Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008719.1 Kokia drynarioides strain JFW-HI SEQ_123401, 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: 3453
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Found at i:3211 original size:30 final size:31
Alignment explanation
Indices: 3175--3237 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
3165 GTTTACATTT
3175 CAGTCCCTCAAC-TTTGAAAATGTGACAAAA
1 CAGTCCCTCAACTTTTGAAAATGTGACAAAA
3205 CAGTCCCTCAACTTTTGAAAATGTGACAAAA
1 CAGTCCCTCAACTTTTGAAAATGTGACAAAA
3236 CA
1 CA
3238 ATCTTTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.24
Consensus pattern (31 bp):
CAGTCCCTCAACTTTTGAAAATGTGACAAAA
Found at i:3371 original size:30 final size:31
Alignment explanation
Indices: 3331--3402 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
3321 ATTACGTTTA
* * *
3331 ACAAATCAGTCACTCAACTT-TAGAAATGTG
1 ACAAAACAGTCACTAAACTTATAGAAAAGTG
* *
3361 ACAAAACAGTCACTAAAGTTATCGAAAAGTG
1 ACAAAACAGTCACTAAACTTATAGAAAAGTG
*
3392 ACAAAATAGTC
1 ACAAAACAGTC
3403 CTCTTGTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.22
Consensus pattern (31 bp):
ACAAAACAGTCACTAAACTTATAGAAAAGTG
Done.