Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006882.1 Corchorus olitorius cultivar O-4 contig06907, 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, 660

Length: 1100
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37


Found at i:47 original size:9 final size:9

Alignment explanation


    Indices: 35--76  Score: 50
    Period size: 9  Copynumber: 4.7  Consensus size: 9

         25 AACATCTTAA

                     
         35 TATTATAAT
          1 TATTATAAT

                      
         44 TATTA-AACT
          1 TATTATAA-T

                  *  
         53 TATTATTAT
          1 TATTATAAT

               *     
         62 TATAATAAT
          1 TATTATAAT

                  
         71 TATTAT
          1 TATTAT

         77 TAGTGGTATG


Statistics
Matches: 27,  Mismatches: 4, Indels: 4
        0.77            0.11        0.11

Matches are distributed among these distances:
   8    2  0.07
   9   24  0.89
  10    1  0.04

ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55


Consensus pattern (9 bp):   
TATTATAAT

Found at i:50 original size:24 final size:24

Alignment explanation


    Indices: 21--72  Score: 68
    Period size: 24  Copynumber: 2.2  Consensus size: 24

         11 ATTTTTTTAC

                     *             *
         21 ATTAAACATCTTAATATTATAATT
          1 ATTAAACATATTAATATTATAATA

                   *     *          
         45 ATTAAACTTATTATTATTATAATA
          1 ATTAAACATATTAATATTATAATA

                
         69 ATTA
          1 ATTA

         73 TTATTAGTGG


Statistics
Matches: 24,  Mismatches: 4, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  24   24  1.00

ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48


Consensus pattern (24 bp):   
ATTAAACATATTAATATTATAATA

Found at i:217 original size:28 final size:27

Alignment explanation


    Indices: 184--251  Score: 72
    Period size: 24  Copynumber: 2.6  Consensus size: 27

        174 ACAAAATCAT

                                *       
        184 ATACTTCAACTTAATATGTAGCAAAAAA
          1 ATACTTCAACTTAAT-TGTACCAAAAAA

                    *       *          
        212 ATACTT-ATCTT--TTTTACCAAAAAA
          1 ATACTTCAACTTAATTGTACCAAAAAA

                             
        236 A-ACTTCAACTTAATTG
          1 ATACTTCAACTTAATTG

        252 CCTCTTCAAG


Statistics
Matches: 32,  Mismatches: 5, Indels: 8
        0.71            0.11        0.18

Matches are distributed among these distances:
  23    4  0.12
  24   15  0.47
  25    1  0.03
  26    2  0.06
  27    4  0.12
  28    6  0.19

ACGTcount: A:0.44, C:0.16, G:0.04, T:0.35


Consensus pattern (27 bp):   
ATACTTCAACTTAATTGTACCAAAAAA
Done.