Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015417.1 Corchorus olitorius cultivar O-4 contig15450, 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, 823

Length: 1373
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37


Found at i:610 original size:333 final size:334

Alignment explanation


    Indices: 1--1367  Score: 1996
    Period size: 333  Copynumber: 4.1  Consensus size: 334

                     *   *        *               *                          
          1 TCCTCCAATCTTTCTGGCGTTACATTGTATATATTTTAAGAGTATTTTATCCAAAAATTGAGGAA
          1 TCCTCCAATATTTTTGGCGTTAAATTGTATATATTTTATGAGTATTTTATCCAAAAATTGAGGAA

               *                                    *                      * 
         66 AAAATTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAACCGTGTACTAACCATCACGGTTTAT
         66 AAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTT

            * *         *  *       *             *         *  *   *          
        131 CGTTAAAAACGCATTTCGGGGTCTCGGCTCAGTTTTGTATGATTTTTGGCATCAGGA-TCCATTG
        131 GGCTAAAAACGCGTTACGGGGTCCCGGCTCAGTTTTGCATGATTTTTAGCGTCAAGACTCCATTG

                                    *             **  *                      
        195 AAATATCTATATTCAT-ATAATAAGAACTTAGCCACATCACAATTAAGGATTTGTTTTTACGAGC
        196 AAATATCTATATTCATCA-AATAAAAACTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGC

                                  *                *                         
        259 ATTTGAATCTTGTTTCGATTTCGTTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAA
        260 ATTTGAATCTTGTTTCGATTTCATTAGAAATTAATTCAGGAAAAATATGAAAAACGATATTAAAA

                      
        324 GCGTGAAAAG
        325 GCGTGAAAAG

                            * *       *   *   * *          *                 
        334 TCCTCCAATATTTTTGCCATTAAATTTTATGTATATCATGAGTATTTCATCCAAAAATTGAGGAA
          1 TCCTCCAATATTTTTGGCGTTAAATTGTATATATTTTATGAGTATTTTATCCAAAAATTGAGGAA

                      *  *         *                           *             
        399 AAATTTTTCGTGGCCATTTTTTGGAAAATTTTAGCCAAAATCGTGTACTAATCATCACGGTTTTT
         66 AAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTT

                            *            *                        *  *     * 
        464 GGCTAAAAACGCGTTAAGGGGTCCCGGCTTAGTTTTGCATGATTTTTAGCGTCAGGATTCC-TGG
        131 GGCTAAAAACGCGTTACGGGGTCCCGGCTCAGTTTTGCATGATTTTTAGCGTCAAGACTCCATTG

              *                  *         *      *                          
        528 AACTATCTATATTCATCAAATTAAAACTTAGTCACATTTCATTTAAGGATTTGTTTTTACGAGCA
        196 AAATATCTATATTCATCAAATAAAAACTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCA

                      *                                                      
        593 TTTGAATCTTATTTCGATTTCATTAGAAATTAATTCAGGAAAAATATGAAAAACGATATTAAAAG
        261 TTTGAATCTTGTTTCGATTTCATTAGAAATTAATTCAGGAAAAATATGAAAAACGATATTAAAAG

                    *
        658 CGTGAAAAT
        326 CGTGAAAAG

                     *            *               *                          
        667 TCCTCCAATCTTTTTGGCGTTACATTGTATATATTTTAAGAGTATTTTATCCAAAAATTGAGGAA
          1 TCCTCCAATATTTTTGGCGTTAAATTGTATATATTTTATGAGTATTTTATCCAAAAATTGAGGAA

                                                               *             
        732 AAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAATCATCACGGTTTTT
         66 AAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTT

                                                     *        *     *        
        797 GGCTAAAAACGCGTTACGGGGTCCCGGCTCAGTTTTGCATTAATTTTTA-TGTCAACACTCC-TT
        131 GGCTAAAAACGCGTTACGGGGTCCCGGCTCAGTTTTGCA-TGATTTTTAGCGTCAAGACTCCATT

                              *                            *                 
        860 GAAATATCTATATTCATCTAATAAAAACTTAGCCACATTGCATTTAATGATTTGTTTTTACGAGC
        195 GAAATATCTATATTCATCAAATAAAAACTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGC

                            *                                                
        925 ATTTGAATCTTGTTTCAATTTCATTAGAAATTAATTCAGGAAAAATATGAAAAACGATATTAAAA
        260 ATTTGAATCTTGTTTCGATTTCATTAGAAATTAATTCAGGAAAAATATGAAAAACGATATTAAAA

             **       
        990 GTATGAAAAG
        325 GCGTGAAAAG

                    **       *                     *           *     *       
       1000 TCCTCCAACCTTTTTGGTGTTAAATTGTATATATTTTATTAGTATTTTATCAAAAAAATGAGGAA
          1 TCCTCCAATATTTTTGGCGTTAAATTGTATATATTTTATGAGTATTTTATCCAAAAATTGAGGAA

                                                                             
       1065 AAATTTTTCGAC-GTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTT
         66 AAATTTTTCG-CGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTT

                            *          *                    *                
       1129 TGGCTAAAAACGCGTTTCGGGGTCCCGCCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCCA-T
        130 TGGCTAAAAACGCGTTACGGGGTCCCGGCTCAGTTTTGCATGATTTTTAGCGTCAAGACTCCATT

                  *           *                            *                 
       1193 GAAATAACTATATTCATCTAATAAAAACTTAGCCACATTGCATTTAATGATTTGTTTTTACGAGC
        195 GAAATATCTATATTCATCAAATAAAAACTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGC

                                          *                        *         
       1258 ATTTGAATCTTGTTTCGATTTCATTA-AAACTAATTCAGGAAAAATATGAAAAACAAT-TTCAAA
        260 ATTTGAATCTTGTTTCGATTTCATTAGAAATTAATTCAGGAAAAATATGAAAAACGATATT-AAA

                      *
       1321 AGCGTGAAAAA
        324 AGCGTGAAAAG

                                                
       1332 TCCTCCAATATTTTTGGCGTTAAATTGTATATATTT
          1 TCCTCCAATATTTTTGGCGTTAAATTGTATATATTT

       1368 CATTAG


Statistics
Matches: 931,  Mismatches: 96, Indels: 15
        0.89            0.09        0.01

Matches are distributed among these distances:
 331    2  0.00
 332   80  0.09
 333  836  0.90
 334   13  0.01

ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37


Consensus pattern (334 bp):   
TCCTCCAATATTTTTGGCGTTAAATTGTATATATTTTATGAGTATTTTATCCAAAAATTGAGGAA
AAATTTTTCGCGGTCATTTTTTGCAAAATTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTT
GGCTAAAAACGCGTTACGGGGTCCCGGCTCAGTTTTGCATGATTTTTAGCGTCAAGACTCCATTG
AAATATCTATATTCATCAAATAAAAACTTAGCCACATTGCATTTAAGGATTTGTTTTTACGAGCA
TTTGAATCTTGTTTCGATTTCATTAGAAATTAATTCAGGAAAAATATGAAAAACGATATTAAAAG
CGTGAAAAG

Done.