Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014857.1 Kokia drynarioides strain JFW-HI SEQ_129900, 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: 17849
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Found at i:8837 original size:74 final size:75
Alignment explanation
Indices: 8716--8865 Score: 257
Period size: 74 Copynumber: 2.0 Consensus size: 75
8706 TTAAGTTAAG
* * * *
8716 TGAATAACTTTTCTTCTTTTTATTCCCGTTCGTTTCTATCCTCAGAT-GTTTTTGGTTCTTTTCC
1 TGAATAACTTCTCTTCTTTTTATCCCCATTCATTTCTATCCTCAGATGGTTTTTGGTTCTTTTCC
8780 TTTCTTATTT
66 TTTCTTATTT
8790 TGAATAACTTCTCTTCTTTTTATCCCCATTCATTTCTATCCTCAGATGGTTTTTGGTTCTTTTCC
1 TGAATAACTTCTCTTCTTTTTATCCCCATTCATTTCTATCCTCAGATGGTTTTTGGTTCTTTTCC
8855 TTTCTTATTT
66 TTTCTTATTT
8865 T
1 T
8866 TATTTTTCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 43 0.61
75 28 0.39
ACGTcount: A:0.13, C:0.21, G:0.09, T:0.57
Consensus pattern (75 bp):
TGAATAACTTCTCTTCTTTTTATCCCCATTCATTTCTATCCTCAGATGGTTTTTGGTTCTTTTCC
TTTCTTATTT
Found at i:15230 original size:19 final size:19
Alignment explanation
Indices: 15208--15245 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
15198 ATCAAAAAGT
15208 CGAGAAAAA-AAGAAAAATA
1 CGAGAAAAATAA-AAAAATA
15227 CGAGAAAAATAAAAAAATA
1 CGAGAAAAATAAAAAAATA
15246 AAAAAATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.74, C:0.05, G:0.13, T:0.08
Consensus pattern (19 bp):
CGAGAAAAATAAAAAAATA
Done.