Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007929.1 Corchorus olitorius cultivar O-4 contig07956, 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, 639

Length: 1065
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31


Found at i:84 original size:55 final size:55

Alignment explanation


    Indices: 1--112  Score: 127
    Period size: 55  Copynumber: 2.0  Consensus size: 55

                    *   **               *              *          
          1 AAAAAAATTATTGTACATGCATGATCAAACCCCAAAAAATGATGGTCAAACCACA
          1 AAAAAAATCATTACACATGCATGATCAAAACCCAAAAAATGATGCTCAAACCACA

                                            *  * *               *  
         56 AAAAAAATCATTACACATGCAT-AGTCAAAACTCAGATAATGATGCTCAAACCGCA
          1 AAAAAAATCATTACACATGCATGA-TCAAAACCCAAAAAATGATGCTCAAACCACA

              
        111 AA
          1 AA

        113 GTTCGATAGT


Statistics
Matches: 47,  Mismatches: 9, Indels: 2
        0.81            0.16        0.03

Matches are distributed among these distances:
  54    1  0.02
  55   46  0.98

ACGTcount: A:0.49, C:0.21, G:0.11, T:0.20


Consensus pattern (55 bp):   
AAAAAAATCATTACACATGCATGATCAAAACCCAAAAAATGATGCTCAAACCACA

Found at i:190 original size:20 final size:20

Alignment explanation


    Indices: 161--200  Score: 62
    Period size: 20  Copynumber: 2.0  Consensus size: 20

        151 ATGCATGGTC

                 *    *         
        161 AAACCCCAAATTTTGATAGT
          1 AAACCACAAAGTTTGATAGT

                                
        181 AAACCACAAAGTTTGATAGT
          1 AAACCACAAAGTTTGATAGT

        201 TAAATCACGT


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  20   18  1.00

ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28


Consensus pattern (20 bp):   
AAACCACAAAGTTTGATAGT
Done.