Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013826.1 Kokia drynarioides strain JFW-HI SEQ_128854, 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: 1828
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.44
Warning! 67 characters in sequence are not A, C, G, or T
Found at i:1352 original size:58 final size:58
Alignment explanation
Indices: 1234--1353 Score: 170
Period size: 58 Copynumber: 2.1 Consensus size: 58
1224 ACCCATAAAC
*
1234 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAAAACACTCAT
* * * * *
1292 AAACTAAACTCAAATATTTTTAAACTCAAATATAATTTTATTCCT-AAATAATACTTAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAA-AACACTCAT
1350 AAAC
1 AAAC
1354 AACTCCTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 3 0.05
58 52 0.95
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTCAAAAACACTCAT
Found at i:1400 original size:3 final size:3
Alignment explanation
Indices: 1392--1419 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1382 TTCTTTTTGT
1392 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1420 GGTTAGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.