Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011090.1 Corchorus olitorius cultivar O-4 contig11123, 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: 4127
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Found at i:2036 original size:750 final size:750
Alignment explanation
Indices: 597--2057 Score: 2814
Period size: 750 Copynumber: 1.9 Consensus size: 750
587 GTGAAACTGC
597 TGGTACACTAATCGTTACGGTTGCACTCGCACATACGCTTGGTGTTACGGCTGTGTTACATACTT
1 TGGTACACTAATCGTTACGGTTGCACTCGCACATACGCTTGGTGTTACGGCTGTGTTACATACTT
662 GGTAAACCACTGTTACGCTACTGCCTGGCTCGCTAGCCGTTGGGGTATAGCTCATTACGCCTGTT
66 GGTAAACCACTGTTACGCTACTGCCTGGCTCGCTAGCCGTTGGGGTATAGCTCATTACGCCTGTT
* * *
727 GAGGCATCAAAGCTTACTACTCCACTTGCTGTTCCGCCTGTCTGGCTTAGGCTTGTCGTCGCGCC
131 GAGGCATCAAAGCTTACTACACCACTCGCTGTTCCGCCTGTCTGACTTAGGCTTGTCGTCGCGCC
*
792 TGCTTTGAAGTCATCGTTACTCAATACATTTACGGTACTTGTCGTATTGAATGGTGCTGTCAACA
196 TGCTTTGAAGTCATCGTTACTCAATACATTTACGGTACTGGTCGTATTGAATGGTGCTGTCAACA
857 CATCTGCTAATGCTGTCGGTACTTTTGGATTTGGATCTGTACCATTTGGATTGCCATCGTTATCA
261 CATCTGCTAATGCTGTCGGTACTTTTGGATTTGGATCTGTACCATTTGGATTGCCATCGTTATCA
922 CAATCTAAGGCTTTCCATGACGCACTCGTATTTGACAATACTTGTTGACTTACATTGTAACTACA
326 CAATCTAAGGCTTTCCATGACGCACTCGTATTTGACAATACTTGTTGACTTACATTGTAACTACA
*
987 ACCATCGTTTGGATCGGTGTTGTCGCCTTTTGTCAATGGGTCGCCATCAATACCATTTATCTCAT
391 ACCATCGTTTGGATCGGTGTTGTCGCCTGTTGTCAATGGGTCGCCATCAATACCATTTATCTCAT
*
1052 CTTTATTCGTTACTCCATCGCCATCACAGTCGCCTGTGCTTGTTGCTACTAAAGTCACTTGACTT
456 CTTTATTCGTTACTCCATCGCCATCACAGTCGCCTGTGCTTGTCGCTACTAAAGTCACTTGACTT
1117 AAGTTCAAACTACAAGCACTCTTAGGGTCGGTGTTGTCGGCTGTCGTTGCTGGGTCGCCATCGGC
521 AAGTTCAAACTACAAGCACTCTTAGGGTCGGTGTTGTCGGCTGTCGTTGCTGGGTCGCCATCGGC
1182 GCCTGTTGCTTCGCCGTAGTTCGTTACGCCGTCGCCATCACAGTCTGCATTGCGCCATGTTGTGG
586 GCCTGTTGCTTCGCCGTAGTTCGTTACGCCGTCGCCATCACAGTCTGCATTGCGCCATGTTGTGG
1247 TGGTATTCGCCAATACTTGACCTGTACCCCATACACATGGGTCGTTTGGTGCTGGGTCGGTGTTG
651 TGGTATTCGCCAATACTTGACCTGTACCCCATACACATGGGTCGTTTGGTGCTGGGTCGGTGTTG
1312 TCTGGGTCTCCATCGCCATCACTATCCCCTGCTAA
716 TCTGGGTCTCCATCGCCATCACTATCCCCTGCTAA
1347 TGGTACACTAATCGTTACGGTTGCACTCGCACATACGCTTGGTGTTACGGCTGTGTTACATACTT
1 TGGTACACTAATCGTTACGGTTGCACTCGCACATACGCTTGGTGTTACGGCTGTGTTACATACTT
*
1412 GGTAAATCACTGTTACGCTACTGCCTGGCTCGCTAGCCGTTGGGGTATAGCTCATTACGCCTGTT
66 GGTAAACCACTGTTACGCTACTGCCTGGCTCGCTAGCCGTTGGGGTATAGCTCATTACGCCTGTT
1477 GAGGCATCAAAGCTTACTACACCACTCGCTGTTCCGCCTGTCTGACTTAGGCTTGTCGTCGCGCC
131 GAGGCATCAAAGCTTACTACACCACTCGCTGTTCCGCCTGTCTGACTTAGGCTTGTCGTCGCGCC
1542 TGCTTTGAAGTCATCGTTACTCAATACATTTACGGTACTGGTCGTATTGAATGGTGCTGTCAACA
196 TGCTTTGAAGTCATCGTTACTCAATACATTTACGGTACTGGTCGTATTGAATGGTGCTGTCAACA
* *
1607 CGTCTGCTAATGCTGTTGGTACTTTTGGATTTGGATCTGTACCATTTGGATTGCCATCGTTATCA
261 CATCTGCTAATGCTGTCGGTACTTTTGGATTTGGATCTGTACCATTTGGATTGCCATCGTTATCA
1672 CAATCTAAGGCTTTCCATGACGCACTCGTATTTGACAATACTTGTTGACTTACATTGTAACTACA
326 CAATCTAAGGCTTTCCATGACGCACTCGTATTTGACAATACTTGTTGACTTACATTGTAACTACA
*
1737 ACCATCGTTTGGATTGGTGTTGTCGCCTGTTGTCAATGGGTCGCCATCAATACCATTTATCTCAT
391 ACCATCGTTTGGATCGGTGTTGTCGCCTGTTGTCAATGGGTCGCCATCAATACCATTTATCTCAT
*
1802 CTTTATTCGTTACTCCATCGCCGTCACAGTCGCCTGTGCTTGTCGCTACTAAAGTCACTTGACTT
456 CTTTATTCGTTACTCCATCGCCATCACAGTCGCCTGTGCTTGTCGCTACTAAAGTCACTTGACTT
1867 AAGTTCAAACTACAAGCACTCTTAGGGTCGGTGTTGTCGGCTGTCGTTGCTGGGTCGCCATCGGC
521 AAGTTCAAACTACAAGCACTCTTAGGGTCGGTGTTGTCGGCTGTCGTTGCTGGGTCGCCATCGGC
1932 GCCTGTTGCTTCGCCGTAGTTCGTTACGCCGTCGCCATCACAGTCTGCATTGCGCCATGTTGTGG
586 GCCTGTTGCTTCGCCGTAGTTCGTTACGCCGTCGCCATCACAGTCTGCATTGCGCCATGTTGTGG
*
1997 TGGTATTGGCCAATACTTGACCTGTACCCCATACACATGGGTCGTTTGGTGCTGGGTCGGT
651 TGGTATTCGCCAATACTTGACCTGTACCCCATACACATGGGTCGTTTGGTGCTGGGTCGGT
2058 TACATCAAGT
Statistics
Matches: 699, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
750 699 1.00
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (750 bp):
TGGTACACTAATCGTTACGGTTGCACTCGCACATACGCTTGGTGTTACGGCTGTGTTACATACTT
GGTAAACCACTGTTACGCTACTGCCTGGCTCGCTAGCCGTTGGGGTATAGCTCATTACGCCTGTT
GAGGCATCAAAGCTTACTACACCACTCGCTGTTCCGCCTGTCTGACTTAGGCTTGTCGTCGCGCC
TGCTTTGAAGTCATCGTTACTCAATACATTTACGGTACTGGTCGTATTGAATGGTGCTGTCAACA
CATCTGCTAATGCTGTCGGTACTTTTGGATTTGGATCTGTACCATTTGGATTGCCATCGTTATCA
CAATCTAAGGCTTTCCATGACGCACTCGTATTTGACAATACTTGTTGACTTACATTGTAACTACA
ACCATCGTTTGGATCGGTGTTGTCGCCTGTTGTCAATGGGTCGCCATCAATACCATTTATCTCAT
CTTTATTCGTTACTCCATCGCCATCACAGTCGCCTGTGCTTGTCGCTACTAAAGTCACTTGACTT
AAGTTCAAACTACAAGCACTCTTAGGGTCGGTGTTGTCGGCTGTCGTTGCTGGGTCGCCATCGGC
GCCTGTTGCTTCGCCGTAGTTCGTTACGCCGTCGCCATCACAGTCTGCATTGCGCCATGTTGTGG
TGGTATTCGCCAATACTTGACCTGTACCCCATACACATGGGTCGTTTGGTGCTGGGTCGGTGTTG
TCTGGGTCTCCATCGCCATCACTATCCCCTGCTAA
Done.