Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012174.1 Kokia drynarioides strain JFW-HI SEQ_127175, 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, 670
Length: 1118
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Found at i:695 original size:23 final size:23
Alignment explanation
Indices: 669--764 Score: 158
Period size: 23 Copynumber: 4.2 Consensus size: 23
659 ACACTAGCGC
669 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
692 GCTCTCTGTTTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
715 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
738 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
761 GCTC
1 GCTC
765 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
22 1 0.01
23 66 0.97
24 1 0.01
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:736 original size:46 final size:46
Alignment explanation
Indices: 669--764 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
659 ACACTAGCGC
*
669 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACTTCGTGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGT
*
715 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGT
761 GCTC
1 GCTC
765 AGTACTTTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGT
Done.