Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01023661.1 Corchorus olitorius cultivar O-4 contig23694, 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: 13413
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:12055 original size:14 final size:15
Alignment explanation
Indices: 12025--12066 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
12015 ATAACTCATT
12025 ATTTAATAAA-TATAA
1 ATTTAA-AAATTATAA
12040 ATTTAAAAATTA-AA
1 ATTTAAAAATTATAA
*
12054 ATTTAATAATTAT
1 ATTTAAAAATTAT
12067 GATTAAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTAAAAATTATAA
Found at i:12592 original size:122 final size:122
Alignment explanation
Indices: 12430--12691 Score: 481
Period size: 122 Copynumber: 2.1 Consensus size: 122
12420 TTAGTAATTT
12430 TAGTAGCTTTTTATCAATAATTATATTTGTCAATGCTCTTCTTTAAGGTTGCTAAAAAAGTTATA
1 TAGTAGCTTTTTATCAATAATTATATTTGTCAATGCTCTTCTTTAAGGTTGCTAAAAAAGTTATA
12495 AAGGTGATAAAAATGTTATATTATTATAAGGTAATTTAGGAACCTAACATATCAATG
66 AAGGTGATAAAAATGTTATATTATTATAAGGTAATTTAGGAACCTAACATATCAATG
*
12552 TAGTAGCTTTTTATCAATAATTATATTTG-CTAATGTTCTTCTTTAAGGTTGCTAAAAAAGTTAT
1 TAGTAGCTTTTTATCAATAATTATATTTGTC-AATGCTCTTCTTTAAGGTTGCTAAAAAAGTTAT
12616 AAAGGTGATAAAAATGTTATATTATTATAAGGTAATTTAGGAACCTAACATATCAATG
65 AAAGGTGATAAAAATGTTATATTATTATAAGGTAATTTAGGAACCTAACATATCAATG
* *
12674 TAGTAGCATTTCATCAAT
1 TAGTAGCTTTTTATCAAT
12692 TTAATGAGAA
Statistics
Matches: 136, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
121 1 0.01
122 135 0.99
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (122 bp):
TAGTAGCTTTTTATCAATAATTATATTTGTCAATGCTCTTCTTTAAGGTTGCTAAAAAAGTTATA
AAGGTGATAAAAATGTTATATTATTATAAGGTAATTTAGGAACCTAACATATCAATG
Done.