Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012832.1 Corchorus olitorius cultivar O-4 contig12865, 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: 3052
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Found at i:781 original size:4 final size:4
Alignment explanation
Indices: 772--798 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
762 AAGATATTCA
772 AATC AATC AATC AATC AATC AATC AAT
1 AATC AATC AATC AATC AATC AATC AAT
799 TTAATATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
AATC
Found at i:805 original size:73 final size:75
Alignment explanation
Indices: 703--863 Score: 281
Period size: 73 Copynumber: 2.1 Consensus size: 75
693 TCAATATTCA
703 AATCAATCAATCAATCAATCAATTTAATATCA-TTAGTACTAATTGATTCTAATTGGATC-AAGA
1 AATCAATCAATCAATCAATCAATTTAATATCATTTAGTACTAATTGATTCTAATTGGATCAAAGA
766 TATTCAAATC
66 TATTCAAATC
776 AATCAATCAATCAATCAATCAATTTAATATCATTTTAGTACTAATTGATTCTAATTGGATCAAAA
1 AATCAATCAATCAATCAATCAATTTAATATCA-TTTAGTACTAATTGATTCTAATTGGATC-AAA
*
841 TATATTCAAATC
64 GATATTCAAATC
853 AATCAATCAAT
1 AATCAATCAAT
864 TTAATATATA
Statistics
Matches: 83, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
73 32 0.39
75 27 0.33
77 24 0.29
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (75 bp):
AATCAATCAATCAATCAATCAATTTAATATCATTTAGTACTAATTGATTCTAATTGGATCAAAGA
TATTCAAATC
Done.