Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000057.1 Corchorus capsularis cultivar CVL-1 contig00057, 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: 2756
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:1510 original size:80 final size:81

Alignment explanation


    Indices: 1371--1534  Score: 312
    Period size: 80  Copynumber: 2.0  Consensus size: 81

       1361 CAGCATCTAG

                                                         *                   
       1371 CTTATGGCGTTGGAGAGAAATATATATGGTGTTGACGACACCCTGTTGGAAGTATGGTGTTGGAA
          1 CTTATGGCGTTGGAGAGAAATATATATGGTGTTGACGACACCCTGCTGGAAGTATGGTGTTGGAA

                            
       1436 ACGCCGCCTTCCATTT
         66 ACGCCGCCTTCCATTT

                                                                             
       1452 CTTAT-GCGTTGGAGAGAAATATATATGGTGTTGACGACACCCTGCTGGAAGTATGGTGTTGGAA
          1 CTTATGGCGTTGGAGAGAAATATATATGGTGTTGACGACACCCTGCTGGAAGTATGGTGTTGGAA

                            
       1516 ACGCCGCCTTCCATTT
         66 ACGCCGCCTTCCATTT

               
       1532 CTT
          1 CTT

       1535 GTGTGAAAGA


Statistics
Matches: 82,  Mismatches: 1, Indels: 1
        0.98            0.01        0.01

Matches are distributed among these distances:
  80   77  0.94
  81    5  0.06

ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31


Consensus pattern (81 bp):   
CTTATGGCGTTGGAGAGAAATATATATGGTGTTGACGACACCCTGCTGGAAGTATGGTGTTGGAA
ACGCCGCCTTCCATTT

Found at i:1928 original size:6 final size:6

Alignment explanation


    Indices: 1917--1955  Score: 78
    Period size: 6  Copynumber: 6.5  Consensus size: 6

       1907 AAAGCAAAGC

                                                         
       1917 AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAA
          1 AAATCT AAATCT AAATCT AAATCT AAATCT AAATCT AAA

       1956 GCAGATTAAT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   33  1.00

ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31


Consensus pattern (6 bp):   
AAATCT

Done.