Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010576.1 Corchorus olitorius cultivar O-4 contig10608, 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, 624

Length: 1040
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37


Found at i:637 original size:331 final size:330

Alignment explanation


    Indices: 1--1037  Score: 1388
    Period size: 331  Copynumber: 3.1  Consensus size: 330

                           *                                                 
          1 GTTGAATTATATATTCTCTATGAGTATTGTGGCTAAAAATTTAGTAAAAATCTTTC-AGTGAAAT
          1 GTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAAATTTAGTAAAAATCTTTCGAG-GAAAT

                                              *                              
         65 TTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTTGGCTAAAAACGCGTTCC
         65 TTTTCCAAAATTTTAGCCGAAATCGTGTACTAACTATCACAG-TTTTTGGCTAAAAACGCGTTCC

                            *                     *           *              
        130 GGGGCACCGGCTCAGTCTTGCATGATTTTTTGCCCCAAAACTCAATGAAAAATCTATATTCATCT
        129 GGGGCACCGGCTCAGTTTTGCATGATTTTTTGCCCCAAGACTCAATGAAATATCTATATTCATCT

              *         *                     *   *           *              
        195 AAACAAATCTCAACCACATTGTATTTAGGGATTTCTTTCTACGAGCATCTAAATTATATTTCGAT
        194 AACCAAATCTCAGCCACATTGTATTTAGGGATTTGTTTTTACGAGCATCTGAATTATATTTCGAT

                  *           *  *     *       *                             
        260 TTAATCCGAAATTAATTCAGAGAAAATAGGAAAAACGA-ATTTAGAAGCGTGTAAAGC-CTTTCA
        259 TTAATCAGAAATT-ATTCTGATAAAATTGGAAAAATGATA-TTAGAAGCGTG-AAAGCTC-TTCA

                       
        323 TTCTTTTTGGC
        320 TTCTTTTTGGC

                                              *                              
        334 GTTGAATTATATATTTTCTATGAGTATTGTGGCTTAAAATTTAGTAAAAATCTTTCGAGGAAATT
          1 GTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAAATTTAGTAAAAATCTTTCGAGGAAATT

                            *                *     *                         
        399 CTTT-CAAAATTTTAGTCGAAATCGTGTACTAATTATCATAG-TTTTGGCTAAAAACGCGTTCCG
         66 -TTTCCAAAATTTTAGCCGAAATCGTGTACTAACTATCACAGTTTTTGGCTAAAAACGCGTTCCG

             *          *                 *  *           *           *       
        462 GAGC-CTCGGCTTAGTTTTGCATGATTTTTGGCGCCAAGACTCAAAGAAATATCTATTTTCATCT
        130 GGGCAC-CGGCTCAGTTTTGCATGATTTTTTGCCCCAAGACTCAATGAAATATCTATATTCATCT

                    *                                *               *       
        526 AACCAAATTTCAGCCACATTGTATTTAGGGATTTGTTTTTAAGAGCATCTGAATTATGTTTCGAT
        194 AACCAAATCTCAGCCACATTGTATTTAGGGATTTGTTTTTACGAGCATCTGAATTATATTTCGAT

                      *           *                        * *               
        591 TTAATCAGAAGTTATTCTGATACAATTGGAAAAAATGATATTAGAAGTGAGAAAAGCTCTTCATT
        259 TTAATCAGAAATTATTCTGATAAAATTGG-AAAAATGATATTAGAAGCGTG-AAAGCTCTTCATT

                     
        656 CTTTTTGGC
        322 CTTTTTGGC

            *                         *                 *                *   
        665 ATTGAATTATATATTTTCTATGAGTACTGTGGCTAAAAATTTAGAAAAAATCTTTCG-GGTTAAT
          1 GTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAAATTTAGTAAAAATCTTTCGAGG-AAAT

                **                      *                                    
        729 TTTTGGAAAATTTTAGCCGAAATCGTGTGCTAACTATCACAGTTTTTGGCTAAAAACGCGTTCCG
         65 TTTTCCAAAATTTTAGCCGAAATCGTGTACTAACTATCACAGTTTTTGGCTAAAAACGCGTTCCG

                      *      * *          *                               *  
        794 GGGCACCGGCACAGTTTGGAATGATTTTTTTCCCCAAGACTCAATGAAATATCTATATTCATTTA
        130 GGGCACCGGCTCAGTTTTGCATGATTTTTTGCCCCAAGACTCAATGAAATATCTATATTCATCTA

                              * *     * *                  *        *        
        859 ACCAAATCTCAGCCACATCGGATTTAAGAATTTGTTTTTACGAGCATTTGAATTATTTTTCGATT
        195 ACCAAATCTCAGCCACATTGTATTTAGGGATTTGTTTTTACGAGCATCTGAATTATATTTCGATT

                                *             *                       *      
        924 TAAAT-AGAAATTATTTCTGGTAAAATTGGAAAAGTGATATTAGAAGCGTGAGAAGCTGTTCATT
        260 T-AATCAGAAATTA-TTCTGATAAAATTGGAAAAATGATATTAGAAGCGTGA-AAGCTCTTCATT

                     
        988 CTTTTTGGC
        322 CTTTTTGGC

            *                * *                     
        997 TTTGAATTATATATTTTTTGTGAGTATTGTGGCTAAAAATT
          1 GTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAAATT

       1038 ATA


Statistics
Matches: 618,  Mismatches: 73, Indels: 27
        0.86            0.10        0.04

Matches are distributed among these distances:
 330   18  0.03
 331  269  0.44
 332  216  0.35
 333  110  0.18
 334    5  0.01

ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37


Consensus pattern (330 bp):   
GTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAAATTTAGTAAAAATCTTTCGAGGAAATT
TTTCCAAAATTTTAGCCGAAATCGTGTACTAACTATCACAGTTTTTGGCTAAAAACGCGTTCCGG
GGCACCGGCTCAGTTTTGCATGATTTTTTGCCCCAAGACTCAATGAAATATCTATATTCATCTAA
CCAAATCTCAGCCACATTGTATTTAGGGATTTGTTTTTACGAGCATCTGAATTATATTTCGATTT
AATCAGAAATTATTCTGATAAAATTGGAAAAATGATATTAGAAGCGTGAAAGCTCTTCATTCTTT
TTGGC

Done.