Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013888.1 Kokia drynarioides strain JFW-HI SEQ_128916, 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, 640
Length: 1068
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.21
Warning! 52 characters in sequence are not A, C, G, or T
Found at i:781 original size:158 final size:158
Alignment explanation
Indices: 477--771 Score: 403
Period size: 158 Copynumber: 1.9 Consensus size: 158
467 NNAAAAGGTT
* * * *
477 AGCTTCTTGATAAGATACGAAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGG
1 AGCTTCCTGATAAGATACGAAGAAGTAGACCAAATTCATCTTCCTGATGAGATACAGAGAAACGA
* * ** * * * *
542 ATTAAAACAAATGATGTGGTCATATTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCAC
66 ATTAAAACAAACGACGCAGTCATATTCCCGATAAGATACTAAGAAAAAGACCAAATCAAACTCAC
*
607 GCTCGATACGAACAAATCCTCGAACCCC
131 GCCCGATACGAACAAATCCTCGAACCCC
* * *
635 AGCTTCCTGATAAGATATGGAGAAGT-GAACCAAATTCATTTTCCTGATGAGATACAGAGAAACG
1 AGCTTCCTGATAAGATACGAAGAAGTAG-ACCAAATTCATCTTCCTGATGAGATACAGAGAAACG
* * *
699 AATTGAAACAAACGACGCAGTCATCTTCCCGATAAGATACTAAGAAAAAGACCAAATCAAACTTA
65 AATTAAAACAAACGACGCAGTCATATTCCCGATAAGATACTAAGAAAAAGACCAAATCAAACTCA
764 CGCCCGAT
130 CGCCCGAT
772 GTGAGCAAAT
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
157 1 0.01
158 116 0.99
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (158 bp):
AGCTTCCTGATAAGATACGAAGAAGTAGACCAAATTCATCTTCCTGATGAGATACAGAGAAACGA
ATTAAAACAAACGACGCAGTCATATTCCCGATAAGATACTAAGAAAAAGACCAAATCAAACTCAC
GCCCGATACGAACAAATCCTCGAACCCC
Done.