Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021349.1 Corchorus olitorius cultivar O-4 contig21382, 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: 13105
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31


Found at i:2746 original size:164 final size:162

Alignment explanation


    Indices: 2440--2748  Score: 415
    Period size: 164  Copynumber: 1.9  Consensus size: 162

       2430 ACGCCACTAA

                                      *                                      
       2440 ATATATTATAGGCGTAGAGTTGGAAATTTTCTTTGTTTTAGGAGGAGGGAATTTTTCCCTCCAAA
          1 ATATATTATAGGCGTAGAGTTGGAAACTTTCTTTGTTTTAGGAGGAGGGAATTTTTCCCTCCAAA

                            *                                      ***       
       2505 AAAAGGGAAAAAAAGTTTCTCCCTCCATATATTAAAATAAAGGCGTCTCCTTTTCTGGACACCAC
         66 AAAAGGGAAAAAAAGTCTCTCCCTCCATATATTAAAATAAAGGCGTCTCCTTTTCAAAACACCAC

               *                            
       2570 TAATTAGCGGCGTCTAATGTCCAAACGCCGCT
        131 TAAATAGCGGCGTCTAATGTCCAAACGCCGCT

                        *         *                    *                     
       2602 ATATATTATAGGTGTAGAGTTGTAAACTTTCTTTGTTTTAGTGGGGAGGGAATTTTTCCCTCCAA
          1 ATATATTATAGGCGTAGAGTTGGAAACTTTCTTTGTTTTAG-GAGGAGGGAATTTTTCCCTCC-A

                                     *  *         *  * *        *           *
       2667 AAAAAAGGAGAAAAAAA-TCTCTCCTTCTATATATTAATATGACGGCGTCT-TTCTTTCAAAACT
         64 AAAAAAGG-GAAAAAAAGTCTCTCCCTCCATATATTAAAATAAAGGCGTCTCCT-TTTCAAAACA

                     *         
       2730 CCACTAAATGGCGGCGTCT
        127 CCACTAAATAGCGGCGTCT

       2749 TCTTTTCAGA


Statistics
Matches: 126,  Mismatches: 17, Indels: 6
        0.85            0.11        0.04

Matches are distributed among these distances:
 162   38  0.30
 163   21  0.17
 164   59  0.47
 165    8  0.06

ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33


Consensus pattern (162 bp):   
ATATATTATAGGCGTAGAGTTGGAAACTTTCTTTGTTTTAGGAGGAGGGAATTTTTCCCTCCAAA
AAAAGGGAAAAAAAGTCTCTCCCTCCATATATTAAAATAAAGGCGTCTCCTTTTCAAAACACCAC
TAAATAGCGGCGTCTAATGTCCAAACGCCGCT
Done.