Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011766.1 Corchorus olitorius cultivar O-4 contig11799, 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, 915

Length: 1526
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34


Found at i:1361 original size:154 final size:154

Alignment explanation


    Indices: 906--1524  Score: 888
    Period size: 154  Copynumber: 4.0  Consensus size: 154

        896 TAGCGCATCA

                                        *                      *     *      *
        906 TGAGATTAGTCCACTGTGAAGTTTTTAGGTCATTTGGAACACTTGTTATTTCGAGCCAATCGGGC
          1 TGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGAGCCTATCGGGG

                        *                                    *          *    
        971 CCCATTAGTGACATTTTGAATC-TACTTCGATTT-GCAACCCTCAATGCCTTTCTTTCCACTGTT
         66 CCCATTAGTGACGTTTTGAATCGT-CTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTT

            *                        
       1034 AATGGCCTAACTATAATCATTTTGG
        130 TATGGCCTAACTATAATCATTTTGG

                                                   *                      *  
       1059 TGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAATACTTGTTATTTTGAGCCTATC-AGG
          1 TGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGAGCCTATCGGGG

                   * **                        *                         **  
       1123 CCCATTATTTCCGTTTTGAATCGTCTTCGATTTGGTAACCCTCAATGCTTTTCTTTCCATTACTT
         66 CCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTT

                                   *
       1188 ATGGCCTAACTATAATCATTTTGT
        131 ATGGCCTAACTATAATCATTTTGG

                                                       *                     
       1212 TGAGATTAGTCCAAC-GTGAAGTTTTTAGCTCATTTGGAACACATGTTATTTTGAGCCTATCGGG
          1 TGAGATTAGTCC-ACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGAGCCTATCGGG

                      **                                              *      
       1276 GCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCTATTGTT
         65 GCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTT

                *                    
       1341 TATGACCTAACTATAATCATTTTGG
        130 TATGGCCTAACTATAATCATTTTGG

                            *        *   *                                ** 
       1366 TGAGATTAGTCCACTGCGAAGTTTTGAGCACATTTGGAACACTTGTTATTTTGAGCCTATCGTCG
          1 TGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGAGCCTATCGGGG

                                  *      *     *      *                      
       1431 CCCATTAGTGACGTTTTGAATCATCTTCGCTTTGGTAACCCTTAATGAC-TTTCTTTCCATTGTT
         66 CCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATG-CTTTTCTTTCCATTGTT

                                     
       1495 TATGGCCTAACTATAATCATTTTGG
        130 TATGGCCTAACTATAATCATTTTGG

            *    
       1520 GGAGA
          1 TGAGA

       1525 CT


Statistics
Matches: 418,  Mismatches: 42, Indels: 11
        0.89            0.09        0.02

Matches are distributed among these distances:
 152   28  0.07
 153  164  0.39
 154  225  0.54
 155    1  0.00

ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40


Consensus pattern (154 bp):   
TGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGAGCCTATCGGGG
CCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTTCTTTCCATTGTTT
ATGGCCTAACTATAATCATTTTGG
Done.