Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012195.1 Corchorus olitorius cultivar O-4 contig12228, 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: 2513
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27


Found at i:579 original size:240 final size:241

Alignment explanation


    Indices: 134--615  Score: 896
    Period size: 240  Copynumber: 2.0  Consensus size: 241

        124 GAAAGGAAGC

                *                            *                               
        134 AACAGTTGAGTTGGTGAGAGGAAAAAAGAAGGGTGGGGGGCATTAATCAAAAGCAATTAAGGAAA
          1 AACAATTGAGTTGGTGAGAGGAAAAAAGAAGGGGGGGGGGCATTAATCAAAAGCAATTAAGGAAA

             *                                                               
        199 GGAAATGAGTAATTACAAAAAAGGGTAGCAGGAAAAGGAATAGCAGAAACTCATAGAGGGGCTTT
         66 GAAAATGAGTAATTACAAAAAAGGGTAGCAGGAAAAGGAATAGCAGAAACTCATAGAGGGGCTTT

                                                                             
        264 TTAGTCATCCGAAAAGTGAGAAAAGACCAAAAAAAGCCAAAAGGTGGCACCACATTAATCTTCAA
        131 TTAGTCATCCGAAAAGTGAGAAAAGACCAAAAAAAGCCAAAAGGTGGCACCACATTAATCTTCAA

                                                          
        329 TTTGGCCTTTTAGTAATTTCCCTGGTAACTAAAAATAATATATAGT
        196 TTTGGCCTTTTAGTAATTTCCCTGGTAACTAAAAATAATATATAGT

                                                                             
        375 AACAATTGAGTTGGTGAGAGG-AAAAAG-AGGGGGGGGGGACATTAATCAAAAGCAATTAAGGAA
          1 AACAATTGAGTTGGTGAGAGGAAAAAAGAAGGGGGGGGGG-CATTAATCAAAAGCAATTAAGGAA

             *                                          *                    
        438 ATAAAATGAGTAATTACAAAAAAGGGTAGCAGGAAAAGGAATAGGAGAAACTCATAGAGGGGCTT
         65 AGAAAATGAGTAATTACAAAAAAGGGTAGCAGGAAAAGGAATAGCAGAAACTCATAGAGGGGCTT

                                                                             
        503 TTTAGTCATCCGAAAAGTGAGAAAAGACCAAAAAAAGCCAAAAGGTGGCACCACATTAATCTTCA
        130 TTTAGTCATCCGAAAAGTGAGAAAAGACCAAAAAAAGCCAAAAGGTGGCACCACATTAATCTTCA

                                                           
        568 ATTTGGCCTTTTAGTAATTTCCCTGGTAACTAAAAATAATATATAGT
        195 ATTTGGCCTTTTAGTAATTTCCCTGGTAACTAAAAATAATATATAGT

             
        615 A
          1 A

        616 TATATGTGCT


Statistics
Matches: 235,  Mismatches: 5, Indels: 3
        0.97            0.02        0.01

Matches are distributed among these distances:
 239   10  0.04
 240  205  0.87
 241   20  0.09

ACGTcount: A:0.43, C:0.12, G:0.24, T:0.22


Consensus pattern (241 bp):   
AACAATTGAGTTGGTGAGAGGAAAAAAGAAGGGGGGGGGGCATTAATCAAAAGCAATTAAGGAAA
GAAAATGAGTAATTACAAAAAAGGGTAGCAGGAAAAGGAATAGCAGAAACTCATAGAGGGGCTTT
TTAGTCATCCGAAAAGTGAGAAAAGACCAAAAAAAGCCAAAAGGTGGCACCACATTAATCTTCAA
TTTGGCCTTTTAGTAATTTCCCTGGTAACTAAAAATAATATATAGT
Done.