Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010124.1 Corchorus olitorius cultivar O-4 contig10156, 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, 751

Length: 1253
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36


Found at i:852 original size:276 final size:274

Alignment explanation


    Indices: 341--846  Score: 741
    Period size: 273  Copynumber: 1.8  Consensus size: 274

        331 GTTTTGCTTG

                                                            *                
        341 ATTTTTGGCGCCCAAACCTCTTGAAACATATATAATCATCTAACCAAATCTCAGCCACGTTGGAC
          1 ATTTTTGGCGCCCAAACCTCTTGAAACATATATAATCATCTAACCAAAGCTCAGCCACGTTGGAC

                          *                                                 *
        406 TTAAGGATTATTTTTTTTTACGAGCATTTGAATCTTATTTCGATTTAATTAGAAATTAATTCAGG
         66 TTAAGG--TATTTTCTTTTACGAGCATTTGAATCTTATTTCGATTTAATTAGAAATTAATTCAGA

                   *    *           *                                        
        471 AAAAATGGAAAATCGATATTAGATGTTCGAAAAGCCCTTCAATCTTTTTGGAATTAAATTATATA
        129 AAAAATGAAAAAACGATATTAGATCTTCGAAAAGCCCTTCAATCTTTTTGGAATTAAATTATATA

                                                                             
        536 TATTTTTATGAGAATTGTGGTCAAAAATTGAGGAAAATTTTTTCGGTTGTTTTTTTCGCAAAATT
        194 TATTTTTATGAGAATTGTGGTCAAAAATTGAGGAAAATTTTTTCGGTTGTTTTTTTCGCAAAATT

                            
        601 TTAGTCGAAATCATGT
        259 TTAGTCGAAATCATGT

                    * *                        *                      *    * 
        617 ATTTTTGGTGGCCAAA-CTCCTTGAAACATATATATTCATCTAACCAAAGCTCAGCCATGTTGTA
          1 ATTTTTGGCGCCCAAACCT-CTTGAAACATATATAATCATCTAACCAAAGCTCAGCCACGTTGGA

            *                                  *   *                         
        681 TTTAAGG-ATTTTCTTTT-CGAGCATTTGAATCTTGTTTTGATTTAATTAGAAATTAATTCAGAA
         65 CTTAAGGTATTTTCTTTTACGAGCATTTGAATCTTATTTCGATTTAATTAGAAATTAATTCAGAA

                                 **           *                 **  *        
        744 GAAAATGAAAAAACGATATTATCTACTT-GAAAATCCCTTCAATCTTTTTGGCGTTGAATTATAT
        130 -AAAATGAAAAAACGATATTAGAT-CTTCGAAAAGCCCTTCAATCTTTTTGGAATTAAATTATAT

                                        *          
        808 ATATTTTTTATGAGAATTGTGGTCAAAATTTGAGGAAAA
        193 ATA-TTTTTATGAGAATTGTGGTCAAAAATTGAGGAAAA

        847 AATTTTCGAG


Statistics
Matches: 205,  Mismatches: 21, Indels: 10
        0.87            0.09        0.04

Matches are distributed among these distances:
 272   43  0.21
 273   63  0.31
 274   36  0.18
 275    2  0.01
 276   61  0.30

ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39


Consensus pattern (274 bp):   
ATTTTTGGCGCCCAAACCTCTTGAAACATATATAATCATCTAACCAAAGCTCAGCCACGTTGGAC
TTAAGGTATTTTCTTTTACGAGCATTTGAATCTTATTTCGATTTAATTAGAAATTAATTCAGAAA
AAATGAAAAAACGATATTAGATCTTCGAAAAGCCCTTCAATCTTTTTGGAATTAAATTATATATA
TTTTTATGAGAATTGTGGTCAAAAATTGAGGAAAATTTTTTCGGTTGTTTTTTTCGCAAAATTTT
AGTCGAAATCATGT
Done.