Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003730.1 Corchorus capsularis cultivar CVL-1 contig03738, 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: 5242
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32


Found at i:2896 original size:10 final size:9

Alignment explanation


    Indices: 2880--2905  Score: 52
    Period size: 9  Copynumber: 2.9  Consensus size: 9

       2870 TCTGGTCGAA

                     
       2880 ATTTTTTTT
          1 ATTTTTTTT

                     
       2889 ATTTTTTTT
          1 ATTTTTTTT

                    
       2898 ATTTTTTT
          1 ATTTTTTT

       2906 CGATATTACT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   17  1.00

ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88


Consensus pattern (9 bp):   
ATTTTTTTT

Found at i:3530 original size:14 final size:14

Alignment explanation


    Indices: 3511--3541  Score: 62
    Period size: 14  Copynumber: 2.2  Consensus size: 14

       3501 TTATATAGAG

                          
       3511 ATAAAAGAGCCCTT
          1 ATAAAAGAGCCCTT

                          
       3525 ATAAAAGAGCCCTT
          1 ATAAAAGAGCCCTT

               
       3539 ATA
          1 ATA

       3542 TAGAGATAAG


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   17  1.00

ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23


Consensus pattern (14 bp):   
ATAAAAGAGCCCTT

Found at i:4088 original size:42 final size:42

Alignment explanation


    Indices: 4011--4097  Score: 120
    Period size: 42  Copynumber: 2.1  Consensus size: 42

       4001 AAAGAATCGA

                                                *   * 
       4011 ATGGCCGGTTGTGACCGGATGGCCCATGCGATGGCCTGTGTG
          1 ATGGCCGGTTGTGACCGGATGGCCCATGCGATGGCCCGTGCG

                         *         * *    *           
       4053 ATGGCCGGTTGTGGCCGGATGGCTCGTGCGTTGGCCCGTGCG
          1 ATGGCCGGTTGTGACCGGATGGCCCATGCGATGGCCCGTGCG

               
       4095 ATG
          1 ATG

       4098 TCCCGCGCGT


Statistics
Matches: 39,  Mismatches: 6, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  42   39  1.00

ACGTcount: A:0.09, C:0.24, G:0.43, T:0.24


Consensus pattern (42 bp):   
ATGGCCGGTTGTGACCGGATGGCCCATGCGATGGCCCGTGCG
Done.