Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010208.1 Kokia drynarioides strain JFW-HI SEQ_125027, 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: 3348
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.33
Warning! 273 characters in sequence are not A, C, G, or T
Found at i:946 original size:205 final size:205
Alignment explanation
Indices: 592--1226 Score: 1022
Period size: 205 Copynumber: 3.1 Consensus size: 205
582 NNNNNNNNNN
* * * * * *
592 GGAAGATGACTGCGTCGTTTGTTTCAATTCGTTTCTCTGTATCTCATCAGGAAAATGAATTTGGT
1 GGAAGATGACCGCGTCGTTTGTTTTAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGT
* *
657 -TCACTTCTCCGTATCTTATCAAGAAGCTAACCTTTTA-TAGCTTCGACCTACTTCTCAGTGTCT
66 CT-ACTTCTTCGTATCTTATCAAGAAGCTAACCTTTTATTA-CTTCGACCTGCTTCTCAGTGTCT
*
720 CATCAGGAAGCTGGGGTTCGAGGATTTGTTCGTATCGAGCGTGAGTTTTATTTGGTCTTCTTCTC
129 CATCAGGAAGCTGGGGTTCGAGGATTTGTTCGTATCGAGCGTGAGTTTGATTTGGTCTTCTTCTC
785 AGTATCTCATCA
194 AGTATCTCATCA
* * *
797 GAAAGATGACCACATCGTTTGTTTTAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGT
1 GGAAGATGACCGCGTCGTTTGTTTTAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGT
862 CTACTTCTTCGTATCTTATCAAGAAGCTAACCTTTTATTACTTCGACCTGCTTCTCAGTGTCTCA
66 CTACTTCTTCGTATCTTATCAAGAAGCTAACCTTTTATTACTTCGACCTGCTTCTCAGTGTCTCA
** * *
927 TCAGGAAGCTGGGGTTCGAGGATTTGTTCGTATCGAGAATGAGTTTGATTTGATCTTCTTCTCTG
131 TCAGGAAGCTGGGGTTCGAGGATTTGTTCGTATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAG
992 TATCTCATCA
196 TATCTCATCA
*
1002 GGAAGATGACCGCGTCGTTTGTTTTAGTCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGT
1 GGAAGATGACCGCGTCGTTTGTTTTAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGT
* * * *
1067 CCACTTTTTCGTATCTTATCAGGAAGCTAACCTTTTATGACTTCGACCTGCTTCTCAGTGTCTCA
66 CTACTTCTTCGTATCTTATCAAGAAGCTAACCTTTTATTACTTCGACCTGCTTCTCAGTGTCTCA
* * *
1132 TCAGGAAGCTGGGGTTCGAGGATTTGTTCGTATTGAGCGTGAATTTGATTTGGTGTTCTTCTCAG
131 TCAGGAAGCTGGGGTTCGAGGATTTGTTCGTATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAG
1197 TATCTCATCA
196 TATCTCATCA
1207 GGAAGATGACCGCGTCGTTT
1 GGAAGATGACCGCGTCGTTT
1227 ATGGATAATC
Statistics
Matches: 397, Mismatches: 31, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
205 394 0.99
206 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (205 bp):
GGAAGATGACCGCGTCGTTTGTTTTAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGT
CTACTTCTTCGTATCTTATCAAGAAGCTAACCTTTTATTACTTCGACCTGCTTCTCAGTGTCTCA
TCAGGAAGCTGGGGTTCGAGGATTTGTTCGTATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAG
TATCTCATCA
Done.