Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000425.1 Corchorus capsularis cultivar CVL-1 contig00425, 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: 3269
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30


Found at i:1377 original size:27 final size:27

Alignment explanation


    Indices: 1322--1426  Score: 122
    Period size: 27  Copynumber: 3.9  Consensus size: 27

       1312 CAAGGTCATC

                        *            * 
       1322 CAGGGGCATTTTTGTCA-TTTTACAAT
          1 CAGGGGCATTTTGGTCATTTTTACATT

                                       
       1348 CAGGGGCATTTTGGTCATTTTTACATT
          1 CAGGGGCATTTTGGTCATTTTTACATT

                       **         *    
       1375 CAGGGGCATTTAAGTCATTTTTCCATT
          1 CAGGGGCATTTTGGTCATTTTTACATT

                         *    *      
       1402 CAAGGGGGCATTTCGGTCGTTTTTA
          1 C-A-GGGGCATTTTGGTCATTTTTA

       1427 GTCCACTTTT


Statistics
Matches: 67,  Mismatches: 9, Indels: 3
        0.85            0.11        0.04

Matches are distributed among these distances:
  26   16  0.24
  27   33  0.49
  28    1  0.01
  29   17  0.25

ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41


Consensus pattern (27 bp):   
CAGGGGCATTTTGGTCATTTTTACATT

Found at i:2710 original size:34 final size:34

Alignment explanation


    Indices: 2666--2738  Score: 137
    Period size: 34  Copynumber: 2.1  Consensus size: 34

       2656 ACAATTGCTT

                                              
       2666 ATGCACCACAGAGAAATATATGCCACTATTAGCA
          1 ATGCACCACAGAGAAATATATGCCACTATTAGCA

                 *                            
       2700 ATGCAGCACAGAGAAATATATGCCACTATTAGCA
          1 ATGCACCACAGAGAAATATATGCCACTATTAGCA

                 
       2734 ATGCA
          1 ATGCA

       2739 ACTAAAAGCC


Statistics
Matches: 38,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  34   38  1.00

ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21


Consensus pattern (34 bp):   
ATGCACCACAGAGAAATATATGCCACTATTAGCA
Done.