Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007513.1 Corchorus capsularis cultivar CVL-1 contig07534, 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: 12970
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31


Found at i:2095 original size:23 final size:23

Alignment explanation


    Indices: 2065--2112  Score: 96
    Period size: 23  Copynumber: 2.1  Consensus size: 23

       2055 ACCAGTATAT

                                   
       2065 ATTGTATAATCATCCAAATTTTA
          1 ATTGTATAATCATCCAAATTTTA

                                   
       2088 ATTGTATAATCATCCAAATTTTA
          1 ATTGTATAATCATCCAAATTTTA

              
       2111 AT
          1 AT

       2113 GAGTGGACGA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   25  1.00

ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44


Consensus pattern (23 bp):   
ATTGTATAATCATCCAAATTTTA

Found at i:11405 original size:20 final size:21

Alignment explanation


    Indices: 11368--11410  Score: 70
    Period size: 20  Copynumber: 2.1  Consensus size: 21

      11358 TTACAAATAA

                       *         
      11368 AACTCACAATTGCGTGAGAGT
          1 AACTCACAATTCCGTGAGAGT

                                 
      11389 AACTCAC-ATTCCGTGAGAGT
          1 AACTCACAATTCCGTGAGAGT

              
      11409 AA
          1 AA

      11411 AACCCAAGAC


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  20   14  0.67
  21    7  0.33

ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23


Consensus pattern (21 bp):   
AACTCACAATTCCGTGAGAGT

Found at i:12683 original size:29 final size:28

Alignment explanation


    Indices: 12621--12699  Score: 99
    Period size: 29  Copynumber: 2.8  Consensus size: 28

      12611 TAAGGTCATC

                                        
      12621 CAGGGGCATTTTGGTCA--TTTTCACAT
          1 CAGGGGCATTTTGGTCATTTTTTCACAT

                                     *     
      12647 CATAGGGGCATTTTGGTCATTTTTTTACATT
          1 C--AGGGGCATTTTGGTCATTTTTTCACA-T

                  *               
      12678 CAGGGGTATTTTGGTCATTTTT
          1 CAGGGGCATTTTGGTCATTTTT

      12700 AGTCCATTTT


Statistics
Matches: 46,  Mismatches: 2, Indels: 7
        0.84            0.04        0.13

Matches are distributed among these distances:
  26    1  0.02
  28   16  0.35
  29   20  0.43
  30    7  0.15
  31    2  0.04

ACGTcount: A:0.18, C:0.14, G:0.23, T:0.46


Consensus pattern (28 bp):   
CAGGGGCATTTTGGTCATTTTTTCACAT
Done.