Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01001659.1 Corchorus olitorius cultivar O-4 contig01659, 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, 918
Length: 1531
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:728 original size:47 final size:47
Alignment explanation
Indices: 655--750 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
645 GACACGATTC
*
655 AATTTTTCAAATATTTCAATTAACTAAAATATATATGATTAGAACTA
1 AATTTTTCAAATATTTCAATTAACTAAAATATATATAATTAGAACTA
*
702 AATTTTTCAAATATTTCAATTCACTAAAATATATATAATTAGAACTA
1 AATTTTTCAAATATTTCAATTAACTAAAATATATATAATTAGAACTA
749 AA
1 AA
751 AATGTACTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (47 bp):
AATTTTTCAAATATTTCAATTAACTAAAATATATATAATTAGAACTA
Found at i:1458 original size:49 final size:49
Alignment explanation
Indices: 1403--1500 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
1393 TCATGACGCA
1403 AAGAAAGCCACAAAATTTGGTGGAATTAAGAAAATAGTCACCGAGAGAG
1 AAGAAAGCCACAAAATTTGGTGGAATTAAGAAAATAGTCACCGAGAGAG
1452 AAGAAAGCCACAAAATTTGGTGGAATTAAGAAAATAGTCACCGAGAGAG
1 AAGAAAGCCACAAAATTTGGTGGAATTAAGAAAATAGTCACCGAGAGAG
1501 CTATTAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.16
Consensus pattern (49 bp):
AAGAAAGCCACAAAATTTGGTGGAATTAAGAAAATAGTCACCGAGAGAG
Done.