Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01006630.1 Corchorus capsularis cultivar CVL-1 contig06651, 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, 600
Length: 1000
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Found at i:921 original size:427 final size:429
Alignment explanation
Indices: 1--1000 Score: 1799
Period size: 427 Copynumber: 2.3 Consensus size: 429
*
1 TGAGCACTCATTGCGCGAATAAACGCATCCAGAAATAGTTTTGCTAAGAACTATGTTTAGCACTA
1 TGAGCACTCGTTGCGCGAATAAACGCATCCAGAAATAGTTTTGCTAAGAACTATGTTTAGCAC-A
66 AAAACGGGCAAAGTTGAGGCTTTGGACTTCGTGAAAG-TTTGTTTGTGCACAGGGCTGTCCAACA
65 AAAACGGGCAAAGTTGAGGCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACA
*
130 ATCTCATCGCAATTCGACGCACGACATTTGAGTACTCGTTGCGCAAAAAATGCATCTGGAATGAG
130 ATCTCATCGCAATTCGACGCACGACATTTGAGAACTCGTTGCGCAAAAAATGCATCTGGAATGAG
195 CCTTTCACTAAAAATGATGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGGCGTTCTAGGAA
195 CCTTTCACTAAAAATGATGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGGCGTTCTAGGAA
260 AGCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTAATCTCTACTCCGACAAACCGCTGAGAACAA
260 AGCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTAATCTCTACTCCGACAAACCGCTGAGAACAA
* *
325 TGTGATGCATACAAACTCGCAAAGTTGATGCTTTGGACTTCGAGTAGACCTTTGTTTGTGCATAG
325 TGTGATGCATACAAACTCGAAAAGTTGATGCTTTGGACTTCGAGGAGACCTTTGTTTGTGCATAG
* *
390 CGCTGTCTAACAAGCTCATCTCATTCCGACACATGACTTT
390 CGCTGTCTAACAAGCTCATCTCACTCCGACACACGACTTT
* * *
430 TGAGCACTCGTTTCGCGAAAAAACGCATCCAGAAAGAGTTTTGCTAAGAACTATGTTTAGCACAA
1 TGAGCACTCGTTGCGCGAATAAACGCATCCAGAAATAGTTTTGCTAAGAACTATGTTTAGCACAA
*
495 AAACGGGCAAAGTTGAGGCTTTGGACTTCGTGAAAGCTTTGTTAGTGCACAGGGCTGTCCAACAA
66 AAACGGGCAAAGTTGAGGCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAA
560 TCTCATCGCAATTCGACGCACGACATTTGAGAACTCGTTGCGCAAAAAATGCATCTGGAATGAGC
131 TCTCATCGCAATTCGACGCACGACATTTGAGAACTCGTTGCGCAAAAAATGCATCTGGAATGAGC
625 CTTTCACTAAAAATGATGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGGCG-TCTAGGAAA
196 CTTTCACTAAAAATGATGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGGCGTTCTAGGAAA
**
689 GCTTTCTTTCTTTACAGGGCTGTCCAAAAAGTTAATCTCT-CTCCGACAAACCGCTGAGAACAAT
261 GCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTAATCTCTACTCCGACAAACCGCTGAGAACAAT
* * *
753 GTGTTGCATTCAAACTCGAAAAGTTGATGCTTTGGACTTCGAGGAGAGCTTTGTTTGTGCATAGC
326 GTGATGCATACAAACTCGAAAAGTTGATGCTTTGGACTTCGAGGAGACCTTTGTTTGTGCATAGC
*
818 GCTGTCTAAGAAGCTCATCTCACTCCGACACACGACTTT
391 GCTGTCTAACAAGCTCATCTCACTCCGACACACGACTTT
*
857 TGAGCACTCGTTGCGCGAATAAACGCATCCAGAAATAGTTTTGCTAAGTACTATGTTTAGCACAA
1 TGAGCACTCGTTGCGCGAATAAACGCATCCAGAAATAGTTTTGCTAAGAACTATGTTTAGCACAA
* *
922 AAACGGGTAAAGTTGAGGCTATGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAA
66 AAACGGGCAAAGTTGAGGCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAA
987 TCTCATCGCAATTC
131 TCTCATCGCAATTC
Statistics
Matches: 547, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
427 257 0.47
428 85 0.16
429 205 0.37
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (429 bp):
TGAGCACTCGTTGCGCGAATAAACGCATCCAGAAATAGTTTTGCTAAGAACTATGTTTAGCACAA
AAACGGGCAAAGTTGAGGCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAA
TCTCATCGCAATTCGACGCACGACATTTGAGAACTCGTTGCGCAAAAAATGCATCTGGAATGAGC
CTTTCACTAAAAATGATGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGGCGTTCTAGGAAA
GCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTAATCTCTACTCCGACAAACCGCTGAGAACAAT
GTGATGCATACAAACTCGAAAAGTTGATGCTTTGGACTTCGAGGAGACCTTTGTTTGTGCATAGC
GCTGTCTAACAAGCTCATCTCACTCCGACACACGACTTT
Done.