Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002123.1 Kokia drynarioides strain JFW-HI SEQ_114054, 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, 960
Length: 1601
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Found at i:754 original size:20 final size:21
Alignment explanation
Indices: 717--755 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
707 TCATCTTGAC
*
717 TTTCTTTTTCTTCCTTTTTCT
1 TTTCTTTTTCTTACTTTTTCT
*
738 TTTC-TTTTCTTATTTTTT
1 TTTCTTTTTCTTACTTTTT
756 TAAGATAGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTCTTTTTCTTACTTTTTCT
Found at i:797 original size:70 final size:70
Alignment explanation
Indices: 681--826 Score: 174
Period size: 70 Copynumber: 2.1 Consensus size: 70
671 GATATATAGA
* * * *
681 TTTTTCAAGATGTCCTTTGCGGGTTTTCATCTTGACTTTCTTTTTCTTCCTTTTTCTT-TTCTT-
1 TTTTTTAAGATGTCCTTTACGGGTTTTCATCTTGACTTTCTCTTTCTT--TTCTTCTTCTTCTTC
744 TTCTTAT
64 TTCTTAT
*
751 TTTTTTAAGATAG-CCTTTACGGGTTTTCGTCTTGACCTTT-TCTTTCTTTTCTTCTTCTTCTTC
1 TTTTTTAAGAT-GTCCTTTACGGGTTTTCATCTTGA-CTTTCTCTTTCTTTTCTTCTTCTTCTTC
*
814 TTCTTTT
64 TTCTTAT
821 TTTTTT
1 TTTTTT
827 CTTTTTTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
68 7 0.11
69 5 0.08
70 49 0.74
71 5 0.08
ACGTcount: A:0.08, C:0.20, G:0.10, T:0.62
Consensus pattern (70 bp):
TTTTTTAAGATGTCCTTTACGGGTTTTCATCTTGACTTTCTCTTTCTTTTCTTCTTCTTCTTCTT
CTTAT
Done.