAAATTGTT
1 TTATTTT-AAATTGTT
10325 TTA
1 TTA
10328 ATTCCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATTTTAAATTGTT
Found at i:10428 original size:26 final size:26
Alignment explanation
Indices: 10399--10459 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
10389 ATTAGACTAA
* *
10399 TTATTTTAAGTTACTTTATATATTAT
1 TTATTTTAAGTTACTTTACATATTAC
*
10425 TTATTTTAAGTTATTTTACATATTAC
1 TTATTTTAAGTTACTTTACATATTAC
10451 TTATTTTAA
1 TTATTTTAA
10460 AATTAACCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTACATATTAC
Done.