Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011798.1 Corchorus olitorius cultivar O-4 contig11831, 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, 638

Length: 1064
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32


Found at i:636 original size:261 final size:250

Alignment explanation


    Indices: 145--649  Score: 557
    Period size: 261  Copynumber: 2.0  Consensus size: 250

        135 CCTTAAATCC

                                       *                       * *        *  
        145 AATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGGCAAAAACCGTG
          1 AATGTGGCTGAGATTTGGTTAGATGAAAATAGATATTTCAAGGAGTCTTTACGCCAAAAACCATG

                       *                        *                            
        210 CAAAACTGAGTCGAGGCCCCAAAATGCGTTTTTAGCCAAAAACGATGATGGTTAGTACATGATCT
         66 CAAAACTGAGTAGAGGCCCCAAAATGCGTTTTTAGCAAAAAACGATGATGGTTAGTACATGATCT

                            *     *    **  *                     *         * 
        275 CGGCTAAAAACTGACCTGAAAATTTTTTTCTCAATTTTTCACCACAATACTCATAAAAAATATGT
        131 CGGCTAAAAACTGACCCGAAAAGTTTTCCCTAAATTTTTCACCACAATACTCAGAAAAAATATAT

                   *                               * *             
        340 AATTCAACGACAAAAAGATTGCAAAGTTATTCACGCTTCTATTATCGTTAAATTA
        196 AATTCAAAGACAAAAAGATTGCAAAGTTATTCACGCTTCGAATATCGTTAAATTA

                                *         **      *                     *    
        395 AATGTGGCTGAGATTTGGTTCGATGAAAATTTATATTTTAAGGAGTCTTTACGCCAAAAATCATG
          1 AATGTGGCTGAGATTTGGTTAGATGAAAATAGATATTTCAAGGAGTCTTTACGCCAAAAACCATG

                          *      ***                               *   *     
        460 CAAACACTGAGTAGGGGCCCCGGTATGCGTTTTTAGCAAAAAACCG-TGATGGTTTGTATATGAT
         66 CAAA-ACTGAGTAGAGGCCCCAAAATGCGTTTTTAGCAAAAAA-CGATGATGGTTAGTACATGAT

            *                                                  **   *        
        524 TTCGGCTAAAATTATGCAAAAACTGACCCGAAAAGTTTTCCCTAAATTTTTTGCCATAATACTCA
        129 CTCGGC--------T--AAAAACTGACCCGAAAAGTTTTCCCTAAATTTTTCACCACAATACTCA

                                 *                *   *                    
        589 GAAAAAATATATAATTCAAAGTCAGAAAA-ATTG-AAGGGTTTTTCACGCTTCGAATATCGTT
        184 GAAAAAATATATAATTCAAAGACA-AAAAGATTGCAA-AGTTATTCACGCTTCGAATATCGTT

        650 TTTCATATTT


Statistics
Matches: 207,  Mismatches: 34, Indels: 17
        0.80            0.13        0.07

Matches are distributed among these distances:
 250   60  0.29
 251   53  0.26
 252    2  0.01
 259    1  0.00
 260    2  0.01
 261   85  0.41
 262    4  0.02

ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31


Consensus pattern (250 bp):   
AATGTGGCTGAGATTTGGTTAGATGAAAATAGATATTTCAAGGAGTCTTTACGCCAAAAACCATG
CAAAACTGAGTAGAGGCCCCAAAATGCGTTTTTAGCAAAAAACGATGATGGTTAGTACATGATCT
CGGCTAAAAACTGACCCGAAAAGTTTTCCCTAAATTTTTCACCACAATACTCAGAAAAAATATAT
AATTCAAAGACAAAAAGATTGCAAAGTTATTCACGCTTCGAATATCGTTAAATTA
Done.