Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003557.1 Corchorus capsularis cultivar CVL-1 contig03565, 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, 664

Length: 1107
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38


Found at i:373 original size:32 final size:32

Alignment explanation


    Indices: 327--390  Score: 94
    Period size: 32  Copynumber: 2.0  Consensus size: 32

        317 ATTTCATCAT

                     *             *         
        327 TTACTTAAAGGTTCAAT-TTTTATTTACAAAAA
          1 TTACTTAAAAGTTCAATGTTTTAATTA-AAAAA

                                            
        359 TTACTTAAAAGTTCAATGTTTTAATTAAAAAA
          1 TTACTTAAAAGTTCAATGTTTTAATTAAAAAA

        391 CTCAATCATT


Statistics
Matches: 29,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  32   21  0.72
  33    8  0.28

ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42


Consensus pattern (32 bp):   
TTACTTAAAAGTTCAATGTTTTAATTAAAAAA

Found at i:581 original size:51 final size:52

Alignment explanation


    Indices: 480--715  Score: 222
    Period size: 51  Copynumber: 4.6  Consensus size: 52

        470 TCCTCAAAAA

                                  * *      *                        
        480 TCACATTTTTATTTACAAATTATTTACAAACCTT--ATC-TTTAA-TCATAAAGAC
          1 TCACATTTTTATTTACAAATTAATCAC-AA-GTTCAATCATTTAATTC--AAAGAC

                 *                            *       **         
        532 -CACACTTTTATTTACAAATTAATCATCAA-TTCCATCATTTGGTTCAAAGA-
          1 TCACATTTTTATTTACAAATTAATCA-CAAGTTCAATCATTTAATTCAAAGAC

                                                   *             
        582 T-ATCATTTTTATTTACAAATTAATCACAAGTTCAATCACTTAATTCAAA-AC
          1 TCA-CATTTTTATTTACAAATTAATCACAAGTTCAATCATTTAATTCAAAGAC

              *                   * *                           
        633 TCTCATTTTTATTTACAAATTACTTACAAGTTCAATCATTTAATTCAAAG-C
          1 TCACATTTTTATTTACAAATTAATCACAAGTTCAATCATTTAATTCAAAGAC

              *                   *   *     
        684 TCTCATTTTTATTTACAAATTACTCAAAAGTT
          1 TCACATTTTTATTTACAAATTAATCACAAGTT

        716 TAATTATTAG


Statistics
Matches: 157,  Mismatches: 16, Indels: 23
        0.80            0.08        0.12

Matches are distributed among these distances:
  49    2  0.01
  50    5  0.03
  51  144  0.92
  52    4  0.03
  53    2  0.01

ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42


Consensus pattern (52 bp):   
TCACATTTTTATTTACAAATTAATCACAAGTTCAATCATTTAATTCAAAGAC
Done.