Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01001844.1 Kokia drynarioides strain JFW-HI SEQ_113597, 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: 4399
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:3210 original size:63 final size:63
Alignment explanation
Indices: 3131--3258 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
3121 TGCCACCATT
3131 TCCCTTGAGATTCTTTTTTTAGGACTATAAAATACTAATTTAAACATAATAAATCATGATTTG
1 TCCCTTGAGATTCTTTTTTTAGGACTATAAAATACTAATTTAAACATAATAAATCATGATTTG
3194 TCCCTTGAGATTCTTTTTTTAGGACTATAAAATACTAATTTAAACATAATAAATCATGATTTG
1 TCCCTTGAGATTCTTTTTTTAGGACTATAAAATACTAATTTAAACATAATAAATCATGATTTG
3257 TC
1 TC
3259 ATGTCAGATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.41
Consensus pattern (63 bp):
TCCCTTGAGATTCTTTTTTTAGGACTATAAAATACTAATTTAAACATAATAAATCATGATTTG
Found at i:3654 original size:4 final size:4
Alignment explanation
Indices: 3647--3675 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
3637 CAAATTTATT
3647 TTAA TTAA TTAA TTAA TTAA TTAA -TAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
3676 TAGTAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Done.