Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013047.1 Kokia drynarioides strain JFW-HI SEQ_128065, 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, 942
Length: 1571
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Found at i:1156 original size:198 final size:203
Alignment explanation
Indices: 910--1445 Score: 635
Period size: 198 Copynumber: 2.6 Consensus size: 203
900 CAGATCGGAG
* *
910 CAATAAACGGTTAGCTTCTTGATGAGATACGGAGAAGTAGACCAAATTCGTCTTCCTGATGAGAT
1 CAATAAA--GTTAGCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTGATGAGAT
* * * *
975 ACAGAGAAGCGGATTGAAACGAACAACGCCGTCATCTTCTTGATGAGATACTGAGAAGAAGACCA
64 ACAGAGAAGCGGATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
* * * *
1040 AACCAAACCCATGCTCGACATG-AGC-AAATCTTCGAA-CCACAGCTCCCTGATG-AGATACTGA
129 AACCAAACCCACGCTC-A-AAGAAACAAAATCTTCGAACCCACAACTCCCTGA-GAAGATACTGA
*
1101 GAAGC-GTGTC-AA
191 AAAGCAG-GTCAAA
* *
1113 -AGT-AA-TTAGCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTAATGAGATAC
1 CAATAAAGTTAGCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATAC
* * * *
1175 AGAGAAGCGGA-TAAAACAAACGACGCGGTCATCTTCCTAATGAGATATTGAGAAGAAGACCAAA
66 AGAGAAGCGGATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAA
* * * *
1239 TCGAACCCACGCTCAAAGCAAACAAAATCTTCGAACCCCCAACTTCCTGAGAAGATACTGAAAAG
131 CCAAACCCACGCTCAAAG-AAACAAAATCTTCGAACCCACAACTCCCTGAGAAGATACTGAAAAG
1304 CAGGTCGAAA
195 CAGGTC-AAA
* * * *
1314 CAATACAAGGTTAGCTTCCTGATGAGATACTGAGAAGT-GAACCAAACTCGTATTCCTGATGAGG
1 CAATA-AA-GTTAGCTTCCTGATGAGATACAGAGAAGTAG-ACCAAATTCGTCTTCCTGATGAGA
* ** *
1378 TATAGAGAAGCAAATTGAAACAAACGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACC
63 TACAGAGAAGCGGATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACC
1443 AAA
128 AAA
1446 TCAATAAAAT
Statistics
Matches: 284, Mismatches: 34, Indels: 26
0.83 0.10 0.08
Matches are distributed among these distances:
195 2 0.01
196 1 0.00
197 59 0.21
198 77 0.27
199 27 0.10
200 1 0.00
201 4 0.01
202 4 0.01
204 2 0.01
205 1 0.00
206 58 0.20
207 48 0.17
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (203 bp):
CAATAAAGTTAGCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATAC
AGAGAAGCGGATTGAAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAA
CCAAACCCACGCTCAAAGAAACAAAATCTTCGAACCCACAACTCCCTGAGAAGATACTGAAAAGC
AGGTCAAA
Done.