Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007479.1 Corchorus capsularis cultivar CVL-1 contig07500, 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: 5142
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31


Found at i:1855 original size:17 final size:17

Alignment explanation


    Indices: 1833--1882  Score: 73
    Period size: 17  Copynumber: 2.9  Consensus size: 17

       1823 CATTGTCCTT

                   *         
       1833 GTGGTACCAGGTAGCAC
          1 GTGGTACTAGGTAGCAC

                            *
       1850 GTGGTACTAGGTAGCAT
          1 GTGGTACTAGGTAGCAC

             *              
       1867 GAGGTACTAGGTAGCA
          1 GTGGTACTAGGTAGCA

       1883 TCTGCAGTAT


Statistics
Matches: 30,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  17   30  1.00

ACGTcount: A:0.26, C:0.16, G:0.36, T:0.22


Consensus pattern (17 bp):   
GTGGTACTAGGTAGCAC

Found at i:2461 original size:156 final size:155

Alignment explanation


    Indices: 2195--2587  Score: 417
    Period size: 156  Copynumber: 2.5  Consensus size: 155

       2185 TGGTTCAAGC

                               *           *    *                            
       2195 CTCCCT-TCATAGTGAACTAGGTTTCACACCTCAAATTGTCCTTAAATGAAAAACTAGCATAAGT
          1 CTCCCTATCATAGTGAACTTGGTTTCACACCCCAAACTGTCCTTAAATGAAAAACTAGCATAAGT

                  *           *              **   *           *              
       2259 TTTTCACCTTAAGTCTGATTGAGCTGAAACTTTGTCAAGGGACTTAGATTCTCTCCAT-AAGACT
         66 TTTTCATCTTAAGTCTGAATGAGCTG-AACTTTACCAAAGGACTTAGATTATCTCCATAAAG-CT

                                        
       2323 AT-GGAAAAAATCCCAAGTAAAAC-CAA
        129 ATGGGAAAAAAT-CCAAGTAAAACTCAA

                      *  *    *   *     * *   *                              
       2349 TCTCCCCT-TGATGGTGATCTTTGTTTCTCTCCCTAAACTGTCCTTAAATGAAAAACTAGCATAA
          1 -CT-CCCTATCATAGTGAACTTGGTTTCACACCCCAAACTGTCCTTAAATGAAAAACTAGCATAA

                                            *                                
       2413 GTTTTTCAT-TCTAAGTCT-AATGAAGCTG-ATTTTCCACCAATAGG-CTTAGATTATCTCCATA
         64 GTTTTTCATCT-TAAGTCTGAATG-AGCTGAACTTT--ACCAA-AGGACTTAGATTATCTCCATA

                      *       *          *  
       2474 AAGCTATGGGGAAAAATCTAAGTAAAACTGAA
        124 AAGCTATGGGAAAAAATCCAAGTAAAACTCAA

                             *                       *    *         *        
       2506 CTCCCTATCATAGTGAAGTTGGTTTCACACCCCAAACTGTCGTTAACTGAAAAACTTGCATAAGT
          1 CTCCCTATCATAGTGAACTTGGTTTCACACCCCAAACTGTCCTTAAATGAAAAACTAGCATAAGT

                             
       2571 TTTTCATCTTAAGTCTG
         66 TTTTCATCTTAAGTCTG

       2588 TTTGAGATGA


Statistics
Matches: 195,  Mismatches: 31, Indels: 22
        0.79            0.12        0.09

Matches are distributed among these distances:
 154    4  0.02
 155   10  0.05
 156  165  0.85
 157   16  0.08

ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32


Consensus pattern (155 bp):   
CTCCCTATCATAGTGAACTTGGTTTCACACCCCAAACTGTCCTTAAATGAAAAACTAGCATAAGT
TTTTCATCTTAAGTCTGAATGAGCTGAACTTTACCAAAGGACTTAGATTATCTCCATAAAGCTAT
GGGAAAAAATCCAAGTAAAACTCAA
Done.