Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012860.1 Corchorus capsularis cultivar CVL-1 contig12881, 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: 8132
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:2168 original size:91 final size:92

Alignment explanation


    Indices: 2031--2217  Score: 367
    Period size: 91  Copynumber: 2.0  Consensus size: 92

       2021 TCGCCACCCC

                                                                             
       2031 CTCCATGTAGTACTAGTACTAGACTATAACTATTACTACTAATTTACTATAATTAATTTCATTTA
          1 CTCCATGTAGTACTAGTACTAGACTATAACTATTACTACTAATTTACTATAATTAATTTCATTTA

                                       
       2096 ATTTCGACTTTATATATATATATATA-
         66 ATTTCGACTTTATATATATATATATAT

                                                                             
       2122 CTCCATGTAGTACTAGTACTAGACTATAACTATTACTACTAATTTACTATAATTAATTTCATTTA
          1 CTCCATGTAGTACTAGTACTAGACTATAACTATTACTACTAATTTACTATAATTAATTTCATTTA

                                       
       2187 ATTTCGACTTTATATATATATATATAT
         66 ATTTCGACTTTATATATATATATATAT

                
       2214 CTCC
          1 CTCC

       2218 TCACTCTTAT


Statistics
Matches: 95,  Mismatches: 0, Indels: 1
        0.99            0.00        0.01

Matches are distributed among these distances:
  91   91  0.96
  92    4  0.04

ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44


Consensus pattern (92 bp):   
CTCCATGTAGTACTAGTACTAGACTATAACTATTACTACTAATTTACTATAATTAATTTCATTTA
ATTTCGACTTTATATATATATATATAT

Found at i:6196 original size:32 final size:34

Alignment explanation


    Indices: 6155--6223  Score: 106
    Period size: 32  Copynumber: 2.1  Consensus size: 34

       6145 ATATATATAT

                                 *            
       6155 ATATATATAATAATGATAT-TGCCC-AAATTGAA
          1 ATATATATAATAATGATATCTCCCCAAAATTGAA

                             *                
       6187 ATATATATAATAATGATTTCTCCCCAAAATTGAA
          1 ATATATATAATAATGATATCTCCCCAAAATTGAA

               
       6221 ATA
          1 ATA

       6224 CTCATTTTTC


Statistics
Matches: 33,  Mismatches: 2, Indels: 2
        0.89            0.05        0.05

Matches are distributed among these distances:
  32   18  0.55
  33    4  0.12
  34   11  0.33

ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35


Consensus pattern (34 bp):   
ATATATATAATAATGATATCTCCCCAAAATTGAA

Found at i:6423 original size:3 final size:3

Alignment explanation


    Indices: 6415--6442  Score: 56
    Period size: 3  Copynumber: 9.3  Consensus size: 3

       6405 ATATATATAT

                                                 
       6415 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A

       6443 CATAGAAATC


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

Matches are distributed among these distances:
   3   25  1.00

ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32


Consensus pattern (3 bp):   
ATA

Done.